Citrus Sinensis ID: 046970

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420
Protein Sequence
MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALFDL
Secondary Structure (PSIPRED)
cccccccccccccEEEcccccccccccHHHHHHHHHcccccEEEcccccccccccHHHHHHHccEEEEEEEEcccccccccccEEccccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccEEccccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHccccEEEEccccHHHHHHccHHHHHHHHHHHHHcccccccccccHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEcccccHHcccccccEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccccHHHHHHcccccccHHHHHHHHHHHHccccccccccHHHcEEccccHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEEcccccHcHHHHHHHHHHHHHHHccccEEEcccccccccccHHHHHHHHHccEEEEEEEcccccccEEEEEEEEEcccHHHHcccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHcccHHHHHHcccccccccHHHHHHHHHHHHHcccccccccccHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEEccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHEEcHHcccHHHHHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
massslatkgrYDVFlsfrgedtrdnFTSHLFAALRQKRIKIFIdeeanrgdEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLScsssdvrnqtgsfGDAFVKLEKQFEELPEKVHKWSGAlteasnisgwdstnmrpearLVDEIVKDIMKKLKDKLlsrdftgsvgvnsRIRHIKSLLhlglpdfrivgiwgmggigkttFAGAIFNQIssefegecfitnVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVlddvnkpeQLIFLVGgldrfgprsriivttrdkqvfdecevdsiyeveglnkdeslELFSNFafrqkicpkdfLVLSKRVVDYANGNPLALKVLGSffyrksvkpekqccfnrgcrllvaepryiflPLSFMFLVTLVALFDL
Flexible Loop (DISEMBL)
massslatkgrYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTeasnisgwdstnmrpEARLVDEIVKDIMKKLkdkllsrdftgsvgvnsriRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVreeservglvHLRERVLSEileenlkigtlNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLvggldrfgprsriivttrdkqvfdecEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALFDL
Low Complexity Region (SEG)
MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMkklkdkllSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALFDL
Disordered region (IsUnstruct)
**********RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDST***PEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALF**
Disordered Region (DISOPRED)
********KGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALFDL
Disordered Region (DISEMBL)
********KGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALFDL
Disordered Region (DISPRO)
********KGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALFDL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLLVAEPRYIFLPLSFMFLVTLVALFDL
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	420	2.2.26 [Sep-21-2011]
O82500	1095	Putative disease resistan	no	no	0.876	0.336	0.411	6e-66
Q40392	1144	TMV resistance protein N	N/A	no	0.883	0.324	0.402	3e-65
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.869	0.280	0.393	3e-58
Q9FL92	1372	Probable WRKY transcripti	no	no	0.814	0.249	0.332	2e-44
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.895	0.233	0.311	6e-41
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.816	0.181	0.315	2e-40
Q9FH83	1288	Probable WRKY transcripti	no	no	0.733	0.239	0.313	4e-36
Q9C5Q9	411	Protein PHLOEM PROTEIN 2-	no	no	0.269	0.274	0.358	6e-14
Q9FHE9	354	Protein PHLOEM PROTEIN 2-	no	no	0.369	0.437	0.311	3e-13
Q39214	926	Disease resistance protei	no	no	0.452	0.205	0.315	1e-11

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

 Score =  251 bits (642), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 164/399 (41%), Positives = 219/399 (54%), Gaps = 31/399 (7%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
           MASSS +   RYDVF SFRGED R+NF SHL      K I  F D+   R   I   L  
Sbjct: 1   MASSS-SNSWRYDVFPSFRGEDVRNNFLSHLLKEFESKGIVTFRDDHIKRSHTIGHELRA 59

Query: 61  AIEGSKISIVIFSKNYASSSGAW-----------------MNFFLSCSSSDVRNQTGSFG 103
           AI  SKIS+V+FS+NYASSS                    M  F     SD+R QTG FG
Sbjct: 60  AIRESKISVVLFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQTGKFG 119

Query: 104 DAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKL 163
            +F  LE    +  E+ H W  ALT+A+NI G    N   EA  +  I KD+++KL +  
Sbjct: 120 MSF--LETCCGKTEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKL-NAT 176

Query: 164 LSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGE 223
            SRDF   VG+ + I  ++SLL L     RIVGIWG  G+GKTT A A++NQ    F   
Sbjct: 177 PSRDFNDLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLS 236

Query: 224 CFITNVREESERVGL------VHLRERVLSEILEE-NLKIGTLNLPEYIKERLQQMKVFI 276
            F+ NVRE     GL      +HL++R LS++L++ +L++  L     I+ERL+  KV I
Sbjct: 237 IFMENVRESYGEAGLDDYGLKLHLQQRFLSKLLDQKDLRVRHLGA---IEERLKSQKVLI 293

Query: 277 VLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELF 336
           +LDDV+  EQL  L      FG +SRI+VTT++KQ+    +++ +Y+V   +K E+L +F
Sbjct: 294 ILDDVDNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIF 353

Query: 337 SNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFF 375
              AF+Q     D   L+      A   PLAL+VLGSF 
Sbjct: 354 CQHAFKQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFM 392

Arabidopsis thaliana (taxid: 3702)

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

 Score =  249 bits (635), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 162/402 (40%), Positives = 230/402 (57%), Gaps = 31/402 (7%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEE-ANRGDEISLALL 59
           MASSS +++  YDVFLSFRGEDTR  FTSHL+  L  K IK F D++    G  I   L 
Sbjct: 1   MASSSSSSRWSYDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELC 60

Query: 60  NAIEGSKISIVIFSKNYASSSGAW-----------------MNFFLSCSSSDVRNQTGSF 102
            AIE S+ +IV+FS+NYA+S                     +  F     S VRNQ  SF
Sbjct: 61  KAIEESQFAIVVFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESF 120

Query: 103 GDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDK 162
             AF + E ++++  E + +W  AL EA+N+ G      + +A  + +IV  I  KL   
Sbjct: 121 AKAFEEHETKYKDDVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKI 180

Query: 163 LLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI------ 216
            LS      VG+++ +  I+SLL +G+   RI+GIWGMGG+GKTT A AIF+ +      
Sbjct: 181 SLSY-LQNIVGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDS 239

Query: 217 SSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEY-IKERLQQMKVF 275
           S +F+G CF+ +++E   + G+  L+  +LSE+L E          ++ +  RL+  KV 
Sbjct: 240 SYQFDGACFLKDIKE--NKRGMHSLQNALLSELLREKANYNNEEDGKHQMASRLRSKKVL 297

Query: 276 IVLDDV-NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLE 334
           IVLDD+ NK   L +L G LD FG  SRII+TTRDK + ++ ++  IYEV  L   ES++
Sbjct: 298 IVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQ 355

Query: 335 LFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFY 376
           LF   AF +++  ++F  LS  VV+YA G PLALKV GS  +
Sbjct: 356 LFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLH 397

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

Nicotiana glutinosa (taxid: 35889)

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

 Score =  226 bits (575), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 155/394 (39%), Positives = 219/394 (55%), Gaps = 29/394 (7%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
           M  +S +   RYDVF SFRGED RD+F SHL   LR K I  FID+E  R   I   LL+
Sbjct: 1   MEIASSSGSRRYDVFPSFRGEDVRDSFLSHLLKELRGKAIT-FIDDEIERSRSIGPELLS 59

Query: 61  AIEGSKISIVIFSKNYASSS----------GAWMNF-------FLSCSSSDVRNQTGSFG 103
           AI+ S+I+IVIFSKNYASS+            + N        F    +S+V+ QTG FG
Sbjct: 60  AIKESRIAIVIFSKNYASSTWCLNELVEIHKCYTNLNQMVIPIFFHVDASEVKKQTGEFG 119

Query: 104 DAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKL 163
             F +  K   E  ++   W  AL   + ++G+D      EA +++E+ +D+++K     
Sbjct: 120 KVFEETCKAKSE--DEKQSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLRKTMTP- 176

Query: 164 LSRDFTGSVGVNSRIRHIKSLLHLGLPDFRI-VGIWGMGGIGKTTFAGAIFNQISSEFEG 222
            S DF   VG+ + I  IKS+L L   + RI VGIWG  GIGK+T   A+++++S +F  
Sbjct: 177 -SDDFGDLVGIENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHH 235

Query: 223 ECFITNVREESERVGLVHLR--ERVLSEIL-EENLKIGTLNLPEYIKERLQQMKVFIVLD 279
             FIT        V  + LR  + +LSEIL ++++KI    +   +++RL+Q KV I+LD
Sbjct: 236 RAFITYKSTSGSDVSGMKLRWEKELLSEILGQKDIKIEHFGV---VEQRLKQQKVLILLD 292

Query: 280 DVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNF 339
           DV+  E L  LVG  + FG  SRIIV T+D+Q+    E+D IYEVE  ++  +L +    
Sbjct: 293 DVDSLEFLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRS 352

Query: 340 AFRQKICPKDFLVLSKRVVDYANGNPLALKVLGS 373
           AF +   P DF  L+  V   A   PL L VLGS
Sbjct: 353 AFGKDSPPDDFKELAFEVAKLAGNLPLGLSVLGS 386

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score =  180 bits (457), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 123/370 (33%), Positives = 193/370 (52%), Gaps = 28/370 (7%)

Query: 21  EDTRDNFTSHLFAALRQKRIK-IFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASS 79
           E+ R +F SHL  AL++K +  +FID +    D +S    + +E +++S++I   N   S
Sbjct: 14  EEVRYSFVSHLSKALQRKGVNDVFIDSD----DSLSNESQSMVERARVSVMILPGNRTVS 69

Query: 80  SGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDST 139
               +   L C     +N+          +     E       W  AL      S   S 
Sbjct: 70  LDKLVKV-LDCQ----KNKDQVVVPVLYGVRSSETE-------WLSALDSKGFSSVHHSR 117

Query: 140 NMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWG 199
               +++LV E V+D+ +KL        +   +G+ S++  I+ +++    D R VGIWG
Sbjct: 118 KECSDSQLVKETVRDVYEKLF-------YMERIGIYSKLLEIEKMINKQPLDIRCVGIWG 170

Query: 200 MGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKI-GT 258
           M GIGKTT A A+F+Q+S EF+  CFI +  +  +  G+  L E    + L+EN    GT
Sbjct: 171 MPGIGKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVYCLLEE---QFLKENAGASGT 227

Query: 259 LNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEV 318
           +     +++RL   +V +VLDDV  P  +   +GG D FGP+S II+T++DK VF  C V
Sbjct: 228 VTKLSLLRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRV 287

Query: 319 DSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRK 378
           + IYEV+GLN+ E+L+LFS  A    +  ++   +S +V+ YANG+PLAL + G     K
Sbjct: 288 NQIYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGK 347

Query: 379 SVKPEKQCCF 388
              PE +  F
Sbjct: 348 KRPPEMEIAF 357

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  168 bits (426), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 128/411 (31%), Positives = 200/411 (48%), Gaps = 35/411 (8%)

Query: 21  EDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNA--IEGSKISIVIFSKNYAS 78
           E    +  SHL AALR++ I +F+D    +  +      N    +G+++ +V+ S +   
Sbjct: 26  ETVLHSLVSHLSAALRREGISVFVDACGLQETKFFSIKQNQPLTDGARVLVVVIS-DEVE 84

Query: 79  SSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDS 138
               W   FL        N     G   V +    + L  +V+ W+ +  EA  ++   S
Sbjct: 85  FYDPWFPKFLKVIQGWQNN-----GHVVVPVFYGVDSL-TRVYGWANSWLEAEKLTSHQS 138

Query: 139 ----TNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRI 194
                N+  ++ LV+EIV+D+  KL            VG+ +R+  I+ LL+    D R 
Sbjct: 139 KILSNNVLTDSELVEEIVRDVYGKLYP-------AERVGIYARLLEIEKLLYKQHRDIRS 191

Query: 195 VGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL 254
           +GIWGM GIGKTT A A+FN +S++++  CFI N  E   + GL  L +  + +IL++  
Sbjct: 192 IGIWGMPGIGKTTLAKAVFNHMSTDYDASCFIENFDEAFHKEGLHRLLKERIGKILKDEF 251

Query: 255 KIGTLNL--PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQV 312
            I +  +  P   +++L   ++ +VLDDV         +  LD FG  S II+T+ DKQV
Sbjct: 252 DIESSYIMRPTLHRDKLYDKRILVVLDDVRDSLAAESFLKRLDWFGSGSLIIITSVDKQV 311

Query: 313 FDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG 372
           F  C+++ IY V+GLN  E+L+LFS   F      ++   LS +V+DY NGNPLAL + G
Sbjct: 312 FAFCQINQIYTVQGLNVHEALQLFSQSVFGINEPEQNDRKLSMKVIDYVNGNPLALSIYG 371

Query: 373 ------------SFFYRKSVKPEK-QCCFNRGCRLLVAEPRYIFLPLSFMF 410
                       +FF  K   P K Q         L    + I L ++F F
Sbjct: 372 RELMGKKSEMETAFFELKHCPPLKIQDVLKNAYSALSDNEKNIVLDIAFFF 422

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  166 bits (421), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 118/374 (31%), Positives = 203/374 (54%), Gaps = 31/374 (8%)

Query: 12   YDVFLSF-RGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
            YDV + + R + + ++F SHL A+L ++ I ++  E+ N  D        A+   ++ I+
Sbjct: 668  YDVVIRYGRADISNEDFISHLRASLCRRGISVY--EKFNEVD--------ALPKCRVLII 717

Query: 71   IFSKNYASSSGAWMNFFLSCSSSD-----VRNQTGSFGDAFVKLEKQFEE--LPEKVHKW 123
            + +  Y  S+   +N      + D     +  +   +   FV   K +E   L ++  KW
Sbjct: 718  VLTSTYVPSN--LLNILEHQHTEDRVVYPIFYRLSPYD--FVCNSKNYERFYLQDEPKKW 773

Query: 124  SGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKS 183
              AL E + + G+  T+ + E+ L+DEIV+D +K L     S D    +G++ ++  I S
Sbjct: 774  QAALKEITQMPGYTLTD-KSESELIDEIVRDALKVL----CSADKVNMIGMDMQVEEILS 828

Query: 184  LLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE 243
            LL +   D R +GIWG  GIGKTT A  IF +IS ++E    + ++ +E E  G   +RE
Sbjct: 829  LLCIESLDVRSIGIWGTVGIGKTTIAEEIFRKISVQYETCVVLKDLHKEVEVKGHDAVRE 888

Query: 244  RVLSEILE---ENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPR 300
              LSE+LE     ++I  +    +++ RLQ+ ++ ++LDDVN    +   +G L+ FGP 
Sbjct: 889  NFLSEVLEVEPHVIRISDIKT-SFLRSRLQRKRILVILDDVNDYRDVDTFLGTLNYFGPG 947

Query: 301  SRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDY 360
            SRII+T+R+++VF  C++D +YEV+ L+  +SL L      +  + P+ +  LS  +V +
Sbjct: 948  SRIIMTSRNRRVFVLCKIDHVYEVKPLDIPKSLLLLDRGTCQIVLSPEVYKTLSLELVKF 1007

Query: 361  ANGNPLALKVLGSF 374
            +NGNP  L+ L S 
Sbjct: 1008 SNGNPQVLQFLSSI 1021

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  152 bits (385), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 118/376 (31%), Positives = 194/376 (51%), Gaps = 68/376 (18%)

Query: 21  EDTRDNFTSHLFAALRQKRIK-----------IFIDEEANRGDEISLALLNAIEGSKISI 69
           E+ R +F SHL  ALR+K I            +F + +A             IE + +S+
Sbjct: 17  EEVRYSFVSHLSEALRRKGINNVVVDVDIDDLLFKESQAK------------IEKAGVSV 64

Query: 70  VIFSKNYASSSGAWMNFF---LSCSSSDVRNQTGS--FGDAFVKLEKQFEELP----EKV 120
           ++   N    S  W++ F   L C  ++      S  +GD+ ++ ++   EL      ++
Sbjct: 65  MVLPGN-CDPSEVWLDKFAKVLECQRNNKDQAVVSVLYGDSLLR-DQWLSELDFRGLSRI 122

Query: 121 HKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRH 180
           H+   +  E S            ++ LV+EIV+D+ +       +  + G +G+ S++  
Sbjct: 123 HQ---SRKECS------------DSILVEEIVRDVYE-------THFYVGRIGIYSKLLE 160

Query: 181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVH 240
           I+++++      R VGIWGM GIGKTT A A+F+Q+SS F+  CFI +  +         
Sbjct: 161 IENMVNKQPIGIRCVGIWGMPGIGKTTLAKAVFDQMSSAFDASCFIEDYDKS-------- 212

Query: 241 LRERVLSEILEENLKIG---TLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRF 297
           + E+ L  +LEE L  G   T+     +++RL   +V +VLDDV         + G D  
Sbjct: 213 IHEKGLYCLLEEQLLPGNDATIMKLSSLRDRLNSKRVLVVLDDVRNALVGESFLEGFDWL 272

Query: 298 GPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELF-SNFAFRQKICPKDFLVLSKR 356
           GP S II+T+RDKQVF  C ++ IYEV+GLN+ E+ +LF  + + ++ +  ++   LS R
Sbjct: 273 GPGSLIIITSRDKQVFCLCGINQIYEVQGLNEKEARQLFLLSASIKEDMGEQNLQELSVR 332

Query: 357 VVDYANGNPLALKVLG 372
           V++YANGNPLA+ V G
Sbjct: 333 VINYANGNPLAISVYG 348

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 79.0 bits (193), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 47/131 (35%), Positives = 73/131 (55%), Gaps = 18/131 (13%)

Query: 14  VFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFS 73
           VF++FRG+D R  F S L  AL++++I +FIDE+  RG  + ++L + I  SKI++VIFS
Sbjct: 24  VFINFRGKDLRKGFMSFLKPALKKEKINVFIDEQEERGKYL-ISLFDTIGESKIALVIFS 82

Query: 74  KNYASSSGA---------WMN--------FFLSCSSSDVRNQTGSFGDAFVKLEKQFEEL 116
           + Y  S            +M+         F       V++ TG FGD F  L  +++  
Sbjct: 83  EGYCESHWCMDELVKIKEYMDQNRLIIIPIFYRLDLDVVKDLTGKFGDNFWDLVDKYQPE 142

Query: 117 PEKVHKWSGAL 127
           P+K+HKW+ AL
Sbjct: 143 PKKLHKWTEAL 153

Arabidopsis thaliana (taxid: 3702)

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

 Score = 76.6 bits (187), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 56/180 (31%), Positives = 90/180 (50%), Gaps = 25/180 (13%)

Query: 2   ASSSL-ATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
           ASSS+  T     VF++FRG+D R+ F S L  A+R+  I +FID++   G ++ + L  
Sbjct: 3   ASSSVRPTPTGPQVFINFRGKDLRNGFLSFLEPAMREANINVFIDKDEVVGTDL-VNLFV 61

Query: 61  AIEGSKISIVIFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGS 101
            I+ S++++VIFSK+Y SS   W                   +  F   + S V    G 
Sbjct: 62  RIQESRVAVVIFSKDYTSSE--WCLDELAEIKDCINQGGLNAIPIFYKLAPSSVLELKGG 119

Query: 102 FGDAFVKLEKQFEELPEKVHKWSGALTEASNISG--WDSTNMRPEARLVDEIVKDIMKKL 159
           FGD F  L+++++  PE+  KW  AL     + G      + R E   ++E++ +I K L
Sbjct: 120 FGDTFRVLKEKYKNDPERTQKWQEALESIPKLKGLRLAEKSDRNEREFMNEMILEIQKAL 179

Arabidopsis thaliana (taxid: 3702)

>sp|Q39214|RPM1_ARATH Disease resistance protein RPM1 OS=Arabidopsis thaliana GN=RPM1 PE=1 SV=1

 Score = 71.6 bits (174), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 66/209 (31%), Positives = 102/209 (48%), Gaps = 19/209 (9%)

Query: 190 PDFRIVGIWGMGGIGKTTFAGAIF--NQISSEFEGECFIT----NVREESERVGLVHLRE 243
           P   +V + GMGG GKTT +  IF    +   FE   ++T     V E+  R  +    +
Sbjct: 191 PQRIVVAVVGMGGSGKTTLSANIFKSQSVRRHFESYAWVTISKSYVIEDVFRTMIKEFYK 250

Query: 244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----EQLIFLVGGLDRFGP 299
              ++I  E   +G   L E + E LQ  +  +VLDDV       E  I L  G+  +G 
Sbjct: 251 EADTQIPAELYSLGYRELVEKLVEYLQSKRYIVVLDDVWTTGLWREISIALPDGI--YG- 307

Query: 300 RSRIIVTTRDKQV--FDECEVDSIYEVEGLNKDESLELFSNFAFRQKI--C-PKDFLVLS 354
            SR+++TTRD  V  F      + +E+E L +DE+  LFSN AF   +  C  ++   ++
Sbjct: 308 -SRVMMTTRDMNVASFPYGIGSTKHEIELLKEDEAWVLFSNKAFPASLEQCRTQNLEPIA 366

Query: 355 KRVVDYANGNPLALKVLGSFFYRKSVKPE 383
           +++V+   G PLA+  LGS    K  + E
Sbjct: 367 RKLVERCQGLPLAIASLGSMMSTKKFESE 395

Disease resistance (R) protein that specifically recognizes the AvrRpm1 type III effector avirulence protein from Pseudomonas syringae. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is phosphorylated by AvrRpm1. It is then degraded at the onset of the hypersensitive response.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	420
255564976	944	TMV resistance protein N, putative [Rici	0.864	0.384	0.506	3e-98
255569048	1084	leucine-rich repeat-containing protein,	0.888	0.344	0.522	4e-98
224127917	1470	tir-nbs-lrr resistance protein [Populus	0.897	0.256	0.495	1e-97
255561496	876	TMV resistance protein N, putative [Rici	0.890	0.426	0.508	4e-95
224127754	1125	tir-nbs-lrr resistance protein [Populus	0.876	0.327	0.473	6e-89
359493483	1274	PREDICTED: TMV resistance protein N-like	0.871	0.287	0.488	5e-88
451798990	1335	TMV resistance protein N-like protein 7	0.876	0.275	0.488	6e-88
359493496	1180	PREDICTED: TMV resistance protein N-like	0.895	0.318	0.471	1e-87
359493489	1092	PREDICTED: TMV resistance protein N-like	0.876	0.336	0.483	2e-87
255564962	1091	TMV resistance protein N, putative [Rici	0.9	0.346	0.497	2e-87

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

 Score =  365 bits (936), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 199/393 (50%), Positives = 267/393 (67%), Gaps = 30/393 (7%)

Query: 11  RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
           +YDVF+SFRGEDTRDNFTSHL+AAL QK+IK F+D++ +RG+EIS AL+  IE S +S++
Sbjct: 15  KYDVFVSFRGEDTRDNFTSHLYAALHQKQIKAFVDDKLSRGEEISAALVKVIEESMVSVI 74

Query: 71  IFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGSFGDAFVKLEK 111
           IFS+NYA S   W                   +  F     SDV  Q G FG AF++ EK
Sbjct: 75  IFSENYAFS--PWCLDELVKILECKKTVGQIVLPVFYHVDPSDVAEQKGGFGAAFIEHEK 132

Query: 112 QFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGS 171
            F+E  +K+ KW  ALTEA+NISGW S+ +R E++L+ EI +DI+KKL     S D  G 
Sbjct: 133 CFKERIDKLQKWRAALTEAANISGWSSSVIRSESKLIQEIAEDILKKLNHMSSSTDSKGL 192

Query: 172 VGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVRE 231
           VG+NSRI  I+ LL + L D R +G+WGMGG GKTT A  +FN+IS++F+  CF+ NV E
Sbjct: 193 VGINSRIDKIELLLCVELADVRFLGLWGMGGAGKTTTAEVVFNRISTQFDSCCFLANVNE 252

Query: 232 ESERVGLVHLRERVLSEILEENLKIGTLNLPEYI--KERLQQMKVFIVLDDVNKPEQLIF 289
           ESER GL+ L+ ++ S++L ++     +N  E I  K RL+  KV IVLDDVN   QL  
Sbjct: 253 ESERYGLLKLQRQLFSKLLGQD----NVNYAEGIFDKSRLKHRKVLIVLDDVNNLRQLEN 308

Query: 290 LVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPK- 348
           L G  + FGP SRII+T+RDK V    + D+IY++E L+  E+L+LFS  AFRQ+ CPK 
Sbjct: 309 LAGEHNWFGPGSRIILTSRDKDVLKN-KTDAIYKIEDLDHHEALQLFSLNAFRQE-CPKA 366

Query: 349 DFLVLSKRVVDYANGNPLALKVLGSFFYRKSVK 381
           D++ LSKRV++YA GNPL LKVLGSF Y++++K
Sbjct: 367 DYMKLSKRVINYAKGNPLGLKVLGSFLYQRNIK 399

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569048|ref|XP_002525493.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223535172|gb|EEF36851.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  364 bits (935), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 208/398 (52%), Positives = 268/398 (67%), Gaps = 25/398 (6%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
           MASSS + K ++DVFLSFRG+DTRDNFTSHL+ AL +K+IK FID    RG+EI+ ALL 
Sbjct: 1   MASSSNSPKRKFDVFLSFRGKDTRDNFTSHLYDALCRKKIKTFIDNGLERGEEITPALLR 60

Query: 61  AIEGSKISIVIFSKNYASS-----------------SGAWMNFFLSCSSSDVRNQTGSFG 103
            IE S IS+++FS+NYASS                   A +  F     SDV  Q GSF 
Sbjct: 61  TIEESLISVIVFSENYASSPWCLDEMVKILECRETHGQAVLPVFYHVDPSDVEEQNGSFA 120

Query: 104 DAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKL 163
              V+LEK F++   KV KW   L +A++ISGWDS  +  EA+LV  IV+ I++KL +K 
Sbjct: 121 LTLVELEKNFKD---KVSKWRTDLMKAASISGWDSRAIGSEAKLVKHIVEHILQKL-NKA 176

Query: 164 LSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGE 223
            S D  G +G++S IR IK LL +GLPD R VG+WGM GIGKTT AGAIFN +SS+FEG 
Sbjct: 177 SSTDLKGLIGLDSHIRKIKKLLQIGLPDIRTVGLWGMSGIGKTTIAGAIFNTLSSQFEGC 236

Query: 224 CFITNVREESERVGLVHLRERVLSEILEE-NLKIGTLNL-PEYIKERLQQMKVFIVLDDV 281
           CF+ N++EESER GLV LR+++LSEIL E N+ I T ++    +K RL+  KV +VLDDV
Sbjct: 237 CFLENIKEESERCGLVPLRDKLLSEILMEGNVHIATPSIGSTSLKNRLRHKKVLLVLDDV 296

Query: 282 NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAF 341
           N  +Q+  L+G  D FG  SR++VT+RDKQV     VD IYEVEGL+ DE+L+LF+  AF
Sbjct: 297 NDVDQIETLIGRCD-FGLGSRVLVTSRDKQVLKNV-VDEIYEVEGLSDDEALQLFNLHAF 354

Query: 342 RQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKS 379
           +      D + LS RVV +A GNPLALKVLGS  + +S
Sbjct: 355 KDNCSTTDKIKLSYRVVKHAQGNPLALKVLGSSLFARS 392

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  363 bits (931), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 199/402 (49%), Positives = 268/402 (66%), Gaps = 25/402 (6%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
           ++SS++A K +YDVFLSFRG+DTRDNF SHL  AL +K+IK FID++  RG+EI+ ALL 
Sbjct: 2   VSSSAVAQKWKYDVFLSFRGKDTRDNFVSHLRDALCRKQIKTFIDDKLERGEEITGALLR 61

Query: 61  AIEGSKISIVIFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGS 101
            IE S+IS++IFS+NYASS   W                   +  F     SDV  QTGS
Sbjct: 62  TIEESRISVIIFSRNYASS--PWCVDELVKILECKKAYGQIVLPVFYHVDPSDVDQQTGS 119

Query: 102 FGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKD 161
           FG+AF +LE+ F++  +KV +W   LT A+NISGWDS   RPE+ LV++IV  I+KKL +
Sbjct: 120 FGNAFAELERNFKQKMDKVPRWRADLTSAANISGWDSQVTRPESSLVEQIVHHILKKL-N 178

Query: 162 KLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE 221
              S D  G VG++SR+  I++ L   LP+F  VGIWGMGG GKTT AG IFN+I+ E+E
Sbjct: 179 YASSSDLKGLVGMDSRMEQIEASLCTKLPEFCFVGIWGMGGTGKTTIAGEIFNKIAREYE 238

Query: 222 GECFITNVREESERVGLVHLRERVLSEIL-EENLKIGTLNLPE-YIKERLQQMKVFIVLD 279
           G  F+ NVRE  +  GL  +R+ + S+I  EENL I T  +   +IK+R+ + K+ IV D
Sbjct: 239 GHYFLANVRESEKNGGLFRIRDELFSKITEEENLHIRTPRIGHPFIKDRICRKKILIVFD 298

Query: 280 DVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNF 339
           DVN  +Q+  L+GG + FGP SRII+T+RDKQV  +   D I+EVEGLN  E+L LFS  
Sbjct: 299 DVNDVDQIEMLLGGCESFGPGSRIILTSRDKQVLKK-YADKIFEVEGLNHREALHLFSLH 357

Query: 340 AFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVK 381
           AF+    P +++ LS R ++YA GNPLALKVLGS  + ++ K
Sbjct: 358 AFKDNQPPYNYMELSVRAINYAKGNPLALKVLGSSLFGRTTK 399

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  354 bits (909), Expect = 4e-95,   Method: Compositional matrix adjust.
 Identities = 202/397 (50%), Positives = 265/397 (66%), Gaps = 23/397 (5%)

Query: 4   SSLAT-KGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAI 62
           + LAT + +YDVFLSFRGEDTRDNFTSHL++AL +K+I  F+D+E  RG+EIS ++  AI
Sbjct: 2   APLATSEKKYDVFLSFRGEDTRDNFTSHLYSALNKKKIFTFMDKEIKRGEEISPSIAKAI 61

Query: 63  EGSKISIVIFSKNYASSSGAW--MNFFLSCSSSD---------------VRNQTGSFGDA 105
           +GSK+S++IFS+ YA S      +   L C   +               VRNQ GSF  A
Sbjct: 62  KGSKLSVIIFSEKYAFSKWCLDELTKILECKKMNGQIVIPVFYRVDPVHVRNQRGSFACA 121

Query: 106 FVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLS 165
           F K E+  +E  EKV  W  AL EA +ISGW+S   RPE++L++EIVKDI KKL     S
Sbjct: 122 FAKHEETLKERMEKVESWRSALNEAGSISGWNSLVARPESKLIEEIVKDISKKLNQTSPS 181

Query: 166 RDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECF 225
               G VG++SR+  I+S+L L + D RI+G+WGMGGIGKTT AGAIF+QIS+++E   F
Sbjct: 182 HSI-GLVGIDSRLEQIESMLCLDMSDVRIIGVWGMGGIGKTTLAGAIFDQISAQYESSYF 240

Query: 226 ITNVREESERVGLVHLRERVLSEILEE-NLKIGTLNLPE-YIKERLQQMKVFIVLDDVNK 283
           + NVRE+ +R  L  LRE++ S+ILEE NL   T NL   ++K+RL + K+ +VLDDV+ 
Sbjct: 241 LGNVREQLKRCLLAELREKLFSKILEEKNLDTRTPNLGNTFLKDRLSRKKILVVLDDVDS 300

Query: 284 PEQLI-FLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFR 342
             QL   L G  D FGP SRIIVT+RDKQV     VD IY+VEGLN+ E+L+LFS  AF+
Sbjct: 301 TMQLQELLPGQHDLFGPGSRIIVTSRDKQVLKNV-VDEIYKVEGLNQHEALQLFSLNAFK 359

Query: 343 QKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKS 379
           +     D + +S RV DYA GNPLAL+VLG   + KS
Sbjct: 360 KNSPTNDRVEISTRVADYAKGNPLALRVLGCALFDKS 396

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127754|ref|XP_002329169.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870950|gb|EEF08081.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  334 bits (856), Expect = 6e-89,   Method: Compositional matrix adjust.
 Identities = 184/389 (47%), Positives = 255/389 (65%), Gaps = 21/389 (5%)

Query: 11  RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
           +YDVFLSFRGEDTR  F SHL+AAL++K+I  FID + NRG+EIS +LL AIE SK+S+V
Sbjct: 14  KYDVFLSFRGEDTRVCFVSHLYAALKRKQISTFIDYKLNRGEEISPSLLKAIEDSKLSVV 73

Query: 71  IFSKNYASSSGAW-----------------MNFFLSCSSSDVRNQTGSFGDAFVKLEKQF 113
           +FS NYASS                     +  F     S VRNQTGSF DAF + ++  
Sbjct: 74  VFSDNYASSKWCLEELAKILECKKVKGQMVIPVFYRVDPSHVRNQTGSFADAFARHDQLL 133

Query: 114 EELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVG 173
           +E  EKV  W  A+ EA+N+SGWDS N++ E+  VD+IV+DI+ KL    +S   T  +G
Sbjct: 134 KEKMEKVLNWRAAMREAANLSGWDSHNIKSESEFVDDIVRDILNKLHQTSMSTHHTSLIG 193

Query: 174 VNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREES 233
           +++RI+ +++LL +   D RIVGIWGMGGIGKTT A A+++ +S++FEG  F+ NVREE 
Sbjct: 194 IDARIKKVETLLKMESQDVRIVGIWGMGGIGKTTIAKAVYDNVSAQFEGFLFVANVREEI 253

Query: 234 ERVGLVHLRERVLSEILEEN-LKIGTLNLPE-YIKERLQQMKVFIVLDDVNKPEQLIFLV 291
           +R  +V L++ +L E+L+++ L  G L+    ++ +RL + KV IVLDDV+   QL  L+
Sbjct: 254 KRHSVVGLQKNILPELLDQDILNTGPLSFGNAFVMDRLLRKKVLIVLDDVDSSRQLEELL 313

Query: 292 GGLD-RFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDF 350
                 FGP S+I++T+RDKQV     VD IY+VE LN  E+L+LF+  AF+      D 
Sbjct: 314 PEPHVSFGPGSKILLTSRDKQVLTNV-VDEIYDVERLNHHEALQLFNMKAFKNYNPTIDH 372

Query: 351 LVLSKRVVDYANGNPLALKVLGSFFYRKS 379
             L +++VDYA GNPLAL VLGS  Y +S
Sbjct: 373 SELVEKIVDYAQGNPLALIVLGSALYGRS 401

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493483|ref|XP_003634610.1| PREDICTED: TMV resistance protein N-like, partial [Vitis vinifera]

 Score =  331 bits (848), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 191/391 (48%), Positives = 253/391 (64%), Gaps = 25/391 (6%)

Query: 11  RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
           +YDVFLSFRGEDTR +FT HL  AL QK I  F+D++  RG+++S ALLNAIE S+ SI+
Sbjct: 15  KYDVFLSFRGEDTRKSFTDHLHTALCQKGINTFMDDQLRRGEQVSPALLNAIEESRFSII 74

Query: 71  IFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGSFGDAFVKLEK 111
           IFS NYASSS  W                   +  F + + S V+ QTGSF +AF K E+
Sbjct: 75  IFSDNYASSS--WCLDELVKILDCIKVMGHRALPVFYNVNPSHVKKQTGSFAEAFAKHEQ 132

Query: 112 QFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGS 171
           +  E  EKV KW  ALTE + ISGWDS + R E++L++EIV+DI  KL     S    G 
Sbjct: 133 ENREKMEKVVKWREALTEVATISGWDSRD-RHESKLIEEIVRDIWNKLVGTSPSY-MKGL 190

Query: 172 VGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVRE 231
           VG+ SR+  + SLL +G  D R+VGIWGM GIGKTT A  I+ +I ++FEG CF++NVRE
Sbjct: 191 VGMESRLEAMDSLLCIGSLDVRMVGIWGMAGIGKTTIAKVIYERIYTQFEGCCFLSNVRE 250

Query: 232 ESERVGLVHLRERVLSEILEE-NLKIGTLNLP-EYIKERLQQMKVFIVLDDVNKPEQLIF 289
           ES + GL +L+  +LS+IL+E N   G  N    ++K+ L   KV I+LDDV++ +QL  
Sbjct: 251 ESYKHGLPYLQMELLSQILKERNPNAGLFNKGINFMKDVLHSRKVLIILDDVDQRKQLED 310

Query: 290 LVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKD 349
           L G  + FG  SRII+TTRD+ +    EVD+IYEV+ L+ DE+L+LF  +AFR K   +D
Sbjct: 311 LAGDNNWFGSGSRIIITTRDRHLLTCQEVDAIYEVKELDNDEALKLFCLYAFRHKHGTED 370

Query: 350 FLVLSKRVVDYANGNPLALKVLGSFFYRKSV 380
           F  L    +DY +G PLALKVLGS  Y K +
Sbjct: 371 FRQLCGHALDYTSGLPLALKVLGSSLYTKGI 401

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|451798990|gb|AGF69193.1| TMV resistance protein N-like protein 7 [Vitis labrusca]

 Score =  330 bits (847), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 190/389 (48%), Positives = 252/389 (64%), Gaps = 21/389 (5%)

Query: 11  RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
           +YDVFLSFRGEDTR +FT HL  AL QK I  F+D++  RG+++S ALLNAIE S+ SI+
Sbjct: 15  KYDVFLSFRGEDTRKSFTDHLHTALCQKGINTFMDDQLRRGEQVSPALLNAIEESRFSII 74

Query: 71  IFSKNYASSSGAW-----------------MNFFLSCSSSDVRNQTGSFGDAFVKLEKQF 113
           IFS NYASSS                    +  F + + S V+ QTGSF +AF K E++ 
Sbjct: 75  IFSDNYASSSWCLDELVKILDCIKVMGHRALPVFYNVNPSHVKKQTGSFAEAFAKHEQEN 134

Query: 114 EELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFTGSVG 173
            E  EKV KW  ALTE + ISGWDS + R E++L++EIV+DI  KL     S    G VG
Sbjct: 135 REKMEKVVKWREALTEVATISGWDSRD-RHESKLIEEIVRDIWNKLVGTSPSY-MKGLVG 192

Query: 174 VNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREES 233
           + SR+  + SLL +G  D R+VGIWGM GIGKTT A  I+ +I ++FEG CF++NVREES
Sbjct: 193 MESRLEAMDSLLCIGSLDVRMVGIWGMAGIGKTTIAKVIYERIYTQFEGCCFLSNVREES 252

Query: 234 ERVGLVHLRERVLSEILEE-NLKIGTLNLP-EYIKERLQQMKVFIVLDDVNKPEQLIFLV 291
            + GL +L+  +LS+IL+E N   G  N    ++K+ L   KV I+LDDV++ +QL  L 
Sbjct: 253 YKHGLPYLQMELLSQILKERNPNAGLFNKGINFMKDVLHSRKVLIILDDVDQRKQLEDLA 312

Query: 292 GGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFL 351
           G  + FG  SRII+TTRD+ +    EVD+IYEV+ L+ DE+L+LF  +AFR K   +DF 
Sbjct: 313 GDNNWFGSGSRIIITTRDRHLLTCQEVDAIYEVKELDNDEALKLFCLYAFRHKHGTEDFR 372

Query: 352 VLSKRVVDYANGNPLALKVLGSFFYRKSV 380
            L    +DY +G PLALKVLGS  Y K +
Sbjct: 373 QLCGHALDYTSGLPLALKVLGSSLYTKGI 401

Source: Vitis labrusca

Species: Vitis labrusca

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493496|ref|XP_003634615.1| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  329 bits (844), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 191/405 (47%), Positives = 256/405 (63%), Gaps = 29/405 (7%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
           + SSS   + +YDVFLSFRGEDTR +FT+HL +AL QK I  F D    RG++IS ALL 
Sbjct: 10  VPSSSSPHRWKYDVFLSFRGEDTRQSFTAHLHSALSQKGINTFKDSLLPRGEKISPALLQ 69

Query: 61  AIEGSKISIVIFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGS 101
           AIE S+ SI++ S+NYASSS  W                   +  F +   S+VR Q GS
Sbjct: 70  AIEESRFSIIVLSENYASSS--WCLEELTKILECVEEGGHTALPVFHNVDPSNVRKQEGS 127

Query: 102 FGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKD 161
           F  AF K E+ +++  E+V KW  ALTEA+ I+GWD+ N R E+ ++++IV  I+ +  D
Sbjct: 128 FAKAFAKHEQVYKDKMEQVVKWRDALTEAATIAGWDTRN-RDESEVIEQIVTRILNEPID 186

Query: 162 KLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE 221
              S +    VG++SR+  + S L +G  D R VGIWGM GIGKTT A AI+++I ++F+
Sbjct: 187 AF-SSNMDALVGMDSRMEDLLSRLCIGSDDVRFVGIWGMAGIGKTTIAEAIYDRIYTKFD 245

Query: 222 GECFITNVREESERVGLVHLRERVLSEILE--ENLKIGTLNLPEYIKERLQQMKVFIVLD 279
           G CF+ NVRE+S+R GL +L+E +LS++L    NL  G      +IK RL+  +V IVLD
Sbjct: 246 GCCFLKNVREDSQRHGLTYLQETLLSQVLGGINNLNRGI----NFIKARLRPKRVLIVLD 301

Query: 280 DVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNF 339
           DV   +QL  L G  D FG  SRII+TTR+K++  E EVD IY+VE L  DE+L+LF  +
Sbjct: 302 DVVHRQQLEALAGNHDWFGSGSRIIITTREKRLLIEQEVDEIYKVEKLEYDEALKLFCQY 361

Query: 340 AFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEK 384
           AFR K   +DF+ L    VDY  G PLALKVLGS  YRKS+   K
Sbjct: 362 AFRYKHPTEDFMQLCHHAVDYTGGLPLALKVLGSCLYRKSIHEWK 406

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493489|ref|XP_002264004.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  329 bits (843), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 192/397 (48%), Positives = 249/397 (62%), Gaps = 29/397 (7%)

Query: 9   KGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKIS 68
           + +YD FLSFRGEDTR NFT+HL AAL QK I  F D    RG++IS  LL AIE S+ S
Sbjct: 19  RWKYDAFLSFRGEDTRKNFTTHLHAALCQKGINTFKDNLLLRGEKISAGLLQAIEESRFS 78

Query: 69  IVIFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGSFGDAFVKL 109
           I+IFS+NYASSS  W                   +  F +   S VR Q G F DAF + 
Sbjct: 79  IIIFSENYASSS--WCLDELTKILECVEEGGHTALPVFYNVDPSHVRKQKGCFADAFAEH 136

Query: 110 EKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLSRDFT 169
           E+ + E  EKV KW  ALTE + ISGWDS + R E+ +++EIV  I+ +  D   S +  
Sbjct: 137 EQVYREKMEKVVKWRKALTEVATISGWDSRD-RDESEVIEEIVTRILNEPIDAF-SSNVD 194

Query: 170 GSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNV 229
             VG++SR+  + SLL +G  D R VGIWGM GIGKTT A AI+++I ++F+G CF+ +V
Sbjct: 195 ALVGMDSRMEDLLSLLCIGSNDVRFVGIWGMAGIGKTTIAEAIYDRIYTKFDGCCFLKDV 254

Query: 230 REESERVGLVHLRERVLSEILE--ENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQL 287
           RE+S+R GL +L+E +LS +L    NL  G      +IK RL   KV IVLD+V   ++L
Sbjct: 255 REDSQRHGLTYLQETLLSRVLGGINNLNRGI----NFIKARLHSKKVLIVLDNVVHRQEL 310

Query: 288 IFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICP 347
             LVG  D FGP SRII+TTR+K++  E E+D+IYEVE L  DE+L+LF  +AFR K   
Sbjct: 311 EALVGSHDWFGPGSRIIITTREKRLLIEQEMDAIYEVEKLEYDEALKLFCQYAFRYKHPT 370

Query: 348 KDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEK 384
           +DF+ L    VDY    PLALKVLGS  YRKS+   K
Sbjct: 371 EDFMQLCHHAVDYTGSLPLALKVLGSCLYRKSIHEWK 407

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564962|ref|XP_002523474.1| TMV resistance protein N, putative [Ricinus communis] gi|223537302|gb|EEF38933.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  329 bits (843), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 199/400 (49%), Positives = 268/400 (67%), Gaps = 22/400 (5%)

Query: 2   ASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEA-NRGDEISLALLN 60
           +SS++  K  YDVFLSFRG DTR N  SHL+AAL +K +  FID+   +RG+EIS  LL 
Sbjct: 6   SSSNVPPKTSYDVFLSFRGADTRHNLISHLYAALSRKHVTTFIDDHGLDRGEEISPTLLK 65

Query: 61  AIEGSKISIVIFSKNYASS-----------------SGAWMNFFLSCSSSDVRNQTGSFG 103
           AIE SKIS++IFS+NYASS                 S   +  F     SDVR QTGSFG
Sbjct: 66  AIEESKISVIIFSENYASSKWCLDELVKIMECMKTMSRNVLPVFYHVDPSDVRKQTGSFG 125

Query: 104 DAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLKDKL 163
            AF  ++++F+   ++V +WS ALTEA+N+SGWDS N R E+ L++ ++ +I+KKL    
Sbjct: 126 QAFGVVKEKFKGSMDRVQRWSTALTEAANLSGWDSNNYRLESELIEGVIDEIIKKLYATF 185

Query: 164 LSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGE 223
            S   T  VG++S I  I  LL +G  D R +GIWGMGGIGKTT A AIF++IS +F G 
Sbjct: 186 YSIS-TDLVGIDSHIEQILLLLCIGSLDVRFIGIWGMGGIGKTTIAEAIFSRISDQFAGC 244

Query: 224 CFITNVREESERVGLVHLRERVLSEIL-EENLKIGTLN-LPEYIKERLQQMKVFIVLDDV 281
           CF++NVRE+S ++GL+HL+  + S++L +E L I   + LP ++ +RL++ KV + LDDV
Sbjct: 245 CFLSNVREKSSKLGLIHLKRDMYSKLLGDEKLSIEMSHALPTFVVDRLRRKKVIVFLDDV 304

Query: 282 NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAF 341
           N  EQL  L G    FGP SR+IVT RDK+V  +C+VD IY+VEGLN ++SL L S  AF
Sbjct: 305 NDSEQLEALAGNHVWFGPGSRVIVTGRDKEVL-QCKVDEIYKVEGLNHNDSLRLLSMKAF 363

Query: 342 RQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVK 381
           ++K  P D+  LS+ VV+YA G PLALKVLGS  Y++S K
Sbjct: 364 KEKQPPNDYAKLSEMVVNYAQGVPLALKVLGSHLYKRSQK 403

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	420
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.883	0.286	0.419	9.9e-67
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.778	0.285	0.366	1.3e-64
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.864	0.304	0.426	2.6e-63
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.888	0.414	0.394	1.1e-57
TAIR|locus:2175075	1068	AT5G41750 [Arabidopsis thalian	0.880	0.346	0.38	2.3e-56
TAIR|locus:2115870	1234	AT4G08450 [Arabidopsis thalian	0.883	0.300	0.379	4.7e-56
TAIR|locus:2152252	986	AT5G38850 [Arabidopsis thalian	0.859	0.366	0.390	2.5e-55
TAIR|locus:2153072	1229	AT5G51630 [Arabidopsis thalian	0.866	0.296	0.384	1.9e-54
TAIR|locus:2129236	1301	SNC1 "SUPPRESSOR OF NPR1-1, CO	0.864	0.279	0.401	7.6e-54
TAIR|locus:2081790	1253	AT3G51560 [Arabidopsis thalian	0.852	0.285	0.384	1.1e-53

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

 Score = 688 (247.2 bits), Expect = 9.9e-67, P = 9.9e-67
 Identities = 166/396 (41%), Positives = 240/396 (60%)

Query:     2 ASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLN 60
             +SSS +T  + DVF+SFRGED R  F SHLF    +  IK F D+ +  RG  IS  L++
Sbjct:     8 SSSSSSTVWKTDVFVSFRGEDVRKTFVSHLFCEFDRMGIKAFRDDLDLQRGKSISPELID 67

Query:    61 AIEGSKISIVIFSKNYASSSGAWMNFF--LSCSS------------SDVRNQTGSFGDAF 106
             AI+GS+ +IV+ S+NYA+SS         + C+             SDVR Q GSFG+  
Sbjct:    68 AIKGSRFAIVVVSRNYAASSWCLDELLKIMECNKDTIVPIFYEVDPSDVRRQRGSFGE-- 125

Query:   107 VKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXXXSR 166
               +E   ++  EKV KW  AL + + ISG DS N   +++L+ +IVKDI           
Sbjct:   126 -DVESHSDK--EKVGKWKEALKKLAAISGEDSRNW-DDSKLIKKIVKDISDKLVSTSWD- 180

Query:   167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI 226
             D  G +G++S +  ++S++ +   D R++GIWGMGG+GKTT A  ++NQ+S +F+  CF+
Sbjct:   181 DSKGLIGMSSHMDFLQSMISIVDKDVRMLGIWGMGGVGKTTIAKYLYNQLSGQFQVHCFM 240

Query:   227 TNVREESERVGLVHLRERVLSEILEENLKIG--TLNLPEYIKERLQQMKVFIVLDDVNKP 284
              NV+E   R G+  L+   L  + +E  K    +++    IKER +   VFIVLDDV++ 
Sbjct:   241 ENVKEVCNRYGVRRLQVEFLCRMFQERDKEAWSSVSCCNIIKERFRHKMVFIVLDDVDRS 300

Query:   285 EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQK 344
             EQL  LV     FGP SRIIVTTRD+ +     ++ +Y+V+ L K E+L+LF N+AFR++
Sbjct:   301 EQLNELVKETGWFGPGSRIIVTTRDRHLLLSHGINLVYKVKCLPKKEALQLFCNYAFREE 360

Query:   345 IC-PKDFLVLSKRVVDYANGNPLALKVLGSFFYRKS 379
             I  P  F  LS + V+YA+G PLAL+VLGSF YR+S
Sbjct:   361 IILPHGFEELSVQAVNYASGLPLALRVLGSFLYRRS 396

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 501 (181.4 bits), Expect = 1.3e-64, Sum P(2) = 1.3e-64
 Identities = 131/357 (36%), Positives = 194/357 (54%)

Query:    45 DEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSGAWMNF--FLSCSS---------- 92
             D+    G  I   L  AIE S+ +IV+FS+NYA+S          + C +          
Sbjct:    46 DKRLEYGATIPGELCKAIEESQFAIVVFSENYATSRWCLNELVKIMECKTRFKQTVIPIF 105

Query:    93 -----SDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARL 147
                  S VRNQ  SF  AF + E ++++  E + +W  AL EA+N+ G      + +A  
Sbjct:   106 YDVDPSHVRNQKESFAKAFEEHETKYKDDVEGIQRWRIALNEAANLKGSCDNRDKTDADC 165

Query:   148 VDEIVKDIMXXXXXXXXSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTT 207
             + +IV  I         S      VG+++ +  I+SLL +G+   RI+GIWGMGG+GKTT
Sbjct:   166 IRQIVDQISSKLCKISLSY-LQNIVGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTT 224

Query:   208 FAGAIFNQI------SSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL 261
              A AIF+ +      S +F+G CF+ +++E     G+  L+  +LSE+L E         
Sbjct:   225 IARAIFDTLLGRMDSSYQFDGACFLKDIKENKR--GMHSLQNALLSELLREKANYNNEED 282

Query:   262 PEY-IKERLQQMKVFIVLDDV-NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVD 319
              ++ +  RL+  KV IVLDD+ NK   L +L G LD FG  SRII+TTRDK + ++ ++ 
Sbjct:   283 GKHQMASRLRSKKVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI- 341

Query:   320 SIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFY 376
              IYEV  L   ES++LF   AF +++  ++F  LS  VV+YA G PLALKV GS  +
Sbjct:   342 -IYEVTALPDHESIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLH 397

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 655 (235.6 bits), Expect = 2.6e-63, P = 2.6e-63
 Identities = 167/392 (42%), Positives = 226/392 (57%)

Query:    12 YDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISIV 70
             YDVF+SFRG D R NF SHL+ +LR+  I  F+D+ E  RG+ IS  LLNAIE SKI IV
Sbjct:    17 YDVFVSFRGADVRKNFLSHLYDSLRRCGISTFMDDVELQRGEYISPELLNAIETSKILIV 76

Query:    71 IFSKNYASSSGAW------------------MNF--FLSCSSSDVRNQTGSFGDAFVKLE 110
             + +K+YASS  AW                  M F  FL    SD+R Q GS+  +F K  
Sbjct:    77 VLTKDYASS--AWCLDELVHIMKSHKNNPSHMVFPIFLYVDPSDIRWQQGSYAKSFSK-H 133

Query:   111 KQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXXXSRDFTG 170
             K    L  K+  W  ALT+ +NISGWD  N R EA  + +I ++I+            + 
Sbjct:   134 KNSHPL-NKLKDWREALTKVANISGWDIKN-RNEAECIADITREILKRLPCQYLHVP-SY 190

Query:   171 SVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVR 230
             +VG+ SR++HI SLL +G    R++ I+GMGGIGKTT A   FN+ S  FEG  F+ N R
Sbjct:   191 AVGLRSRLQHISSLLSIGSDGVRVIVIYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFR 250

Query:   231 EESERV-GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIF 289
             E S++  G  HL+ ++LS+IL  N  I    L   +KER +  +V +V+DDV+   QL  
Sbjct:   251 EYSKKPEGRTHLQHQLLSDILRRN-DIEFKGLDHAVKERFRSKRVLLVVDDVDDVHQLNS 309

Query:   290 LVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKD 349
                  D FG  SRII+TTR+  +  +   +  Y  + L+ DESLELFS  AFR    PK+
Sbjct:   310 AAIDRDCFGHGSRIIITTRNMHLLKQLRAEGSYSPKELDGDESLELFSWHAFRTSEPPKE 369

Query:   350 FLVLSKRVVDYANGNPLALKVLGSFFYRKSVK 381
             FL  S+ VV Y  G PLA++VLG+F   +S++
Sbjct:   370 FLQHSEEVVTYCAGLPLAVEVLGAFLIERSIR 401

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)]

 Score = 597 (215.2 bits), Expect = 1.1e-57, P = 1.1e-57
 Identities = 158/401 (39%), Positives = 221/401 (55%)

Query:    11 RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
             R+ VF SF G+D R  F SHL    R+K I+ FID +  R   IS  L+ AI  S+I++V
Sbjct:    15 RHHVFPSFSGKDVRRTFLSHLLKEFRRKGIRTFIDNDIKRSQMISSELVRAIRESRIAVV 74

Query:    71 IFSKNYASSSGAW-------------MNFFLSCSSSDVRNQTGSFGDAFVKL-EKQFEEL 116
             + S+ YASSS                M  F     SDVR +TG FG AF +  E+Q +E 
Sbjct:    75 VLSRTYASSSWCLNELVEIKKVSQMIMPVFYEVDPSDVRKRTGEFGKAFEEACERQPDE- 133

Query:   117 PEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXXXSRDFTGSVGVNS 176
              E   KW  AL   +NI+G  S N   EA L+D+I   I         SRD    VG+++
Sbjct:   134 -EVKQKWREALVYIANIAGESSQNWDNEADLIDKIAMSI-SYELNSTLSRDSYNLVGIDN 191

Query:   177 RIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVR-----E 231
              +R + SLL L   + ++VGIWG  GIGKTT A A+FN++S  F+   F+ NV+      
Sbjct:   192 HMRELDSLLCLESTEVKMVGIWGPAGIGKTTIARALFNRLSENFQHTIFMENVKGSSRTS 251

Query:   232 ESERVGL-VHLRERVLSEILE-ENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIF 289
             E +  G  + L+E+ LSE+++ +++KI  L L   +KERLQ +KV +VLDDV+K EQL  
Sbjct:   252 ELDAYGFQLRLQEQFLSEVIDHKHMKIHDLGL---VKERLQDLKVLVVLDDVDKLEQLDA 308

Query:   290 LVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKD 349
             LV     FG  SRIIVTT +KQ+     +  IYE+   ++ +SL++F  +AF +   P  
Sbjct:   309 LVKQSQWFGSGSRIIVTTENKQLLRAHGITCIYELGFPSRSDSLQIFCQYAFGESSAPDG 368

Query:   350 FLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNR 390
              + L+  +   A   PLALKVLGS   R   K E++    R
Sbjct:   369 CIELATEITKLAGYLPLALKVLGSSL-RGMSKDEQKSALPR 408

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2175075 AT5G41750 [Arabidopsis thaliana (taxid:3702)]

 Score = 589 (212.4 bits), Expect = 2.3e-56, P = 2.3e-56
 Identities = 152/400 (38%), Positives = 217/400 (54%)

Query:     3 SSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAI 62
             SSSL+   RY VF SF G D R  F SHL +    K I  F D++ +RG  I   L+  I
Sbjct:     4 SSSLSCIKRYQVFSSFHGPDVRKGFLSHLHSVFASKGITTFNDQKIDRGQTIGPELIQGI 63

Query:    63 EGSKISIVIFSKNYASSSGAW-----------------MNFFLSCSSSDVRNQTGSFGDA 105
               +++SIV+ SK YASSS                    M  F     SDV+ Q+G FG+A
Sbjct:    64 REARVSIVVLSKKYASSSWCLDELVEILKCKEALGQIVMTVFYEVDPSDVKKQSGVFGEA 123

Query:   106 FVKL-EKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXXX 164
             F K  + + EE+  K+ +W  AL   + I+G  S N   EA+++ +IV D+         
Sbjct:   124 FEKTCQGKNEEV--KI-RWRNALAHVATIAGEHSLNWDNEAKMIQKIVTDV-SDKLNLTP 179

Query:   165 SRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGEC 224
             SRDF G VG+ + ++ + SLL L   + +++GIWG  GIGKTT A  +FN+ISS F  +C
Sbjct:   180 SRDFEGMVGMEAHLKRLNSLLCLESDEVKMIGIWGPAGIGKTTIARTLFNKISSIFPFKC 239

Query:   225 FITNVREE----SERVGLVHLRERVLSEIL-EENLKIGTLNLPEYIKERLQQMKVFIVLD 279
             F+ N++      +E    + L++++LSEIL +EN+KI  L     IK+ L   KV I+LD
Sbjct:   240 FMENLKGSIKGGAEHYSKLSLQKQLLSEILKQENMKIHHLGT---IKQWLHDQKVLIILD 296

Query:   280 DVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNF 339
             DV+  EQL  L      FG  SRIIVTT DK +     +  IY V+  +++E+LE+    
Sbjct:   297 DVDDLEQLEVLAEDPSWFGSGSRIIVTTEDKNILKAHRIQDIYHVDFPSEEEALEILCLS 356

Query:   340 AFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKS 379
             AF+Q   P  F  L+ +V +     PL L V+G+   RKS
Sbjct:   357 AFKQSSIPDGFEELANKVAELCGNLPLGLCVVGASLRRKS 396

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 588 (212.0 bits), Expect = 4.7e-56, P = 4.7e-56
 Identities = 154/406 (37%), Positives = 221/406 (54%)

Query:     1 MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
             MASSS +    YDVF SF GED R  F +H    L +K I  F D E  RG+ I   L+ 
Sbjct:     1 MASSS-SHNWVYDVFTSFSGEDIRVTFLTHFLKELDRKMIIAFKDNEIERGNSIGTELIQ 59

Query:    61 AIEGSKISIVIFSKNYASSSGAW-MN--------------FFLSCSSSDVRNQTGSFGDA 105
             AI+ S+I++V+FSK Y+SSS  W +N               F     SDVR Q G FG++
Sbjct:    60 AIKDSRIAVVVFSKKYSSSS--WCLNELVEIVNCKEIVIPVFYDLDPSDVRKQEGEFGES 117

Query:   106 FVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXXXS 165
             F +  K   +   ++ +W  ALT  +NI+G+ +     EA+L++EI  D++        S
Sbjct:   118 FKETCKNRTDY--EIQRWGQALTNVANIAGYHTRKPNNEAKLIEEITNDVLDKLMKLTPS 175

Query:   166 RDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECF 225
             +DF    G+   I+ +  LL L   + R+VGIWG  GIGKTT A A+FN+I   F+G  F
Sbjct:   176 KDFDEFFGIEDHIKELSLLLCLESEEVRMVGIWGPTGIGKTTIARALFNRIYRHFQGRVF 235

Query:   226 ITNV----------REESERVGL-VHLRERVLSEILEE-NLKIGTLNLPEYIKERLQQMK 273
             I             R  S+   L +HL+E++LS++L++ NL+I  L+    +KERL+QMK
Sbjct:   236 IDRAFISKSMAIYSRANSDDYNLKLHLQEKLLSKLLDKKNLEINHLDA---VKERLRQMK 292

Query:   274 VFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESL 333
             V I +DD++    L  L      FG  SRIIV T+DK +     +D IYEV   +KD ++
Sbjct:   293 VLIFIDDLDDQVVLEALACQTQWFGHGSRIIVITKDKHLLRAYGIDHIYEVLLPSKDLAI 352

Query:   334 ELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKS 379
             ++F   AFR+   P  F+ L+  VV  A   PL L +LGS+   +S
Sbjct:   353 KMFCRSAFRKDSPPNGFIELAYDVVKRAGSLPLGLNILGSYLRGRS 398

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2152252 AT5G38850 [Arabidopsis thaliana (taxid:3702)]

 Score = 578 (208.5 bits), Expect = 2.5e-55, P = 2.5e-55
 Identities = 152/389 (39%), Positives = 210/389 (53%)

Query:    11 RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
             RY+VF SF G D R  F SHL        I +F D+   R   I+ AL+ AI  S+ISIV
Sbjct:     8 RYNVFPSFHGGDIRKTFLSHLRKQFNSNGITMFDDQGIERSQTIAPALIQAIRESRISIV 67

Query:    71 IFSKNYASSSGAW-------------MNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELP 117
             + SKNYASSS                M  F     SDVR QTG FG AF    K   +  
Sbjct:    68 VLSKNYASSSWCLNELVEILKCKDVVMPIFYEVDPSDVRKQTGDFGKAFKNSCKS--KTK 125

Query:   118 EKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXXXSRDFTGSVGVNSR 177
             E+  +W  AL    NI+G  S     EA ++++I KD+         S+DF   VG+   
Sbjct:   126 EERQRWIQALIFVGNIAGEHSLKWENEADMIEKIAKDV-SDKLNATPSKDFDAFVGLEFH 184

Query:   178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG 237
             IR + SLL+L     RIVGI G  GIGKTT A A+ + +SS F+  CF+ NVR  S  +G
Sbjct:   185 IRELSSLLYLDYEQVRIVGICGPAGIGKTTIARALQSLLSSNFQRSCFMENVRG-SLNIG 243

Query:   238 L------VHLRERVLSEIL-EENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFL 290
             L      + L+ER+LS+I+ ++ ++I  L     I++RL   KV I+LDDVN  + L  L
Sbjct:   244 LDEYGLKLDLQERLLSKIMNQKGMRIEHLGT---IRDRLHDQKVLIILDDVNDLD-LYAL 299

Query:   291 VGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDF 350
                   FGP SRIIVTT D ++  + +++++Y V+  ++ E+LE+F   AFRQ   P   
Sbjct:   300 ADQTTWFGPGSRIIVTTEDNELLQKHDINNVYHVDFPSRKEALEIFCRCAFRQSSAPDTI 359

Query:   351 LVLSKRVVDYANGNPLALKVLGSFFYRKS 379
             L L++RV +     PL L V+GS  + K+
Sbjct:   360 LKLAERVTELCGNLPLGLCVIGSSLHGKT 388

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 573 (206.8 bits), Expect = 1.9e-54, P = 1.9e-54
 Identities = 152/395 (38%), Positives = 217/395 (54%)

Query:     1 MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
             MASSS +    YDVF SF GED R +F SHL   L +K I  FID    R   I+  LL+
Sbjct:     1 MASSS-SRSWTYDVFPSFSGEDVRKSFLSHLLKKLHRKSINTFIDNNIERSHAIAPDLLS 59

Query:    61 AIEGSKISIVIFSKNYASSSGAW-MN------------------FFLSCSSSDVRNQTGS 101
             AI  S ISIV+FSK YASS+  W +N                   F     SDVR QT  
Sbjct:    60 AINNSMISIVVFSKKYASST--WCLNELVEIHKCYKELTQIVIPIFYEVDPSDVRKQTRE 117

Query:   102 FGDAF-VKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXX 160
             FG+ F V    + E++ ++   W  AL E ++I+G DS N   EA +++ I KD++    
Sbjct:   118 FGEFFKVTCVGKTEDVKQQ---WIEALEEVASIAGHDSKNWPNEANMIEHIAKDVLNKLI 174

Query:   161 XXXXSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF 220
                 S  F   VG+ + ++ +KS+L L   + R+VGI G  GIGKTT A  +++++SS+F
Sbjct:   175 ATSSSNCFGDLVGIEAHLKAVKSILCLESEEARMVGILGPSGIGKTTIARILYSKLSSQF 234

Query:   221 EGECFITNVREESERVGL-VHLRERVLSEILEE-NLKIGTLNLPEYIKERLQQMKVFIVL 278
             +   F +  R   +  G+ +   E+ LSEIL++ +LKI  L +   +K+RL+  KV IVL
Sbjct:   235 DYHVFGSFKRTNQDNYGMKLSWEEQFLSEILDQKDLKISQLGV---VKQRLKHKKVLIVL 291

Query:   279 DDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSN 338
             DDV+  E L  LVG    FGP SRIIVTT+D+ +    ++D IYEV   ++  +L +   
Sbjct:   292 DDVDNLELLKTLVGQTGWFGPGSRIIVTTQDRILLKSHKIDHIYEVGYPSRKLALRILCR 351

Query:   339 FAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGS 373
              AF +   P  F+ L+  V +     PLAL ++GS
Sbjct:   352 SAFDRNSPPDGFMQLANEVTELVGNLPLALNIMGS 386

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2129236 SNC1 "SUPPRESSOR OF NPR1-1, CONSTITUTIVE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 568 (205.0 bits), Expect = 7.6e-54, P = 7.6e-54
 Identities = 158/394 (40%), Positives = 219/394 (55%)

Query:     1 MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
             +ASSS +   RYDVF SFRGED RD+F SHL   LR K I  FID+E  R   I   LL+
Sbjct:     3 IASSSGSR--RYDVFPSFRGEDVRDSFLSHLLKELRGKAIT-FIDDEIERSRSIGPELLS 59

Query:    61 AIEGSKISIVIFSKNYASSSGA----------WMNF-------FLSCSSSDVRNQTGSFG 103
             AI+ S+I+IVIFSKNYASS+            + N        F    +S+V+ QTG FG
Sbjct:    60 AIKESRIAIVIFSKNYASSTWCLNELVEIHKCYTNLNQMVIPIFFHVDASEVKKQTGEFG 119

Query:   104 DAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXX 163
               F +  K   E  EK   W  AL   + ++G+D      EA +++E+ +D++       
Sbjct:   120 KVFEETCKAKSE-DEK-QSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLRKTMTP- 176

Query:   164 XSRDFTGSVGVNSRIRHIKSLLHLGLPDFRI-VGIWGMGGIGKTTFAGAIFNQISSEFEG 222
              S DF   VG+ + I  IKS+L L   + RI VGIWG  GIGK+T   A+++++S +F  
Sbjct:   177 -SDDFGDLVGIENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHH 235

Query:   223 ECFITNVREESERVGLVHLR--ERVLSEIL-EENLKIGTLNLPEYIKERLQQMKVFIVLD 279
               FIT        V  + LR  + +LSEIL ++++KI    +   +++RL+Q KV I+LD
Sbjct:   236 RAFITYKSTSGSDVSGMKLRWEKELLSEILGQKDIKIEHFGV---VEQRLKQQKVLILLD 292

Query:   280 DVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNF 339
             DV+  E L  LVG  + FG  SRIIV T+D+Q+    E+D IYEVE  ++  +L +    
Sbjct:   293 DVDSLEFLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRS 352

Query:   340 AFRQKICPKDFLVLSKRVVDYANGNPLALKVLGS 373
             AF +   P DF  L+  V   A   PL L VLGS
Sbjct:   353 AFGKDSPPDDFKELAFEVAKLAGNLPLGLSVLGS 386

GO:0000166 "nucleotide binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM;IDA

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

GO:0007165 "signal transduction" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=IMP

GO:0009733 "response to auxin stimulus" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=IGI;IMP

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2081790 AT3G51560 [Arabidopsis thaliana (taxid:3702)]

 Score = 566 (204.3 bits), Expect = 1.1e-53, P = 1.1e-53
 Identities = 145/377 (38%), Positives = 211/377 (55%)

Query:    13 DVFLSF-RGEDT-RDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIV 70
             DV++SF R EDT R +F SHL AA R++ I  FI E  N  D  S    + +E S+ S+V
Sbjct:     6 DVYISFDRSEDTVRYSFVSHLCAAFRRRGISSFIRE--NGSDSESNGF-SKLETSRASVV 62

Query:    71 IFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAF--VK--LEKQFEELPEKVHKWSGA 126
             +FS+ Y+SS    M   +  S    +N        +   K  ++KQ   L +    W  A
Sbjct:    63 VFSEKYSSSKSC-MEELVKVSERRRKNCLAVVPVFYPVTKSFMKKQIWNLGDVRSDWPSA 121

Query:   127 LTEASNISGWDSTNMRPEARLVDEIVKDIMXXXXXXXXSRDFTGSVGVNSRIRHIKSLLH 186
             L E  ++ G +  + + ++  V+EIV D+           + + ++G+ S++  I++L++
Sbjct:   122 LLETVDLPGHELYDTQSDSDFVEEIVADVREKL-------NMSDNIGIYSKLGKIETLIY 174

Query:   187 LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL 246
                   R +GIWGM GIGKTT A A F+Q+S ++E  CFI +  +     GL  L E   
Sbjct:   175 KQPWGVRSIGIWGMPGIGKTTLAKAAFDQLSGDYEASCFIKDFNKAFHEKGLYGLLEAHF 234

Query:   247 SEILEENLKI-GTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIV 305
              +IL E L I  ++  P  ++  L+  +V +VLDDV KP      +GG D F P S II+
Sbjct:   235 GKILREELGIKSSITRPILLRNVLRHKRVLVVLDDVCKPLDAESFLGGFDWFCPGSLIII 294

Query:   306 TTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP 365
             T+RDKQVF  C VD IYEV GLN++E+L+LFS  AF ++I  +    LSK+V+DYANGNP
Sbjct:   295 TSRDKQVFSICRVDQIYEVPGLNEEEALQLFSRCAFGKEIIHESLQKLSKKVIDYANGNP 354

Query:   366 LALKVLGSFFYRKSVKP 382
             LAL   G    RK+ KP
Sbjct:   355 LALIFFGCMS-RKNPKP 370

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.1	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.01250003 tir-nbs-lrr resistance protein (1470 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	420
PLN03210	1153	PLN03210, PLN03210, Resistant to P	4e-73
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-33
pfam01582	135	pfam01582, TIR, TIR domain	2e-21
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	2e-19
pfam13676	102	pfam13676, TIR_2, TIR domain	5e-07
PLN03194	187	PLN03194, PLN03194, putative disease resistance pr	7e-05

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

 Score =  247 bits (633), Expect = 4e-73
 Identities = 155/406 (38%), Positives = 212/406 (52%), Gaps = 41/406 (10%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLN 60
            +SSS +    YDVF SF GED R  F SH    L +K I  F D E  R   +   L  
Sbjct: 2   ASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQ 61

Query: 61  AIEGSKISIVIFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGS 101
           AI  S+I++V+FSKNYASSS  W                   +  F     S VR QTG 
Sbjct: 62  AIRDSRIAVVVFSKNYASSS--WCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGD 119

Query: 102 FGDAFVKL-EKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKLK 160
           FG+AF K  + + E+  EK+ +W  ALT+ +NI G+ S N   EA++++EI  D++ KL 
Sbjct: 120 FGEAFEKTCQNKTED--EKI-QWKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKL- 175

Query: 161 DKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF 220
           +   S DF   VG+   I  + SLLHL   + R+VGIWG  GIGKTT A A+F+++S +F
Sbjct: 176 NLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQF 235

Query: 221 EG-----ECFITNVREESERVGLV------HLRERVLSEILEE-NLKIGTLNLPEYIKER 268
           +        FI+   E              HL+   LSEIL++ ++KI  L   E   ER
Sbjct: 236 QSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAME---ER 292

Query: 269 LQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLN 328
           L+  KV I +DD++  + L  L G    FG  SRIIV T+DK       +D IYEV   +
Sbjct: 293 LKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPS 352

Query: 329 KDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSF 374
            + +LE+F   AF++   P  F+ L+  V   A   PL L VLGS+
Sbjct: 353 NELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSY 398

syringae 6; Provisional. Length = 1153

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

 Score =  126 bits (319), Expect = 1e-33
 Identities = 69/213 (32%), Positives = 102/213 (47%), Gaps = 11/213 (5%)

Query: 178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFN--QISSEFEGECFITNVREESER 235
           I  +   L     +  +VGI GMGG+GKTT A  I+N   +   F+   ++   +  +E 
Sbjct: 5   IEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEF 64

Query: 236 VGLVHLRERVLSEILEENLKIGTLNLPEY---IKERLQQMKVFIVLDDVNKPEQLIFLVG 292
                L++ +L E+  ++      N  E    IKE L + +  +VLDDV +      +  
Sbjct: 65  ----RLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 293 GLDRFGPRSRIIVTTRDKQVFDECEVDS-IYEVEGLNKDESLELFSNFAFRQKICPKDFL 351
                   SR+IVTTR + V       S  +EVE L  +ES ELFSN  F +++ P   L
Sbjct: 121 PFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPEL 180

Query: 352 V-LSKRVVDYANGNPLALKVLGSFFYRKSVKPE 383
             ++K +V+   G PLALKVLG     KS   E
Sbjct: 181 EEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQE 213

Length = 285

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

 Score = 88.9 bits (221), Expect = 2e-21
 Identities = 52/135 (38%), Positives = 65/135 (48%), Gaps = 20/135 (14%)

Query: 14  VFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEAN-RGDEISLALLNAIEGSKISIVIF 72
           VF+SF G+D RD F SHL   L +K IK+ ID+     G+ I   L  AIE S+ +IVIF
Sbjct: 1   VFVSFSGKDDRDTFVSHLLKELEEKGIKLCIDDRDELPGESILENLFEAIEKSRRAIVIF 60

Query: 73  SKNYASSSGAWMNF-------------------FLSCSSSDVRNQTGSFGDAFVKLEKQF 113
           S NYASS                          F     SDVR Q+G FG AF+K  K  
Sbjct: 61  SSNYASSEWCLDELVEIVKCALEGGGKKVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWS 120

Query: 114 EELPEKVHKWSGALT 128
            +  +K+  W  AL 
Sbjct: 121 GDKEDKIRFWKKALY 135

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

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

 Score = 83.9 bits (208), Expect = 2e-19
 Identities = 48/144 (33%), Positives = 65/144 (45%), Gaps = 25/144 (17%)

Query: 11  RYDVFLSFRG-EDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISI 69
            YDVF+S+ G ED R+ F SHL   LR   + +FID+    G ++   +  AIE S+I+I
Sbjct: 1   EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLE-EIDEAIEKSRIAI 59

Query: 70  VIFSKNYASSSGAW----MNFFLSCSS----------------SDVRNQTGSFGDAFVKL 109
           V+ S NYA S   W    +   L  +                 SDVR Q G F   F K 
Sbjct: 60  VVLSPNYAESE--WCLDELVAALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVFKKN 117

Query: 110 EKQFEELPEKVHKWSGALTEASNI 133
             ++ E  EK   W  AL    + 
Sbjct: 118 YLKWPE-DEKEQFWKKALYAVPSK 140

Length = 140

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

 Score = 47.6 bits (114), Expect = 5e-07
 Identities = 16/73 (21%), Positives = 33/73 (45%), Gaps = 4/73 (5%)

Query: 14 VFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFS 73
          VF+S+   D    +   L  AL    I++++D +   G++    +  A+  + + +V+ S
Sbjct: 1  VFISYASADRE--WAEWLADALEAAGIRVWLDWDIPPGEDWRDEIEEALRSADVVLVLLS 58

Query: 74 KNYASSSGAWMNF 86
            Y +S   W   
Sbjct: 59 PAYLAS--PWCRA 69

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

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

 Score = 43.3 bits (102), Expect = 7e-05
 Identities = 20/68 (29%), Positives = 38/68 (55%), Gaps = 1/68 (1%)

Query: 13 DVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANR-GDEISLALLNAIEGSKISIVI 71
          DVF++ RG DT+    + L+  L +  ++ F+D +  + GD++   + +AI   K+ + +
Sbjct: 28 DVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAV 87

Query: 72 FSKNYASS 79
          FS  Y  S
Sbjct: 88 FSPRYCES 95

Length = 187

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	420
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PLN03194	187	putative disease resistance protein; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PF01582	141	TIR: TIR domain; InterPro: IPR000157 In Drosophila	99.71
smart00255	140	TIR Toll - interleukin 1 - resistance.	99.69
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.39
PF13676	102	TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_	99.32
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.3
PF05729	166	NACHT: NACHT domain	99.26
PRK04841	903	transcriptional regulator MalT; Provisional	99.23
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.23
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.22
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.1
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.09
PRK06893	229	DNA replication initiation factor; Validated	99.06
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.05
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.92
PRK13342	413	recombination factor protein RarA; Reviewed	98.89
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.77
PF13173	128	AAA_14: AAA domain	98.76
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.76
COG3899	849	Predicted ATPase [General function prediction only	98.76
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.73
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.73
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.72
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.71
PRK12402	337	replication factor C small subunit 2; Reviewed	98.71
KOG2028	554	consensus ATPase related to the helicase subunit o	98.7
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.69
PRK08727	233	hypothetical protein; Validated	98.68
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.67
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.66
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.65
PRK04195	482	replication factor C large subunit; Provisional	98.65
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.65
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.65
PRK09087	226	hypothetical protein; Validated	98.64
PRK08084	235	DNA replication initiation factor; Provisional	98.63
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.63
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.63
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.63
PRK05642	234	DNA replication initiation factor; Validated	98.63
PLN03025	319	replication factor C subunit; Provisional	98.62
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.62
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.61
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.61
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.6
COG3903	414	Predicted ATPase [General function prediction only	98.59
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.59
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.58
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.57
PTZ00202	550	tuzin; Provisional	98.56
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.56
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.56
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.55
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.53
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.52
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.51
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.51
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.5
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.48
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.48
PRK13341	725	recombination factor protein RarA/unknown domain f	98.46
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.46
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.45
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.44
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.42
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.4
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.39
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.39
PRK12422	445	chromosomal replication initiation protein; Provis	98.38
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.38
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.37
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK06620	214	hypothetical protein; Validated	98.35
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.35
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.33
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.33
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.32
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.32
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.3
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.29
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.29
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.25
PF14516	331	AAA_35: AAA-like domain	98.25
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.25
PHA02544	316	44 clamp loader, small subunit; Provisional	98.23
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.22
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.2
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.2
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.19
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.18
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.18
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.14
PRK10865	857	protein disaggregation chaperone; Provisional	98.13
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.12
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.11
PF00004	132	AAA: ATPase family associated with various cellula	98.1
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.1
PRK09376	416	rho transcription termination factor Rho; Provisio	98.1
CHL00176	638	ftsH cell division protein; Validated	98.09
cd01128	249	rho_factor Transcription termination factor rho is	98.09
CHL00095	821	clpC Clp protease ATP binding subunit	98.08
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.06
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.04
PRK08116	268	hypothetical protein; Validated	98.04
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.04
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.02
KOG3678	832	consensus SARM protein (with sterile alpha and arm	97.99
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.99
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.99
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.99
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.98
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.98
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.97
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.97
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.97
CHL00181	287	cbbX CbbX; Provisional	97.92
TIGR00767	415	rho transcription termination factor Rho. Members	97.92
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.88
PRK08181	269	transposase; Validated	97.87
smart00382	148	AAA ATPases associated with a variety of cellular	97.85
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.84
PRK09183	259	transposase/IS protein; Provisional	97.82
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.8
PRK12377	248	putative replication protein; Provisional	97.75
COG0488	530	Uup ATPase components of ABC transporters with dup	97.73
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.73
CHL00195	489	ycf46 Ycf46; Provisional	97.72
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.72
PRK06526	254	transposase; Provisional	97.7
PRK10536	262	hypothetical protein; Provisional	97.68
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.67
PRK10865	857	protein disaggregation chaperone; Provisional	97.66
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.66
PRK07952	244	DNA replication protein DnaC; Validated	97.66
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.66
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.65
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.64
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.63
PRK06921	266	hypothetical protein; Provisional	97.62
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.62
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.62
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.62
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.62
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.61
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.6
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.59
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.57
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.57
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.55
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.55
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.53
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.53
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.49
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.49
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.47
PF08357	150	SEFIR: SEFIR domain; InterPro: IPR013568 This doma	97.47
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.45
PRK06835	329	DNA replication protein DnaC; Validated	97.45
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.44
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.44
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.44
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.44
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.43
PRK04132	846	replication factor C small subunit; Provisional	97.42
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.41
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.4
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.4
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.39
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.38
PRK07261	171	topology modulation protein; Provisional	97.37
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.37
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.37
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.36
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.35
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.35
PRK06067	234	flagellar accessory protein FlaH; Validated	97.35
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.35
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.34
PRK08939	306	primosomal protein DnaI; Reviewed	97.34
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.34
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.33
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.33
PRK04296	190	thymidine kinase; Provisional	97.33
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.33
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.32
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.31
CHL00095	821	clpC Clp protease ATP binding subunit	97.31
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.31
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.31
PRK08118	167	topology modulation protein; Reviewed	97.29
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.28
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.27
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.27
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.27
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.26
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.25
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.25
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.24
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.24
PRK12608	380	transcription termination factor Rho; Provisional	97.23
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.19
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.19
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.19
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.18
PHA00729	226	NTP-binding motif containing protein	97.17
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.16
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.14
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.13
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.13
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.11
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.11
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.09
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.09
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.09
COG0488	530	Uup ATPase components of ABC transporters with dup	97.09
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.09
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.08
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.06
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	97.05
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.05
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	97.04
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.03
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.03
cd03246	173	ABCC_Protease_Secretion This family represents the	97.02
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.02
PRK06762	166	hypothetical protein; Provisional	97.02
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.98
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.97
PRK05541	176	adenylylsulfate kinase; Provisional	96.95
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.93
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.92
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.92
PF08937	130	DUF1863: MTH538 TIR-like domain (DUF1863); InterPr	96.92
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.92
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.91
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.9
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.89
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.89
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.89
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.89
PRK11823	446	DNA repair protein RadA; Provisional	96.87
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.87
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.86
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.85
PRK07667	193	uridine kinase; Provisional	96.84
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	96.83
PRK06696	223	uridine kinase; Validated	96.83
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.83
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.81
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.79
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.79
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.78
COG4133	209	CcmA ABC-type transport system involved in cytochr	96.78
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	96.77
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	96.77
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	96.77
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	96.76
PRK09354	349	recA recombinase A; Provisional	96.76
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.74
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.74
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.74
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.74
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	96.73
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.72
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.72
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.72
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	96.71
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.7
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	96.7
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.7
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.69
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.69
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	96.68
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.68
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.66
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.66
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.65
PF07726	131	AAA_3: ATPase family associated with various cellu	96.65
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.64
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	96.64
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.64
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.63
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	96.63
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	96.63
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.62
PRK13537	306	nodulation ABC transporter NodI; Provisional	96.62
CHL00206	2281	ycf2 Ycf2; Provisional	96.61
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	96.61
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.61
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	96.61
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	96.61
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.59
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.59
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.59
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.59
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	96.59
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	96.59
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	96.59
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	96.58
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	96.58
TIGR00959	428	ffh signal recognition particle protein. This mode	96.58
PRK14974	336	cell division protein FtsY; Provisional	96.58
PRK10867	433	signal recognition particle protein; Provisional	96.58
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.58
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	96.57
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.57
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	96.57
PRK05480	209	uridine/cytidine kinase; Provisional	96.57
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.57
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.57
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	96.57
PRK15455	644	PrkA family serine protein kinase; Provisional	96.56
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.55
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.55
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.55
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.55
PRK08233	182	hypothetical protein; Provisional	96.55
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.54
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.54
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.54
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.53
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	96.53
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	96.52
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.51
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	96.5
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.5
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.49
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	96.49
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	96.49
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.49
PRK00889	175	adenylylsulfate kinase; Provisional	96.48
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.48
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	96.48
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.48
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	96.47
PRK04040	188	adenylate kinase; Provisional	96.46
PRK03839	180	putative kinase; Provisional	96.46
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	96.45
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.44
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	96.44
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.43
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.43
PTZ00301	210	uridine kinase; Provisional	96.43
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	96.43
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.43
PRK13536	340	nodulation factor exporter subunit NodI; Provision	96.42
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.42
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.42
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.41
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.41
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	96.41
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.4
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.4
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	96.4
PRK00131	175	aroK shikimate kinase; Reviewed	96.38
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	96.38
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.38
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.38
PRK13409	590	putative ATPase RIL; Provisional	96.36
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.36
PRK06217	183	hypothetical protein; Validated	96.36
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	96.36
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.35
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.35
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	96.35
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	96.35
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.34
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.33
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	96.33
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.32
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	96.32
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	96.31
PRK03846	198	adenylylsulfate kinase; Provisional	96.31
PRK00625	173	shikimate kinase; Provisional	96.31
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.31
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.3
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	96.3
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.29
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.29
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.27
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.26
KOG0062	582	consensus ATPase component of ABC transporters wit	96.25
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.24
PLN03211	659	ABC transporter G-25; Provisional	96.23
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	96.23
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.22
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	96.22
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.2
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.2
PRK06547	172	hypothetical protein; Provisional	96.2
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	96.2
COG3910	233	Predicted ATPase [General function prediction only	96.2
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.2
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	96.19
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	96.19
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	96.18
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.17
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	96.17
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.16
PRK13531	498	regulatory ATPase RavA; Provisional	96.16
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.15
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.15
PRK15064	530	ABC transporter ATP-binding protein; Provisional	96.15
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.14
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	96.14
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.13
COG4586	325	ABC-type uncharacterized transport system, ATPase	96.12
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.12
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.11
PRK13947	171	shikimate kinase; Provisional	96.11
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.09
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	96.08
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	96.07
PRK13409	590	putative ATPase RIL; Provisional	96.07
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.07
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	96.07
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	96.06
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	96.05
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	96.04
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.04
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.03
PRK00279	215	adk adenylate kinase; Reviewed	96.01
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.01
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.01
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.01
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.01
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.0
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.0
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	95.99
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	95.99
PRK10938	490	putative molybdenum transport ATP-binding protein	95.99
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	95.96
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.96
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	95.96
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	95.95
PRK05973	237	replicative DNA helicase; Provisional	95.95
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	95.94
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.94
COG4172	534	ABC-type uncharacterized transport system, duplica	95.93
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	95.93
PRK11147	635	ABC transporter ATPase component; Reviewed	95.93
cd03299	235	ABC_ModC_like Archeal protein closely related to M	95.91
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.9
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.9
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.9
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.89
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.89
PTZ00088	229	adenylate kinase 1; Provisional	95.88
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	95.87
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	95.87
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	95.87
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.86
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.86
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.85
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	95.84
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.84
PRK13949	169	shikimate kinase; Provisional	95.84
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.83
COG1123	539	ATPase components of various ABC-type transport sy	95.83
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.83
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	95.82
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.81
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.81
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	95.8
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.8
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	95.79
PRK04328	249	hypothetical protein; Provisional	95.79
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.78
KOG0927	614	consensus Predicted transporter (ABC superfamily)	95.78
PRK14738	206	gmk guanylate kinase; Provisional	95.78
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.77
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	95.77
PRK08506	472	replicative DNA helicase; Provisional	95.77
PTZ00494	664	tuzin-like protein; Provisional	95.76
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	95.76
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.76
PRK13948	182	shikimate kinase; Provisional	95.75
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.74
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.73
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.73
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.72
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	95.72
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.71
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	95.71
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.7
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.69
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	95.68
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	95.67
PF13245	76	AAA_19: Part of AAA domain	95.67
PRK15453	290	phosphoribulokinase; Provisional	95.64
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.64
PRK00300	205	gmk guanylate kinase; Provisional	95.64
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.63
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.63
PRK14530	215	adenylate kinase; Provisional	95.63

>PLN03210 Resistant to P

Probab=100.00  E-value=4e-76  Score=644.55  Aligned_cols=405  Identities=38%  Similarity=0.567  Sum_probs=356.9

Q ss_pred             CCCC-CCCCCCcccEEecCccccccCcchHHHHHHHhhCCCceeeeCCCCCCCcchHHHHHHhhhcceeEEEeccccccc
Q 046970            1 MASS-SLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASS   79 (420)
Q Consensus         1 ~~~s-~~~~~~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s   79 (420)
                      |||| |+++.|+|||||||||+|+|++|++||+++|.++||.+|+|+++++|+.|.+++.+||++|+++|||||++||+|
T Consensus         1 ~~~~~~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s   80 (1153)
T PLN03210          1 MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASS   80 (1153)
T ss_pred             CCCCCCCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccc
Confidence            6665 456899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC-----------------eeEeeeeccCccccccccCcchHHHHHHHHhhccchhhHHhHHHHhhhhccccccCCCCCc
Q 046970           80 SG-----------------AWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMR  142 (420)
Q Consensus        80 ~w-----------------~v~pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~~~~  142 (420)
                      +|                 .|+||||+|+|++||+|+|.|+++|.++..+...  +++++||+||++++++.|+++.++.
T Consensus        81 ~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~~--~~~~~w~~al~~~~~~~g~~~~~~~  158 (1153)
T PLN03210         81 SWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTE--DEKIQWKQALTDVANILGYHSQNWP  158 (1153)
T ss_pred             hHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccch--hHHHHHHHHHHHHhCcCceecCCCC
Confidence            99                 7999999999999999999999999998876543  7899999999999999999998888


Q ss_pred             hhhHHHHHHHHHHHhhhcccccccCCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccc
Q 046970          143 PEARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEG  222 (420)
Q Consensus       143 ~e~~~i~~i~~~v~~~l~~~~~~~~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~  222 (420)
                      .|+++|++|+++|..+++.+++. ..+++|||+.++++|..+|..+.+++++|+|+||||+||||||+++|+++..+|++
T Consensus       159 ~E~~~i~~Iv~~v~~~l~~~~~~-~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g  237 (1153)
T PLN03210        159 NEAKMIEEIANDVLGKLNLTPSN-DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQS  237 (1153)
T ss_pred             CHHHHHHHHHHHHHHhhccccCc-ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCe
Confidence            89999999999999999888776 78899999999999999998777889999999999999999999999999999999


Q ss_pred             eEEEEec--ccc---cc------ccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHHHHHHHh
Q 046970          223 ECFITNV--REE---SE------RVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQLIFLV  291 (420)
Q Consensus       223 ~~~v~~~--~~~---~~------~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~  291 (420)
                      .+|+.+.  ...   ..      ......++.+++..+..... . .......+++++.++|+||||||||+..+++.+.
T Consensus       238 ~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~-~-~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~  315 (1153)
T PLN03210        238 SVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKD-I-KIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALA  315 (1153)
T ss_pred             EEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCC-c-ccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHH
Confidence            9998642  110   00      01123455566666544321 1 1111467888999999999999999999999999


Q ss_pred             cCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          292 GGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       292 ~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      ....++++|++||||||+..++...+..++|+++.|+.++|++||+++||+...+++++.+++++|+++|+|+||||+++
T Consensus       316 ~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vl  395 (1153)
T PLN03210        316 GQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVL  395 (1153)
T ss_pred             hhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            88888899999999999999988777889999999999999999999999887777888999999999999999999999


Q ss_pred             HHHhcCCChhHHHhH--------------hhhcccccCcc-CCcccCcchhHHH
Q 046970          372 GSFFYRKSVKPEKQC--------------CFNRGCRLLVA-EPRYIFLPLSFMF  410 (420)
Q Consensus       372 ~~~L~~~~~~~~~~~--------------~~~~~~~~l~~-~~~~~~l~~~~~~  410 (420)
                      |++|++++..+|..+              +++.+|+.|++ +++.+|+++||||
T Consensus       396 gs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff  449 (1153)
T PLN03210        396 GSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLF  449 (1153)
T ss_pred             HHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhc
Confidence            999999999999876              34567788866 5889999999986

syringae 6; Provisional

>PLN03194 putative disease resistance protein; Provisional

Probab=100.00  E-value=1e-39  Score=274.44  Aligned_cols=147  Identities=24%  Similarity=0.368  Sum_probs=134.0

Q ss_pred             CCCCCCCCCcccEEecCccccccCcchHHHHHHHhhCCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccC
Q 046970            2 ASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSS   80 (420)
Q Consensus         2 ~~s~~~~~~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~   80 (420)
                      .+|||+...+|||||||+|+|+|++|++||+++|+++||+||+|+ ++++|+.|.++|.+||++|+++|||||++|++|.
T Consensus        17 ~~~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~   96 (187)
T PLN03194         17 YPSSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESY   96 (187)
T ss_pred             cccCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccch
Confidence            478888999999999999999999999999999999999999999 9999999999999999999999999999999999


Q ss_pred             C-------------eeEeeeeccCccccccc-cCcchHHHHHHHHhhccchhhHHhHHHHhhhhccccccCCCC-Cchhh
Q 046970           81 G-------------AWMNFFLSCSSSDVRNQ-TGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTN-MRPEA  145 (420)
Q Consensus        81 w-------------~v~pvfy~v~ps~vr~~-~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~~-~~~e~  145 (420)
                      |             .|+||||+|+|++||+| .|..             ..+++++||.||.+++++.|+++.. ..+|+
T Consensus        97 WCLdEL~~I~e~~~~ViPIFY~VdPsdVr~q~~~~~-------------~~e~v~~Wr~AL~~va~l~G~~~~~~~~~e~  163 (187)
T PLN03194         97 FCLHELALIMESKKRVIPIFCDVKPSQLRVVDNGTC-------------PDEEIRRFNWALEEAKYTVGLTFDSLKGNWS  163 (187)
T ss_pred             hHHHHHHHHHHcCCEEEEEEecCCHHHhhccccCCC-------------CHHHHHHHHHHHHHHhccccccCCCCCCCHH
Confidence            9             69999999999999997 4431             2368999999999999999987764 34599


Q ss_pred             HHHHHHHHHHHhhhcc
Q 046970          146 RLVDEIVKDIMKKLKD  161 (420)
Q Consensus       146 ~~i~~i~~~v~~~l~~  161 (420)
                      +++++|++.|.+.|..
T Consensus       164 e~i~~iv~~v~k~l~~  179 (187)
T PLN03194        164 EVVTMASDAVIKNLIE  179 (187)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999888643

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=4.3e-37  Score=322.36  Aligned_cols=242  Identities=26%  Similarity=0.330  Sum_probs=209.3

Q ss_pred             ccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH---hhccccceEEEEeccccccccCHHHHHHHHHHH
Q 046970          172 VGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ---ISSEFEGECFITNVREESERVGLVHLRERVLSE  248 (420)
Q Consensus       172 vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~---~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~  248 (420)
                      ||.+..++++.+.|..+.  .++++|+||||+||||||++++++   +..+|+.++|+.    ++..+....++++++..
T Consensus       161 VG~e~~~~kl~~~L~~d~--~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~----VSk~f~~~~iq~~Il~~  234 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDD--VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV----VSKEFTTRKIQQTILER  234 (889)
T ss_pred             ccHHHHHHHHHHHhccCC--CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE----EcccccHHhHHHHHHHH
Confidence            999999999999997654  389999999999999999999985   568899999999    88899999999999998


Q ss_pred             HhhccccCCCC--Cc-hHHHHHHhcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhh-cCCCeEEEe
Q 046970          249 ILEENLKIGTL--NL-PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE-CEVDSIYEV  324 (420)
Q Consensus       249 l~~~~~~~~~~--~~-~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~-~~~~~~~~l  324 (420)
                      +..........  +. ...+.+.|.++|+||||||||+..+|+.+...++....||+|++|||+..++.. ++....+++
T Consensus       235 l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v  314 (889)
T KOG4658|consen  235 LGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEV  314 (889)
T ss_pred             hccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccc
Confidence            87754433222  33 888999999999999999999999999999998877788999999999999988 778899999


Q ss_pred             CCCCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCCCh-hHHHhHhhhcccccCcc-----
Q 046970          325 EGLNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSV-KPEKQCCFNRGCRLLVA-----  397 (420)
Q Consensus       325 ~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~~~-~~~~~~~~~~~~~~l~~-----  397 (420)
                      +.|+.+|||.||++.+|... ...+...+++++++++|+|+|||+.++|..|+.+.. .+|.+++..+.......     
T Consensus       315 ~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~  394 (889)
T KOG4658|consen  315 ECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGME  394 (889)
T ss_pred             cccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchh
Confidence            99999999999999998763 333447899999999999999999999999999874 58999987764441111     


Q ss_pred             -------CCcccCcchhHHHHHHHhhccC
Q 046970          398 -------EPRYIFLPLSFMFLVTLVALFD  419 (420)
Q Consensus       398 -------~~~~~~l~~~~~~~~~~~~~f~  419 (420)
                             ..+|-+|+..++.||+|||+||
T Consensus       395 ~~i~~iLklSyd~L~~~lK~CFLycalFP  423 (889)
T KOG4658|consen  395 ESILPILKLSYDNLPEELKSCFLYCALFP  423 (889)
T ss_pred             hhhHHhhhccHhhhhHHHHHHHHhhccCC
Confidence                   4568899988999999999997

>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=100.00  E-value=8.3e-37  Score=288.09  Aligned_cols=242  Identities=32%  Similarity=0.440  Sum_probs=182.4

Q ss_pred             ccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH--hhccccceEEEEeccccccccCHHHHHHHHHHHHhh
Q 046970          174 VNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ--ISSEFEGECFITNVREESERVGLVHLRERVLSEILE  251 (420)
Q Consensus       174 R~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~--~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~  251 (420)
                      ||.++++|.+.|....++.++|+|+||||+||||||.+++++  ++.+|+.++|+.    .+.......+...++..+..
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~----~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVS----LSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEE----EES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccc----cccccccccccccccccccc
Confidence            678899999999876678999999999999999999999988  788999999998    44455568888888888877


Q ss_pred             ccccC-CCC--Cc-hHHHHHHhcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCC-CeEEEeCC
Q 046970          252 ENLKI-GTL--NL-PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEV-DSIYEVEG  326 (420)
Q Consensus       252 ~~~~~-~~~--~~-~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~-~~~~~l~~  326 (420)
                      ..... ...  +. ...+.+.|.++++|||||||++...++.+...++....|++||||||+..++...+. ...++|++
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~  156 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEP  156 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS
T ss_pred             cccccccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccc
Confidence            64433 222  22 788999999999999999999999998888777766779999999999988766543 67899999


Q ss_pred             CCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCC-ChhHHHhHhhhcccccCcc-------
Q 046970          327 LNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRK-SVKPEKQCCFNRGCRLLVA-------  397 (420)
Q Consensus       327 L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~-~~~~~~~~~~~~~~~~l~~-------  397 (420)
                      |+.++|++||.+.++... ...+...+.+++|++.|+|+||||+++|++|+.+ +..+|.+++.++.......       
T Consensus       157 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~  236 (287)
T PF00931_consen  157 LSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSV  236 (287)
T ss_dssp             --HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999999997654 2334445678999999999999999999999543 5678888765543222111       


Q ss_pred             ----CCcccCcchhHHHHHHHhhccC
Q 046970          398 ----EPRYIFLPLSFMFLVTLVALFD  419 (420)
Q Consensus       398 ----~~~~~~l~~~~~~~~~~~~~f~  419 (420)
                          +..+--|+-.++.||.|||+|+
T Consensus       237 ~~~l~~s~~~L~~~~~~~f~~L~~f~  262 (287)
T PF00931_consen  237 FSALELSYDSLPDELRRCFLYLSIFP  262 (287)
T ss_dssp             HHHHHHHHHSSHTCCHHHHHHGGGSG
T ss_pred             cccceechhcCCccHHHHHhhCcCCC
Confidence                2345577889999999999996

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.

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

Probab=99.71  E-value=1.4e-18  Score=145.73  Aligned_cols=115  Identities=32%  Similarity=0.476  Sum_probs=96.1

Q ss_pred             EEecCccccccCcchHHHHHHHhhC--CCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccCC---------
Q 046970           14 VFLSFRGEDTRDNFTSHLFAALRQK--RIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSSG---------   81 (420)
Q Consensus        14 vfis~~~~d~~~~~~~~L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w---------   81 (420)
                      |||||++.+.+..|+++|..+|++.  |+++|+++ |+.+|..+.+++.++|++|+++|+|+|++|+.|.|         
T Consensus         1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~   80 (141)
T PF01582_consen    1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL   80 (141)
T ss_dssp             EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred             cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence            8999999444556999999999999  99999999 99999999999999999999999999999999999         


Q ss_pred             ----------eeEeeeeccCccccc-cccCcchHHHHHHHHhhccc--hhhHHhHHHHhh
Q 046970           82 ----------AWMNFFLSCSSSDVR-NQTGSFGDAFVKLEKQFEEL--PEKVHKWSGALT  128 (420)
Q Consensus        82 ----------~v~pvfy~v~ps~vr-~~~~~~~~~~~~~~~~~~~~--~~~~~~w~~al~  128 (420)
                                .|+|+||++.+++++ .+.+.+...+.......+..  ..+...|++++.
T Consensus        81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~  140 (141)
T PF01582_consen   81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY  140 (141)
T ss_dssp             HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred             hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence                      899999999999999 68887777776655444432  356778887653

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

>smart00255 TIR Toll - interleukin 1 - resistance

Probab=99.69  E-value=5.7e-17  Score=135.91  Aligned_cols=119  Identities=37%  Similarity=0.574  Sum_probs=99.2

Q ss_pred             cccEEecCcc-ccccCcchHHHHHHHhhCCCceeeeCCCCCCCcchHHHHHHhhhcceeEEEecccccccCC--------
Q 046970           11 RYDVFLSFRG-EDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSG--------   81 (420)
Q Consensus        11 ~~dvfis~~~-~d~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w--------   81 (420)
                      .|||||||++ ++....|+.+|...|...|+.+|.|+....|... .+|.++|++|+++|+|+|++|..|.|        
T Consensus         1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~-~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a   79 (140)
T smart00255        1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDL-EEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA   79 (140)
T ss_pred             CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchH-HHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence            5999999999 4566789999999999999999999844333333 39999999999999999999999999        


Q ss_pred             ----------eeEeeeeccCccccccccCcchHHHHHHHHhhccchhhHHhHHHHhhhhc
Q 046970           82 ----------AWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEAS  131 (420)
Q Consensus        82 ----------~v~pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~  131 (420)
                                .|+||+|+..|..+..+.+.+...+..+..++.+.... ..|+..+..++
T Consensus        80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~  138 (140)
T smart00255       80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVP  138 (140)
T ss_pred             HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhc
Confidence                      89999999999889999999999998876666552222 67888776553

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

Probab=99.39  E-value=5.7e-13  Score=121.26  Aligned_cols=195  Identities=21%  Similarity=0.227  Sum_probs=100.7

Q ss_pred             cccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHH------HHH
Q 046970          171 SVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHL------RER  244 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l------~~~  244 (420)
                      |+||+.++++|.+++..+  ..+.+.|+|+.|+|||+|++++.+.........+|+....... ......+      ...
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~-~~~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESN-ESSLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSH-HHHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchh-hhHHHHHHHHHHHHHH
Confidence            799999999999998753  3578999999999999999999998754333444444222211 1111111      111


Q ss_pred             HHHHHhhccccC----------CC-CCchHHHHHHhcC--CeEEEEEeCCCCHH-----------HHHHHhcCCCCCCCC
Q 046970          245 VLSEILEENLKI----------GT-LNLPEYIKERLQQ--MKVFIVLDDVNKPE-----------QLIFLVGGLDRFGPR  300 (420)
Q Consensus       245 ll~~l~~~~~~~----------~~-~~~~~~l~~~l~~--~~~LlVLDdv~~~~-----------~l~~l~~~~~~~~~g  300 (420)
                      +...+.......          .. ......+.+.+..  ++++||+||+....           .+..++.......+.
T Consensus        78 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen   78 LSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             CHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTE
T ss_pred             HHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCc
Confidence            111121111110          01 1113333343432  45999999985444           123333332222233


Q ss_pred             cEEEeecCChhhhhh--------cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          301 SRIIVTTRDKQVFDE--------CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       301 ~~IIiTtR~~~~~~~--------~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      + +++++....+...        .+....+.|++|+.+++++++....-....- +...+..++|+..+||+|..|..
T Consensus       158 ~-~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 S-IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             E-EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             e-EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            4 4444444433322        2334459999999999999998865322111 11235578999999999998875

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

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

Probab=99.32  E-value=4.2e-13  Score=105.91  Aligned_cols=74  Identities=31%  Similarity=0.490  Sum_probs=65.2

Q ss_pred             EEecCccccccCcchHHHHHHHhhCCCceeeeCCCCCCCcchHHHHHHhhhcceeEEEecccccccCC------------
Q 046970           14 VFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSG------------   81 (420)
Q Consensus        14 vfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w------------   81 (420)
                      |||||+++|  ..++++|.+.|+++|+++|.|.++.+|+.+...|.++|++|+..|+++|++|..|.|            
T Consensus         1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~~~   78 (102)
T PF13676_consen    1 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWKRG   78 (102)
T ss_dssp             EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHCTS
T ss_pred             eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHHCC
Confidence            899999999  569999999999999999999989999999999999999999999999999999999            


Q ss_pred             -eeEeeeec
Q 046970           82 -AWMNFFLS   89 (420)
Q Consensus        82 -~v~pvfy~   89 (420)
                       .|+||..+
T Consensus        79 ~~iipv~~~   87 (102)
T PF13676_consen   79 KPIIPVRLD   87 (102)
T ss_dssp             ESEEEEECS
T ss_pred             CEEEEEEEC
Confidence             69999844

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.30  E-value=6e-11  Score=117.00  Aligned_cols=200  Identities=15%  Similarity=0.121  Sum_probs=119.7

Q ss_pred             CCCCcccccccceeeecccccC--CCCceEEEEeccCcchHHHHHHHHHHHhhcccc--ceEEEEeccccccccCHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG--LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE--GECFITNVREESERVGLVHLR  242 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~v~~~~~~~~~~~~~~l~  242 (420)
                      .++.++||+.++++|...+...  ......+.|+|++|+|||++++.+++.+.....  ..+++. .   ....+...+.
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in-~---~~~~~~~~~~  103 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN-C---QIDRTRYAIF  103 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE-C---CcCCCHHHHH
Confidence            5578999999999999988432  233456789999999999999999998765542  233333 2   2223455677


Q ss_pred             HHHHHHHhhccccCC--CCCc-hHHHHHHhc--CCeEEEEEeCCCCHH------HHHHHhcCCCCCC-CCcEEEeecCCh
Q 046970          243 ERVLSEILEENLKIG--TLNL-PEYIKERLQ--QMKVFIVLDDVNKPE------QLIFLVGGLDRFG-PRSRIIVTTRDK  310 (420)
Q Consensus       243 ~~ll~~l~~~~~~~~--~~~~-~~~l~~~l~--~~~~LlVLDdv~~~~------~l~~l~~~~~~~~-~g~~IIiTtR~~  310 (420)
                      ..++.++........  +... ...+.+.+.  +++.+||||+++...      .+..+........ ....+|.++.+.
T Consensus       104 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~  183 (394)
T PRK00411        104 SEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDL  183 (394)
T ss_pred             HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCc
Confidence            777777765221111  1122 455555554  457899999997643      3444443322221 123356555544


Q ss_pred             hhhhhc-------CCCeEEEeCCCCHHHHHHHHHhcccC---CCCCchhHHHHHHHHHHH----hcCChHHHHHHHH
Q 046970          311 QVFDEC-------EVDSIYEVEGLNKDESLELFSNFAFR---QKICPKDFLVLSKRVVDY----ANGNPLALKVLGS  373 (420)
Q Consensus       311 ~~~~~~-------~~~~~~~l~~L~~~ea~~L~~~~a~~---~~~~~~~~~~~~~~i~~~----~~G~PLal~~~~~  373 (420)
                      .+....       -....+.+++++.++..+++..++-.   ....+++   ..+.+++.    .|..+.|+.++-.
T Consensus       184 ~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~---~l~~i~~~~~~~~Gd~r~a~~ll~~  257 (394)
T PRK00411        184 TFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDE---VLDLIADLTAREHGDARVAIDLLRR  257 (394)
T ss_pred             chhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHh---HHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            332211       11356789999999999999877522   2222222   23333333    4557777776643

>PF05729 NACHT: NACHT domain

Probab=99.26  E-value=5.8e-11  Score=102.05  Aligned_cols=140  Identities=21%  Similarity=0.345  Sum_probs=83.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccc------cceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEF------EGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIK  266 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~  266 (420)
                      |++.|+|.+|+||||+++.++..+....      ...+|+. .+..........+...+..........     ....+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~~~~-----~~~~~~   74 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFS-LRDISDSNNSRSLADLLFDQLPESIAP-----IEELLQ   74 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEe-ehhhhhccccchHHHHHHHhhccchhh-----hHHHHH
Confidence            5789999999999999999998765543      2333333 333222222223333332222211110     011122


Q ss_pred             HH-hcCCeEEEEEeCCCCHHH-------------HHHHhcCCCCCCCCcEEEeecCChhh---hhhcCCCeEEEeCCCCH
Q 046970          267 ER-LQQMKVFIVLDDVNKPEQ-------------LIFLVGGLDRFGPRSRIIVTTRDKQV---FDECEVDSIYEVEGLNK  329 (420)
Q Consensus       267 ~~-l~~~~~LlVLDdv~~~~~-------------l~~l~~~~~~~~~g~~IIiTtR~~~~---~~~~~~~~~~~l~~L~~  329 (420)
                      .. ...+++++|+|++++...             +..+...  ...+++++|||+|....   .........+++.+|++
T Consensus        75 ~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~--~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~  152 (166)
T PF05729_consen   75 ELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQ--ALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSE  152 (166)
T ss_pred             HHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhh--ccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCH
Confidence            22 256899999999854422             2223322  12578999999998765   23333446899999999


Q ss_pred             HHHHHHHHhcc
Q 046970          330 DESLELFSNFA  340 (420)
Q Consensus       330 ~ea~~L~~~~a  340 (420)
                      ++..+++.++.
T Consensus       153 ~~~~~~~~~~f  163 (166)
T PF05729_consen  153 EDIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHHh
Confidence            99999997764

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.23  E-value=1.4e-10  Score=126.48  Aligned_cols=192  Identities=14%  Similarity=0.171  Sum_probs=121.0

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....+|-|..-++.|..     ....+++.|+|++|.||||++.++.++.    +.+.|+. +..  ...+...+...++
T Consensus        12 ~~~~~~~R~rl~~~l~~-----~~~~~~~~v~apaG~GKTtl~~~~~~~~----~~~~w~~-l~~--~d~~~~~f~~~l~   79 (903)
T PRK04841         12 RLHNTVVRERLLAKLSG-----ANNYRLVLVTSPAGYGKTTLISQWAAGK----NNLGWYS-LDE--SDNQPERFASYLI   79 (903)
T ss_pred             CccccCcchHHHHHHhc-----ccCCCeEEEECCCCCCHHHHHHHHHHhC----CCeEEEe-cCc--ccCCHHHHHHHHH
Confidence            45678888865555532     2357899999999999999999988643    3688986 221  2234455666666


Q ss_pred             HHHhhcccc----C------CCCCc----hHHHHHHhc--CCeEEEEEeCCCCHH------HHHHHhcCCCCCCCCcEEE
Q 046970          247 SEILEENLK----I------GTLNL----PEYIKERLQ--QMKVFIVLDDVNKPE------QLIFLVGGLDRFGPRSRII  304 (420)
Q Consensus       247 ~~l~~~~~~----~------~~~~~----~~~l~~~l~--~~~~LlVLDdv~~~~------~l~~l~~~~~~~~~g~~II  304 (420)
                      ..+......    .      .....    ...+...+.  +.+++|||||+...+      .+..++..   ..++.++|
T Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~---~~~~~~lv  156 (903)
T PRK04841         80 AALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRH---QPENLTLV  156 (903)
T ss_pred             HHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHh---CCCCeEEE
Confidence            665321111    0      00011    222222232  579999999995432      33444433   34677898


Q ss_pred             eecCChhhhhh--c-CCCeEEEeC----CCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhcC
Q 046970          305 VTTRDKQVFDE--C-EVDSIYEVE----GLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYR  377 (420)
Q Consensus       305 iTtR~~~~~~~--~-~~~~~~~l~----~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~  377 (420)
                      ||||...-+..  . -.....++.    +|+.+|+.+||....+.. .+    .+.+.++.+.|+|+|+++..++..+..
T Consensus       157 ~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~-~~----~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        157 VLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP-IE----AAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             EEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC-CC----HHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence            99998432211  0 122345565    999999999998765322 11    244678999999999999999877754


Q ss_pred             C
Q 046970          378 K  378 (420)
Q Consensus       378 ~  378 (420)
                      .
T Consensus       232 ~  232 (903)
T PRK04841        232 N  232 (903)
T ss_pred             C
Confidence            4

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.23  E-value=6e-10  Score=108.76  Aligned_cols=198  Identities=14%  Similarity=0.132  Sum_probs=118.2

Q ss_pred             CCCCcccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhcccc------ceEEEEeccccccccCH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE------GECFITNVREESERVGL  238 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~------~~~~v~~~~~~~~~~~~  238 (420)
                      .++.++||+.++++|...|..  .......+.|+|++|+|||++++.+++.+.....      ..+++.    .....+.
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in----~~~~~~~   88 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVN----CQILDTL   88 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEE----CCCCCCH
Confidence            457899999999999998863  1233567899999999999999999987654322      233443    2222345


Q ss_pred             HHHHHHHHHHHhh--ccccCCCCC--c-hHHHHHHhc--CCeEEEEEeCCCCHH-----HHHHHhcC--CCCC-CCCcEE
Q 046970          239 VHLRERVLSEILE--ENLKIGTLN--L-PEYIKERLQ--QMKVFIVLDDVNKPE-----QLIFLVGG--LDRF-GPRSRI  303 (420)
Q Consensus       239 ~~l~~~ll~~l~~--~~~~~~~~~--~-~~~l~~~l~--~~~~LlVLDdv~~~~-----~l~~l~~~--~~~~-~~g~~I  303 (420)
                      ..+...++.++..  .........  . ...+.+.+.  +++++||||+++...     .+..+...  .... +....+
T Consensus        89 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~l  168 (365)
T TIGR02928        89 YQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGV  168 (365)
T ss_pred             HHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEE
Confidence            5677777777742  111111111  1 344455553  568999999997661     13333322  1111 123345


Q ss_pred             EeecCChhhhhhc------C-CCeEEEeCCCCHHHHHHHHHhccc---CCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          304 IVTTRDKQVFDEC------E-VDSIYEVEGLNKDESLELFSNFAF---RQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       304 IiTtR~~~~~~~~------~-~~~~~~l~~L~~~ea~~L~~~~a~---~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      |.++.........      . ....+.+++++.++..+++..++.   ......++..+.+.+++..+.|.|..+
T Consensus       169 I~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~a  243 (365)
T TIGR02928       169 IGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKA  243 (365)
T ss_pred             EEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHH
Confidence            5555444321111      1 125688999999999999988763   222223333445566777777888443

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.

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

Probab=99.22  E-value=2.9e-10  Score=106.05  Aligned_cols=178  Identities=16%  Similarity=0.115  Sum_probs=104.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHH---
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKER---  268 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~---  268 (420)
                      ...+.|+|++|+|||||++.+++.+...-...+++.+     ...+..+++..+...+...............+.+.   
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~-----~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~  117 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVN-----TRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIE  117 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeC-----CCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHH
Confidence            4578999999999999999999886532112223321     12344566666665553321111000112233322   


Q ss_pred             --hcCCeEEEEEeCCCCHH--HHHHHh---cCCCCCCCCcEEEeecCChhhhhhc----------CCCeEEEeCCCCHHH
Q 046970          269 --LQQMKVFIVLDDVNKPE--QLIFLV---GGLDRFGPRSRIIVTTRDKQVFDEC----------EVDSIYEVEGLNKDE  331 (420)
Q Consensus       269 --l~~~~~LlVLDdv~~~~--~l~~l~---~~~~~~~~g~~IIiTtR~~~~~~~~----------~~~~~~~l~~L~~~e  331 (420)
                        ..+++.++|+||++...  .++.+.   ...........|++|.... .....          .....+++++|+.+|
T Consensus       118 ~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       118 QFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence              25678999999997643  333332   2211112233455655432 11111          123467899999999


Q ss_pred             HHHHHHhcccCCC--CCchhHHHHHHHHHHHhcCChHHHHHHHHHh
Q 046970          332 SLELFSNFAFRQK--ICPKDFLVLSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       332 a~~L~~~~a~~~~--~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                      ..+++........  ....-..+..+.|++.++|.|..+..++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999887653211  1111224678899999999999999998876

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.10  E-value=2.8e-10  Score=108.23  Aligned_cols=190  Identities=16%  Similarity=0.156  Sum_probs=105.6

Q ss_pred             CCcccccccceeeecccccC---CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLG---LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ..|+|++..+++|..++...   ......+.|+|++|+|||+||+.+++.+...+.   ... ....   .....+ ...
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~---~~~-~~~~---~~~~~l-~~~   75 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLK---ITS-GPAL---EKPGDL-AAI   75 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEE---Eec-cchh---cCchhH-HHH
Confidence            56999999999998887531   223556889999999999999999998754321   111 0000   111111 111


Q ss_pred             HHHHhhccc-cCCC---CCc--hHHHHHHhcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc--C
Q 046970          246 LSEILEENL-KIGT---LNL--PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC--E  317 (420)
Q Consensus       246 l~~l~~~~~-~~~~---~~~--~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~--~  317 (420)
                      +..+..... -+++   ...  .+.+...+.+.+..+|+++..+..++...      ..+.+-|..||+...+....  .
T Consensus        76 l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~------~~~~~li~~t~~~~~l~~~l~sR  149 (305)
T TIGR00635        76 LTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLD------LPPFTLVGATTRAGMLTSPLRDR  149 (305)
T ss_pred             HHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeec------CCCeEEEEecCCccccCHHHHhh
Confidence            222111100 0000   000  23333444444444555544333322111      12344555677764332221  1


Q ss_pred             CCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHH
Q 046970          318 VDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSF  374 (420)
Q Consensus       318 ~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~  374 (420)
                      ....+++++++.++..+++.+.+......-  ..+.+..|++.|+|.|..+..+...
T Consensus       150 ~~~~~~l~~l~~~e~~~il~~~~~~~~~~~--~~~al~~ia~~~~G~pR~~~~ll~~  204 (305)
T TIGR00635       150 FGIILRLEFYTVEELAEIVSRSAGLLNVEI--EPEAALEIARRSRGTPRIANRLLRR  204 (305)
T ss_pred             cceEEEeCCCCHHHHHHHHHHHHHHhCCCc--CHHHHHHHHHHhCCCcchHHHHHHH
Confidence            345689999999999999998875332211  1356788999999999876655544

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

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

Probab=99.09  E-value=8.7e-10  Score=103.62  Aligned_cols=149  Identities=21%  Similarity=0.302  Sum_probs=92.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      .....+.+||+||+||||||+.++......|...-=+        ..++.++..-+ ..               .-+...
T Consensus        46 ~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv--------~~gvkdlr~i~-e~---------------a~~~~~  101 (436)
T COG2256          46 GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAV--------TSGVKDLREII-EE---------------ARKNRL  101 (436)
T ss_pred             CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccc--------cccHHHHHHHH-HH---------------HHHHHh
Confidence            3567788999999999999999999876665422111        12222222211 11               112233


Q ss_pred             cCCeEEEEEeCCC--CHHHHHHHhcCCCCCCCCcEEEe--ecCChhhh---hhcCCCeEEEeCCCCHHHHHHHHHhcccC
Q 046970          270 QQMKVFIVLDDVN--KPEQLIFLVGGLDRFGPRSRIIV--TTRDKQVF---DECEVDSIYEVEGLNKDESLELFSNFAFR  342 (420)
Q Consensus       270 ~~~~~LlVLDdv~--~~~~l~~l~~~~~~~~~g~~IIi--TtR~~~~~---~~~~~~~~~~l~~L~~~ea~~L~~~~a~~  342 (420)
                      .+++.+|.+|.|+  +..|-+.|++...   .|.-|+|  ||-|+...   .......++++++|+.++..+++.+-+..
T Consensus       102 ~gr~tiLflDEIHRfnK~QQD~lLp~vE---~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~  178 (436)
T COG2256         102 LGRRTILFLDEIHRFNKAQQDALLPHVE---NGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLD  178 (436)
T ss_pred             cCCceEEEEehhhhcChhhhhhhhhhhc---CCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhh
Confidence            5789999999994  4556677777753   6666665  77776431   11234589999999999999999883311


Q ss_pred             -CC-CC---chhHHHHHHHHHHHhcCCh
Q 046970          343 -QK-IC---PKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       343 -~~-~~---~~~~~~~~~~i~~~~~G~P  365 (420)
                       .. ..   ..-.++..+-++..++|=-
T Consensus       179 ~~rgl~~~~~~i~~~a~~~l~~~s~GD~  206 (436)
T COG2256         179 EERGLGGQIIVLDEEALDYLVRLSNGDA  206 (436)
T ss_pred             hhcCCCcccccCCHHHHHHHHHhcCchH
Confidence             11 11   1011245566777777654

>PRK06893 DNA replication initiation factor; Validated

Probab=99.06  E-value=2.4e-09  Score=97.26  Aligned_cols=154  Identities=14%  Similarity=0.200  Sum_probs=95.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcC
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQ  271 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~  271 (420)
                      .+.+.|+|++|+|||+|+..+++....+...+.|+.    ...   .......                    +.+.+. 
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~----~~~---~~~~~~~--------------------~~~~~~-   90 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIP----LSK---SQYFSPA--------------------VLENLE-   90 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEee----HHH---hhhhhHH--------------------HHhhcc-
Confidence            457899999999999999999998766555666765    110   0000001                    111112 


Q ss_pred             CeEEEEEeCCCCH---HHHH-HHhcCCCCC-CCCcEEE-eecCC---------hhhhhhcCCCeEEEeCCCCHHHHHHHH
Q 046970          272 MKVFIVLDDVNKP---EQLI-FLVGGLDRF-GPRSRII-VTTRD---------KQVFDECEVDSIYEVEGLNKDESLELF  336 (420)
Q Consensus       272 ~~~LlVLDdv~~~---~~l~-~l~~~~~~~-~~g~~II-iTtR~---------~~~~~~~~~~~~~~l~~L~~~ea~~L~  336 (420)
                      +.-+|+|||++..   ..++ .+...++.. ..+..+| +|+..         +.+...+.....+++++++.++.++++
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL  170 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVL  170 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHH
Confidence            2348999999753   2222 222222111 2355554 45543         244444555678999999999999999


Q ss_pred             HhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHh
Q 046970          337 SNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       337 ~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                      .+.+.......+  ++...-|++.+.|..-.+..+-..|
T Consensus       171 ~~~a~~~~l~l~--~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        171 QRNAYQRGIELS--DEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHHcCCCCC--HHHHHHHHHhccCCHHHHHHHHHHH
Confidence            988864432222  3567788899988877776554444

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.05  E-value=4.3e-10  Score=107.94  Aligned_cols=192  Identities=15%  Similarity=0.133  Sum_probs=104.5

Q ss_pred             CCCCcccccccceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ...+|+|++..++.+..++..   .......+.|+|++|+|||+||+.+++.+...+.   +.. .......    ..+.
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~---~~~-~~~~~~~----~~l~   94 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR---ITS-GPALEKP----GDLA   94 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE---EEe-cccccCh----HHHH
Confidence            456799999999998877753   2234567889999999999999999998754321   111 1001001    1111


Q ss_pred             HHHHHHhhccc-cCCC---CCc--hHHHHHHhcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc-
Q 046970          244 RVLSEILEENL-KIGT---LNL--PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC-  316 (420)
Q Consensus       244 ~ll~~l~~~~~-~~~~---~~~--~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~-  316 (420)
                      .++..+..... -+++   ...  .+.+...+.+.+..+++|+..+...+..   .   ..+.+-|..|++...+.... 
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~---~---l~~~~li~at~~~~~l~~~L~  168 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRL---D---LPPFTLIGATTRAGLLTSPLR  168 (328)
T ss_pred             HHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceee---c---CCCceEEeecCCcccCCHHHH
Confidence            22221111000 0000   000  1222233333333344443322221110   0   12334455666654332221 


Q ss_pred             -CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHH
Q 046970          317 -EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSF  374 (420)
Q Consensus       317 -~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~  374 (420)
                       .....+++++++.++..+++.+.+......-  ..+.+..|++.|+|.|..+..+...
T Consensus       169 sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~--~~~~~~~ia~~~~G~pR~a~~~l~~  225 (328)
T PRK00080        169 DRFGIVQRLEFYTVEELEKIVKRSARILGVEI--DEEGALEIARRSRGTPRIANRLLRR  225 (328)
T ss_pred             HhcCeeeecCCCCHHHHHHHHHHHHHHcCCCc--CHHHHHHHHHHcCCCchHHHHHHHH
Confidence             1345789999999999999998875433222  2356889999999999766555543

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.92  E-value=6.9e-09  Score=94.16  Aligned_cols=175  Identities=16%  Similarity=0.188  Sum_probs=101.2

Q ss_pred             CCCccc--ccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHH
Q 046970          168 FTGSVG--VNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       168 ~~~~vG--R~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      .++|++  .+..++.+.+++..  .....+.|+|++|+|||+||+.+++.........+++. +....      .-...+
T Consensus        14 ~~~~~~~~~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~-~~~~~------~~~~~~   84 (226)
T TIGR03420        14 FDNFYAGGNAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP-LAELA------QADPEV   84 (226)
T ss_pred             hcCcCcCCcHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe-HHHHH------HhHHHH
Confidence            345653  23355566665442  34568899999999999999999987654444444554 11110      000011


Q ss_pred             HHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH---H-HHHHhcCCCC-CCCCcEEEeecCChh---------
Q 046970          246 LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE---Q-LIFLVGGLDR-FGPRSRIIVTTRDKQ---------  311 (420)
Q Consensus       246 l~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~---~-l~~l~~~~~~-~~~g~~IIiTtR~~~---------  311 (420)
                                          ...+.+ .-+||+||++...   . .+.+...+.. ...+.++|+||+...         
T Consensus        85 --------------------~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~  143 (226)
T TIGR03420        85 --------------------LEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPD  143 (226)
T ss_pred             --------------------Hhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHH
Confidence                                111122 2389999996432   1 2223222211 123347888887432         


Q ss_pred             hhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHH
Q 046970          312 VFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSF  374 (420)
Q Consensus       312 ~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~  374 (420)
                      +.........+++++++.++...++...+-.....-  ..+..+.+.+.+.|+|..+..+-..
T Consensus       144 L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~--~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       144 LRTRLAWGLVFQLPPLSDEEKIAALQSRAARRGLQL--PDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHhccCCHHHHHHHHHH
Confidence            111222246789999999999999987653222111  1255678888899999988876443

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.89  E-value=2.7e-08  Score=98.41  Aligned_cols=177  Identities=17%  Similarity=0.234  Sum_probs=105.3

Q ss_pred             CCCCccccccccee---eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRH---IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~---l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ..+.+||.+..+..   |..++...  ....+.|+|++|+||||||+.+++.....|..   +..   .  ..+... .+
T Consensus        10 ~l~d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~---l~a---~--~~~~~~-ir   78 (413)
T PRK13342         10 TLDEVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGATDAPFEA---LSA---V--TSGVKD-LR   78 (413)
T ss_pred             CHHHhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHHhCCCEEE---Eec---c--cccHHH-HH
Confidence            34679999888777   77777533  45578899999999999999999876544321   110   0  011111 11


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEe--ecCChhhh---hhc
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIV--TTRDKQVF---DEC  316 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIi--TtR~~~~~---~~~  316 (420)
                      .++.....               ....+++.+|++|+++..  .+.+.|+..+.   .+..++|  ||.+....   ...
T Consensus        79 ~ii~~~~~---------------~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~  140 (413)
T PRK13342         79 EVIEEARQ---------------RRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALL  140 (413)
T ss_pred             HHHHHHHH---------------hhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHh
Confidence            12111100               111357789999999754  44555655543   3444444  44443211   111


Q ss_pred             CCCeEEEeCCCCHHHHHHHHHhcccCCCCCc-hhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          317 EVDSIYEVEGLNKDESLELFSNFAFRQKICP-KDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       317 ~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~-~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      .....+++.+++.++..+++.+......... .-..+....+++.++|.|..+..+-
T Consensus       141 SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~L  197 (413)
T PRK13342        141 SRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLL  197 (413)
T ss_pred             ccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence            2337889999999999999987653211000 1123567789999999998765443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.77  E-value=1.6e-07  Score=91.28  Aligned_cols=189  Identities=14%  Similarity=0.145  Sum_probs=107.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+++|-+..++.+.+.+..+. -...+.++|++|+||||+|+.+++.+.......         ..+.+.-....++.
T Consensus        14 ~~~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~---------~~pc~~c~~c~~~~   83 (363)
T PRK14961         14 YFRDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT---------SNPCRKCIICKEIE   83 (363)
T ss_pred             chhhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC---------CCCCCCCHHHHHHh
Confidence            44678999998888888776432 346778999999999999999998763211000         00000000011111


Q ss_pred             HHHhhccccCC-----CCCchHHHHHHh-----cCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEEeecCChh-hh
Q 046970          247 SEILEENLKIG-----TLNLPEYIKERL-----QQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRIIVTTRDKQ-VF  313 (420)
Q Consensus       247 ~~l~~~~~~~~-----~~~~~~~l~~~l-----~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~IIiTtR~~~-~~  313 (420)
                      ......-....     ..+....+.+.+     .+++-++|+|+++...  .++.++..+....+..++|++|.+.. +.
T Consensus        84 ~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~  163 (363)
T PRK14961         84 KGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIP  163 (363)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhh
Confidence            00000000000     000011122221     2345699999997654  35667766665556667777665543 32


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      .. .+....+++++++.++..+.+...+-.....-  ..+.+..|++.++|.|..
T Consensus       164 ~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i--~~~al~~ia~~s~G~~R~  216 (363)
T PRK14961        164 KTILSRCLQFKLKIISEEKIFNFLKYILIKESIDT--DEYALKLIAYHAHGSMRD  216 (363)
T ss_pred             HHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHH
Confidence            22 22347889999999999998887653322111  124567888999998863

>PF13173 AAA_14: AAA domain

Probab=98.76  E-value=4.4e-08  Score=80.50  Aligned_cols=119  Identities=22%  Similarity=0.223  Sum_probs=75.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      +++.|.|+.|+|||||+++++.+.. .-...+++. ....   . .....  ..             +..+.+.+....+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~-~~~~---~-~~~~~--~~-------------~~~~~~~~~~~~~   61 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN-FDDP---R-DRRLA--DP-------------DLLEYFLELIKPG   61 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec-cCCH---H-HHHHh--hh-------------hhHHHHHHhhccC
Confidence            6899999999999999999998765 223344554 1111   0 00000  00             0112233333347


Q ss_pred             eEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhh------cCCCeEEEeCCCCHHHH
Q 046970          273 KVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE------CEVDSIYEVEGLNKDES  332 (420)
Q Consensus       273 ~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~------~~~~~~~~l~~L~~~ea  332 (420)
                      +.+++||++....+|...+..+....++.+|++|+.+...+..      .+....++|.||+..|-
T Consensus        62 ~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   62 KKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            7899999998887776666555444567899999987765432      12335679999998773

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.76  E-value=6.2e-08  Score=99.20  Aligned_cols=193  Identities=16%  Similarity=0.167  Sum_probs=111.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...++||.+..++.|.+++..+. -...+.++|..|+||||+|+.+++.+...-. .        .....+.-..+..+.
T Consensus        14 tFdEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~-~--------~~~PCG~C~sCr~I~   83 (830)
T PRK07003         14 DFASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETG-V--------TSQPCGVCRACREID   83 (830)
T ss_pred             cHHHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccC-C--------CCCCCcccHHHHHHh
Confidence            44678999999999988887442 2456779999999999999999987632100 0        000001111111111


Q ss_pred             HHHhhccccCCCCC-c-hHHHHHHh--------cCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEEeecCChhhhh
Q 046970          247 SEILEENLKIGTLN-L-PEYIKERL--------QQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRIIVTTRDKQVFD  314 (420)
Q Consensus       247 ~~l~~~~~~~~~~~-~-~~~l~~~l--------~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~IIiTtR~~~~~~  314 (420)
                      ..-......++..+ . .+.+++.+        .++.-++|||+++...  .++.|+..+.......++|+||++.....
T Consensus        84 ~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp  163 (830)
T PRK07003         84 EGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIP  163 (830)
T ss_pred             cCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhcc
Confidence            00000000000000 0 11111111        2345689999997653  36667766655556778887777654322


Q ss_pred             -h-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh-HHHHHH
Q 046970          315 -E-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP-LALKVL  371 (420)
Q Consensus       315 -~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P-Lal~~~  371 (420)
                       . ......+.+++++.++..+.+.+.+......-  ..+..+.|++.++|.. -+|..+
T Consensus       164 ~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~i--d~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        164 VTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAF--EPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             chhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHH
Confidence             1 23457899999999999999988764332211  1255678888888865 355543

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.76  E-value=4e-08  Score=104.85  Aligned_cols=204  Identities=15%  Similarity=0.236  Sum_probs=116.0

Q ss_pred             CcccccccceeeecccccC-CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEe-ccccccc---cCHHHHHHH
Q 046970          170 GSVGVNSRIRHIKSLLHLG-LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITN-VREESER---VGLVHLRER  244 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~-~~~~~~~---~~~~~l~~~  244 (420)
                      .++||+.+++.|...+..- .....++.+.|.+|||||+|++++...+.+.  ...++.. +......   ..+....+.
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~--~~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQ--RGYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhcc--ceeeeHhhcccccCCCchHHHHHHHHH
Confidence            3789999999998888653 3346799999999999999999999987655  1111110 0001111   111112222


Q ss_pred             HHHHH-------------------hhcc-----------------c---cCCCCCc--------hHHHHHHh-cCCeEEE
Q 046970          245 VLSEI-------------------LEEN-----------------L---KIGTLNL--------PEYIKERL-QQMKVFI  276 (420)
Q Consensus       245 ll~~l-------------------~~~~-----------------~---~~~~~~~--------~~~l~~~l-~~~~~Ll  276 (420)
                      +..++                   +...                 .   .......        ...+.-.. +.+|.++
T Consensus        79 l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi  158 (849)
T COG3899          79 LMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVI  158 (849)
T ss_pred             HHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEE
Confidence            22211                   1100                 0   0000110        11122222 3459999


Q ss_pred             EEeCC-CCHH----HHHHHhcCCC--CC-CCCcEEEeecCCh--hhhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCC
Q 046970          277 VLDDV-NKPE----QLIFLVGGLD--RF-GPRSRIIVTTRDK--QVFDECEVDSIYEVEGLNKDESLELFSNFAFRQKIC  346 (420)
Q Consensus       277 VLDdv-~~~~----~l~~l~~~~~--~~-~~g~~IIiTtR~~--~~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  346 (420)
                      |+||+ |-..    -++.++....  .+ ....-.+.|.+..  .+.........+.|.||+..+...|...........
T Consensus       159 ~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~  238 (849)
T COG3899         159 VLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLL  238 (849)
T ss_pred             EEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcccc
Confidence            99999 4332    2344443332  00 0011122233322  112222345789999999999999998877442222


Q ss_pred             chhHHHHHHHHHHHhcCChHHHHHHHHHhcCC
Q 046970          347 PKDFLVLSKRVVDYANGNPLALKVLGSFFYRK  378 (420)
Q Consensus       347 ~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~  378 (420)
                      +   .+....|+++..|+|+-+..+-..|...
T Consensus       239 ~---~p~~~~i~~kt~GnPfFi~e~lk~l~~~  267 (849)
T COG3899         239 P---APLLELIFEKTKGNPFFIEEFLKALYEE  267 (849)
T ss_pred             c---chHHHHHHHHhcCCCccHHHHHHHHHhC
Confidence            2   2557899999999999999998888765

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.73  E-value=1.6e-07  Score=98.10  Aligned_cols=180  Identities=14%  Similarity=0.107  Sum_probs=109.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-c-c---c----------------eEE
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-F-E---G----------------ECF  225 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f-~---~----------------~~~  225 (420)
                      ....+||-+..++.|.+++..+. -...+.++|++|+||||+|+.+++.+... . .   +                ..+
T Consensus        14 tFddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviE   92 (944)
T PRK14949         14 TFEQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIE   92 (944)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEE
Confidence            44678999999888888886432 24566899999999999999999876432 1 0   0                011


Q ss_pred             EEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEE
Q 046970          226 ITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRI  303 (420)
Q Consensus       226 v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~I  303 (420)
                      +.    .....++.. .+++...+.               ..-..++.-++|+|+++..  ...+.|+..+.......++
T Consensus        93 id----Aas~~kVDd-IReLie~v~---------------~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrF  152 (944)
T PRK14949         93 VD----AASRTKVDD-TRELLDNVQ---------------YRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKF  152 (944)
T ss_pred             ec----cccccCHHH-HHHHHHHHH---------------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEE
Confidence            11    000001111 111111110               0012356779999999654  5567777777655566776


Q ss_pred             EeecCCh-hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          304 IVTTRDK-QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       304 IiTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      |++|.+. .+... ......|++++|+.++..+.+.+.+-.....  -..+.+..|++.++|.|.-+.
T Consensus       153 ILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~--~edeAL~lIA~~S~Gd~R~AL  218 (944)
T PRK14949        153 LLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLP--FEAEALTLLAKAANGSMRDAL  218 (944)
T ss_pred             EEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            6655543 33322 2234789999999999999998766332211  122457789999999886443

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.73  E-value=1e-07  Score=84.03  Aligned_cols=179  Identities=18%  Similarity=0.186  Sum_probs=97.9

Q ss_pred             CCCCcccccccceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ..++|||-+.-+..+.-++..   ..+....+.+||+||+||||||.-+++.....|.   +... .......++..   
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~---~~sg-~~i~k~~dl~~---   94 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK---ITSG-PAIEKAGDLAA---   94 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE---EEEC-CC--SCHHHHH---
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE---eccc-hhhhhHHHHHH---
Confidence            457899999988887655542   2344678999999999999999999998876653   2221 00111111111   


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCC--------CCC-----------CcE
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDR--------FGP-----------RSR  302 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~--------~~~-----------g~~  302 (420)
                                           +...+. ++-+|.+|+++..  .+-+.|.+....        -++           -+-
T Consensus        95 ---------------------il~~l~-~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTl  152 (233)
T PF05496_consen   95 ---------------------ILTNLK-EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTL  152 (233)
T ss_dssp             ---------------------HHHT---TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EE
T ss_pred             ---------------------HHHhcC-CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceE
Confidence                                 111122 3447777988644  222333332211        011           122


Q ss_pred             EEeecCChhhhhhcC--CCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhc
Q 046970          303 IIVTTRDKQVFDECE--VDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFY  376 (420)
Q Consensus       303 IIiTtR~~~~~~~~~--~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~  376 (420)
                      |=.|||...+.....  ..-..+++..+.+|-.+++.+.+..-...-  .++.+.+|++.+.|-|.-..-+-..++
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i--~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEI--DEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE---HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCc--CHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            446788655533332  345568999999999999998874433222  246789999999999976665544444

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.72  E-value=1.2e-07  Score=86.12  Aligned_cols=152  Identities=14%  Similarity=0.143  Sum_probs=88.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ  270 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~  270 (420)
                      ..+.+.|+|.+|+|||+||+.+++.....-....++...    .      ....+                     .. .
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~----~------~~~~~---------------------~~-~   88 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA----S------PLLAF---------------------DF-D   88 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH----H------hHHHH---------------------hh-c
Confidence            356789999999999999999998764432334444410    0      00000                     00 1


Q ss_pred             CCeEEEEEeCCCCH--HHHHHHhcCCCCC-CCCc-EEEeecCChhhhh--------hcCCCeEEEeCCCCHHHHHHHHHh
Q 046970          271 QMKVFIVLDDVNKP--EQLIFLVGGLDRF-GPRS-RIIVTTRDKQVFD--------ECEVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       271 ~~~~LlVLDdv~~~--~~l~~l~~~~~~~-~~g~-~IIiTtR~~~~~~--------~~~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      ...-+||+||++..  ...+.+...+... ..+. .+|+|++......        .+.....+++++|+.++-.+++.+
T Consensus        89 ~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~  168 (227)
T PRK08903         89 PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKA  168 (227)
T ss_pred             ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHH
Confidence            12347899999543  2222232222111 1233 3666666432111        222346889999999988777776


Q ss_pred             cccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhc
Q 046970          339 FAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFY  376 (420)
Q Consensus       339 ~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~  376 (420)
                      .+-......  .++..+.+++.+.|++..+..+-..|.
T Consensus       169 ~~~~~~v~l--~~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        169 AAAERGLQL--ADEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             HHHHcCCCC--CHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            542222111  125677888899999999887766553

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

Probab=98.71  E-value=4.8e-08  Score=80.43  Aligned_cols=113  Identities=19%  Similarity=0.238  Sum_probs=71.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc-----ccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE-----FEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEY  264 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~  264 (420)
                      +.+.+.|+|.+|+|||+++.++++.....     -...+|+.    .........+...++..+............ .+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~   78 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVN----CPSSRTPRDFAQEILEALGLPLKSRQTSDELRSL   78 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEE----HHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEE----eCCCCCHHHHHHHHHHHhCccccccCCHHHHHHH
Confidence            35688999999999999999999976543     23455665    444447888888888888766544122222 556


Q ss_pred             HHHHhcCC-eEEEEEeCCCCH---HHHHHHhcCCCCCCCCcEEEeecCC
Q 046970          265 IKERLQQM-KVFIVLDDVNKP---EQLIFLVGGLDRFGPRSRIIVTTRD  309 (420)
Q Consensus       265 l~~~l~~~-~~LlVLDdv~~~---~~l~~l~~~~~~~~~g~~IIiTtR~  309 (420)
                      +.+.+... ..+||+|+++..   +.++.+....+  ..+.++|+..+.
T Consensus        79 ~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   79 LIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            66666554 469999999655   33444443333  567778877665

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.71  E-value=2.1e-07  Score=89.76  Aligned_cols=197  Identities=15%  Similarity=0.114  Sum_probs=105.9

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc-cc-eEEEEeccccccccCHHHHHH--
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EG-ECFITNVREESERVGLVHLRE--  243 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~-~~~v~~~~~~~~~~~~~~l~~--  243 (420)
                      ...++|++..++.|.+++..+  ..+.+.++|++|+||||+|+.+++.+..+. .. ...+. ....... ....+..  
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~-~~~~~~~-~~~~~~~~~   89 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSP--NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFN-VADFFDQ-GKKYLVEDP   89 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEec-hhhhhhc-chhhhhcCc
Confidence            467899999999998888643  344688999999999999999998764331 21 22332 1111000 0000000  


Q ss_pred             HHHHHHhhccc-cCCCCCchH-HHHHHh-----cCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEEeecCChh-hh
Q 046970          244 RVLSEILEENL-KIGTLNLPE-YIKERL-----QQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRIIVTTRDKQ-VF  313 (420)
Q Consensus       244 ~ll~~l~~~~~-~~~~~~~~~-~l~~~l-----~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~IIiTtR~~~-~~  313 (420)
                      .....+..... .....+... .++...     ...+-+||+||++...  ....+...+......+++|+|+.+.. +.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~  169 (337)
T PRK12402         90 RFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLI  169 (337)
T ss_pred             chhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCc
Confidence            00000000000 000001111 111111     1334589999996442  23333333333345677887775432 22


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      .. ......+++.+++.++..+++...+-.....-  ..+.+..+++.++|.+-.+..
T Consensus       170 ~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~--~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        170 PPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDY--DDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHH
Confidence            21 12346788999999999999988653322211  135677888889888766543

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

Probab=98.70  E-value=1.7e-07  Score=87.01  Aligned_cols=148  Identities=16%  Similarity=0.209  Sum_probs=92.5

Q ss_pred             CCCCcccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ...+.||-+..+.+ ..+|..  +.+....+.+||++|+||||||+.++..-+.+-  ..|+.    .+....-..-.+.
T Consensus       136 tL~dyvGQ~hlv~q-~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfve----lSAt~a~t~dvR~  208 (554)
T KOG2028|consen  136 TLDDYVGQSHLVGQ-DGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVE----LSATNAKTNDVRD  208 (554)
T ss_pred             hHHHhcchhhhcCc-chHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEE----EeccccchHHHHH
Confidence            34567777766655 333321  244677889999999999999999998765542  34554    2221111112222


Q ss_pred             HHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCC--CHHHHHHHhcCCCCCCCCcEEEe--ecCChhhh---hhcC
Q 046970          245 VLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVN--KPEQLIFLVGGLDRFGPRSRIIV--TTRDKQVF---DECE  317 (420)
Q Consensus       245 ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~--~~~~l~~l~~~~~~~~~g~~IIi--TtR~~~~~---~~~~  317 (420)
                      ++.+...              ...+.+++.+|.+|.|.  +..|-+.|++..   ..|.-++|  ||.++...   ....
T Consensus       209 ife~aq~--------------~~~l~krkTilFiDEiHRFNksQQD~fLP~V---E~G~I~lIGATTENPSFqln~aLlS  271 (554)
T KOG2028|consen  209 IFEQAQN--------------EKSLTKRKTILFIDEIHRFNKSQQDTFLPHV---ENGDITLIGATTENPSFQLNAALLS  271 (554)
T ss_pred             HHHHHHH--------------HHhhhcceeEEEeHHhhhhhhhhhhccccee---ccCceEEEecccCCCccchhHHHHh
Confidence            3222211              12356789999999994  445556666654   36665555  77777542   1233


Q ss_pred             CCeEEEeCCCCHHHHHHHHHh
Q 046970          318 VDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       318 ~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      ...++.|++|+.++...++.+
T Consensus       272 RC~VfvLekL~~n~v~~iL~r  292 (554)
T KOG2028|consen  272 RCRVFVLEKLPVNAVVTILMR  292 (554)
T ss_pred             ccceeEeccCCHHHHHHHHHH
Confidence            457889999999999999877

>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=98.69  E-value=2.5e-07  Score=83.29  Aligned_cols=161  Identities=14%  Similarity=0.184  Sum_probs=93.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccc--eEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEG--ECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~--~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ...+.|+|..|.|||.|..++++.+....+.  ++++.          ...+...+...+...        ....+++.+
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~----------~~~f~~~~~~~~~~~--------~~~~~~~~~   95 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS----------AEEFIREFADALRDG--------EIEEFKDRL   95 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE----------HHHHHHHHHHHHHTT--------SHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec----------HHHHHHHHHHHHHcc--------cchhhhhhh
Confidence            4568899999999999999999987665432  34443          233444444333321        134455555


Q ss_pred             cCCeEEEEEeCCCCH---HHH-HHHhcCCCC-CCCCcEEEeecCCh-h--------hhhhcCCCeEEEeCCCCHHHHHHH
Q 046970          270 QQMKVFIVLDDVNKP---EQL-IFLVGGLDR-FGPRSRIIVTTRDK-Q--------VFDECEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~---~~l-~~l~~~~~~-~~~g~~IIiTtR~~-~--------~~~~~~~~~~~~l~~L~~~ea~~L  335 (420)
                      ++ -=+|++||++..   ..+ +.+...++. ...|.++|+|++.. .        +...+...-.+++++++.++..++
T Consensus        96 ~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~i  174 (219)
T PF00308_consen   96 RS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRI  174 (219)
T ss_dssp             CT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHH
T ss_pred             hc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHH
Confidence            53 347889999543   211 122221111 13566899999643 2        222234567899999999999999


Q ss_pred             HHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHH
Q 046970          336 FSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGS  373 (420)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~  373 (420)
                      +.+.+-.....-  .++.+.-|++.+.+..-.|..+-.
T Consensus       175 l~~~a~~~~~~l--~~~v~~~l~~~~~~~~r~L~~~l~  210 (219)
T PF00308_consen  175 LQKKAKERGIEL--PEEVIEYLARRFRRDVRELEGALN  210 (219)
T ss_dssp             HHHHHHHTT--S---HHHHHHHHHHTTSSHHHHHHHHH
T ss_pred             HHHHHHHhCCCC--cHHHHHHHHHhhcCCHHHHHHHHH
Confidence            998885433222  235677788888777766665433

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.

>PRK08727 hypothetical protein; Validated

Probab=98.68  E-value=4.5e-07  Score=82.53  Aligned_cols=146  Identities=14%  Similarity=0.108  Sum_probs=87.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      ..+.|+|.+|+|||+|+..+++....+...+.|+.    .      .+....+..                 ..+.+ .+
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~----~------~~~~~~~~~-----------------~~~~l-~~   93 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP----L------QAAAGRLRD-----------------ALEAL-EG   93 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe----H------HHhhhhHHH-----------------HHHHH-hc
Confidence            46999999999999999999998766544556665    1      111111100                 11111 12


Q ss_pred             eEEEEEeCCCCH----HHHHHHhcCCCC-CCCCcEEEeecCChh---------hhhhcCCCeEEEeCCCCHHHHHHHHHh
Q 046970          273 KVFIVLDDVNKP----EQLIFLVGGLDR-FGPRSRIIVTTRDKQ---------VFDECEVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       273 ~~LlVLDdv~~~----~~l~~l~~~~~~-~~~g~~IIiTtR~~~---------~~~~~~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      .-+||+||++..    .....+...++. ...+..+|+|++...         +.........+++++++.++-.+++.+
T Consensus        94 ~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~  173 (233)
T PRK08727         94 RSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRE  173 (233)
T ss_pred             CCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHH
Confidence            348999999532    111222222211 124567999998532         222233456889999999999999998


Q ss_pred             cccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          339 FAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       339 ~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      ++.......+  ++...-|++.++|-.-.+
T Consensus       174 ~a~~~~l~l~--~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        174 RAQRRGLALD--EAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHcCCCCC--HHHHHHHHHhCCCCHHHH
Confidence            7643222111  255677888887666555

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=3.3e-07  Score=92.97  Aligned_cols=191  Identities=19%  Similarity=0.144  Sum_probs=110.1

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|.+...+.|.+++..+. -...+.++|+.|+||||+|+.+++.+-...    +..     ....+.-...+.+.
T Consensus        13 tFddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~----~~~-----~~pCg~C~sC~~I~   82 (702)
T PRK14960         13 NFNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCET----GVT-----STPCEVCATCKAVN   82 (702)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCc----CCC-----CCCCccCHHHHHHh
Confidence            44679999999999988887442 246789999999999999999998753211    000     00000000111110


Q ss_pred             HHHhhccccCCCC--CchHHHHHH--------hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhhhh
Q 046970          247 SEILEENLKIGTL--NLPEYIKER--------LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQVFD  314 (420)
Q Consensus       247 ~~l~~~~~~~~~~--~~~~~l~~~--------l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~  314 (420)
                      ..-...-..+...  ...+.+++.        ..++.-++|+|+++..  .....|+..+.....+.++|++|.+..-..
T Consensus        83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp  162 (702)
T PRK14960         83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLP  162 (702)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhh
Confidence            0000000000000  001112111        1245679999999754  455666666655456677777776543221


Q ss_pred             --hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          315 --ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       315 --~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                        .......+++++++.++..+.+.+.+-.....-  ..+....|++.++|.+..+.
T Consensus       163 ~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~i--d~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        163 ITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAA--DQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             HHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHH
Confidence              123457889999999999999887764332211  12456788888998775443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=5.2e-07  Score=90.79  Aligned_cols=187  Identities=16%  Similarity=0.098  Sum_probs=109.2

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc--cccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS--EFEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~--~f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|-+...+.|..++..+. -...+.++|++|+||||+|+.+++.+..  .....|+.+...            ..
T Consensus        12 ~~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc------------~~   78 (504)
T PRK14963         12 TFDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESC------------LA   78 (504)
T ss_pred             CHHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhh------------HH
Confidence            34568898888888877776432 2456799999999999999999987632  222233332100            00


Q ss_pred             HHHHHhhccccC-----CCCCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-h
Q 046970          245 VLSEILEENLKI-----GTLNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-Q  311 (420)
Q Consensus       245 ll~~l~~~~~~~-----~~~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~  311 (420)
                      +.......-..+     ...+....+.+.+     .+++-++|+|+++..  ..++.|+..+....+.+.+|++|... .
T Consensus        79 i~~~~h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~k  158 (504)
T PRK14963         79 VRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEK  158 (504)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhh
Confidence            000000000000     0000112222222     245669999999644  44667776665544555656555443 3


Q ss_pred             hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          312 VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       312 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      +... ......+++.+++.++..+.+.+.+-......  ..+.+..|++.++|.+.-+
T Consensus       159 l~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i--~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        159 MPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREA--EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             CChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHH
Confidence            3222 22356899999999999999988764333221  1245788999999998644

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=2.3e-07  Score=93.95  Aligned_cols=196  Identities=12%  Similarity=0.135  Sum_probs=110.2

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...++||-+..++.|.+.+..+. -...+.++|..|+||||+|+.+++.+-..-...  ....  .....+.......+.
T Consensus        14 tFddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~--~~g~--~~~PCG~C~sC~~I~   88 (700)
T PRK12323         14 DFTTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADG--EGGI--TAQPCGQCRACTEID   88 (700)
T ss_pred             cHHHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccc--cccC--CCCCCcccHHHHHHH
Confidence            44678999998888888887442 245678999999999999999998763210000  0000  000011111111111


Q ss_pred             HHHhhccccCCCC-Cc-hHHHHH---H-----hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhhh
Q 046970          247 SEILEENLKIGTL-NL-PEYIKE---R-----LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~~-~~-~~~l~~---~-----l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~~  313 (420)
                      ..-...-..++.. .. .+.+++   .     ..++.-++|+|+++..  ...+.|+..+.....++.+|++|.+ ..+.
T Consensus        89 aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLl  168 (700)
T PRK12323         89 AGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIP  168 (700)
T ss_pred             cCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhh
Confidence            0000000000000 00 122222   1     1345679999999654  4577788777665566676655554 3333


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      .. ......+.++.++.++..+.+.+.+........  .+..+.|++.++|.|.-..
T Consensus       169 pTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d--~eAL~~IA~~A~Gs~RdAL  223 (700)
T PRK12323        169 VTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHE--VNALRLLAQAAQGSMRDAL  223 (700)
T ss_pred             hHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHH
Confidence            22 123477899999999999988876533222111  2446788999999986443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.65  E-value=3.4e-07  Score=93.82  Aligned_cols=194  Identities=15%  Similarity=0.202  Sum_probs=125.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+.|-|..-++.|.+     ..+.+.+.|..++|.|||||+.+++. ....-..+.|+.--   ....+...+.+.++
T Consensus        17 ~~~~~v~R~rL~~~L~~-----~~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlsld---e~dndp~rF~~yLi   87 (894)
T COG2909          17 RPDNYVVRPRLLDRLRR-----ANDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLD---ESDNDPARFLSYLI   87 (894)
T ss_pred             CcccccccHHHHHHHhc-----CCCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecC---CccCCHHHHHHHHH
Confidence            44567777765555443     23579999999999999999999988 33344678898721   22456677777777


Q ss_pred             HHHhhccccC---------CCCCc-----hHHHHHHhc--CCeEEEEEeCCCCH------HHHHHHhcCCCCCCCCcEEE
Q 046970          247 SEILEENLKI---------GTLNL-----PEYIKERLQ--QMKVFIVLDDVNKP------EQLIFLVGGLDRFGPRSRII  304 (420)
Q Consensus       247 ~~l~~~~~~~---------~~~~~-----~~~l~~~l~--~~~~LlVLDdv~~~------~~l~~l~~~~~~~~~g~~II  304 (420)
                      ..+..-.+..         .....     ...+..-+.  .+++.|||||..-.      ..++.|+...   .++..+|
T Consensus        88 ~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~---P~~l~lv  164 (894)
T COG2909          88 AALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHA---PENLTLV  164 (894)
T ss_pred             HHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhC---CCCeEEE
Confidence            7775322211         11111     222222222  36899999998432      2355566554   4788999


Q ss_pred             eecCChhhhhhcC---CCeEEEeC----CCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhcC
Q 046970          305 VTTRDKQVFDECE---VDSIYEVE----GLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYR  377 (420)
Q Consensus       305 iTtR~~~~~~~~~---~~~~~~l~----~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~  377 (420)
                      +|||...-+....   .+...++.    .|+.+|+.++|.......   -+  ...++.+.+..+|-+-||..++=.+++
T Consensus       165 v~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~---Ld--~~~~~~L~~~teGW~~al~L~aLa~~~  239 (894)
T COG2909         165 VTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLP---LD--AADLKALYDRTEGWAAALQLIALALRN  239 (894)
T ss_pred             EEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCC---CC--hHHHHHHHhhcccHHHHHHHHHHHccC
Confidence            9999864322110   12333443    489999999998876221   11  133688999999999999999888873

>PRK04195 replication factor C large subunit; Provisional

Probab=98.65  E-value=9.8e-08  Score=96.36  Aligned_cols=178  Identities=17%  Similarity=0.199  Sum_probs=104.7

Q ss_pred             CCCCcccccccceeeecccccC--CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG--LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|.+..++.|.+|+..-  ....+.+.|+|++|+||||+|+.+++.+.  ++. +-+. .   +.... ......
T Consensus        12 ~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~--~~~-ieln-a---sd~r~-~~~i~~   83 (482)
T PRK04195         12 TLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG--WEV-IELN-A---SDQRT-ADVIER   83 (482)
T ss_pred             CHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC--CCE-EEEc-c---ccccc-HHHHHH
Confidence            4466899999999998888632  12267899999999999999999999863  221 1121 1   11111 112222


Q ss_pred             HHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH------HHHHHhcCCCCCCCCcEEEeecCChhhhh---h
Q 046970          245 VLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE------QLIFLVGGLDRFGPRSRIIVTTRDKQVFD---E  315 (420)
Q Consensus       245 ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~------~l~~l~~~~~~~~~g~~IIiTtR~~~~~~---~  315 (420)
                      ++......    ..         ....++-+||+|+++...      .+..+...+.  ..+..||+|+.+..-..   .
T Consensus        84 ~i~~~~~~----~s---------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~L  148 (482)
T PRK04195         84 VAGEAATS----GS---------LFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLREL  148 (482)
T ss_pred             HHHHhhcc----Cc---------ccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhH
Confidence            22221110    00         011367899999996542      2444443333  23445666665432111   1


Q ss_pred             cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          316 CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       316 ~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      ......+++++++.++....+...+.......+  .+....|++.++|....+.
T Consensus       149 rsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~--~eaL~~Ia~~s~GDlR~ai  200 (482)
T PRK04195        149 RNACLMIEFKRLSTRSIVPVLKRICRKEGIECD--DEALKEIAERSGGDLRSAI  200 (482)
T ss_pred             hccceEEEecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHH
Confidence            224567899999999999988877643332111  2456778888887665554

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.65  E-value=4.1e-07  Score=94.00  Aligned_cols=201  Identities=12%  Similarity=0.095  Sum_probs=111.7

Q ss_pred             CCCCcccccccceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhcc-----cc--ceEEEEecccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-----FE--GECFITNVREESERV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----f~--~~~~v~~~~~~~~~~  236 (420)
                      .++.+.|||.|+++|...|..   +.....++.|+|++|.|||++++.+.+.+...     .+  ..+++. +   ..-.
T Consensus       753 VPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYIN-C---m~Ls  828 (1164)
T PTZ00112        753 VPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEIN-G---MNVV  828 (1164)
T ss_pred             CCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEe-C---CccC
Confidence            567899999999999988853   23334577899999999999999999876432     12  133443 2   1123


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCc---hHHHHHHhc---CCeEEEEEeCCCCHH-----HHHHHhcCCCCCCCCcEEEe
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNL---PEYIKERLQ---QMKVFIVLDDVNKPE-----QLIFLVGGLDRFGPRSRIIV  305 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~---~~~l~~~l~---~~~~LlVLDdv~~~~-----~l~~l~~~~~~~~~g~~IIi  305 (420)
                      ....+...+..++.+.... .....   ...+...+.   ....+||||+++...     .+-.|.....  ..+++|++
T Consensus       829 tp~sIYqvI~qqL~g~~P~-~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~--~s~SKLiL  905 (1164)
T PTZ00112        829 HPNAAYQVLYKQLFNKKPP-NALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT--KINSKLVL  905 (1164)
T ss_pred             CHHHHHHHHHHHHcCCCCC-ccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh--ccCCeEEE
Confidence            4455666666666443321 11111   333443332   224699999996442     1222222211  23444433


Q ss_pred             --ecCChhh--------hhhcCCCeEEEeCCCCHHHHHHHHHhcccCC-C-CCchhHHHHHHHHHHHhcCChHHHHHHHH
Q 046970          306 --TTRDKQV--------FDECEVDSIYEVEGLNKDESLELFSNFAFRQ-K-ICPKDFLVLSKRVVDYANGNPLALKVLGS  373 (420)
Q Consensus       306 --TtR~~~~--------~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~-~-~~~~~~~~~~~~i~~~~~G~PLal~~~~~  373 (420)
                        ++.+..+        ...++ ...+..+|++.++..+++..++... . ..+...+-+++.++...|-.=.||.++-.
T Consensus       906 IGISNdlDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRr  984 (1164)
T PTZ00112        906 IAISNTMDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRK  984 (1164)
T ss_pred             EEecCchhcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHH
Confidence              3432211        11121 2336679999999999999887431 1 22222223334344444555566666554


Q ss_pred             Hh
Q 046970          374 FF  375 (420)
Q Consensus       374 ~L  375 (420)
                      ..
T Consensus       985 Ag  986 (1164)
T PTZ00112        985 AF  986 (1164)
T ss_pred             HH
Confidence            44

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.65  E-value=1.8e-07  Score=91.09  Aligned_cols=171  Identities=22%  Similarity=0.319  Sum_probs=97.5

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      ..+.|++..+++|.+.+..           +....+.+.|+|++|+|||+||+.+++.....|-..   .          
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v---~----------  188 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRV---V----------  188 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEec---c----------
Confidence            4567777777777665431           112355689999999999999999999875543111   0          


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCchHHHHHH-hcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCC--C
Q 046970          238 LVHLRERVLSEILEENLKIGTLNLPEYIKER-LQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRF--G  298 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~-l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~--~  298 (420)
                      ...+.....    +...     .....+.+. -...+.+|+||+++..                ..+..++..+..+  .
T Consensus       189 ~~~l~~~~~----g~~~-----~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~  259 (364)
T TIGR01242       189 GSELVRKYI----GEGA-----RLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPR  259 (364)
T ss_pred             hHHHHHHhh----hHHH-----HHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCC
Confidence            011111110    0000     001112222 2346789999998643                1233333332221  2


Q ss_pred             CCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCc-hhHHHHHHHHHHHhcCCh
Q 046970          299 PRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLELFSNFAFRQKICP-KDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       299 ~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~-~~~~~~~~~i~~~~~G~P  365 (420)
                      .+..||.||.....     .........++++..+.++..++|..++.+..... ..    ...+++.+.|..
T Consensus       260 ~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       260 GNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence            46678888875432     22223457889999999999999998875433222 12    356777777654

Many proteins may score above the trusted cutoff because an internal

>PRK09087 hypothetical protein; Validated

Probab=98.64  E-value=5.9e-07  Score=81.22  Aligned_cols=140  Identities=11%  Similarity=0.133  Sum_probs=87.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcC
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQ  271 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~  271 (420)
                      .+.+.|+|++|+|||+|++.++....     ..++..          ..+...++..                    +.+
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-----~~~i~~----------~~~~~~~~~~--------------------~~~   88 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-----ALLIHP----------NEIGSDAANA--------------------AAE   88 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-----CEEecH----------HHcchHHHHh--------------------hhc
Confidence            45689999999999999998887542     224430          0111111111                    111


Q ss_pred             CeEEEEEeCCCC----HHHHHHHhcCCCCCCCCcEEEeecCC---------hhhhhhcCCCeEEEeCCCCHHHHHHHHHh
Q 046970          272 MKVFIVLDDVNK----PEQLIFLVGGLDRFGPRSRIIVTTRD---------KQVFDECEVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       272 ~~~LlVLDdv~~----~~~l~~l~~~~~~~~~g~~IIiTtR~---------~~~~~~~~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                        -+|++||++.    .+.+-.+...+.  ..|..+|+|++.         +.+...+.....+++++++.++-.+++.+
T Consensus        89 --~~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~  164 (226)
T PRK09087         89 --GPVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFK  164 (226)
T ss_pred             --CeEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHH
Confidence              2788899943    233333332222  346779998873         23344445668899999999999999998


Q ss_pred             cccCCCCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          339 FAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       339 ~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      .+-......  .++...-|++.+.|..-++..+-
T Consensus       165 ~~~~~~~~l--~~ev~~~La~~~~r~~~~l~~~l  196 (226)
T PRK09087        165 LFADRQLYV--DPHVVYYLVSRMERSLFAAQTIV  196 (226)
T ss_pred             HHHHcCCCC--CHHHHHHHHHHhhhhHHHHHHHH
Confidence            874322211  13567788888888887777533

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.63  E-value=8.7e-07  Score=80.78  Aligned_cols=153  Identities=14%  Similarity=0.177  Sum_probs=91.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcC
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQ  271 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~  271 (420)
                      .+.+.|+|++|+|||+|+..+++....+-..+.++.    ....   ....                    ..+.+.+.+
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~----~~~~---~~~~--------------------~~~~~~~~~   97 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP----LDKR---AWFV--------------------PEVLEGMEQ   97 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE----HHHH---hhhh--------------------HHHHHHhhh
Confidence            457899999999999999999997765434455554    1110   0000                    011111111


Q ss_pred             CeEEEEEeCCCCH---HHH----HHHhcCCCCCCCCcEEEeecCCh---------hhhhhcCCCeEEEeCCCCHHHHHHH
Q 046970          272 MKVFIVLDDVNKP---EQL----IFLVGGLDRFGPRSRIIVTTRDK---------QVFDECEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       272 ~~~LlVLDdv~~~---~~l----~~l~~~~~~~~~g~~IIiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L  335 (420)
                       --+|++||+...   ..+    -.+...... ....++|+||+..         .+...+....++++++++.++-.++
T Consensus        98 -~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e-~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~  175 (235)
T PRK08084         98 -LSLVCIDNIECIAGDELWEMAIFDLYNRILE-SGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQA  175 (235)
T ss_pred             -CCEEEEeChhhhcCCHHHHHHHHHHHHHHHH-cCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHH
Confidence             237899999543   222    122222111 1224799999854         2233344567899999999999999


Q ss_pred             HHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHh
Q 046970          336 FSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                      +.+.+-......  .++...-|++.+.|..-.+..+-..|
T Consensus       176 l~~~a~~~~~~l--~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        176 LQLRARLRGFEL--PEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             HHHHHHHcCCCC--CHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            988664322211  13567788888888877766554444

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.63  E-value=8.3e-07  Score=85.83  Aligned_cols=197  Identities=13%  Similarity=0.054  Sum_probs=111.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc--ccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE--FEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|-+...+.|.+.+..+. -...+.++|+.|+||+|+|..+++.+-.+  ........... .....+.....+.
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~-~l~~~~~c~~c~~   94 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPT-SLAIDPDHPVARR   94 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccc-cccCCCCChHHHH
Confidence            55789999988888888877542 25578899999999999999999876321  11100000000 0000000111122


Q ss_pred             HHHHHhhccc--c----CCC----CCc-hHHHHH---Hhc-----CCeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEE
Q 046970          245 VLSEILEENL--K----IGT----LNL-PEYIKE---RLQ-----QMKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRI  303 (420)
Q Consensus       245 ll~~l~~~~~--~----~~~----~~~-~~~l~~---~l~-----~~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~I  303 (420)
                      +.......-.  .    ...    ... .+.+++   .+.     +++.++|+|+++.  ......|+..+.....++.+
T Consensus        95 i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~  174 (365)
T PRK07471         95 IAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLF  174 (365)
T ss_pred             HHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEE
Confidence            2111100000  0    000    111 333333   322     4567999999954  34456666665554556777


Q ss_pred             EeecCChhh-hhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          304 IVTTRDKQV-FDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       304 IiTtR~~~~-~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      |++|.+... ... ......+.+.+++.++..+++......   .++   +....++..++|.|+....+
T Consensus       175 IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~~---~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        175 LLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LPD---DPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CCH---HHHHHHHHHcCCCHHHHHHH
Confidence            777766543 222 234578899999999999999876411   111   12267899999999865544

>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=98.63  E-value=1.9e-07  Score=77.85  Aligned_cols=122  Identities=18%  Similarity=0.224  Sum_probs=67.1

Q ss_pred             cccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhc
Q 046970          173 GVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEE  252 (420)
Q Consensus       173 GR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~  252 (420)
                      |++..+..+...+...  ..+.+.|+|++|+|||+|++.+++.....-....++. .......   ....... ...   
T Consensus         2 ~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~-~~~~~~~---~~~~~~~-~~~---   71 (151)
T cd00009           2 GQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN-ASDLLEG---LVVAELF-GHF---   71 (151)
T ss_pred             chHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe-hhhhhhh---hHHHHHh-hhh---
Confidence            6666777777766532  3568889999999999999999998754333344443 1111110   0000000 000   


Q ss_pred             cccCCCCCchHHHHHHhcCCeEEEEEeCCCCH-----HHHHHHhcCCCCC---CCCcEEEeecCChh
Q 046970          253 NLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP-----EQLIFLVGGLDRF---GPRSRIIVTTRDKQ  311 (420)
Q Consensus       253 ~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~-----~~l~~l~~~~~~~---~~g~~IIiTtR~~~  311 (420)
                             ............++.++++||++..     ..+..++......   ..+..+|+||....
T Consensus        72 -------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 -------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             -------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                   0001111222446789999999853     2233333333221   36778888887653

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.63  E-value=5.9e-07  Score=85.65  Aligned_cols=175  Identities=17%  Similarity=0.184  Sum_probs=106.7

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc------cccceEEEEeccccccccCHHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS------EFEGECFITNVREESERVGLVHLR  242 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~v~~~~~~~~~~~~~~l~  242 (420)
                      ..++|-+...+.+.+.+..+ .-.....++|+.|+||||+|+.++..+..      +.+...|.. ..  .....+..+ 
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~-~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~-~~--~~~i~v~~i-   78 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN-RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKP-IN--KKSIGVDDI-   78 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC-CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecc-cc--CCCCCHHHH-
Confidence            45778777777777777643 23567789999999999999999987522      223222321 00  011112221 


Q ss_pred             HHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCC--CHHHHHHHhcCCCCCCCCcEEEeecCChhhh-hh-cCC
Q 046970          243 ERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVN--KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVF-DE-CEV  318 (420)
Q Consensus       243 ~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~--~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~-~~-~~~  318 (420)
                      +++...+...               -..+++-++|+|+++  +....+.|+..+....+++.+|++|.+...+ +. ...
T Consensus        79 r~~~~~~~~~---------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SR  143 (313)
T PRK05564         79 RNIIEEVNKK---------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSR  143 (313)
T ss_pred             HHHHHHHhcC---------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhh
Confidence            1121111110               012345567777764  4556778888887767788888888765432 21 224


Q ss_pred             CeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          319 DSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       319 ~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      ...+++.+++.++....+.+...  .. +   .+.+..++.+++|.|.-+.
T Consensus       144 c~~~~~~~~~~~~~~~~l~~~~~--~~-~---~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        144 CQIYKLNRLSKEEIEKFISYKYN--DI-K---EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             ceeeeCCCcCHHHHHHHHHHHhc--CC-C---HHHHHHHHHHcCCCHHHHH
Confidence            57899999999999888876541  11 1   1336678889999886443

>PRK05642 DNA replication initiation factor; Validated

Probab=98.63  E-value=8e-07  Score=80.92  Aligned_cols=153  Identities=16%  Similarity=0.257  Sum_probs=92.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      ..+.|+|.+|+|||.|++.+++.+..+-..++|+.    .      .++...                 ...+.+.+.+-
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~----~------~~~~~~-----------------~~~~~~~~~~~   98 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP----L------AELLDR-----------------GPELLDNLEQY   98 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee----H------HHHHhh-----------------hHHHHHhhhhC
Confidence            57889999999999999999987755444566665    1      111110                 01122333333


Q ss_pred             eEEEEEeCCCCH---HHH-HHHhcCCCC-CCCCcEEEeecCChh---------hhhhcCCCeEEEeCCCCHHHHHHHHHh
Q 046970          273 KVFIVLDDVNKP---EQL-IFLVGGLDR-FGPRSRIIVTTRDKQ---------VFDECEVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       273 ~~LlVLDdv~~~---~~l-~~l~~~~~~-~~~g~~IIiTtR~~~---------~~~~~~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      . +||+||+...   ..+ +.+...++. ...|..+|+|++...         +...+.....+++++++.++-.+++..
T Consensus        99 d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~  177 (234)
T PRK05642         99 E-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQL  177 (234)
T ss_pred             C-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHH
Confidence            3 6789999522   122 223222221 134677888887432         122233457889999999999999986


Q ss_pred             cccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHh
Q 046970          339 FAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       339 ~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                      ++.......+  ++...-+++.+.|..-.+..+-..|
T Consensus       178 ka~~~~~~l~--~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        178 RASRRGLHLT--DEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHcCCCCC--HHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            6533222111  3667788888888877766554444

>PLN03025 replication factor C subunit; Provisional

Probab=98.62  E-value=2.4e-07  Score=88.59  Aligned_cols=182  Identities=13%  Similarity=0.175  Sum_probs=103.7

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc-cccceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS-EFEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ....++|.+..+..|..++..+  ..+.+.++|++|+||||+|..+++.+.. .|...+.-.+   .+...+.. ..+..
T Consensus        11 ~l~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln---~sd~~~~~-~vr~~   84 (319)
T PLN03025         11 KLDDIVGNEDAVSRLQVIARDG--NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELN---ASDDRGID-VVRNK   84 (319)
T ss_pred             CHHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeec---ccccccHH-HHHHH
Confidence            3456888888888787776643  3445789999999999999999998633 2321111111   11111221 12222


Q ss_pred             HHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhhhh-cCCCeE
Q 046970          246 LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDE-CEVDSI  321 (420)
Q Consensus       246 l~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~-~~~~~~  321 (420)
                      +..........            ..++.-+++||+++..  .....|...+...+..+++|+++... .+... ......
T Consensus        85 i~~~~~~~~~~------------~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~  152 (319)
T PLN03025         85 IKMFAQKKVTL------------PPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAI  152 (319)
T ss_pred             HHHHHhccccC------------CCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhc
Confidence            22111110000            0235679999999654  22334444343345667777766543 22111 112367


Q ss_pred             EEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          322 YEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      +++++++.++..+.+...+-.....-+  .+....+++.++|....+
T Consensus       153 i~f~~l~~~~l~~~L~~i~~~egi~i~--~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        153 VRFSRLSDQEILGRLMKVVEAEKVPYV--PEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHH
Confidence            899999999999998877643332211  245678888888876443

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.62  E-value=5.1e-07  Score=89.87  Aligned_cols=167  Identities=14%  Similarity=0.178  Sum_probs=99.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcccc--ceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFE--GECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ...+.|+|..|+|||+|++.+++.+.....  .++++.          ...+...+...+....      +..+.+++.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~----------~~~f~~~~~~~l~~~~------~~~~~~~~~~  204 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS----------GDEFARKAVDILQKTH------KEIEQFKNEI  204 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE----------HHHHHHHHHHHHHHhh------hHHHHHHHHh
Confidence            356889999999999999999997654322  233433          2344445444433210      1133344444


Q ss_pred             cCCeEEEEEeCCCCH----HHHHHHhcCCCC-CCCCcEEEeecCCh---------hhhhhcCCCeEEEeCCCCHHHHHHH
Q 046970          270 QQMKVFIVLDDVNKP----EQLIFLVGGLDR-FGPRSRIIVTTRDK---------QVFDECEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~----~~l~~l~~~~~~-~~~g~~IIiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L  335 (420)
                      +. .-+||+||+...    ...+.|...++. ...+..||+|+...         .+...+..+-.+++++++.++..++
T Consensus       205 ~~-~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~i  283 (450)
T PRK14087        205 CQ-NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAI  283 (450)
T ss_pred             cc-CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHH
Confidence            43 347889999432    122233222211 12455688887643         1222334556788999999999999


Q ss_pred             HHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHh
Q 046970          336 FSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                      +.+.+-.......-.++...-|++.++|.|..+.-+...|
T Consensus       284 L~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        284 IKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             HHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            9988743221011224677889999999998887655333

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

Probab=98.61  E-value=3.4e-08  Score=86.43  Aligned_cols=50  Identities=24%  Similarity=0.357  Sum_probs=35.5

Q ss_pred             Ccccccccceeeeccccc-CCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          170 GSVGVNSRIRHIKSLLHL-GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .|+||+.++++|...|.. .....+.+.|+|++|+|||+|.++++.++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            389999999999999942 23447899999999999999999999988766

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.61  E-value=5e-07  Score=86.41  Aligned_cols=182  Identities=17%  Similarity=0.162  Sum_probs=105.1

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+++|++..++.+..++..+  ..+.+.|+|++|+||||+|+.+++.+........++. +. .+...+.. .....+
T Consensus        15 ~~~~~~g~~~~~~~l~~~i~~~--~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~-~~-~~~~~~~~-~~~~~i   89 (319)
T PRK00440         15 TLDEIVGQEEIVERLKSYVKEK--NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLE-LN-ASDERGID-VIRNKI   89 (319)
T ss_pred             cHHHhcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEE-ec-cccccchH-HHHHHH
Confidence            3456899999999998888643  3345799999999999999999988643211111221 00 01111111 111111


Q ss_pred             HHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCeEE
Q 046970          247 SEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDSIY  322 (420)
Q Consensus       247 ~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~~~  322 (420)
                      ..+.....             .....+-++++|+++..  .....+...+....+.+.+|+++.... +... ......+
T Consensus        90 ~~~~~~~~-------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  156 (319)
T PRK00440         90 KEFARTAP-------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVF  156 (319)
T ss_pred             HHHHhcCC-------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhee
Confidence            11111000             00124568999998643  233444444444445677777664322 2111 1123568


Q ss_pred             EeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          323 EVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       323 ~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      ++++++.++....+...+-.....-  ..+.+..+++.++|.+.-+
T Consensus       157 ~~~~l~~~ei~~~l~~~~~~~~~~i--~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        157 RFSPLKKEAVAERLRYIAENEGIEI--TDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             eeCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHH
Confidence            9999999999999888764333211  1245778899999987764

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.60  E-value=1.1e-06  Score=85.38  Aligned_cols=182  Identities=14%  Similarity=0.119  Sum_probs=108.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc----cc-----------------ceEE
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE----FE-----------------GECF  225 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----f~-----------------~~~~  225 (420)
                      ....++|.+..++.|.+.+..+. -...+.++|++|+||||+|+.++..+...    +.                 ...+
T Consensus        12 ~~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~   90 (355)
T TIGR02397        12 TFEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIE   90 (355)
T ss_pred             cHhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEE
Confidence            44678999999999988886432 34678899999999999999999876321    10                 0111


Q ss_pred             EEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEE
Q 046970          226 ITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRI  303 (420)
Q Consensus       226 v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~I  303 (420)
                      +...    ...... -.++++..+...               -..+++-++|+|+++..  .....++..+....+.+.+
T Consensus        91 ~~~~----~~~~~~-~~~~l~~~~~~~---------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~l  150 (355)
T TIGR02397        91 IDAA----SNNGVD-DIREILDNVKYA---------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVF  150 (355)
T ss_pred             eecc----ccCCHH-HHHHHHHHHhcC---------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeE
Confidence            1100    000000 011111111100               01234568999998654  4456666666544566666


Q ss_pred             EeecCChh-hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          304 IVTTRDKQ-VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       304 IiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      |++|.+.. +... ......+++++++.++..+.+...+-......+  .+.+..+++.++|.|..+...
T Consensus       151 Il~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~--~~a~~~l~~~~~g~~~~a~~~  218 (355)
T TIGR02397       151 ILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIE--DEALELIARAADGSLRDALSL  218 (355)
T ss_pred             EEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCChHHHHHH
Confidence            66665543 2221 123467899999999999998876633222111  256778899999998766544

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.59  E-value=3.7e-08  Score=93.39  Aligned_cols=182  Identities=20%  Similarity=0.217  Sum_probs=120.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERL  269 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l  269 (420)
                      ..+.+.++|.|||||||++-++.+ ++..|....|+.+...++.+.-+......   .+.-   .....+. ...+....
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~~v~~~~ag---~~gl---~~~~g~~~~~~~~~~~   85 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPALVFPTLAG---ALGL---HVQPGDSAVDTLVRRI   85 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchhHhHHHHHh---hccc---ccccchHHHHHHHHHH
Confidence            467899999999999999999999 88889888888767666554322222111   1111   1111122 56678888


Q ss_pred             cCCeEEEEEeCCCCHHH-HHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeCCCCHH-HHHHHHHhcccCCC---
Q 046970          270 QQMKVFIVLDDVNKPEQ-LIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKD-ESLELFSNFAFRQK---  344 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~~~-l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~~L~~~-ea~~L~~~~a~~~~---  344 (420)
                      .+++.++|+||...... ...+...+....+...|+.|+|+....   .....+.+++|+.. ++.++|...+....   
T Consensus        86 ~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          86 GDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             hhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccce
Confidence            89999999999865533 222222222224556799999986542   34567788888876 68888876653211   


Q ss_pred             CCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCCChhH
Q 046970          345 ICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKP  382 (420)
Q Consensus       345 ~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~~~~~  382 (420)
                      .-.........+|.+...|.||+|+.+++..+.-...+
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~  200 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDE  200 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHH
Confidence            11112234578999999999999999999887755443

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

Probab=98.59  E-value=1.3e-06  Score=84.42  Aligned_cols=197  Identities=17%  Similarity=0.189  Sum_probs=121.7

Q ss_pred             CCCCcccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhccccc--eEEEEeccccccccCHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEG--ECFITNVREESERVGLVHLR  242 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~--~~~v~~~~~~~~~~~~~~l~  242 (420)
                      .++.+.+|+.+++++...|..  ....+.-+.|+|.+|.|||+.++.+++++......  .+++.    .....+...+.
T Consensus        15 iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yIN----c~~~~t~~~i~   90 (366)
T COG1474          15 IPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYIN----CLELRTPYQVL   90 (366)
T ss_pred             CcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEe----eeeCCCHHHHH
Confidence            445699999999999987753  12223348899999999999999999988765433  45555    33345667777


Q ss_pred             HHHHHHHhhccc-cCCCCCchHHHHHHhcC--CeEEEEEeCCCCHH-----HHHHHhcCCCCCCCCcE--EEeecCChhh
Q 046970          243 ERVLSEILEENL-KIGTLNLPEYIKERLQQ--MKVFIVLDDVNKPE-----QLIFLVGGLDRFGPRSR--IIVTTRDKQV  312 (420)
Q Consensus       243 ~~ll~~l~~~~~-~~~~~~~~~~l~~~l~~--~~~LlVLDdv~~~~-----~l~~l~~~~~~~~~g~~--IIiTtR~~~~  312 (420)
                      ..++.++..... .....+..+.+.+.+..  +.+++|||+++...     .+-.|.......  .++  +|..+-+...
T Consensus        91 ~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n~~~~  168 (366)
T COG1474          91 SKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSNDDKF  168 (366)
T ss_pred             HHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc--ceeEEEEEEeccHHH
Confidence            788877763322 22222226666666654  78999999985442     233343332222  333  3444444332


Q ss_pred             --------hhhcCCCeEEEeCCCCHHHHHHHHHhcc---cCCCCCchhHHHHHHHHHHHhcC-ChHHHHH
Q 046970          313 --------FDECEVDSIYEVEGLNKDESLELFSNFA---FRQKICPKDFLVLSKRVVDYANG-NPLALKV  370 (420)
Q Consensus       313 --------~~~~~~~~~~~l~~L~~~ea~~L~~~~a---~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~  370 (420)
                              ....+. ..+..+|-+.+|-.+++..++   |......+...+++..++..-+| -=.|+..
T Consensus       169 ~~~ld~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidi  237 (366)
T COG1474         169 LDYLDPRVKSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDI  237 (366)
T ss_pred             HHHhhhhhhhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHH
Confidence                    222223 337899999999999998776   33444444555555555555554 3334443

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=1.1e-06  Score=87.65  Aligned_cols=186  Identities=16%  Similarity=0.142  Sum_probs=105.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc----cc-----------------ceEE
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE----FE-----------------GECF  225 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----f~-----------------~~~~  225 (420)
                      ....++|.+.....|...+..+. -...+.++|++|+||||+|+.+++.+...    +.                 ....
T Consensus        12 ~~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~e   90 (472)
T PRK14962         12 TFSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIE   90 (472)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEE
Confidence            44678999887777777666432 23568899999999999999999875321    00                 0111


Q ss_pred             EEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEE
Q 046970          226 ITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRI  303 (420)
Q Consensus       226 v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~I  303 (420)
                      +.    .....++..+ +++...+..               .-..+++-++|+|+++..  ...+.|+..+........+
T Consensus        91 l~----aa~~~gid~i-R~i~~~~~~---------------~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~  150 (472)
T PRK14962         91 LD----AASNRGIDEI-RKIRDAVGY---------------RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVF  150 (472)
T ss_pred             Ee----CcccCCHHHH-HHHHHHHhh---------------ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEE
Confidence            11    0001111111 111111000               002245679999999654  3455666665543444554


Q ss_pred             EeecCCh-hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC-ChHHHHHHHHHh
Q 046970          304 IVTTRDK-QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANG-NPLALKVLGSFF  375 (420)
Q Consensus       304 IiTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~~~~~L  375 (420)
                      |++|.++ .+... ......+++.+++.++....+.+.+......-  ..+....|++.++| .+.++..+-.+.
T Consensus       151 Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i--~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        151 VLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEI--DREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             EEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            4444442 22221 22346889999999999999888764322111  12456778887765 466776665543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=1e-06  Score=89.03  Aligned_cols=181  Identities=16%  Similarity=0.166  Sum_probs=106.7

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc---------------------ccceEE
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE---------------------FEGECF  225 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------f~~~~~  225 (420)
                      ....++|-+..++.|...+..+ .-...+.++|+.|+||||+|+.+++.+...                     |.....
T Consensus        14 ~f~diiGq~~~v~~L~~~i~~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlie   92 (546)
T PRK14957         14 SFAEVAGQQHALNSLVHALETQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIE   92 (546)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEE
Confidence            4467899999888888888643 234567899999999999999999865321                     111111


Q ss_pred             EEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHH-HhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcE
Q 046970          226 ITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKE-RLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSR  302 (420)
Q Consensus       226 v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~-~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~  302 (420)
                      +.    .....++..+ ++++..                +.. -..+++-++|+|+++..  ...+.|+..+......+.
T Consensus        93 id----aas~~gvd~i-r~ii~~----------------~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~  151 (546)
T PRK14957         93 ID----AASRTGVEET-KEILDN----------------IQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVK  151 (546)
T ss_pred             ee----cccccCHHHH-HHHHHH----------------HHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCce
Confidence            11    0000111111 111111                111 12346679999999644  446667766665555666


Q ss_pred             EEeecCC-hhhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHH
Q 046970          303 IIVTTRD-KQVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVL  371 (420)
Q Consensus       303 IIiTtR~-~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~  371 (420)
                      +|++|.+ ..+... ......+++++++.++..+.+.+.+-......  ..+....|++.++|.+. |+..+
T Consensus       152 fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~--e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        152 FILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINS--DEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             EEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHH
Confidence            6544443 333322 23457899999999999888877553222111  12456778888998664 44444

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.57  E-value=2.2e-06  Score=75.36  Aligned_cols=89  Identities=15%  Similarity=0.207  Sum_probs=61.0

Q ss_pred             CCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCC
Q 046970          271 QMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKIC  346 (420)
Q Consensus       271 ~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  346 (420)
                      +.+-++|+||++..  ...+.|+..+....+.+.+|++|++. .+... ......+++.+++.++..+.+.+..    . 
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~g----i-  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQG----I-  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHcC----C-
Confidence            45678999998654  34566666665555667777766654 22221 1234689999999999999998871    1 


Q ss_pred             chhHHHHHHHHHHHhcCChHH
Q 046970          347 PKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       347 ~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      .   .+.+..+++.++|.|..
T Consensus       170 ~---~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       170 S---EEAAELLLALAGGSPGA  187 (188)
T ss_pred             C---HHHHHHHHHHcCCCccc
Confidence            1   24578999999999853

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

>PTZ00202 tuzin; Provisional

Probab=98.56  E-value=7.9e-07  Score=85.58  Aligned_cols=192  Identities=15%  Similarity=0.201  Sum_probs=111.3

Q ss_pred             cccCCCCCch--hhHHHHHHHHHHHhhhcccc-----cccCCCCcccccccceeeecccccC-CCCceEEEEeccCcchH
Q 046970          134 SGWDSTNMRP--EARLVDEIVKDIMKKLKDKL-----LSRDFTGSVGVNSRIRHIKSLLHLG-LPDFRIVGIWGMGGIGK  205 (420)
Q Consensus       134 ~g~~~~~~~~--e~~~i~~i~~~v~~~l~~~~-----~~~~~~~~vGR~~~l~~l~~~L~~~-~~~~~vv~I~G~gGiGK  205 (420)
                      -||.+++...  .+-...-.++...+.+++.+     .++....|+||+.++..|...|... ....+++.|+|++|+||
T Consensus       220 F~wn~r~y~rqQR~~Ql~~Av~tL~~~~~~~~~~~~~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GK  299 (550)
T PTZ00202        220 FGWNFKNYRTQQRSYQLKVAVSTLTQPLNPRPSTLQSAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGK  299 (550)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHhhcccCCCcccccCCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCH
Confidence            3455554432  22233344555555544422     2227789999999999999999643 23357999999999999


Q ss_pred             HHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccC-CCC-Cc-hHHHHHH-hc-CCeEEEEEe-
Q 046970          206 TTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKI-GTL-NL-PEYIKER-LQ-QMKVFIVLD-  279 (420)
Q Consensus       206 TtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~~~-~~-~~~l~~~-l~-~~~~LlVLD-  279 (420)
                      |||++.+.....    ...++.|.+      +..+++..++.+++.+.... .+. +. .+.+.+. .. +++.+||+- 
T Consensus       300 TTLlR~~~~~l~----~~qL~vNpr------g~eElLr~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~l  369 (550)
T PTZ00202        300 SSLCRSAVRKEG----MPAVFVDVR------GTEDTLRSVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKL  369 (550)
T ss_pred             HHHHHHHHhcCC----ceEEEECCC------CHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence            999999997653    234554333      45788888888887532211 111 11 2223222 22 456666664 


Q ss_pred             -CCCCHHH----HHHHhcCCCCCCCCcEEEeecCChhhhhh---cCCCeEEEeCCCCHHHHHHHHHhc
Q 046970          280 -DVNKPEQ----LIFLVGGLDRFGPRSRIIVTTRDKQVFDE---CEVDSIYEVEGLNKDESLELFSNF  339 (420)
Q Consensus       280 -dv~~~~~----l~~l~~~~~~~~~g~~IIiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~  339 (420)
                       +-.+...    .-.|...    ..-|+|++.---+.+-..   ...-..|-+++++.++|.++-...
T Consensus       370 reg~~l~rvyne~v~la~d----rr~ch~v~evpleslt~~~~~lprldf~~vp~fsr~qaf~y~~h~  433 (550)
T PTZ00202        370 REGSSLQRVYNEVVALACD----RRLCHVVIEVPLESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHA  433 (550)
T ss_pred             cCCCcHHHHHHHHHHHHcc----chhheeeeeehHhhcchhcccCccceeEecCCCCHHHHHHHHhhc
Confidence             2222221    1122222    245778775543332111   112367889999999998876544

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.56  E-value=1e-06  Score=90.38  Aligned_cols=191  Identities=14%  Similarity=0.134  Sum_probs=109.0

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....+||-+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+-....    .     .....+.......+.
T Consensus        14 ~f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~----~-----~~~pCg~C~~C~~i~   83 (647)
T PRK07994         14 TFAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETG----I-----TATPCGECDNCREIE   83 (647)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccC----C-----CCCCCCCCHHHHHHH
Confidence            44679999998888888886432 2455789999999999999999987533210    0     000011111111111


Q ss_pred             HHHhhccccCC-----CCCchHHHHHH-----hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhh
Q 046970          247 SEILEENLKIG-----TLNLPEYIKER-----LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~-----~~~~~~~l~~~-----l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~  313 (420)
                      ..-...-..+.     ..+....+.+.     ..++.-++|+|+++..  ...+.|+..+......+++|++|.+. .+.
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl  163 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc
Confidence            10000000000     00111111111     2356679999999644  45677776666555666666555544 333


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      .. ......+.+++|+.++..+.+.+..-......  ..+....|++.++|.+.-..
T Consensus       164 ~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~--e~~aL~~Ia~~s~Gs~R~Al  218 (647)
T PRK07994        164 VTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPF--EPRALQLLARAADGSMRDAL  218 (647)
T ss_pred             hHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHH
Confidence            22 22357899999999999999887653222111  12446778889999876443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.56  E-value=4.4e-07  Score=92.84  Aligned_cols=191  Identities=17%  Similarity=0.152  Sum_probs=107.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|.+..++.|..++..+. -...+.++|+.|+||||+|+.+++.+...-... +        ...+.......+.
T Consensus        14 tFddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~-~--------~pCg~C~sCr~i~   83 (709)
T PRK08691         14 TFADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQH-G--------EPCGVCQSCTQID   83 (709)
T ss_pred             CHHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC-C--------CCCcccHHHHHHh
Confidence            44679999999999988887432 246789999999999999999998653210000 0        0000000000110


Q ss_pred             HHHhhccccCCCC-Cc-hHHHHHHh--------cCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEEeecCChh-hh
Q 046970          247 SEILEENLKIGTL-NL-PEYIKERL--------QQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRIIVTTRDKQ-VF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~~-~~-~~~l~~~l--------~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~IIiTtR~~~-~~  313 (420)
                      ..-...-..+... .. .+.+++.+        .+++-++|+|+++...  ....|+..+......+++|++|.+.. +.
T Consensus        84 ~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~  163 (709)
T PRK08691         84 AGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVP  163 (709)
T ss_pred             ccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccc
Confidence            0000000000000 00 11222221        2456799999997553  34555555544445667776665443 22


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      .. .+....+.+.+++.++..+.+.+.+-.....-  ..+.+..|++.++|.+.-+.
T Consensus       164 ~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~i--d~eAL~~Ia~~A~GslRdAl  218 (709)
T PRK08691        164 VTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAY--EPPALQLLGRAAAGSMRDAL  218 (709)
T ss_pred             hHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCc--CHHHHHHHHHHhCCCHHHHH
Confidence            11 12335678899999999999987764333221  12457889999999985444

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.55  E-value=1.4e-06  Score=84.91  Aligned_cols=183  Identities=10%  Similarity=0.048  Sum_probs=100.2

Q ss_pred             CCcccccccceeeecccccCCC--------CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLP--------DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVH  240 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~--------~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~  240 (420)
                      ..++|-+..++.|.+.+..+..        -...+.++|++|+|||++|+.++..+-.....  . .       ..+.-.
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~--~-~-------~Cg~C~   74 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD--E-P-------GCGECR   74 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC--C-C-------CCCCCH
Confidence            4566766666666666654321        24678899999999999999999865322110  0 0       000000


Q ss_pred             HHHHHHHHHhhccc--cCC--CC--CchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeec
Q 046970          241 LRERVLSEILEENL--KIG--TL--NLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTT  307 (420)
Q Consensus       241 l~~~ll~~l~~~~~--~~~--~~--~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTt  307 (420)
                      ....+.......-.  ...  ..  +....+.+.+     .+++-++|+|+++..  .....|+..+....++..+|++|
T Consensus        75 ~C~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a  154 (394)
T PRK07940         75 ACRTVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCA  154 (394)
T ss_pred             HHHHHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEE
Confidence            11111100000000  000  00  0011222222     234558888999654  33455666655545667666666


Q ss_pred             CCh-hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          308 RDK-QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       308 R~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      .+. .+.+. ......+.+++++.++..+.+.....   . +   .+.+..++..++|.|...
T Consensus       155 ~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~---~-~---~~~a~~la~~s~G~~~~A  210 (394)
T PRK07940        155 PSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG---V-D---PETARRAARASQGHIGRA  210 (394)
T ss_pred             CChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC---C-C---HHHHHHHHHHcCCCHHHH
Confidence            654 33322 22347889999999999998875431   1 1   234678899999999644

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=1.5e-06  Score=86.60  Aligned_cols=189  Identities=18%  Similarity=0.210  Sum_probs=107.2

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...++||-+..++.|.+.+..+. -...+.++|+.|+||||+|+.++..+--....         .....+.-.....+.
T Consensus        11 ~f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~---------~~~pCg~C~~C~~i~   80 (491)
T PRK14964         11 SFKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGP---------TSDPCGTCHNCISIK   80 (491)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCC---------CCCCccccHHHHHHh
Confidence            44678999888888877776432 24578899999999999999998854211100         000011111111111


Q ss_pred             HHHhhccccCCCC--CchHHHH---HHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhhh
Q 046970          247 SEILEENLKIGTL--NLPEYIK---ERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~~--~~~~~l~---~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~~  313 (420)
                      ......-..++..  ...+.++   +..     .++.-++|+|+++..  ...+.|+..+....+.+.+|++|.+ ..+.
T Consensus        81 ~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~  160 (491)
T PRK14964         81 NSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIP  160 (491)
T ss_pred             ccCCCCEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHH
Confidence            1100000000000  0011111   111     245668999999644  4466677666655566766665543 3333


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      .. ......+++.+++.++..+.+.+.+...+..-+  .+.+..|++.++|.+..
T Consensus       161 ~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~--~eAL~lIa~~s~GslR~  213 (491)
T PRK14964        161 VTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHD--EESLKLIAENSSGSMRN  213 (491)
T ss_pred             HHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHH
Confidence            22 224578899999999999999887744332211  24567888889888753

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=1.7e-06  Score=85.39  Aligned_cols=186  Identities=13%  Similarity=0.110  Sum_probs=107.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc-cc--eEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EG--ECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~--~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....++|-+..+..|..++..+. -...+.++|++|+||||+|+.+++.+...- ..  .|..+        ..    ..
T Consensus        16 ~f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C--------~s----C~   82 (484)
T PRK14956         16 FFRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNEC--------TS----CL   82 (484)
T ss_pred             CHHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCC--------cH----HH
Confidence            44678999888888888877442 235688999999999999999998763321 10  01000        00    11


Q ss_pred             HHHHHHhhccccCC-----CCCchHHHHHH-----hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-h
Q 046970          244 RVLSEILEENLKIG-----TLNLPEYIKER-----LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-K  310 (420)
Q Consensus       244 ~ll~~l~~~~~~~~-----~~~~~~~l~~~-----l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~  310 (420)
                      .+.......-..+.     ..+....+.+.     ..++.-++|+|+++..  ..++.|+..+........+|++|.+ .
T Consensus        83 ~i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~  162 (484)
T PRK14956         83 EITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFH  162 (484)
T ss_pred             HHHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChh
Confidence            11111000000000     01111112221     2345679999999654  4577777776654455555544443 3


Q ss_pred             hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          311 QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       311 ~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      .+... ......|.+.+++.++..+.+.+.+-.....-  ..+....|++.++|.+.-
T Consensus       163 kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~--e~eAL~~Ia~~S~Gd~Rd  218 (484)
T PRK14956        163 KIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQY--DQEGLFWIAKKGDGSVRD  218 (484)
T ss_pred             hccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCChHHH
Confidence            33222 22346799999999999998887764322211  135578899999999853

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.51  E-value=1.9e-06  Score=88.18  Aligned_cols=196  Identities=13%  Similarity=0.142  Sum_probs=109.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ...++||-+..++.|.+++..+. -...+.++|+.|+||||+|+.+++.+-..- +..   ..  ......+.-...+.+
T Consensus        14 ~f~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~---~~--~~~~pCg~C~~C~~i   87 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQ---GG--ITATPCGVCQACRDI   87 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccc---cC--CCCCCCCccHHHHHH
Confidence            44678998888888888887442 346778999999999999999988653210 000   00  000011111122222


Q ss_pred             HHHHhhccccCCCCC-c-hHHHHHHh--------cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhh
Q 046970          246 LSEILEENLKIGTLN-L-PEYIKERL--------QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQV  312 (420)
Q Consensus       246 l~~l~~~~~~~~~~~-~-~~~l~~~l--------~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~  312 (420)
                      -..-...-..+.... . .+.+++.+        .++.-++|+|+++..  ...+.|+..+......+.+|++|.+ ..+
T Consensus        88 ~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~ki  167 (618)
T PRK14951         88 DSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV  167 (618)
T ss_pred             HcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhh
Confidence            110000000111000 1 22222222        234568999999654  4566777776655556666655544 333


Q ss_pred             hhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          313 FDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       313 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      ... ......+++++|+.++..+.+.+.+...+..-+  .+.+..|++.++|.+.-+..
T Consensus       168 l~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie--~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        168 PVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAE--PQALRLLARAARGSMRDALS  224 (618)
T ss_pred             hHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHH
Confidence            222 234578999999999999999876643332211  24567888888887755443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.51  E-value=1.8e-06  Score=86.58  Aligned_cols=194  Identities=14%  Similarity=0.116  Sum_probs=107.1

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+++|-+..+..|...+..+. -...+.++|++|+||||+|+.+++.+-..-..    .. .......+.......+.
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~----~~-~~~~~~C~~C~~C~~i~   92 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALI----TE-NTTIKTCEQCTNCISFN   92 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCcccc----cc-CcCcCCCCCChHHHHHh
Confidence            44678898888888877665432 24678899999999999999999875321100    00 00000000000111111


Q ss_pred             HHHhhccccCCC--CCchHHHHHH--------hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEe-ecCChhhh
Q 046970          247 SEILEENLKIGT--LNLPEYIKER--------LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIV-TTRDKQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~--~~~~~~l~~~--------l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIi-TtR~~~~~  313 (420)
                      ......-..++.  ....+.+++.        +.+++-++|+|+++..  ..++.|+..+....+.+.+|+ ||+...+.
T Consensus        93 ~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~  172 (507)
T PRK06645         93 NHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIP  172 (507)
T ss_pred             cCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhh
Confidence            000000000000  0001111111        2345678999999764  446677766655455666554 55444443


Q ss_pred             hhc-CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          314 DEC-EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       314 ~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      ... .....+++.+++.++..+.+...+-......+  .+.+..|++.++|.+.-+
T Consensus       173 ~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie--~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        173 ATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTD--IEALRIIAYKSEGSARDA  226 (507)
T ss_pred             HHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHH
Confidence            322 23467899999999999999887744332211  245677888999987543

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.50  E-value=3.2e-06  Score=81.37  Aligned_cols=193  Identities=14%  Similarity=0.114  Sum_probs=112.1

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc----ccceEEEEeccccccccCHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE----FEGECFITNVREESERVGLVHLR  242 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----f~~~~~v~~~~~~~~~~~~~~l~  242 (420)
                      ....++|-+.....|...+..+. -...+.|+|+.|+||||+|..+++.+-..    +.....       ....+-....
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~-------~~~~~~c~~c   92 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETL-------ADPDPASPVW   92 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcccc-------CCCCCCCHHH
Confidence            66789999999999988887542 34578899999999999999999976442    110000       0001111122


Q ss_pred             HHHHHHHh-------hc-ccc--C--CC--CCchHHHHHHhc-----CCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCc
Q 046970          243 ERVLSEIL-------EE-NLK--I--GT--LNLPEYIKERLQ-----QMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRS  301 (420)
Q Consensus       243 ~~ll~~l~-------~~-~~~--~--~~--~~~~~~l~~~l~-----~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~  301 (420)
                      +.+.....       .. ...  .  ..  .+....+.+.+.     ++.-++|+|+++..  ...+.|+..+.....+.
T Consensus        93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~  172 (351)
T PRK09112         93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARA  172 (351)
T ss_pred             HHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCc
Confidence            22211100       00 000  0  00  011223333332     35679999999644  34555665555444555


Q ss_pred             EEEeecCCh-hhhhhc-CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          302 RIIVTTRDK-QVFDEC-EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       302 ~IIiTtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      .+|++|.++ .++... .....+++.+++.++..+++........ .+   .+.+..+++.++|.|.....+
T Consensus       173 ~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~-~~---~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        173 LFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG-SD---GEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             eEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC-CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            555544433 332221 2346899999999999999987532211 11   244678999999999866544

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=1.5e-06  Score=87.71  Aligned_cols=191  Identities=13%  Similarity=0.087  Sum_probs=105.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...++||-+..++.|.+++..+. -...+.++|++|+||||+|+.+++.+-..-...         ....+.-.....+.
T Consensus        14 ~f~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---------~~pCg~C~~C~~i~   83 (509)
T PRK14958         14 CFQEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVS---------ANPCNDCENCREID   83 (509)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCC---------cccCCCCHHHHHHh
Confidence            44678999999999998886432 245678999999999999999998652210000         00000000111110


Q ss_pred             HHHhhccccCCCC-Cc-hHHHHHHh--------cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhh
Q 046970          247 SEILEENLKIGTL-NL-PEYIKERL--------QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~~-~~-~~~l~~~l--------~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~  313 (420)
                      ..-...-..+... .. .+.+++.+        .++.-++|+|+++..  ...+.|+..+....+.+++|++|.+. .+.
T Consensus        84 ~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~  163 (509)
T PRK14958         84 EGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLP  163 (509)
T ss_pred             cCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhch
Confidence            0000000000000 00 11122211        245568999999653  45666766666555677766655443 222


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      .. ......+++++++.++..+.+...+-..+...+  .+....|++.++|.+.-+.
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~--~~al~~ia~~s~GslR~al  218 (509)
T PRK14958        164 VTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFE--NAALDLLARAANGSVRDAL  218 (509)
T ss_pred             HHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCcHHHHH
Confidence            22 123467889999999988877665533222111  2446778888999875443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=1.4e-06  Score=88.34  Aligned_cols=188  Identities=14%  Similarity=0.132  Sum_probs=103.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|-+..++.|.+++..+. -...+.++|++|+||||+|+.++..+......    .     ....+.-.....+-
T Consensus        14 ~f~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~----~-----~~pcg~C~~C~~i~   83 (527)
T PRK14969         14 SFSELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGV----T-----ATPCGVCSACLEID   83 (527)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCC----C-----CCCCCCCHHHHHHh
Confidence            34678899988888888876432 24567899999999999999999876321100    0     00000000000000


Q ss_pred             HHHhhccccCCCC-Cc-hHHHH---HHh-----cCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEEeecCCh-hhh
Q 046970          247 SEILEENLKIGTL-NL-PEYIK---ERL-----QQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRIIVTTRDK-QVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~~-~~-~~~l~---~~l-----~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~IIiTtR~~-~~~  313 (420)
                      ..-...-..+... .. .+.++   +..     .+++-++|+|+++...  ..+.|+..+......+.+|++|.++ .+.
T Consensus        84 ~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil  163 (527)
T PRK14969         84 SGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIP  163 (527)
T ss_pred             cCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCc
Confidence            0000000000000 00 11111   111     2456799999997553  4566666666545566666555443 232


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      .. ......+++++++.++..+.+.+.+-......  ..+.+..|++.++|.+.
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~--~~~al~~la~~s~Gslr  215 (527)
T PRK14969        164 VTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPF--DATALQLLARAAAGSMR  215 (527)
T ss_pred             hhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHH
Confidence            11 11246789999999999988877653322211  12456788889999875

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

Probab=98.46  E-value=1.9e-06  Score=90.15  Aligned_cols=173  Identities=20%  Similarity=0.262  Sum_probs=98.7

Q ss_pred             CCCCcccccccce---eeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIR---HIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~---~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ..+.|+|.+..+.   .|.+.+..  .....+.|+|++|+||||||+.+++.....|.   .+..   .  ..++..+ +
T Consensus        26 tldd~vGQe~ii~~~~~L~~~i~~--~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~---~lna---~--~~~i~di-r   94 (725)
T PRK13341         26 TLEEFVGQDHILGEGRLLRRAIKA--DRVGSLILYGPPGVGKTTLARIIANHTRAHFS---SLNA---V--LAGVKDL-R   94 (725)
T ss_pred             cHHHhcCcHHHhhhhHHHHHHHhc--CCCceEEEECCCCCCHHHHHHHHHHHhcCcce---eehh---h--hhhhHHH-H
Confidence            3466899888775   35555543  34567789999999999999999987655441   1110   0  0111111 1


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHh--cCCeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEe--ecCChh--hhh-
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERL--QQMKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIV--TTRDKQ--VFD-  314 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l--~~~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIi--TtR~~~--~~~-  314 (420)
                      ..+                +.+.+.+  .+++.+|+|||++.  ..+.+.|+..+.   .+..++|  ||.++.  +.. 
T Consensus        95 ~~i----------------~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~a  155 (725)
T PRK13341         95 AEV----------------DRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKA  155 (725)
T ss_pred             HHH----------------HHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhH
Confidence            111                1111111  24567999999964  445556665443   3444554  344432  111 


Q ss_pred             hcCCCeEEEeCCCCHHHHHHHHHhcccC-----CCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          315 ECEVDSIYEVEGLNKDESLELFSNFAFR-----QKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       315 ~~~~~~~~~l~~L~~~ea~~L~~~~a~~-----~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      .......+.+++|+.++...++.+.+-.     ......-.++....|++.+.|....+.
T Consensus       156 L~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~ll  215 (725)
T PRK13341        156 LVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLL  215 (725)
T ss_pred             hhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHH
Confidence            1112467899999999999999876531     011111123556788888888755433

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.46  E-value=2.6e-06  Score=86.27  Aligned_cols=195  Identities=16%  Similarity=0.139  Sum_probs=107.0

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|.+..++.|.+.+..+. -.+.+.++|+.|+||||+|+.+++.+...-    |..    . ...+-....+.+.
T Consensus        14 ~F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~----~~~----~-~~Cg~C~sCr~i~   83 (605)
T PRK05896         14 NFKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLN----PKD----G-DCCNSCSVCESIN   83 (605)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCC----CCC----C-CCCcccHHHHHHH
Confidence            44678999999988888876432 246788999999999999999998763210    110    0 0001111111111


Q ss_pred             HHHhhccccCCC-----CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhhh
Q 046970          247 SEILEENLKIGT-----LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~-----~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~~  313 (420)
                      ......-..+..     .+....+.+.+     .+++-++|+|+++..  .....|+..+......+.+|++|.+ ..+.
T Consensus        84 ~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl  163 (605)
T PRK05896         84 TNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIP  163 (605)
T ss_pred             cCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhh
Confidence            110000000000     00111111111     123447999998653  4455666655444455555554433 3332


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVLGS  373 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~~~  373 (420)
                      .. ......+++.+++.++....+...+-.....-+  .+.+..+++.++|.+. |+..+-.
T Consensus       164 ~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is--~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        164 LTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIE--DNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             HHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCcHHHHHHHHHH
Confidence            22 223468899999999999888876533221111  2446788899999664 4444443

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.45  E-value=9.4e-07  Score=86.64  Aligned_cols=170  Identities=22%  Similarity=0.346  Sum_probs=96.1

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      ..+.|++..+++|.+.+..           +....+.|.|+|++|+|||+||+.+++.....|     +.    ..    
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~-----i~----v~----  197 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF-----IR----VV----  197 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCE-----EE----ee----
Confidence            5677888888888775531           113456789999999999999999999765432     21    00    


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCchHHHHH-HhcCCeEEEEEeCCCCHH----------------HHHHHhcCCCCC--C
Q 046970          238 LVHLRERVLSEILEENLKIGTLNLPEYIKE-RLQQMKVFIVLDDVNKPE----------------QLIFLVGGLDRF--G  298 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~-~l~~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~--~  298 (420)
                      ...+.    ....++.     ......+.+ .-...+.+|+||+++...                .+..++..+..+  .
T Consensus       198 ~~~l~----~~~~g~~-----~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~  268 (389)
T PRK03992        198 GSELV----QKFIGEG-----ARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPR  268 (389)
T ss_pred             hHHHh----Hhhccch-----HHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCC
Confidence            01111    1100000     000111112 223467899999986531                122333332221  2


Q ss_pred             CCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCc-hhHHHHHHHHHHHhcCC
Q 046970          299 PRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKICP-KDFLVLSKRVVDYANGN  364 (420)
Q Consensus       299 ~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~-~~~~~~~~~i~~~~~G~  364 (420)
                      .+..||.||.....+..     ......+++++.+.++..++|..+..+..... ..    ...+++.+.|.
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~----~~~la~~t~g~  336 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVD----LEELAELTEGA  336 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCC----HHHHHHHcCCC
Confidence            35567777765433221     12456799999999999999998774432221 22    34566666654

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.44  E-value=4.6e-06  Score=83.00  Aligned_cols=153  Identities=14%  Similarity=0.163  Sum_probs=87.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcccc--ceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFE--GECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ...+.|+|.+|+|||+|+..+++.+...++  .+.|+.          ...+...+...+...        ....+++.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~----------~~~f~~~~~~~~~~~--------~~~~f~~~~  191 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT----------SEKFLNDLVDSMKEG--------KLNEFREKY  191 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE----------HHHHHHHHHHHHhcc--------cHHHHHHHH
Confidence            346899999999999999999998766543  234443          123344443333211        123344444


Q ss_pred             cCCeEEEEEeCCCCH---H-HHHHHhcCCCC-CCCCcEEEeecC-Chhhh--------hhcCCCeEEEeCCCCHHHHHHH
Q 046970          270 QQMKVFIVLDDVNKP---E-QLIFLVGGLDR-FGPRSRIIVTTR-DKQVF--------DECEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~---~-~l~~l~~~~~~-~~~g~~IIiTtR-~~~~~--------~~~~~~~~~~l~~L~~~ea~~L  335 (420)
                      +.+.-+|++||+...   . .-+.+...+.. ...+..||+||. .+.-+        ..+.....+++++.+.+.-.++
T Consensus       192 ~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~I  271 (440)
T PRK14088        192 RKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKI  271 (440)
T ss_pred             HhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHH
Confidence            445668999999633   1 11122222111 123456888874 33221        2233456789999999999999


Q ss_pred             HHhcccCCCCCchhHHHHHHHHHHHhcCC
Q 046970          336 FSNFAFRQKICPKDFLVLSKRVVDYANGN  364 (420)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~i~~~~~G~  364 (420)
                      +.+.+-.....-+  ++...-|++.+.|.
T Consensus       272 L~~~~~~~~~~l~--~ev~~~Ia~~~~~~  298 (440)
T PRK14088        272 ARKMLEIEHGELP--EEVLNFVAENVDDN  298 (440)
T ss_pred             HHHHHHhcCCCCC--HHHHHHHHhccccC
Confidence            9887743221111  23455555555554

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.42  E-value=3.7e-06  Score=84.31  Aligned_cols=155  Identities=15%  Similarity=0.175  Sum_probs=90.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccc--eEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEG--ECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~--~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ...+.|+|++|+|||+|++.+++.+..+++.  +.++.          ...+...+...+...        ....+.+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~----------~~~~~~~~~~~~~~~--------~~~~~~~~~  209 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT----------SEKFTNDFVNALRNN--------TMEEFKEKY  209 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE----------HHHHHHHHHHHHHcC--------cHHHHHHHH
Confidence            4568999999999999999999998776533  33443          122233333333211        123344444


Q ss_pred             cCCeEEEEEeCCCCH----HHHHHHhcCCCC-CCCCcEEEeecCChh---------hhhhcCCCeEEEeCCCCHHHHHHH
Q 046970          270 QQMKVFIVLDDVNKP----EQLIFLVGGLDR-FGPRSRIIVTTRDKQ---------VFDECEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~----~~l~~l~~~~~~-~~~g~~IIiTtR~~~---------~~~~~~~~~~~~l~~L~~~ea~~L  335 (420)
                      ++ .-+|+|||++..    ...+.+...+.. ...+..+|+||....         +...+.....+++++.+.++-.++
T Consensus       210 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        210 RS-VDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             hc-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence            43 448999999532    112222221111 123455788776431         122334456889999999999999


Q ss_pred             HHhcccCCC-CCchhHHHHHHHHHHHhcCChHHH
Q 046970          336 FSNFAFRQK-ICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       336 ~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      +.+.+-... ..+   ++...-|++.+.|....|
T Consensus       289 l~~~~~~~~~~l~---~e~l~~ia~~~~~~~R~l  319 (450)
T PRK00149        289 LKKKAEEEGIDLP---DEVLEFIAKNITSNVREL  319 (450)
T ss_pred             HHHHHHHcCCCCC---HHHHHHHHcCcCCCHHHH
Confidence            998874322 122   244566666666665533

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.40  E-value=7.3e-06  Score=81.08  Aligned_cols=157  Identities=15%  Similarity=0.177  Sum_probs=90.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcccc--ceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFE--GECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ...+.|+|.+|+|||+|++.+++.+..+.+  .++++.          ...+...+...+...        ....+.+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~----------~~~~~~~~~~~~~~~--------~~~~~~~~~  197 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS----------SEKFTNDFVNALRNN--------KMEEFKEKY  197 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE----------HHHHHHHHHHHHHcC--------CHHHHHHHH
Confidence            356889999999999999999998866543  233443          122333333333211        123344444


Q ss_pred             cCCeEEEEEeCCCCHH----HHHHHhcCCCC-CCCCcEEEeecCCh-h--------hhhhcCCCeEEEeCCCCHHHHHHH
Q 046970          270 QQMKVFIVLDDVNKPE----QLIFLVGGLDR-FGPRSRIIVTTRDK-Q--------VFDECEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~~----~l~~l~~~~~~-~~~g~~IIiTtR~~-~--------~~~~~~~~~~~~l~~L~~~ea~~L  335 (420)
                      ++ .-+|+|||++...    ..+.+...+.. ...+..+|+|+... .        +...+.....+++++.+.++-.++
T Consensus       198 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~i  276 (405)
T TIGR00362       198 RS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAI  276 (405)
T ss_pred             Hh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHH
Confidence            43 3488999995321    11222222211 12355688877642 2        122233345789999999999999


Q ss_pred             HHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          336 FSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      +.+.+-.....-+  ++....|++.+.|..-.|+
T Consensus       277 l~~~~~~~~~~l~--~e~l~~ia~~~~~~~r~l~  308 (405)
T TIGR00362       277 LQKKAEEEGLELP--DEVLEFIAKNIRSNVRELE  308 (405)
T ss_pred             HHHHHHHcCCCCC--HHHHHHHHHhcCCCHHHHH
Confidence            9988743322111  3556677777777766444

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).

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=4.8e-06  Score=85.42  Aligned_cols=194  Identities=15%  Similarity=0.139  Sum_probs=111.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccc---eEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEG---ECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~---~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....++|.+..++.|.+.+..+. -...+.++|+.|+||||+|+.+++.+......   ..-+.       ..+.-...+
T Consensus        22 ~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~-------~cg~c~~C~   93 (598)
T PRK09111         22 TFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID-------LCGVGEHCQ   93 (598)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc-------cCcccHHHH
Confidence            44679999999999988887442 24578899999999999999999876332110   00000       011111111


Q ss_pred             HHHHHHhhccccCC-----CCCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeec-CCh
Q 046970          244 RVLSEILEENLKIG-----TLNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTT-RDK  310 (420)
Q Consensus       244 ~ll~~l~~~~~~~~-----~~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTt-R~~  310 (420)
                      .+.......-..+.     ..+....+.+.+     .+++-++|+|+++..  ...+.|+..+....+.+.+|++| ...
T Consensus        94 ~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~  173 (598)
T PRK09111         94 AIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIR  173 (598)
T ss_pred             HHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChh
Confidence            22111100000000     001111222222     234568999999644  44666776665555666665544 433


Q ss_pred             hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          311 QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       311 ~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      .+... ......+++.+++.++..+.+.+.+-.......  .+.+..|++.++|.+.-+..
T Consensus       174 kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~--~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        174 KVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVE--DEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             hhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHH
Confidence            33322 223478899999999999999887643322111  24577889999999865543

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=4.7e-06  Score=88.33  Aligned_cols=188  Identities=12%  Similarity=0.070  Sum_probs=106.1

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....+||.+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+......         .....+.-..++.+.
T Consensus        13 ~f~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~---------~~~pCg~C~sC~~~~   82 (824)
T PRK07764         13 TFAEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGP---------TSTPCGECDSCVALA   82 (824)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCC---------CCCCCcccHHHHHHH
Confidence            34678999988888888887432 24568899999999999999999876321000         000000000111111


Q ss_pred             HHHhhcc--ccCC-----CCCchHHHHHH-----hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecC-Chh
Q 046970          247 SEILEEN--LKIG-----TLNLPEYIKER-----LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTR-DKQ  311 (420)
Q Consensus       247 ~~l~~~~--~~~~-----~~~~~~~l~~~-----l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR-~~~  311 (420)
                      ..-....  ..+.     ..+....+.+.     ..++.-++|||+++..  ...+.|+..+......+.+|++|. ...
T Consensus        83 ~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~k  162 (824)
T PRK07764         83 PGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDK  162 (824)
T ss_pred             cCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhh
Confidence            0000000  0000     01111112221     2345668999999654  445666666665556666665554 334


Q ss_pred             hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH
Q 046970          312 VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       312 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      +... ......|++..++.++..+++.+.+-......  ..+....|++.++|.+.
T Consensus       163 Ll~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~i--d~eal~lLa~~sgGdlR  216 (824)
T PRK07764        163 VIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPV--EPGVLPLVIRAGGGSVR  216 (824)
T ss_pred             hhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHH
Confidence            4432 23457899999999999988877653222211  12345678888999874

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.38  E-value=1.5e-05  Score=79.32  Aligned_cols=130  Identities=12%  Similarity=0.112  Sum_probs=76.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      ..+.|+|++|+|||+|++.+++.+......+.++.          ...+...+...+...        ..+.++..++ .
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~----------~~~f~~~~~~~l~~~--------~~~~f~~~~~-~  202 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR----------SELFTEHLVSAIRSG--------EMQRFRQFYR-N  202 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee----------HHHHHHHHHHHHhcc--------hHHHHHHHcc-c
Confidence            56889999999999999999998765434445554          122333333332211        1233444443 3


Q ss_pred             eEEEEEeCCCCHH----HHHHHhcCCCC-CCCCcEEEeecCC-hh--------hhhhcCCCeEEEeCCCCHHHHHHHHHh
Q 046970          273 KVFIVLDDVNKPE----QLIFLVGGLDR-FGPRSRIIVTTRD-KQ--------VFDECEVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       273 ~~LlVLDdv~~~~----~l~~l~~~~~~-~~~g~~IIiTtR~-~~--------~~~~~~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      .-+|++||+....    ..+.+...++. ...|..||+||.. +.        +...+..+..+++++++.++..+++.+
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~  282 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLER  282 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHH
Confidence            4488889984321    11222222110 1235578888854 21        222233457889999999999999988


Q ss_pred             ccc
Q 046970          339 FAF  341 (420)
Q Consensus       339 ~a~  341 (420)
                      .+-
T Consensus       283 k~~  285 (445)
T PRK12422        283 KAE  285 (445)
T ss_pred             HHH
Confidence            763

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.38  E-value=7.1e-06  Score=83.74  Aligned_cols=193  Identities=15%  Similarity=0.128  Sum_probs=108.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+++|-+..++.|.+++..+. -...+.++|+.|+||||+|+.++..+......         .....+.-.....+.
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~---------~~~pCg~C~~C~~i~   80 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGP---------TATPCGVCESCVALA   80 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCC---------CCCcccccHHHHHhh
Confidence            44678999998998988887432 24567899999999999999999875321100         000000001111111


Q ss_pred             HHHhhccc--cCC-----CCCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeec-CChh
Q 046970          247 SEILEENL--KIG-----TLNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTT-RDKQ  311 (420)
Q Consensus       247 ~~l~~~~~--~~~-----~~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTt-R~~~  311 (420)
                      ..-.....  .++     ..+....+.+.+     .+++-++|+|+++..  ...+.|+..+......+.+|++| ....
T Consensus        81 ~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~k  160 (584)
T PRK14952         81 PNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEK  160 (584)
T ss_pred             cccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHh
Confidence            00000000  000     011111222221     245668999998643  45666776666555666655544 4444


Q ss_pred             hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHH
Q 046970          312 VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVL  371 (420)
Q Consensus       312 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~  371 (420)
                      +... ......+++.+++.++..+.+.+.+-.....-+  .+.+..|++.++|.+. ++..+
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~--~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVD--DAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHHHH
Confidence            4332 233578999999999999888876643222111  2445678888888774 44444

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.37  E-value=6.5e-06  Score=83.89  Aligned_cols=197  Identities=14%  Similarity=0.136  Sum_probs=109.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+++|-+..++.|.+.+..+ .-...+.++|+.|+||||+|+.+++.+-.....         .....+.-...+.+.
T Consensus        14 sf~dIiGQe~v~~~L~~ai~~~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~---------~~~pCg~C~sC~~i~   83 (624)
T PRK14959         14 TFAEVAGQETVKAILSRAAQEN-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAP---------TGEPCNTCEQCRKVT   83 (624)
T ss_pred             CHHHhcCCHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhccccCCC---------CCCCCcccHHHHHHh
Confidence            3456788887777777777643 124678899999999999999999876321000         000000111111111


Q ss_pred             HHHhhccccCCC-----CCchHHHHHH-----hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhhh
Q 046970          247 SEILEENLKIGT-----LNLPEYIKER-----LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~-----~~~~~~l~~~-----l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~~  313 (420)
                      ......-..+..     .+....+.+.     ..+++-++|+|+++..  .....|+..+........+|++|.+ ..+.
T Consensus        84 ~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll  163 (624)
T PRK14959         84 QGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFP  163 (624)
T ss_pred             cCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhh
Confidence            110000000000     0011112221     2345679999999654  4456676666544455666665554 3333


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh-HHHHHHHHHh
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP-LALKVLGSFF  375 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P-Lal~~~~~~L  375 (420)
                      .. ......+++++++.++..+.+...+......-  ..+.+..|++.++|.+ .|+..+...+
T Consensus       164 ~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~i--d~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        164 VTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDY--DPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            22 12346789999999999998887664332111  1245778888999965 5777665444

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=4.7e-06  Score=85.98  Aligned_cols=193  Identities=13%  Similarity=0.144  Sum_probs=109.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|-+..++.|..++..+. -...+.++|+.|+||||+|+.+++.+.......        .....+.....+.+.
T Consensus        14 ~~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~--------~~~~c~~c~~c~~i~   84 (585)
T PRK14950         14 TFAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP--------KGRPCGTCEMCRAIA   84 (585)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC--------CCCCCccCHHHHHHh
Confidence            34678999988888888776432 245678999999999999999998763211000        000111112222222


Q ss_pred             HHHhhccccCCC-----CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhh
Q 046970          247 SEILEENLKIGT-----LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~-----~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~  313 (420)
                      ......-..+..     .+....+.+.+     .+++-++|+|+++..  +..+.|+..+......+.+|+++.+. .+.
T Consensus        85 ~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll  164 (585)
T PRK14950         85 EGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVP  164 (585)
T ss_pred             cCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhh
Confidence            111110000000     01111222222     235678999998644  45666766655444566666655433 332


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      .. ......+++.+++.++....+.+.+.......+  .+.+..+++.++|.+..+..
T Consensus       165 ~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~--~eal~~La~~s~Gdlr~al~  220 (585)
T PRK14950        165 ATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLE--PGALEAIARAATGSMRDAEN  220 (585)
T ss_pred             HHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHH
Confidence            21 223467889999999999888877643322111  24577889999998865443

>PRK06620 hypothetical protein; Validated

Probab=98.35  E-value=4e-06  Score=75.11  Aligned_cols=135  Identities=12%  Similarity=0.062  Sum_probs=81.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      +.+.|+|++|+|||+|++.+++....     .++...      ...    .                       +..+ .
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~~~~~------~~~----~-----------------------~~~~-~   85 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-----YIIKDI------FFN----E-----------------------EILE-K   85 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-----EEcchh------hhc----h-----------------------hHHh-c
Confidence            56899999999999999987775421     222100      000    0                       0011 2


Q ss_pred             eEEEEEeCCCCHHH--HHHHhcCCCCCCCCcEEEeecCChh-------hhhhcCCCeEEEeCCCCHHHHHHHHHhcccCC
Q 046970          273 KVFIVLDDVNKPEQ--LIFLVGGLDRFGPRSRIIVTTRDKQ-------VFDECEVDSIYEVEGLNKDESLELFSNFAFRQ  343 (420)
Q Consensus       273 ~~LlVLDdv~~~~~--l~~l~~~~~~~~~g~~IIiTtR~~~-------~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~  343 (420)
                      .-+|++||++..++  +-.+...+.  ..|..+|+|++.+.       +...+...-++++++++.++..+++.+.+-..
T Consensus        86 ~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~  163 (214)
T PRK06620         86 YNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS  163 (214)
T ss_pred             CCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc
Confidence            24688899975432  223322222  24668999887432       22233455689999999999988888776422


Q ss_pred             C-CCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          344 K-ICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       344 ~-~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      . ..+   ++..+-|++.+.|.--.+.-+
T Consensus       164 ~l~l~---~ev~~~L~~~~~~d~r~l~~~  189 (214)
T PRK06620        164 SVTIS---RQIIDFLLVNLPREYSKIIEI  189 (214)
T ss_pred             CCCCC---HHHHHHHHHHccCCHHHHHHH
Confidence            2 222   356777888887776655543

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=8.5e-06  Score=79.58  Aligned_cols=179  Identities=13%  Similarity=0.154  Sum_probs=103.0

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc--------ccceEEEEeccccccccCH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE--------FEGECFITNVREESERVGL  238 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------f~~~~~v~~~~~~~~~~~~  238 (420)
                      ....++|.+..++.+.+.+..+ .-.+.+.++|++|+||||+|+.+++.+...        |.....-  ... ....+.
T Consensus        15 ~~~~iig~~~~~~~l~~~i~~~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~--l~~-~~~~~~   90 (367)
T PRK14970         15 TFDDVVGQSHITNTLLNAIENN-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFE--LDA-ASNNSV   90 (367)
T ss_pred             cHHhcCCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEE--ecc-ccCCCH
Confidence            4467899999888888888643 235688899999999999999998876431        1111110  000 000111


Q ss_pred             HHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecC-Chhhhhh
Q 046970          239 VHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTR-DKQVFDE  315 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR-~~~~~~~  315 (420)
                      .. ..+++..+...               -..+++-++++|+++..  ..++.++..+......+.+|+++. ...+...
T Consensus        91 ~~-i~~l~~~~~~~---------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~  154 (367)
T PRK14970         91 DD-IRNLIDQVRIP---------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPT  154 (367)
T ss_pred             HH-HHHHHHHHhhc---------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHH
Confidence            11 11111111000               01234568999998643  335566554443334555555543 3233222


Q ss_pred             -cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          316 -CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       316 -~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                       ......+++++++.++....+...+-..+..-+  .+.+..+++.++|.+-.
T Consensus       155 l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~--~~al~~l~~~~~gdlr~  205 (367)
T PRK14970        155 ILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFE--DDALHIIAQKADGALRD  205 (367)
T ss_pred             HHhcceeEecCCccHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHhCCCCHHH
Confidence             223467899999999999888876643332111  25577888888887663

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=3.9e-06  Score=82.60  Aligned_cols=196  Identities=13%  Similarity=0.123  Sum_probs=107.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc--ccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE--FEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|-+...+.|.+++..+. -...+.++|++|+||||+|+.+++.+...  ++...|..+.   ....+.-...+.
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~---~~~c~~c~~c~~   89 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEV---TEPCGECESCRD   89 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccC---CCCCCCCHHHHH
Confidence            44678998888888888877442 24568899999999999999999876331  1111111000   000111111111


Q ss_pred             HHHHHhhccccCC--C---CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeec-CChh
Q 046970          245 VLSEILEENLKIG--T---LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTT-RDKQ  311 (420)
Q Consensus       245 ll~~l~~~~~~~~--~---~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTt-R~~~  311 (420)
                      +.......-....  .   .+....+.+.+     .+.+-++|+|+++..  ..++.++..+....+.+.+|++| +...
T Consensus        90 ~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~k  169 (397)
T PRK14955         90 FDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHK  169 (397)
T ss_pred             HhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHH
Confidence            1111000000000  0   11122222223     245668999998644  45666666665545566665554 4333


Q ss_pred             hhhhc-CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          312 VFDEC-EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       312 ~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      +.... .....+++.+++.++..+.+...+-.....-  ..+.+..+++.++|.+--+
T Consensus       170 l~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i--~~~al~~l~~~s~g~lr~a  225 (397)
T PRK14955        170 IPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISV--DADALQLIGRKAQGSMRDA  225 (397)
T ss_pred             hHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHH
Confidence            33221 1235789999999999988877653222111  1255788999999987533

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

Probab=98.33  E-value=2.5e-06  Score=90.43  Aligned_cols=169  Identities=13%  Similarity=0.185  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHhhhcccccccCCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-----c-
Q 046970          147 LVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-----F-  220 (420)
Q Consensus       147 ~i~~i~~~v~~~l~~~~~~~~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----f-  220 (420)
                      .+++....+.....+.    ..+.++||+.+++.+.+.|...  ...-+.++|++|+|||++|+.+++++...     + 
T Consensus       164 ~l~~~~~~l~~~~r~~----~l~~~igr~~ei~~~~~~L~~~--~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~  237 (731)
T TIGR02639       164 ALEKYTVDLTEKAKNG----KIDPLIGREDELERTIQVLCRR--KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLK  237 (731)
T ss_pred             HHHHHhhhHHHHHhcC----CCCcccCcHHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhc
Confidence            4444444444443332    3457999999999999888644  23356799999999999999999987432     1 


Q ss_pred             cceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHh-cCCeEEEEEeCCCCH-----------HHH
Q 046970          221 EGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERL-QQMKVFIVLDDVNKP-----------EQL  287 (420)
Q Consensus       221 ~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l-~~~~~LlVLDdv~~~-----------~~l  287 (420)
                      ...+|..+..         .+..    .   . ......+. ...+.+.+ ..++.+|++|+++..           +..
T Consensus       238 ~~~~~~~~~~---------~l~a----~---~-~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~  300 (731)
T TIGR02639       238 NAKIYSLDMG---------SLLA----G---T-KYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDAS  300 (731)
T ss_pred             CCeEEEecHH---------HHhh----h---c-cccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHH
Confidence            2334433211         1110    0   0 00000111 22222222 245789999998532           112


Q ss_pred             HHHhcCCCCCCCCcEEEeecCChhhhh-------hcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          288 IFLVGGLDRFGPRSRIIVTTRDKQVFD-------ECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       288 ~~l~~~~~~~~~g~~IIiTtR~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      +.|.+.+..  ...++|-+|...+.-.       ....-..+++++++.++..+++....
T Consensus       301 ~~L~~~l~~--g~i~~IgaTt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       301 NLLKPALSS--GKLRCIGSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHHHHhC--CCeEEEEecCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            233344321  2234554444321100       01122578999999999999998544

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.32  E-value=7.5e-06  Score=81.96  Aligned_cols=160  Identities=20%  Similarity=0.347  Sum_probs=89.3

Q ss_pred             CCCCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccc-----cceEEEEecc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-----EGECFITNVR  230 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-----~~~~~v~~~~  230 (420)
                      ....+.|.+..++++.+.+..           +-...+-+.|+|++|+|||++|+.+++.+...+     ....|+. +.
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~-v~  258 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLN-IK  258 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEe-cc
Confidence            345677888888887775431           122356789999999999999999999875542     1233432 11


Q ss_pred             ccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHH-hcCCeEEEEEeCCCCHH--------------HHHHHhcCC
Q 046970          231 EESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKER-LQQMKVFIVLDDVNKPE--------------QLIFLVGGL  294 (420)
Q Consensus       231 ~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~-l~~~~~LlVLDdv~~~~--------------~l~~l~~~~  294 (420)
                      ..       .+    +....++..  ..... ...+++. ..+++++|+||+++..-              .+..|+..+
T Consensus       259 ~~-------eL----l~kyvGete--~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~L  325 (512)
T TIGR03689       259 GP-------EL----LNKYVGETE--RQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSEL  325 (512)
T ss_pred             ch-------hh----cccccchHH--HHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHh
Confidence            10       00    000000000  00000 1111211 13478999999996431              123344333


Q ss_pred             CCCC--CCcEEEeecCChhhhh-----hcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          295 DRFG--PRSRIIVTTRDKQVFD-----ECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       295 ~~~~--~g~~IIiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      ....  .+..||.||.....+.     ....+..++++..+.++..++|..+.
T Consensus       326 Dgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       326 DGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             cccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            3222  3444566665443322     12346678999999999999999886

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.32  E-value=5.6e-06  Score=85.69  Aligned_cols=202  Identities=17%  Similarity=0.183  Sum_probs=105.1

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc--cc---cceEEEE-eccccccccCHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS--EF---EGECFIT-NVREESERVGLVH  240 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~--~f---~~~~~v~-~~~~~~~~~~~~~  240 (420)
                      ..+.++|++..+..+.+.+..  .....+.|+|++|+||||||+.+++....  .+   ....|+. +....  ..+...
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~--~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l--~~d~~~  227 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVAS--PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL--RWDPRE  227 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc--cCCHHH
Confidence            446799999988887766642  23567999999999999999999876532  11   1223332 11111  111111


Q ss_pred             HHHHHH---------------HHHh-------------hccc---cCCCCCc--hHHHHHHhcCCeEEEEEeCCCCH--H
Q 046970          241 LRERVL---------------SEIL-------------EENL---KIGTLNL--PEYIKERLQQMKVFIVLDDVNKP--E  285 (420)
Q Consensus       241 l~~~ll---------------~~l~-------------~~~~---~~~~~~~--~~~l~~~l~~~~~LlVLDdv~~~--~  285 (420)
                      +...++               ....             +.-.   .+..++.  +..+.+.+.+++++++-|+.|..  .
T Consensus       228 i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~  307 (615)
T TIGR02903       228 VTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPN  307 (615)
T ss_pred             HhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcc
Confidence            111111               0000             0000   1122222  45566666666666665544322  1


Q ss_pred             HHHHHhcCCCCCCCCcEEEe--ecCChhhhhh--cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHh
Q 046970          286 QLIFLVGGLDRFGPRSRIIV--TTRDKQVFDE--CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYA  361 (420)
Q Consensus       286 ~l~~l~~~~~~~~~g~~IIi--TtR~~~~~~~--~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~  361 (420)
                      .++.+...+....+...+++  ||++......  ......+.+.+++.++..+++.+.+-.....-  ..+..+.|.+++
T Consensus       308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~l--s~eal~~L~~ys  385 (615)
T TIGR02903       308 VPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHL--AAGVEELIARYT  385 (615)
T ss_pred             cchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHCC
Confidence            23333222222223333444  5665432111  11234678999999999999998764322111  124556666666


Q ss_pred             cCChHHHHHHHHH
Q 046970          362 NGNPLALKVLGSF  374 (420)
Q Consensus       362 ~G~PLal~~~~~~  374 (420)
                      ..-+.++..++..
T Consensus       386 ~~gRraln~L~~~  398 (615)
T TIGR02903       386 IEGRKAVNILADV  398 (615)
T ss_pred             CcHHHHHHHHHHH
Confidence            5557777776544

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.30  E-value=8.2e-06  Score=87.40  Aligned_cols=166  Identities=13%  Similarity=0.153  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHhhhcccccccCCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc------
Q 046970          147 LVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF------  220 (420)
Q Consensus       147 ~i~~i~~~v~~~l~~~~~~~~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f------  220 (420)
                      .+++....+.....+.    ..+.++||+.++.++...|....  ..-+.++|++|+||||||+.+++++....      
T Consensus       169 ~l~~~~~~L~~~~r~~----~ld~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~  242 (852)
T TIGR03345       169 ALDQYTTDLTAQAREG----KIDPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALR  242 (852)
T ss_pred             hHHHHhhhHHHHhcCC----CCCcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHHHHhhCCCCcccc
Confidence            4444444444333332    44679999999999988776432  33556999999999999999999874431      


Q ss_pred             cceEEEEeccccc----cccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh-cCCeEEEEEeCCCCHH---------H
Q 046970          221 EGECFITNVREES----ERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL-QQMKVFIVLDDVNKPE---------Q  286 (420)
Q Consensus       221 ~~~~~v~~~~~~~----~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l-~~~~~LlVLDdv~~~~---------~  286 (420)
                      ...+|..++....    ....+..-+++++                   .+.- .+++++|++|+++...         +
T Consensus       243 ~~~i~~l~l~~l~ag~~~~ge~e~~lk~ii-------------------~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d  303 (852)
T TIGR03345       243 NVRLLSLDLGLLQAGASVKGEFENRLKSVI-------------------DEVKASPQPIILFIDEAHTLIGAGGQAGQGD  303 (852)
T ss_pred             CCeEEEeehhhhhcccccchHHHHHHHHHH-------------------HHHHhcCCCeEEEEeChHHhccCCCcccccc
Confidence            1223332222111    0011111111121                   1111 2468999999984431         1


Q ss_pred             H-HHHhcCCCCCCCCcEEEeecCChhhhh-------hcCCCeEEEeCCCCHHHHHHHHHhc
Q 046970          287 L-IFLVGGLDRFGPRSRIIVTTRDKQVFD-------ECEVDSIYEVEGLNKDESLELFSNF  339 (420)
Q Consensus       287 l-~~l~~~~~~~~~g~~IIiTtR~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~  339 (420)
                      . ..|.+.+.  ....++|-||...+.-.       .......+.+++++.+++.+++...
T Consensus       304 ~~n~Lkp~l~--~G~l~~IgaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~  362 (852)
T TIGR03345       304 AANLLKPALA--RGELRTIAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGL  362 (852)
T ss_pred             HHHHhhHHhh--CCCeEEEEecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHH
Confidence            1 12334432  12345565555422100       0112368899999999999997543

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=2.1e-05  Score=79.00  Aligned_cols=193  Identities=16%  Similarity=0.121  Sum_probs=104.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|-+..+..|.+.+..+. -...+.++|+.|+||||+|+.++..+...-...         ..+.+...-...+.
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~---------~~pc~~c~nc~~i~   83 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQE---------GEPCGKCENCVEID   83 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCC---------CCCCCccHHHHHHh
Confidence            34668899988888888886432 345678899999999999999998753210000         00000000000000


Q ss_pred             HHHhhccccC---C--CCCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeec-CChhhh
Q 046970          247 SEILEENLKI---G--TLNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTT-RDKQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~---~--~~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTt-R~~~~~  313 (420)
                      ..-...-..+   .  ..+....+.+.+     .+++-++|+|+++..  ...+.|+..+....+...+|++| +...+.
T Consensus        84 ~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~  163 (486)
T PRK14953         84 KGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIP  163 (486)
T ss_pred             cCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHH
Confidence            0000000000   0  000011222222     245679999998644  34566665555444455555544 433332


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      .. ......+++.+++.++....+...+-......  ..+.+..+++.++|.+..+..+
T Consensus       164 ~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~i--d~~al~~La~~s~G~lr~al~~  220 (486)
T PRK14953        164 PTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEY--EEKALDLLAQASEGGMRDAASL  220 (486)
T ss_pred             HHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHH
Confidence            22 22346789999999999988887653322111  1245677888899987644433

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.29  E-value=1.7e-05  Score=80.53  Aligned_cols=131  Identities=14%  Similarity=0.232  Sum_probs=78.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcccc--ceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFE--GECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ  270 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~  270 (420)
                      ..+.|+|..|.|||.|+..+++.....+.  .+.++.          ...+...+...+...        ..+.+++.+.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit----------aeef~~el~~al~~~--------~~~~f~~~y~  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS----------SEEFTNEFINSIRDG--------KGDSFRRRYR  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee----------HHHHHHHHHHHHHhc--------cHHHHHHHhh
Confidence            45899999999999999999998765432  234443          223333333332211        1223444444


Q ss_pred             CCeEEEEEeCCCCH---HH-HHHHhcCCCC-CCCCcEEEeecCCh---------hhhhhcCCCeEEEeCCCCHHHHHHHH
Q 046970          271 QMKVFIVLDDVNKP---EQ-LIFLVGGLDR-FGPRSRIIVTTRDK---------QVFDECEVDSIYEVEGLNKDESLELF  336 (420)
Q Consensus       271 ~~~~LlVLDdv~~~---~~-l~~l~~~~~~-~~~g~~IIiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L~  336 (420)
                      + .=+|+|||+...   +. -+.|...++. ...+..|||||+..         .+...+...-+++|++.+.+.-.+++
T Consensus       377 ~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL  455 (617)
T PRK14086        377 E-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAIL  455 (617)
T ss_pred             c-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHH
Confidence            3 357889999432   11 1222222211 12456688888753         22333446678899999999999999


Q ss_pred             HhcccC
Q 046970          337 SNFAFR  342 (420)
Q Consensus       337 ~~~a~~  342 (420)
                      .+.+-.
T Consensus       456 ~kka~~  461 (617)
T PRK14086        456 RKKAVQ  461 (617)
T ss_pred             HHHHHh
Confidence            887743

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.25  E-value=2e-05  Score=73.10  Aligned_cols=131  Identities=14%  Similarity=0.162  Sum_probs=70.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc--cceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF--EGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKER  268 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  268 (420)
                      ....+.++|++|+||||+|+.+++.+...-  ....++.    ..    ..+    +.....++      .  ...+++.
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~----~~----~~~----l~~~~~g~------~--~~~~~~~  100 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIE----VE----RAD----LVGEYIGH------T--AQKTREV  100 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEE----ec----HHH----hhhhhccc------h--HHHHHHH
Confidence            345688999999999999999998753211  1112222    10    011    11111110      0  1111222


Q ss_pred             hc-CCeEEEEEeCCCC----------HHHHHHHhcCCCCCCCCcEEEeecCChhh---hh-----hcCCCeEEEeCCCCH
Q 046970          269 LQ-QMKVFIVLDDVNK----------PEQLIFLVGGLDRFGPRSRIIVTTRDKQV---FD-----ECEVDSIYEVEGLNK  329 (420)
Q Consensus       269 l~-~~~~LlVLDdv~~----------~~~l~~l~~~~~~~~~g~~IIiTtR~~~~---~~-----~~~~~~~~~l~~L~~  329 (420)
                      +. ...-+|++|+++.          .+.++.++..+........+|+++.....   ..     .......+++++++.
T Consensus       101 ~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~  180 (261)
T TIGR02881       101 IKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTV  180 (261)
T ss_pred             HHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCH
Confidence            21 1235889999964          23455566555443334455555543221   00     011345689999999


Q ss_pred             HHHHHHHHhccc
Q 046970          330 DESLELFSNFAF  341 (420)
Q Consensus       330 ~ea~~L~~~~a~  341 (420)
                      ++..+++.+.+.
T Consensus       181 ~el~~Il~~~~~  192 (261)
T TIGR02881       181 EELMEIAERMVK  192 (261)
T ss_pred             HHHHHHHHHHHH
Confidence            999999987774

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PF14516 AAA_35: AAA-like domain

Probab=98.25  E-value=5.6e-05  Score=72.52  Aligned_cols=203  Identities=13%  Similarity=0.180  Sum_probs=118.0

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccc--ccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESE--RVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~--~~~~~~l~~~  244 (420)
                      +++..|.|...-+++.+.|..   ....+.|.|+-.+|||+|...+.+.....--..++++ +.....  ..+...+.+.
T Consensus         9 ~~~~Yi~R~~~e~~~~~~i~~---~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id-~~~~~~~~~~~~~~f~~~   84 (331)
T PF14516_consen    9 DSPFYIERPPAEQECYQEIVQ---PGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYID-LQQLGSAIFSDLEQFLRW   84 (331)
T ss_pred             CCCcccCchHHHHHHHHHHhc---CCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEE-eecCCCcccCCHHHHHHH
Confidence            556778888555555555542   2468999999999999999999988765422344443 333222  2345555555


Q ss_pred             HHHHHhhccc-----------cCCCCCc-hHHHHHHh-c--CCeEEEEEeCCCCHHH----HHHHhcCCC-------CCC
Q 046970          245 VLSEILEENL-----------KIGTLNL-PEYIKERL-Q--QMKVFIVLDDVNKPEQ----LIFLVGGLD-------RFG  298 (420)
Q Consensus       245 ll~~l~~~~~-----------~~~~~~~-~~~l~~~l-~--~~~~LlVLDdv~~~~~----l~~l~~~~~-------~~~  298 (420)
                      +...+...-.           ....... ...+.+.+ .  +++++|++|+++..-.    .+++++.+.       ...
T Consensus        85 ~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~  164 (331)
T PF14516_consen   85 FCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNP  164 (331)
T ss_pred             HHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCc
Confidence            5444432211           1111112 33444432 2  5799999999964321    122222211       000


Q ss_pred             --CCcEE-EeecCChhhh-----hhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          299 --PRSRI-IVTTRDKQVF-----DECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       299 --~g~~I-IiTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                        ..-++ ++.+......     ........++|++++.+|...|+.++...   ...   ...++|...+||||.-+..
T Consensus       165 ~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~---~~~---~~~~~l~~~tgGhP~Lv~~  238 (331)
T PF14516_consen  165 IWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE---FSQ---EQLEQLMDWTGGHPYLVQK  238 (331)
T ss_pred             ccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc---CCH---HHHHHHHHHHCCCHHHHHH
Confidence              11122 2222111111     11234567899999999999999887522   121   2278999999999999999


Q ss_pred             HHHHhcCCC
Q 046970          371 LGSFFYRKS  379 (420)
Q Consensus       371 ~~~~L~~~~  379 (420)
                      ++..+....
T Consensus       239 ~~~~l~~~~  247 (331)
T PF14516_consen  239 ACYLLVEEQ  247 (331)
T ss_pred             HHHHHHHcc
Confidence            999997653

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.25  E-value=2.4e-05  Score=81.07  Aligned_cols=183  Identities=14%  Similarity=0.132  Sum_probs=103.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|-+..++.|...+..+ .-...+.++|+.|+||||+|+.++..+-..-....+        ...   ..+... 
T Consensus        16 ~f~dIiGQe~~v~~L~~aI~~~-rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~--------~pC---~~C~~~-   82 (725)
T PRK07133         16 TFDDIVGQDHIVQTLKNIIKSN-KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLL--------EPC---QECIEN-   82 (725)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCC--------Cch---hHHHHh-
Confidence            3466889988888888888643 235677899999999999999999865221000000        000   000000 


Q ss_pred             HHHhhccc--cCC-----CCCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEe-ecCChh
Q 046970          247 SEILEENL--KIG-----TLNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIV-TTRDKQ  311 (420)
Q Consensus       247 ~~l~~~~~--~~~-----~~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIi-TtR~~~  311 (420)
                        ......  ...     ..+....+.+.+     .+++-++|+|+++..  .....|+..+......+.+|+ |+....
T Consensus        83 --~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~K  160 (725)
T PRK07133         83 --VNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHK  160 (725)
T ss_pred             --hcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhh
Confidence              000000  000     001112222222     245669999998643  456667766655445555554 444444


Q ss_pred             hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH
Q 046970          312 VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       312 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      +... ......+++.+++.++..+.+...+-.......  .+.+..+++.++|.+.
T Consensus       161 Ll~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id--~eAl~~LA~lS~GslR  214 (725)
T PRK07133        161 IPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYE--KNALKLIAKLSSGSLR  214 (725)
T ss_pred             hhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHH
Confidence            4322 233478999999999999888775532221111  2446788888988764

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.23  E-value=8.4e-06  Score=77.89  Aligned_cols=147  Identities=17%  Similarity=0.217  Sum_probs=84.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|.+...+.+..++..+ .-..++.++|++|+||||+|+.+++.....+   ..+. ...    .....+ +..+
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~---~~i~-~~~----~~~~~i-~~~l   88 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEV---LFVN-GSD----CRIDFV-RNRL   88 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcC-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccc---eEec-cCc----ccHHHH-HHHH
Confidence            4467899999888888888743 2356777799999999999999998763221   2222 111    111111 1111


Q ss_pred             HHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH---HHHHHHhcCCCCCCCCcEEEeecCChhhhhh--cCCCeE
Q 046970          247 SEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE--CEVDSI  321 (420)
Q Consensus       247 ~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~--~~~~~~  321 (420)
                      .......              .+...+-++|+|+++..   +....+...+.....++++|+||........  ......
T Consensus        89 ~~~~~~~--------------~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~  154 (316)
T PHA02544         89 TRFASTV--------------SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRV  154 (316)
T ss_pred             HHHHHhh--------------cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceE
Confidence            1111000              01134568999999654   2222333323334567788888865432111  122356


Q ss_pred             EEeCCCCHHHHHHHHH
Q 046970          322 YEVEGLNKDESLELFS  337 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~~  337 (420)
                      +.++..+.++..+++.
T Consensus       155 i~~~~p~~~~~~~il~  170 (316)
T PHA02544        155 IDFGVPTKEEQIEMMK  170 (316)
T ss_pred             EEeCCCCHHHHHHHHH
Confidence            7888888888776654

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2.3e-05  Score=80.65  Aligned_cols=194  Identities=13%  Similarity=0.110  Sum_probs=106.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc--ccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE--FEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|-+..+..|.+.+..+ .-...+.++|+.|+||||+|+.+++.+-..  .+...|..+..   ...+--...+.
T Consensus        14 ~f~eivGQe~i~~~L~~~i~~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~---~~Cg~C~sC~~   89 (620)
T PRK14954         14 KFADITAQEHITHTIQNSLRMD-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVT---EPCGECESCRD   89 (620)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccC---CCCccCHHHHH
Confidence            4467899998888888877643 224568899999999999999999876321  11111111000   01111111111


Q ss_pred             HHHHHhhccccCC--C---CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeec-CChh
Q 046970          245 VLSEILEENLKIG--T---LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTT-RDKQ  311 (420)
Q Consensus       245 ll~~l~~~~~~~~--~---~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTt-R~~~  311 (420)
                      +.......-..+.  .   .+....+.+.+     .+.+-++|+|+++..  ...+.|+..+....+.+.+|++| +...
T Consensus        90 ~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~k  169 (620)
T PRK14954         90 FDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHK  169 (620)
T ss_pred             HhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhh
Confidence            1110000000000  0   11111222222     234568899998654  34666766665544555555444 4334


Q ss_pred             hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH
Q 046970          312 VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       312 ~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      +... ......+++.+++.++....+.+.+-.....-  ..+.+..+++.++|..-
T Consensus       170 Ll~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I--~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        170 IPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQI--DADALQLIARKAQGSMR  223 (620)
T ss_pred             hhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHhCCCHH
Confidence            4332 23457899999999999888877653222111  12457788999999665

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.20  E-value=4.3e-05  Score=76.24  Aligned_cols=189  Identities=15%  Similarity=0.157  Sum_probs=103.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+++|.+..+..|.+.+..+. -...+.++|++|+||||+|+.+++.+...-...    +.    ...+.......+-
T Consensus        15 ~~~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~----~~----~~c~~c~~C~~i~   85 (451)
T PRK06305         15 TFSEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTE----DQ----EPCNQCASCKEIS   85 (451)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCccc----CC----CCCcccHHHHHHh
Confidence            44679999999888888886432 246788999999999999999998753210000    00    0000000000000


Q ss_pred             HHHhhccccC---CC--CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhhh
Q 046970          247 SEILEENLKI---GT--LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~---~~--~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~~  313 (420)
                      ..-...-...   ..  .+....+.+.+     .+.+-++|+|+++..  +..+.|+..+......+.+|++|.+ ..+.
T Consensus        86 ~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~  165 (451)
T PRK06305         86 SGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIP  165 (451)
T ss_pred             cCCCCceEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcc
Confidence            0000000000   00  00111111111     245678999998644  3455566555544456666665543 3332


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      .. ......+++++++.++..+.+...+-..+..-  ..+.+..+++.++|.+.
T Consensus       166 ~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i--~~~al~~L~~~s~gdlr  217 (451)
T PRK06305        166 GTILSRCQKMHLKRIPEETIIDKLALIAKQEGIET--SREALLPIARAAQGSLR  217 (451)
T ss_pred             hHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHH
Confidence            22 22346789999999999988887653322111  12457788899999764

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.20  E-value=6.4e-05  Score=71.75  Aligned_cols=93  Identities=10%  Similarity=0.066  Sum_probs=61.3

Q ss_pred             CeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEeecCChhh-hhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCc
Q 046970          272 MKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIVTTRDKQV-FDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICP  347 (420)
Q Consensus       272 ~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIiTtR~~~~-~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  347 (420)
                      ++-++|+|+++.  ......|+..+....+++.+|+||.+... ++. ......+.+.+++.+++.+.+.....  ...+
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~--~~~~  183 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALP--ESDE  183 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcc--cCCh
Confidence            344567799964  34566777766665567777777776543 322 23357789999999999999976531  1111


Q ss_pred             hhHHHHHHHHHHHhcCChHHHHH
Q 046970          348 KDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       348 ~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                          +.+..++..++|.|+....
T Consensus       184 ----~~~~~~l~la~Gsp~~A~~  202 (328)
T PRK05707        184 ----RERIELLTLAGGSPLRALQ  202 (328)
T ss_pred             ----HHHHHHHHHcCCCHHHHHH
Confidence                2345778889999975443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.19  E-value=3.3e-05  Score=77.88  Aligned_cols=189  Identities=13%  Similarity=0.110  Sum_probs=106.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc-cccc--eEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS-EFEG--ECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~--~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....++|-+...+.|...+..+. -.....++|+.|+||||+|+.+++.+-. ....  .|-.            .....
T Consensus        12 ~fdeiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~------------C~~C~   78 (535)
T PRK08451         12 HFDELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDT------------CIQCQ   78 (535)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcc------------cHHHH
Confidence            44678998888888888876432 3456789999999999999999987521 1100  0000            00000


Q ss_pred             HHHHHHhhccccCCCCC-c-hHHHHHHh--------cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh
Q 046970          244 RVLSEILEENLKIGTLN-L-PEYIKERL--------QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ  311 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~-~-~~~l~~~l--------~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~  311 (420)
                      .+.......-....... . .+.+++.+        .+++-++|+|+++..  +..+.|+..+....+.+++|++|.+..
T Consensus        79 ~~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~  158 (535)
T PRK08451         79 SALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPL  158 (535)
T ss_pred             HHhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChh
Confidence            00000000000000000 0 11111111        135668999999654  445666666655556777777666542


Q ss_pred             -hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          312 -VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       312 -~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                       +... ......+++.+++.++..+.+...+-..+..-.  .+.+..|++.++|.+.-+..
T Consensus       159 kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~--~~Al~~Ia~~s~GdlR~aln  217 (535)
T PRK08451        159 KLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYE--PEALEILARSGNGSLRDTLT  217 (535)
T ss_pred             hCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCcHHHHHH
Confidence             2111 123478899999999999988776533222111  24567888889988854443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.18  E-value=4.1e-05  Score=78.24  Aligned_cols=189  Identities=12%  Similarity=0.078  Sum_probs=107.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ....++|-+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+-.. -...          .+.+.-...+.+
T Consensus        14 ~f~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~----------~pC~~C~~C~~i   82 (563)
T PRK06647         14 DFNSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP----------MPCGECSSCKSI   82 (563)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC----------CCCccchHHHHH
Confidence            44678999988888888887432 35678899999999999999999875321 0000          000000001111


Q ss_pred             HHHHhhccccCCCCC-c-hHHHHHH--------hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hh
Q 046970          246 LSEILEENLKIGTLN-L-PEYIKER--------LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QV  312 (420)
Q Consensus       246 l~~l~~~~~~~~~~~-~-~~~l~~~--------l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~  312 (420)
                      .......-..+.... . .+.+++.        ..+++-++|+|+++..  ...+.|+..+....+.+.+|.+|.+. .+
T Consensus        83 ~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL  162 (563)
T PRK06647         83 DNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKL  162 (563)
T ss_pred             HcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHh
Confidence            000000000000000 1 1222211        1345668999999644  44677777766555666666655443 33


Q ss_pred             hhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          313 FDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       313 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      ... ......+++.+++.++..+.+...+......-+  .+.+..|++.++|.+..+
T Consensus       163 ~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~id--~eAl~lLa~~s~GdlR~a  217 (563)
T PRK06647        163 PATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYE--DEALKWIAYKSTGSVRDA  217 (563)
T ss_pred             HHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHH
Confidence            222 223467899999999999888876643332211  245677888888887543

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=1.9e-05  Score=81.59  Aligned_cols=193  Identities=18%  Similarity=0.155  Sum_probs=107.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|.+.....|..++..+. -...+.++|+.|+||||+|+.+++.+-.......       .....+.....+.+.
T Consensus        14 ~f~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-------~~~~Cg~C~~C~~i~   85 (620)
T PRK14948         14 RFDELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-------TPEPCGKCELCRAIA   85 (620)
T ss_pred             cHhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-------CCCCCcccHHHHHHh
Confidence            44678999988888888887442 2356789999999999999999997633210000       000111112222222


Q ss_pred             HHHhhccccCCC-CCc-hHHHHH---Hh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhh
Q 046970          247 SEILEENLKIGT-LNL-PEYIKE---RL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~-~~~-~~~l~~---~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~  313 (420)
                      ......-..... ... .+.+++   .+     .+++-++|+|+++..  +..+.|+..+......+.+|++|.+. .+.
T Consensus        86 ~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~ll  165 (620)
T PRK14948         86 AGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVL  165 (620)
T ss_pred             cCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhh
Confidence            111110000000 001 222222   22     234568999999754  44666766665544555555544443 333


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      .. ......+++.+++.++....+.+.+......-.  .+.+..|++.++|.+..+.
T Consensus       166 pTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is--~~al~~La~~s~G~lr~A~  220 (620)
T PRK14948        166 PTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIE--PEALTLVAQRSQGGLRDAE  220 (620)
T ss_pred             HHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCC--HHHHHHHHHHcCCCHHHHH
Confidence            22 223577889999999988888776633221111  2447788899999876444

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.14  E-value=5.8e-05  Score=77.35  Aligned_cols=189  Identities=13%  Similarity=0.140  Sum_probs=106.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|.+...+.|.+.+..+. -...+.++|+.|+||||+|+.++..+-..-..         ...+.+.......+.
T Consensus        14 ~f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~---------~~~pC~~C~~C~~i~   83 (559)
T PRK05563         14 TFEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPP---------DGEPCNECEICKAIT   83 (559)
T ss_pred             cHHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCC---------CCCCCCccHHHHHHh
Confidence            45679999999999988887542 35677889999999999999999865221000         000011111111221


Q ss_pred             HHHhhccccCCC-----CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeec-CChhhh
Q 046970          247 SEILEENLKIGT-----LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTT-RDKQVF  313 (420)
Q Consensus       247 ~~l~~~~~~~~~-----~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTt-R~~~~~  313 (420)
                      ......-..++.     .+....+.+..     .++.-++|+|+++..  .....|+..+......+.+|++| ....+.
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~  163 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIP  163 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCc
Confidence            110000000100     01112222221     345678999999754  45666776665444455555444 433333


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      .. ......+++.+++.++..+.+...+-......+  .+.+..|++.++|.+.-
T Consensus       164 ~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~--~~al~~ia~~s~G~~R~  216 (559)
T PRK05563        164 ATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYE--DEALRLIARAAEGGMRD  216 (559)
T ss_pred             HHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHH
Confidence            22 223467889999999999888876633222111  24566788888887653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.13  E-value=2.3e-05  Score=84.23  Aligned_cols=66  Identities=17%  Similarity=0.265  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHhhhcccccccCCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          147 LVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       147 ~i~~i~~~v~~~l~~~~~~~~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .+++....+.....+.    ..+.++||+.+++++.+.|....  ...+.++|++|+|||+||+.++.++..
T Consensus       160 ~l~~~~~~l~~~~r~~----~l~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~  225 (857)
T PRK10865        160 ALKKYTIDLTERAEQG----KLDPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIIN  225 (857)
T ss_pred             HHHHHhhhHHHHHhcC----CCCcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHHHhhc
Confidence            4444444444333332    34579999999999999886532  335669999999999999999998743

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

Probab=98.12  E-value=2.1e-05  Score=76.97  Aligned_cols=171  Identities=18%  Similarity=0.279  Sum_probs=93.5

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      .++.|.+...++|.+.+..           +-...+-+.|+|++|+|||+||+.+++.....|   ..+.    .     
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~f---i~i~----~-----  212 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATF---IRVV----G-----  212 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE---EEEe----h-----
Confidence            4566666666666554321           113467899999999999999999998764433   1111    0     


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCHH----------------HHHHHhcCCCCC--C
Q 046970          238 LVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKPE----------------QLIFLVGGLDRF--G  298 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~--~  298 (420)
                       ..+.    ....++.     ... .+.+.......+.+|++|+++...                .+..++..+..+  .
T Consensus       213 -s~l~----~k~~ge~-----~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~  282 (398)
T PTZ00454        213 -SEFV----QKYLGEG-----PRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQT  282 (398)
T ss_pred             -HHHH----HHhcchh-----HHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCC
Confidence             0111    1111100     001 122222334578999999975320                123333333221  2


Q ss_pred             CCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCCh
Q 046970          299 PRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       299 ~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~P  365 (420)
                      .+..||.||.....+..     ......++++..+.++..++|..+...... ...+    ..++++.+.|.-
T Consensus       283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd----~~~la~~t~g~s  351 (398)
T PTZ00454        283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVD----LEDFVSRPEKIS  351 (398)
T ss_pred             CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccC----HHHHHHHcCCCC
Confidence            35668888875543322     235677899999999988888866533221 1222    345566665553

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

Probab=98.11  E-value=3.9e-05  Score=74.28  Aligned_cols=133  Identities=16%  Similarity=0.180  Sum_probs=83.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ  270 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~  270 (420)
                      ....+.|||..|.|||.|++++++......+....+.    .    ........+...+...        ..+..++.. 
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y----~----~se~f~~~~v~a~~~~--------~~~~Fk~~y-  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVY----L----TSEDFTNDFVKALRDN--------EMEKFKEKY-  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEe----c----cHHHHHHHHHHHHHhh--------hHHHHHHhh-
Confidence            3678999999999999999999998877766443333    1    1223333333333321        144455555 


Q ss_pred             CCeEEEEEeCCCCH----HHHHHHhcCCCCC-CCCcEEEeecCCh---------hhhhhcCCCeEEEeCCCCHHHHHHHH
Q 046970          271 QMKVFIVLDDVNKP----EQLIFLVGGLDRF-GPRSRIIVTTRDK---------QVFDECEVDSIYEVEGLNKDESLELF  336 (420)
Q Consensus       271 ~~~~LlVLDdv~~~----~~l~~l~~~~~~~-~~g~~IIiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L~  336 (420)
                       .-=++++||++-.    ..-+.+...++.. ..|..||+|++..         .+......+-++++.+++.+....++
T Consensus       175 -~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL  253 (408)
T COG0593         175 -SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAIL  253 (408)
T ss_pred             -ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHH
Confidence             3448899998432    1122333322211 2444899998642         23334456788999999999999999


Q ss_pred             Hhccc
Q 046970          337 SNFAF  341 (420)
Q Consensus       337 ~~~a~  341 (420)
                      .+.+-
T Consensus       254 ~kka~  258 (408)
T COG0593         254 RKKAE  258 (408)
T ss_pred             HHHHH
Confidence            88663

>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=98.10  E-value=3.2e-05  Score=63.39  Aligned_cols=23  Identities=35%  Similarity=0.473  Sum_probs=21.2

Q ss_pred             EEEeccCcchHHHHHHHHHHHhh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      |.|+|++|+|||++|+.+++.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            57999999999999999999874

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 ....

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.10  E-value=4.5e-05  Score=78.50  Aligned_cols=192  Identities=15%  Similarity=0.150  Sum_probs=104.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ...+++|-+...+.|.+.+..+ .-...+.++|+.|+||||+|+.+++.+-.. ...          ....+.......+
T Consensus        14 ~f~~iiGq~~v~~~L~~~i~~~-~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~----------~~~c~~c~~c~~i   82 (576)
T PRK14965         14 TFSDLTGQEHVSRTLQNAIDTG-RVAHAFLFTGARGVGKTSTARILAKALNCEQGLT----------AEPCNVCPPCVEI   82 (576)
T ss_pred             CHHHccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC----------CCCCCccHHHHHH
Confidence            4467999998888888887643 224567899999999999999999875321 000          0000000111111


Q ss_pred             HHHHhhccccCC---C--CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecC-Chhh
Q 046970          246 LSEILEENLKIG---T--LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTR-DKQV  312 (420)
Q Consensus       246 l~~l~~~~~~~~---~--~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR-~~~~  312 (420)
                      ...-...-..+.   +  .+....+.+.+     .++.-++|+|+++..  ...+.|+..+....+.+.+|++|. ...+
T Consensus        83 ~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl  162 (576)
T PRK14965         83 TEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKV  162 (576)
T ss_pred             hcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhh
Confidence            000000000000   0  00112222222     234568999999654  345666666655455666665444 3434


Q ss_pred             hhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh-HHHHHH
Q 046970          313 FDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP-LALKVL  371 (420)
Q Consensus       313 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P-Lal~~~  371 (420)
                      ... ......+++.+++.++....+...+-.....-+  .+.+..|++.++|.. .|+..+
T Consensus       163 ~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~--~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        163 PITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISIS--DAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             hHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCC--HHHHHHHHHHcCCCHHHHHHHH
Confidence            322 223467889999999988888765532221111  244667888888865 344444

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.10  E-value=5.4e-06  Score=79.34  Aligned_cols=100  Identities=19%  Similarity=0.171  Sum_probs=62.1

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc-cccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCC
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS-EFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTL  259 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~  259 (420)
                      +.+++.. -...+..+|+|++|+||||||+.+++.+.. +|+..+|+..+++.  ...+.++++.+...+.....+....
T Consensus       159 vID~l~P-IGkGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER--~~EVtdiqrsIlg~vv~st~d~~~~  235 (416)
T PRK09376        159 IIDLIAP-IGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDER--PEEVTDMQRSVKGEVVASTFDEPAE  235 (416)
T ss_pred             eeeeecc-cccCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCc--hhHHHHHHHHhcCcEEEECCCCCHH
Confidence            4444432 234577889999999999999999998754 69999999866552  2356777777753222111111110


Q ss_pred             C------c-hHHHHHH-hcCCeEEEEEeCCCC
Q 046970          260 N------L-PEYIKER-LQQMKVFIVLDDVNK  283 (420)
Q Consensus       260 ~------~-~~~l~~~-l~~~~~LlVLDdv~~  283 (420)
                      .      . .+..+.. ..+++++|++|++..
T Consensus       236 ~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        236 RHVQVAEMVIEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEEChHH
Confidence            0      0 1111222 256899999999853

>CHL00176 ftsH cell division protein; Validated

Probab=98.09  E-value=1.9e-05  Score=81.73  Aligned_cols=170  Identities=18%  Similarity=0.232  Sum_probs=93.8

Q ss_pred             CCcccccccceeeeccc---cc-------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCH
Q 046970          169 TGSVGVNSRIRHIKSLL---HL-------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGL  238 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L---~~-------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~  238 (420)
                      .++.|.+...+++.+.+   ..       +....+-+.|+|++|+|||+||+.++......     |+.    .+    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-----~i~----is----~  249 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-----FFS----IS----G  249 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eee----cc----H
Confidence            45666665555554433   11       11224568999999999999999999875322     222    10    0


Q ss_pred             HHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCC--CC
Q 046970          239 VHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRF--GP  299 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~--~~  299 (420)
                      ..+....    .+.     .... ...+.......+++|++||++..                ..+..++..+..+  ..
T Consensus       250 s~f~~~~----~g~-----~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~  320 (638)
T CHL00176        250 SEFVEMF----VGV-----GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNK  320 (638)
T ss_pred             HHHHHHh----hhh-----hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCC
Confidence            0111100    000     0011 23344444567899999999543                1234444333222  23


Q ss_pred             CcEEEeecCChhhhh-----hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC
Q 046970          300 RSRIIVTTRDKQVFD-----ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANG  363 (420)
Q Consensus       300 g~~IIiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G  363 (420)
                      +..||.||.....+.     ....+..+.++..+.++-.++++.++-.....+   ......+++.+.|
T Consensus       321 ~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~---d~~l~~lA~~t~G  386 (638)
T CHL00176        321 GVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSP---DVSLELIARRTPG  386 (638)
T ss_pred             CeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccch---hHHHHHHHhcCCC
Confidence            556676776544322     223457889999999999999988774322111   1234566777766

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

Probab=98.09  E-value=5.4e-06  Score=75.78  Aligned_cols=92  Identities=20%  Similarity=0.151  Sum_probs=59.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc-cccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCC------c-h
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS-EFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLN------L-P  262 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~------~-~  262 (420)
                      ..+.++|.|++|+|||||++.+++.+.. +|+..+|+..+.+.  ..++.++++.+...+.....+.....      . .
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er--~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~   92 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDER--PEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVL   92 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCC--CccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHH
Confidence            4568899999999999999999997644 68889998854432  24677787777333222211111110      1 1


Q ss_pred             HHHHHH-hcCCeEEEEEeCCCCH
Q 046970          263 EYIKER-LQQMKVFIVLDDVNKP  284 (420)
Q Consensus       263 ~~l~~~-l~~~~~LlVLDdv~~~  284 (420)
                      ...... -.+++++|++|++...
T Consensus        93 ~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          93 EKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHCCCCEEEEEECHHHh
Confidence            222222 2468999999998543

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.08  E-value=1.2e-05  Score=86.36  Aligned_cols=150  Identities=15%  Similarity=0.127  Sum_probs=83.8

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-----c-cceEEEEeccccccccCHHHH
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-----F-EGECFITNVREESERVGLVHL  241 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----f-~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      ...++||+.+++++.+.|....  ..-+.++|++|+|||++|+.++.++...     . ...+|..+....         
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~--~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l---------  246 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRT--KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLL---------  246 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccc--cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHH---------
Confidence            3569999999999999987542  3345799999999999999999986432     1 233443322111         


Q ss_pred             HHHHHHHHhhccccCCCCCc-hH-HHHHHhcCCeEEEEEeCCCCHH---------HHH-HHhcCCCCCCCCcEEEeecCC
Q 046970          242 RERVLSEILEENLKIGTLNL-PE-YIKERLQQMKVFIVLDDVNKPE---------QLI-FLVGGLDRFGPRSRIIVTTRD  309 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~~~~~-~~-~l~~~l~~~~~LlVLDdv~~~~---------~l~-~l~~~~~~~~~g~~IIiTtR~  309 (420)
                      .       .+... ....+. .. .+.+.-..++.+|++|+++..-         +.. -|.+.+.  ....++|.+|..
T Consensus       247 ~-------ag~~~-~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt~  316 (821)
T CHL00095        247 L-------AGTKY-RGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATTL  316 (821)
T ss_pred             h-------ccCCC-ccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCCH
Confidence            0       00000 000111 11 1222223468999999984221         122 2223332  123455555554


Q ss_pred             hhhhh-------hcCCCeEEEeCCCCHHHHHHHHHh
Q 046970          310 KQVFD-------ECEVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       310 ~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      .....       .......++++..+.++...++..
T Consensus       317 ~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        317 DEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHH
Confidence            33211       011235678999999998888764

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

Probab=98.06  E-value=1e-05  Score=79.82  Aligned_cols=152  Identities=22%  Similarity=0.345  Sum_probs=88.0

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      .++.|.+..+++|.+.+..           +-...+.+.|+|++|+|||+||+.+++.....|-   .+..    +    
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi---~V~~----s----  251 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFL---RVVG----S----  251 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEE---EEec----c----
Confidence            4567888888888776532           1123567889999999999999999998755431   1110    0    


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCHH----------------HHHHHhcCCCCC--C
Q 046970          238 LVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKPE----------------QLIFLVGGLDRF--G  298 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~--~  298 (420)
                        .+....    .+..     ... ...+.....+.+.+|+||+++...                .+..++..+..+  .
T Consensus       252 --eL~~k~----~Ge~-----~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        252 --ELIQKY----LGDG-----PKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             --hhhhhh----cchH-----HHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence              011100    0000     000 111222223567899999874221                122233222211  2


Q ss_pred             CCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccC
Q 046970          299 PRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFR  342 (420)
Q Consensus       299 ~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~  342 (420)
                      .+..||.||.....+..     ......++++..+.++..++|..+...
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k  369 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSK  369 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhc
Confidence            35678888875544332     124568899999999999999977633

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

Probab=98.04  E-value=5.4e-05  Score=70.05  Aligned_cols=185  Identities=14%  Similarity=0.126  Sum_probs=105.7

Q ss_pred             ceeeecccccC-CCCceEEEEeccCcchHHHHHHHHHHHhhccccc------eEEEEeccccccccCHHHHHHHHHHHHh
Q 046970          178 IRHIKSLLHLG-LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEG------ECFITNVREESERVGLVHLRERVLSEIL  250 (420)
Q Consensus       178 l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~------~~~v~~~~~~~~~~~~~~l~~~ll~~l~  250 (420)
                      ++.|.++|... ....+.+.|+|.+|+|||++++++...+...++.      ++.+.    .....+...+...|+..+.
T Consensus        46 L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq----~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   46 LDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQ----MPPEPDERRFYSAILEALG  121 (302)
T ss_pred             HHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEe----cCCCCChHHHHHHHHHHhC
Confidence            34444444432 2346779999999999999999999876444432      23333    4456788899999999988


Q ss_pred             hccccCCCCCc-hHHHHHHhcC-CeEEEEEeCCCCH-----HHHHHHhcCCCCCC---CCcEEEeecCC--------hhh
Q 046970          251 EENLKIGTLNL-PEYIKERLQQ-MKVFIVLDDVNKP-----EQLIFLVGGLDRFG---PRSRIIVTTRD--------KQV  312 (420)
Q Consensus       251 ~~~~~~~~~~~-~~~l~~~l~~-~~~LlVLDdv~~~-----~~l~~l~~~~~~~~---~g~~IIiTtR~--------~~~  312 (420)
                      ........... ...+.+.++. +.-+||+|++.+.     .+-..++..+...+   .-+-|.+-|++        +++
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QL  201 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQL  201 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHH
Confidence            76543333333 3444456655 5669999999654     11122222211111   22334555543        233


Q ss_pred             hhhcCCCeEEEeCCCCHH-HHHHHHHhccc--C-CCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          313 FDECEVDSIYEVEGLNKD-ESLELFSNFAF--R-QKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       313 ~~~~~~~~~~~l~~L~~~-ea~~L~~~~a~--~-~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      ...   -..+.++....+ +...|+.....  . .....-...++++.|...++|+.--+.
T Consensus       202 a~R---F~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~  259 (302)
T PF05621_consen  202 ASR---FEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELS  259 (302)
T ss_pred             Hhc---cCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHH
Confidence            222   245566665543 44555543321  1 111222335788999999999875544

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

>PRK08116 hypothetical protein; Validated

Probab=98.04  E-value=2e-05  Score=73.19  Aligned_cols=102  Identities=24%  Similarity=0.268  Sum_probs=56.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      ..+.|+|.+|+|||.||..+++.+..+...++++.          ...++..+.......     .......+.+.+.+-
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~----------~~~ll~~i~~~~~~~-----~~~~~~~~~~~l~~~  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN----------FPQLLNRIKSTYKSS-----GKEDENEIIRSLVNA  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE----------HHHHHHHHHHHHhcc-----ccccHHHHHHHhcCC
Confidence            45889999999999999999998866544455554          222333332221111     111133344555554


Q ss_pred             eEEEEEeCCC--CHHH--HHHHhcCCC-CCCCCcEEEeecCCh
Q 046970          273 KVFIVLDDVN--KPEQ--LIFLVGGLD-RFGPRSRIIVTTRDK  310 (420)
Q Consensus       273 ~~LlVLDdv~--~~~~--l~~l~~~~~-~~~~g~~IIiTtR~~  310 (420)
                      . ||||||+.  ....  ...+...++ ....+..+||||...
T Consensus       180 d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        180 D-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             C-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            4 89999993  2211  122222211 113556799998743

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.04  E-value=2.6e-05  Score=84.13  Aligned_cols=152  Identities=12%  Similarity=0.119  Sum_probs=84.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc------cceEEEEeccccccccCHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF------EGECFITNVREESERVGLVH  240 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~v~~~~~~~~~~~~~~  240 (420)
                      ..+.++||+.+++++...|....  ...+.++|++|+|||+||+.++.++...+      ...+|..++..         
T Consensus       171 ~~~~~igr~~ei~~~~~~l~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~---------  239 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA---------  239 (852)
T ss_pred             CCCcCCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH---------
Confidence            34579999999999999886542  34556899999999999999999874431      22333321111         


Q ss_pred             HHHHHHHHHhhccccCCCCCc-hHHHHHHh-c-CCeEEEEEeCCCCHH----------HHHHHhcCCCCCCCCcEEEeec
Q 046970          241 LRERVLSEILEENLKIGTLNL-PEYIKERL-Q-QMKVFIVLDDVNKPE----------QLIFLVGGLDRFGPRSRIIVTT  307 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l-~-~~~~LlVLDdv~~~~----------~l~~l~~~~~~~~~g~~IIiTt  307 (420)
                      +..       +... ....+. ...+.+.+ . +++.+|++|+++..-          ..+.|.+.+.  ....++|.+|
T Consensus       240 l~a-------~~~~-~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~IgaT  309 (852)
T TIGR03346       240 LIA-------GAKY-RGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGAT  309 (852)
T ss_pred             Hhh-------cchh-hhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEeC
Confidence            100       0000 001111 12222222 2 368999999986432          1222333332  1223455444


Q ss_pred             CChhhhh-------hcCCCeEEEeCCCCHHHHHHHHHhc
Q 046970          308 RDKQVFD-------ECEVDSIYEVEGLNKDESLELFSNF  339 (420)
Q Consensus       308 R~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~  339 (420)
                      .......       ....-..+.++..+.++..+++...
T Consensus       310 t~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       310 TLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             cHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            4332210       0112246789999999999988754

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

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

Probab=98.02  E-value=1.8e-05  Score=73.96  Aligned_cols=150  Identities=19%  Similarity=0.260  Sum_probs=88.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ..++-|.+||+||.|||-||++++++....     |+..++        .    ++.....++..     .....+.+..
T Consensus       183 ~PPKGVLLYGPPGTGKTLLAkAVA~~T~At-----FIrvvg--------S----ElVqKYiGEGa-----RlVRelF~lA  240 (406)
T COG1222         183 DPPKGVLLYGPPGTGKTLLAKAVANQTDAT-----FIRVVG--------S----ELVQKYIGEGA-----RLVRELFELA  240 (406)
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhccCce-----EEEecc--------H----HHHHHHhccch-----HHHHHHHHHH
Confidence            356789999999999999999999986444     343111        1    12222222211     1133344444


Q ss_pred             c-CCeEEEEEeCCCCHH----------------HHHHHhcCCCCCC--CCcEEEeecCChhh-----hhhcCCCeEEEeC
Q 046970          270 Q-QMKVFIVLDDVNKPE----------------QLIFLVGGLDRFG--PRSRIIVTTRDKQV-----FDECEVDSIYEVE  325 (420)
Q Consensus       270 ~-~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~~--~g~~IIiTtR~~~~-----~~~~~~~~~~~l~  325 (420)
                      + ..++.|.+|.++...                .+-.|+..+..|.  .+.+||..|.-.+.     +..-..+..++++
T Consensus       241 rekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfp  320 (406)
T COG1222         241 REKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFP  320 (406)
T ss_pred             hhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCCcccceeecC
Confidence            4 458999999884331                2344555555444  35678877754433     4444467788998


Q ss_pred             CCCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCCh
Q 046970          326 GLNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       326 ~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      .-+.+.-.++|.-|+-+-. ...-+    .+.+++.+.|.-
T Consensus       321 lPd~~gR~~Il~IHtrkM~l~~dvd----~e~la~~~~g~s  357 (406)
T COG1222         321 LPDEEGRAEILKIHTRKMNLADDVD----LELLARLTEGFS  357 (406)
T ss_pred             CCCHHHHHHHHHHHhhhccCccCcC----HHHHHHhcCCCc
Confidence            6666667778887764322 22233    345666676664

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

Probab=97.99  E-value=1.8e-05  Score=75.70  Aligned_cols=70  Identities=24%  Similarity=0.419  Sum_probs=58.5

Q ss_pred             CCCcccEEecCccccccCcchHHHHHHHhhCCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEeccccccc
Q 046970            8 TKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASS   79 (420)
Q Consensus         8 ~~~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s   79 (420)
                      .....|||||||... ....++-|.-.|.-.|++||+|- .+..|+ +.+.+.+.|..++.+|.|+|||-...
T Consensus       609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr  679 (832)
T KOG3678|consen  609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDR  679 (832)
T ss_pred             ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHH
Confidence            456789999998753 35578888888899999999997 777775 56889999999999999999987654

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.99  E-value=0.00014  Score=68.29  Aligned_cols=128  Identities=14%  Similarity=0.132  Sum_probs=70.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcc--ccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSE--FEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ  270 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~--f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~  270 (420)
                      ..+.++|++|+|||++|+.++..+...  .....|+.    .+.    .    .++..+.+..        ...+.+.+.
T Consensus        59 ~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~----v~~----~----~l~~~~~g~~--------~~~~~~~~~  118 (284)
T TIGR02880        59 LHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVS----VTR----D----DLVGQYIGHT--------APKTKEILK  118 (284)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEE----ecH----H----HHhHhhcccc--------hHHHHHHHH
Confidence            358899999999999999988865432  11122333    111    1    1222221111        011112221


Q ss_pred             -CCeEEEEEeCCCCH-----------HHHHHHhcCCCCCCCCcEEEeecCChhhhhh--------cCCCeEEEeCCCCHH
Q 046970          271 -QMKVFIVLDDVNKP-----------EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE--------CEVDSIYEVEGLNKD  330 (420)
Q Consensus       271 -~~~~LlVLDdv~~~-----------~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~--------~~~~~~~~l~~L~~~  330 (420)
                       ...-+|+||++...           +..+.|+..+.....+.+||.++.....-..        ......+++++++.+
T Consensus       119 ~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~e  198 (284)
T TIGR02880       119 RAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEA  198 (284)
T ss_pred             HccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHH
Confidence             13468999998632           2234444444433455667776643221110        113467899999999


Q ss_pred             HHHHHHHhcc
Q 046970          331 ESLELFSNFA  340 (420)
Q Consensus       331 ea~~L~~~~a  340 (420)
                      |..+++...+
T Consensus       199 dl~~I~~~~l  208 (284)
T TIGR02880       199 ELLVIAGLML  208 (284)
T ss_pred             HHHHHHHHHH
Confidence            9999988776

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.99  E-value=0.00011  Score=69.77  Aligned_cols=193  Identities=12%  Similarity=0.089  Sum_probs=107.8

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc---------------cccceEEEEeccccc
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS---------------EFEGECFITNVREES  233 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---------------~f~~~~~v~~~~~~~  233 (420)
                      ..++|-+...+.+.+.+..+. -.....++|+.|+||+++|..+++.+-.               .++...|+...... 
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~-   81 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH-   81 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc-
Confidence            457888888888888776432 2578999999999999999999987522               12333444311000 


Q ss_pred             cccCHHHHHHHHHHHHhhccccCCCCC--chHHHHHHhc-----CCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEE
Q 046970          234 ERVGLVHLRERVLSEILEENLKIGTLN--LPEYIKERLQ-----QMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRII  304 (420)
Q Consensus       234 ~~~~~~~l~~~ll~~l~~~~~~~~~~~--~~~~l~~~l~-----~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~II  304 (420)
                      ....   +....+..............  ....+.+.+.     +++-++|+|+++..  .....|+..+...+ .+.+|
T Consensus        82 ~g~~---~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fI  157 (314)
T PRK07399         82 QGKL---ITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLI  157 (314)
T ss_pred             cccc---cchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEE
Confidence            0000   00000000000000000111  1223333333     45678999998644  34556666655544 44555


Q ss_pred             eecCCh-hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          305 VTTRDK-QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       305 iTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      ++|.+. .+++. ......+++.+++.++..+.+......... .    .....++..++|.|.....+-
T Consensus       158 Li~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~-~----~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        158 LIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEIL-N----INFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             EEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccc-h----hHHHHHHHHcCCCHHHHHHHH
Confidence            554443 44332 234578999999999999999876521110 1    113578899999997655433

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.99  E-value=0.00015  Score=75.10  Aligned_cols=191  Identities=14%  Similarity=0.096  Sum_probs=104.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|-+...+.|...+..+. -...+.++|+.|+||||+|+.++..+.......-. .       ..+.-.-...+-
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~-~-------~Cg~C~sC~~~~   85 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADG-E-------ACNECESCVAFN   85 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCC-C-------CCCcchHHHHHh
Confidence            34678999988888888886432 24668899999999999999999876311000000 0       000000000000


Q ss_pred             HHHhhc--cccCCCCCchHHHHHH--------hcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEe-ecCChhhh
Q 046970          247 SEILEE--NLKIGTLNLPEYIKER--------LQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIV-TTRDKQVF  313 (420)
Q Consensus       247 ~~l~~~--~~~~~~~~~~~~l~~~--------l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIi-TtR~~~~~  313 (420)
                      ..-...  ..+..+....+.+++.        ..+++-++|+|+++..  ...+.|+..+......+.+|+ |+....+.
T Consensus        86 ~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl  165 (614)
T PRK14971         86 EQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKIL  165 (614)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhch
Confidence            000000  0000000001111111        1234568899998654  446666666655455666555 44444444


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      .. ......+++++++.++....+.+.+-......+  .+.+..|++.++|...-+
T Consensus       166 ~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~--~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        166 PTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAE--PEALNVIAQKADGGMRDA  219 (614)
T ss_pred             HHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHH
Confidence            32 234578999999999999988876633322111  245678888888876533

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

Probab=97.98  E-value=0.00025  Score=63.70  Aligned_cols=53  Identities=17%  Similarity=0.318  Sum_probs=39.8

Q ss_pred             CCCCcccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..+.++|.|.+.+.|.+-...  ......-+.+||..|.|||+|++.+.+.....
T Consensus        25 ~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   25 RLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc
Confidence            457789999988888663321  12235567899999999999999999987554

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.98  E-value=2.6e-05  Score=71.36  Aligned_cols=181  Identities=15%  Similarity=0.204  Sum_probs=105.2

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc--cccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS--EFEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~--~f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ..+.++|-+..+.-|.+.+..  ...+....+|++|.|||+-|+.++..+-.  -|++++-=.|.   +...+..-....
T Consensus        34 t~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lna---SderGisvvr~K  108 (346)
T KOG0989|consen   34 TFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNA---SDERGISVVREK  108 (346)
T ss_pred             cHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcc---cccccccchhhh
Confidence            456788888888888887764  35778999999999999999999987633  34443321111   111111100000


Q ss_pred             H--HHHHhhccccCCCCCchHHHHHHhcCCe-EEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cC
Q 046970          245 V--LSEILEENLKIGTLNLPEYIKERLQQMK-VFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CE  317 (420)
Q Consensus       245 l--l~~l~~~~~~~~~~~~~~~l~~~l~~~~-~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~  317 (420)
                      +  +..+........         .. ...+ -.+|||+++..  +.|..|......+...++.|..+.... +... ..
T Consensus       109 ik~fakl~~~~~~~~---------~~-~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~S  178 (346)
T KOG0989|consen  109 IKNFAKLTVLLKRSD---------GY-PCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVS  178 (346)
T ss_pred             hcCHHHHhhcccccc---------CC-CCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHh
Confidence            0  001000000000         00 0122 58999999765  446777766666666777554444332 2111 12


Q ss_pred             CCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCC
Q 046970          318 VDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGN  364 (420)
Q Consensus       318 ~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~  364 (420)
                      ....+..++|..++..+-+...+-.++..-+  .+..+.|++.++|-
T Consensus       179 RC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d--~~al~~I~~~S~Gd  223 (346)
T KOG0989|consen  179 RCQKFRFKKLKDEDIVDRLEKIASKEGVDID--DDALKLIAKISDGD  223 (346)
T ss_pred             hHHHhcCCCcchHHHHHHHHHHHHHhCCCCC--HHHHHHHHHHcCCc
Confidence            3356789999999999988888754443222  25567888888775

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

Probab=97.97  E-value=0.00021  Score=67.49  Aligned_cols=198  Identities=19%  Similarity=0.164  Sum_probs=117.2

Q ss_pred             CCCCcccccccceeeecccccCCCC-ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPD-FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~-~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ..+.+.+|+.++..+..++...+.. +..|.|+|..|.|||.+.+++.+....   ..+|+.    .-+.+....+++.|
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~---~~vw~n----~~ecft~~~lle~I   76 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL---ENVWLN----CVECFTYAILLEKI   76 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC---cceeee----hHHhccHHHHHHHH
Confidence            3467899999999999999765543 556699999999999999999987622   457887    55567788888888


Q ss_pred             HHHHh-hccccC-CCC--Cc----hHHHHH--Hhc--CCeEEEEEeCCCCHHHHHH-----Hh---cCCCCCCCCcEEEe
Q 046970          246 LSEIL-EENLKI-GTL--NL----PEYIKE--RLQ--QMKVFIVLDDVNKPEQLIF-----LV---GGLDRFGPRSRIIV  305 (420)
Q Consensus       246 l~~l~-~~~~~~-~~~--~~----~~~l~~--~l~--~~~~LlVLDdv~~~~~l~~-----l~---~~~~~~~~g~~IIi  305 (420)
                      +.++. ...... ...  +.    ...+.+  ...  ++.++|||||++...+.+.     +.   ..++  .+.. .|+
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~--~~~i-~ii  153 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLN--EPTI-VII  153 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhC--CCce-EEE
Confidence            88874 221111 111  11    222222  122  3589999999976654322     11   1112  1233 333


Q ss_pred             ecCCh---hhhhhcCC--CeEEEeCCCCHHHHHHHHHhcccCCCCC--chhHHH-HHHHHHHHhcCChHHHHHHHHHh
Q 046970          306 TTRDK---QVFDECEV--DSIYEVEGLNKDESLELFSNFAFRQKIC--PKDFLV-LSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       306 TtR~~---~~~~~~~~--~~~~~l~~L~~~ea~~L~~~~a~~~~~~--~~~~~~-~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                      ++-..   .-....+.  .-.+..+.-+.+|..+++.+.-.+....  -..+.. +..-....|+ -+-.+..+.+..
T Consensus       154 ls~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~  230 (438)
T KOG2543|consen  154 LSAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLA  230 (438)
T ss_pred             EeccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHH
Confidence            33221   11221232  3456788999999999997654221110  122222 2334445565 666666666554

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.97  E-value=4.5e-05  Score=77.48  Aligned_cols=179  Identities=20%  Similarity=0.224  Sum_probs=94.2

Q ss_pred             CCCcccccccceeeecccc---c-------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          168 FTGSVGVNSRIRHIKSLLH---L-------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      ..+++|.+...+++.+++.   .       +....+-+.++|++|+|||+||+.+++.....|     +.    .+    
T Consensus        54 ~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~-----~~----i~----  120 (495)
T TIGR01241        54 FKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF-----FS----IS----  120 (495)
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCe-----ee----cc----
Confidence            3556676665554443322   1       122345688999999999999999998753322     21    10    


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCC--C
Q 046970          238 LVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRF--G  298 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~--~  298 (420)
                      ...+..    ...+.     .... ...+.......+.+|++|+++..                ..+..++..+..+  .
T Consensus       121 ~~~~~~----~~~g~-----~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       121 GSDFVE----MFVGV-----GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             HHHHHH----HHhcc-----cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence            011111    10000     0001 22233333456789999998442                1123343333222  2


Q ss_pred             CCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCC-hHHHHHH
Q 046970          299 PRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGN-PLALKVL  371 (420)
Q Consensus       299 ~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~~  371 (420)
                      .+..||.||..+..     ......+..++++..+.++-.+++..+........ .  .....+++.+.|. +--|..+
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~-~--~~l~~la~~t~G~sgadl~~l  267 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP-D--VDLKAVARRTPGFSGADLANL  267 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc-c--hhHHHHHHhCCCCCHHHHHHH
Confidence            34456666665432     22223567889999999999999987763322211 1  1234677777763 3444433

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.

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

Probab=97.97  E-value=1.6e-05  Score=83.68  Aligned_cols=152  Identities=13%  Similarity=0.158  Sum_probs=84.4

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-----c-cceEEEEeccccccccCHHHH
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-----F-EGECFITNVREESERVGLVHL  241 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----f-~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      .+.++||+.+++++.+.|....  ..-+.|+|++|+|||+||+.+++++...     + ....|..         ++.. 
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l---------~~~~-  252 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL---------DIGS-  252 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec---------cHHH-
Confidence            3569999999999999887532  2345689999999999999999875332     1 2222221         1111 


Q ss_pred             HHHHHHHHhhccccCCCCCc-hHHHHHHh-cCCeEEEEEeCCCCH----------HHHHH-HhcCCCCCCCCcEEEeecC
Q 046970          242 RERVLSEILEENLKIGTLNL-PEYIKERL-QQMKVFIVLDDVNKP----------EQLIF-LVGGLDRFGPRSRIIVTTR  308 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~~~~~-~~~l~~~l-~~~~~LlVLDdv~~~----------~~l~~-l~~~~~~~~~g~~IIiTtR  308 (420)
                         ++   .+.. -..+.+. ...+.+.+ +.++.+|++|+++..          .+... +.+.+.  ....++|-+|.
T Consensus       253 ---ll---aG~~-~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~--~g~i~vIgATt  323 (758)
T PRK11034        253 ---LL---AGTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTT  323 (758)
T ss_pred             ---Hh---cccc-hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh--CCCeEEEecCC
Confidence               10   0000 0011111 22222223 346789999998532          12222 223322  12344555444


Q ss_pred             Chhhhh-------hcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          309 DKQVFD-------ECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       309 ~~~~~~-------~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      .+....       ....-..+++++++.+++.+++....
T Consensus       324 ~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        324 YQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             hHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            332110       01122578999999999999998543

>CHL00181 cbbX CbbX; Provisional

Probab=97.92  E-value=0.00039  Score=65.26  Aligned_cols=131  Identities=13%  Similarity=0.134  Sum_probs=72.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc-c-cceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE-F-EGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f-~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ...+.++|++|+||||+|+.+++..... + ...-|+.    ++    ...    +.....+...    ......+.+  
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~----v~----~~~----l~~~~~g~~~----~~~~~~l~~--  120 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLT----VT----RDD----LVGQYIGHTA----PKTKEVLKK--  120 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEE----ec----HHH----HHHHHhccch----HHHHHHHHH--
Confidence            3458899999999999999999865321 1 1112332    11    111    2222211110    000111222  


Q ss_pred             cCCeEEEEEeCCCCH-----------HHHHHHhcCCCCCCCCcEEEeecCChhhhh--------hcCCCeEEEeCCCCHH
Q 046970          270 QQMKVFIVLDDVNKP-----------EQLIFLVGGLDRFGPRSRIIVTTRDKQVFD--------ECEVDSIYEVEGLNKD  330 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~-----------~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~--------~~~~~~~~~l~~L~~~  330 (420)
                       ...-+|++|+++..           +..+.|...+.....+.+||.++....+..        .......+.+++++.+
T Consensus       121 -a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~  199 (287)
T CHL00181        121 -AMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPE  199 (287)
T ss_pred             -ccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHH
Confidence             12359999998542           234445544443345566777765332211        1124568899999999


Q ss_pred             HHHHHHHhccc
Q 046970          331 ESLELFSNFAF  341 (420)
Q Consensus       331 ea~~L~~~~a~  341 (420)
                      +..+++...+-
T Consensus       200 el~~I~~~~l~  210 (287)
T CHL00181        200 ELLQIAKIMLE  210 (287)
T ss_pred             HHHHHHHHHHH
Confidence            99999987763

>TIGR00767 rho transcription termination factor Rho

Probab=97.92  E-value=2.7e-05  Score=75.01  Aligned_cols=92  Identities=18%  Similarity=0.140  Sum_probs=61.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-------h
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-------P  262 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-------~  262 (420)
                      ..+.++|+|++|+|||||++.+++.+..+ |+..+|+..+++.  ...+.++++.++..+.....+......       .
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER--~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~  244 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDER--PEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVI  244 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCC--CccHHHHHHHhhceEEEecCCCChHHHHHHHHHHH
Confidence            46789999999999999999999987555 8889999855432  246778888875544333222111110       1


Q ss_pred             HHHHHH-hcCCeEEEEEeCCCCH
Q 046970          263 EYIKER-LQQMKVFIVLDDVNKP  284 (420)
Q Consensus       263 ~~l~~~-l~~~~~LlVLDdv~~~  284 (420)
                      +..+.. -.+++++|++|++...
T Consensus       245 e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       245 EKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHcCCCeEEEEEChhHH
Confidence            112222 3568999999998543

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

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

Probab=97.88  E-value=0.00019  Score=70.52  Aligned_cols=118  Identities=21%  Similarity=0.223  Sum_probs=75.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCe
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMK  273 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~  273 (420)
                      ++.|.|+-++|||||++.+.......   .+++...........+    .+.+.                .+.+.-..++
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~l----~d~~~----------------~~~~~~~~~~   95 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIEL----LDLLR----------------AYIELKEREK   95 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhhH----HHHHH----------------HHHHhhccCC
Confidence            99999999999999997766655443   4444422111111111    11111                1111111267


Q ss_pred             EEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhh------cCCCeEEEeCCCCHHHHHHH
Q 046970          274 VFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE------CEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       274 ~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~------~~~~~~~~l~~L~~~ea~~L  335 (420)
                      ..++||.|.....|...+..+...++. ++++|+-+......      .|....+++-||+..|-..+
T Consensus        96 ~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~  162 (398)
T COG1373          96 SYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL  162 (398)
T ss_pred             ceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence            899999999999988877776554555 78888876654322      24457789999999998653

>PRK08181 transposase; Validated

Probab=97.87  E-value=6e-05  Score=69.73  Aligned_cols=36  Identities=22%  Similarity=0.078  Sum_probs=28.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..-+.|+|++|+|||.||..+++....+...+.|+.
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~  141 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR  141 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence            345899999999999999999997755544455554

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.85  E-value=4.4e-05  Score=62.78  Aligned_cols=35  Identities=31%  Similarity=0.419  Sum_probs=27.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+.|+|++|+||||+++.++..+.......+++.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~   37 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYID   37 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEEC
Confidence            57899999999999999999998766543344443

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.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.84  E-value=0.0009  Score=63.47  Aligned_cols=93  Identities=12%  Similarity=0.101  Sum_probs=63.1

Q ss_pred             CCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCC
Q 046970          271 QMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKIC  346 (420)
Q Consensus       271 ~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  346 (420)
                      ++.-++|+|+++..  .....|+..+..-.+++.+|++|.+. .+++. ......+.+.+++.+++.+.+....    ..
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~----~~  187 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG----VS  187 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC----CC
Confidence            34579999998654  44566776666656777777777654 34333 2345778999999999999887642    11


Q ss_pred             chhHHHHHHHHHHHhcCChHHHHHH
Q 046970          347 PKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       347 ~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      .    ..+..++..++|.|+....+
T Consensus       188 ~----~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        188 E----RAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             h----HHHHHHHHHcCCCHHHHHHH
Confidence            1    22567889999999865543

>PRK09183 transposase/IS protein; Provisional

Probab=97.82  E-value=8.6e-05  Score=68.60  Aligned_cols=36  Identities=25%  Similarity=0.157  Sum_probs=26.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+.|+|++|+|||+||..++.........+.++.
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~  137 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT  137 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            456889999999999999999887544333344443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.80  E-value=6.2e-05  Score=80.12  Aligned_cols=174  Identities=20%  Similarity=0.255  Sum_probs=92.0

Q ss_pred             CCCCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESER  235 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~  235 (420)
                      ..+++.|.+..+++|.+++..           +-...+.+.|+|++|+|||+||+.+++.....|   +.+. ...    
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~---i~i~-~~~----  247 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF---ISIN-GPE----  247 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeE---EEEe-cHH----
Confidence            345688999888888776531           113356789999999999999999998764432   1221 100    


Q ss_pred             cCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCH-------------HHHHHHhcCCCCC-CCC
Q 046970          236 VGLVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKP-------------EQLIFLVGGLDRF-GPR  300 (420)
Q Consensus       236 ~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~-------------~~l~~l~~~~~~~-~~g  300 (420)
                           +.    ....+.     .... ...+.......+.+|+||+++..             .....|+..+... ..+
T Consensus       248 -----i~----~~~~g~-----~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~  313 (733)
T TIGR01243       248 -----IM----SKYYGE-----SEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRG  313 (733)
T ss_pred             -----Hh----cccccH-----HHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCC
Confidence                 00    000000     0000 12222333456789999998432             1122333332221 123


Q ss_pred             cEEEe-ecCChhhhh-----hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh
Q 046970          301 SRIIV-TTRDKQVFD-----ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       301 ~~IIi-TtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      ..++| ||....-+.     .......+.++..+.++-.+++..+.-......   ......+++.+.|.-
T Consensus       314 ~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~---d~~l~~la~~t~G~~  381 (733)
T TIGR01243       314 RVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE---DVDLDKLAEVTHGFV  381 (733)
T ss_pred             CEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc---ccCHHHHHHhCCCCC
Confidence            33444 554332211     112346778888899998888886542211111   112456677777754

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.

>PRK12377 putative replication protein; Provisional

Probab=97.75  E-value=0.00015  Score=66.28  Aligned_cols=36  Identities=25%  Similarity=0.215  Sum_probs=29.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+.|+|.+|+|||+||..+++.+......+.++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            357889999999999999999998866554556665

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.73  E-value=0.00089  Score=67.80  Aligned_cols=129  Identities=18%  Similarity=0.210  Sum_probs=69.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccc---------eEEEEecc-ccccccCH------------HHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEG---------ECFITNVR-EESERVGL------------VHLRERVLSE  248 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~---------~~~v~~~~-~~~~~~~~------------~~l~~~ll~~  248 (420)
                      ....|+|+|++|+|||||.+.+....... .+         ..++.--. .......+            ..-.+..+..
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~-~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~  425 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPL-SGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGR  425 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccC-CceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHH
Confidence            45689999999999999999997654332 11         11111000 00000011            1222222222


Q ss_pred             Hhhccc----cCCCC---Cc-hHHHHHHhcCCeEEEEEeCC------CCHHHHHHHhcCCCCCCCCcEEEeecCChhhhh
Q 046970          249 ILEENL----KIGTL---NL-PEYIKERLQQMKVFIVLDDV------NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFD  314 (420)
Q Consensus       249 l~~~~~----~~~~~---~~-~~~l~~~l~~~~~LlVLDdv------~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~  314 (420)
                      ++-...    .+..+   +. .-.+...+-.++-+||||.-      +..+.++..+..+    +|+ ||+.|.|+....
T Consensus       426 f~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f----~Gt-vl~VSHDr~Fl~  500 (530)
T COG0488         426 FGFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDF----EGT-VLLVSHDRYFLD  500 (530)
T ss_pred             cCCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhC----CCe-EEEEeCCHHHHH
Confidence            221111    11111   11 44556667778999999965      3334444444443    454 888899998887


Q ss_pred             hcCCCeEEEeCC
Q 046970          315 ECEVDSIYEVEG  326 (420)
Q Consensus       315 ~~~~~~~~~l~~  326 (420)
                      .. ...++.+.+
T Consensus       501 ~v-a~~i~~~~~  511 (530)
T COG0488         501 RV-ATRIWLVED  511 (530)
T ss_pred             hh-cceEEEEcC
Confidence            76 356666664

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.73  E-value=0.00015  Score=77.20  Aligned_cols=171  Identities=17%  Similarity=0.242  Sum_probs=93.5

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      ..+.|.+...+.|.+.+..           +....+-+.++|++|+|||+||+.+++.....|   +.+. .        
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~f---i~v~-~--------  520 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANF---IAVR-G--------  520 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE---EEEe-h--------
Confidence            4566777666666554421           112345688999999999999999999865433   1111 0        


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCch-HHHHHHhcCCeEEEEEeCCCCH--------------HHHHHHhcCCCCC--CCC
Q 046970          238 LVHLRERVLSEILEENLKIGTLNLP-EYIKERLQQMKVFIVLDDVNKP--------------EQLIFLVGGLDRF--GPR  300 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~~-~~l~~~l~~~~~LlVLDdv~~~--------------~~l~~l~~~~~~~--~~g  300 (420)
                       .    .++....++..     ... ..+...-...+.+|++|+++..              ..+..++..+...  ..+
T Consensus       521 -~----~l~~~~vGese-----~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~  590 (733)
T TIGR01243       521 -P----EILSKWVGESE-----KAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN  590 (733)
T ss_pred             -H----HHhhcccCcHH-----HHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCC
Confidence             0    11111111100     011 1222222456899999998532              1133344443321  234


Q ss_pred             cEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCCh
Q 046970          301 SRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       301 ~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~P  365 (420)
                      .-||.||..+..+..     -..+..+.++..+.++-.++|..+.-+... ...+    ...+++.+.|.-
T Consensus       591 v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~----l~~la~~t~g~s  657 (733)
T TIGR01243       591 VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVD----LEELAEMTEGYT  657 (733)
T ss_pred             EEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHcCCCC
Confidence            456667765543321     235678899999999999999766532221 1112    345666676654

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.72  E-value=0.00024  Score=71.29  Aligned_cols=174  Identities=17%  Similarity=0.178  Sum_probs=89.8

Q ss_pred             CCcccccccceeeeccc---c-----cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHH
Q 046970          169 TGSVGVNSRIRHIKSLL---H-----LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVH  240 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L---~-----~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~  240 (420)
                      .++-|.+...+.+....   .     .+-...+-+.++|++|+|||.+|+.+++.....|    +..+..         .
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~----~~l~~~---------~  294 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPL----LRLDVG---------K  294 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCE----EEEEhH---------H
Confidence            45667665444443211   1     1223467799999999999999999998754322    111110         0


Q ss_pred             HHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH--------------HHHHHhcCCCCCCCCcEEEee
Q 046970          241 LRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE--------------QLIFLVGGLDRFGPRSRIIVT  306 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~--------------~l~~l~~~~~~~~~g~~IIiT  306 (420)
                          +.....++..    ......+...-...+++|++|+++..-              .+..++..+.....+.-||.|
T Consensus       295 ----l~~~~vGese----~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaT  366 (489)
T CHL00195        295 ----LFGGIVGESE----SRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVAT  366 (489)
T ss_pred             ----hcccccChHH----HHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEe
Confidence                1000000000    000111222223478999999985321              112222222222334456667


Q ss_pred             cCChhhh-----hhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCC
Q 046970          307 TRDKQVF-----DECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGN  364 (420)
Q Consensus       307 tR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~  364 (420)
                      |.+...+     .....+..+.++.-+.++-.++|..+..+....... ......+++.+.|.
T Consensus       367 TN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~-~~dl~~La~~T~Gf  428 (489)
T CHL00195        367 ANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWK-KYDIKKLSKLSNKF  428 (489)
T ss_pred             cCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCccc-ccCHHHHHhhcCCC
Confidence            7655432     222456788999999999999998876432211000 11134566666555

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.72  E-value=5.6e-05  Score=77.79  Aligned_cols=51  Identities=20%  Similarity=0.195  Sum_probs=41.0

Q ss_pred             CCCCcccccccceeeecccccC---CCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG---LPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ....++|-+..++++..++...   ....++++|+|++|+||||+++.++..+.
T Consensus        82 ~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        82 TQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4567889888888888887643   23457899999999999999999998653

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK06526 transposase; Provisional

Probab=97.70  E-value=8.8e-05  Score=68.20  Aligned_cols=28  Identities=25%  Similarity=0.139  Sum_probs=23.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+.|+|++|+|||+||..++......
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~  125 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQA  125 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence            4568999999999999999999876543

>PRK10536 hypothetical protein; Provisional

Probab=97.68  E-value=0.00013  Score=66.35  Aligned_cols=134  Identities=14%  Similarity=0.143  Sum_probs=71.7

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH-h-hccccceEEEEecccccc-----ccCHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ-I-SSEFEGECFITNVREESE-----RVGLVHL  241 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~-~-~~~f~~~~~v~~~~~~~~-----~~~~~~l  241 (420)
                      ..+.+|......+..++..    ...+.+.|++|.|||+||..++.+ + ...|...+.....-...+     +.++.+-
T Consensus        55 ~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK  130 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAEK  130 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHHH
Confidence            4566777777777776653    348999999999999999999874 3 444554443321111111     1122111


Q ss_pred             HHH----H---HHHHhhccc-c-C--CCCCc-hHHHHHHhcCCe---EEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEE
Q 046970          242 RER----V---LSEILEENL-K-I--GTLNL-PEYIKERLQQMK---VFIVLDDVNKP--EQLIFLVGGLDRFGPRSRII  304 (420)
Q Consensus       242 ~~~----l---l~~l~~~~~-~-~--~~~~~-~~~l~~~l~~~~---~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~II  304 (420)
                      ...    +   +..+.+... . .  ..... .-.--.+++++.   -++|+|++.+.  .+...++..   .+.++++|
T Consensus       131 ~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR---~g~~sk~v  207 (262)
T PRK10536        131 FAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTR---LGENVTVI  207 (262)
T ss_pred             HHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhh---cCCCCEEE
Confidence            111    1   111111100 0 0  00000 001123456654   59999998544  556666544   46899999


Q ss_pred             eecCC
Q 046970          305 VTTRD  309 (420)
Q Consensus       305 iTtR~  309 (420)
                      +|--.
T Consensus       208 ~~GD~  212 (262)
T PRK10536        208 VNGDI  212 (262)
T ss_pred             EeCCh
Confidence            97753

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.67  E-value=0.002  Score=57.88  Aligned_cols=176  Identities=15%  Similarity=0.136  Sum_probs=97.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-----hHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-----PEYI  265 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-----~~~l  265 (420)
                      +..++.++|.-|.|||.+++.+...+.+.=..++.++     ....+...+...+...+.....  .....     ...+
T Consensus        50 ~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~-----~~~~s~~~~~~ai~~~l~~~p~--~~~~~~~e~~~~~L  122 (269)
T COG3267          50 GQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVID-----KPTLSDATLLEAIVADLESQPK--VNVNAVLEQIDREL  122 (269)
T ss_pred             CCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEec-----CcchhHHHHHHHHHHHhccCcc--chhHHHHHHHHHHH
Confidence            4569999999999999999955554433222222222     1234455566666666655221  11111     2222


Q ss_pred             HHHh-cCCe-EEEEEeCCCCH--HHH---HHHhcCCCCCCCCcEEEeecCCh-------hhhhhc-CCCeE-EEeCCCCH
Q 046970          266 KERL-QQMK-VFIVLDDVNKP--EQL---IFLVGGLDRFGPRSRIIVTTRDK-------QVFDEC-EVDSI-YEVEGLNK  329 (420)
Q Consensus       266 ~~~l-~~~~-~LlVLDdv~~~--~~l---~~l~~~~~~~~~g~~IIiTtR~~-------~~~~~~-~~~~~-~~l~~L~~  329 (420)
                      .... ++++ ..+++|+..+.  ..+   ..|...-.....--+|+.....+       ..+... ....+ |++.|++.
T Consensus       123 ~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~  202 (269)
T COG3267         123 AALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTE  202 (269)
T ss_pred             HHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcCh
Confidence            2222 3455 89999998543  223   33332222222222344333211       001111 12234 89999999


Q ss_pred             HHHHHHHHhcccCCCCCchh-HHHHHHHHHHHhcCChHHHHHHHH
Q 046970          330 DESLELFSNFAFRQKICPKD-FLVLSKRVVDYANGNPLALKVLGS  373 (420)
Q Consensus       330 ~ea~~L~~~~a~~~~~~~~~-~~~~~~~i~~~~~G~PLal~~~~~  373 (420)
                      ++...++..+..+...+.+- ..+....|.....|.|.++..++.
T Consensus       203 ~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         203 AETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            99999888776443332222 235678899999999999987764

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.66  E-value=0.00041  Score=74.74  Aligned_cols=116  Identities=18%  Similarity=0.230  Sum_probs=63.3

Q ss_pred             CCcccccccceeeecccccC-------CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLG-------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHL  241 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      ..++|.+..++.+...+...       .....++.++|++|+|||+||+.+++.+...-...+.+. +.....       
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id-~se~~~-------  639 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRID-MSEFME-------  639 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEE-hHHhhh-------
Confidence            46889988888887766421       112357889999999999999999987643322233332 111111       


Q ss_pred             HHHHHHHHhhccccCCCCCchHHHHHHhcCC-eEEEEEeCCC--CHHHHHHHhcC
Q 046970          242 RERVLSEILEENLKIGTLNLPEYIKERLQQM-KVFIVLDDVN--KPEQLIFLVGG  293 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~-~~LlVLDdv~--~~~~l~~l~~~  293 (420)
                       ......+.+........+....+.+.++.+ .-+|+||+++  +......|+..
T Consensus       640 -~~~~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~i  693 (857)
T PRK10865        640 -KHSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQV  693 (857)
T ss_pred             -hhhHHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHH
Confidence             112223333222111111122344444333 3699999996  34444444443

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.66  E-value=0.0011  Score=61.45  Aligned_cols=24  Identities=33%  Similarity=0.343  Sum_probs=21.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+.|.|++|+|||+||+.++...
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            467799999999999999999855

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.66  E-value=0.00011  Score=66.97  Aligned_cols=36  Identities=28%  Similarity=0.252  Sum_probs=28.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+.++|.+|+|||+||..+++.+...-..++++.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it  134 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT  134 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            357889999999999999999998766544555554

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

Probab=97.66  E-value=0.00086  Score=65.01  Aligned_cols=201  Identities=16%  Similarity=0.215  Sum_probs=115.8

Q ss_pred             CCCCcccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhccccc--eEEEEeccccccccCHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEG--ECFITNVREESERVGLVHLR  242 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~--~~~v~~~~~~~~~~~~~~l~  242 (420)
                      .+..++||+.++..+.+++..  +.+....+-|.|-+|.|||.+...++.+.......  .+++.    ...-.....+.
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~in----c~sl~~~~aiF  223 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYIN----CTSLTEASAIF  223 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEe----eccccchHHHH
Confidence            347899999999999998854  34456788899999999999999999887665543  34444    11113344566


Q ss_pred             HHHHHHHhhccccCCC-CCchHHHHHHhcC--CeEEEEEeCCCCHHH--HHHHhc--CCCCCCCCcEEEeecCCh-----
Q 046970          243 ERVLSEILEENLKIGT-LNLPEYIKERLQQ--MKVFIVLDDVNKPEQ--LIFLVG--GLDRFGPRSRIIVTTRDK-----  310 (420)
Q Consensus       243 ~~ll~~l~~~~~~~~~-~~~~~~l~~~l~~--~~~LlVLDdv~~~~~--l~~l~~--~~~~~~~g~~IIiTtR~~-----  310 (420)
                      ..+...+......... .+....+.+...+  ..+|+|||..+....  -..+..  .+++ -+++|+|+..--.     
T Consensus       224 ~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~-lp~sr~iLiGiANslDlT  302 (529)
T KOG2227|consen  224 KKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPK-LPNSRIILIGIANSLDLT  302 (529)
T ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhccc-CCcceeeeeeehhhhhHH
Confidence            6666665332221111 1224444444433  368999998765432  011111  1222 2455554432111     


Q ss_pred             -hhhhhc-----CCCeEEEeCCCCHHHHHHHHHhcccCCC---CCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          311 -QVFDEC-----EVDSIYEVEGLNKDESLELFSNFAFRQK---ICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       311 -~~~~~~-----~~~~~~~l~~L~~~ea~~L~~~~a~~~~---~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                       ..+...     -....+..+|.+.++..++|..+.-...   ..+...+-.+++++.-.|.+-.||.+.-
T Consensus       303 dR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R  373 (529)
T KOG2227|consen  303 DRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCR  373 (529)
T ss_pred             HHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHH
Confidence             111111     1346778899999999999998763222   1112233345555555566666665554

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

Probab=97.65  E-value=0.00048  Score=73.28  Aligned_cols=161  Identities=15%  Similarity=0.172  Sum_probs=86.7

Q ss_pred             CCCcccccccceeeecccccC-------CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHH
Q 046970          168 FTGSVGVNSRIRHIKSLLHLG-------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVH  240 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~  240 (420)
                      ...++|-+..++.+...+...       .....++.++|++|+|||+||+.++..+...   .+.++ ..+.....    
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~---~~~~d-~se~~~~~----  524 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVH---LERFD-MSEYMEKH----  524 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCC---eEEEe-Cchhhhcc----
Confidence            356788888888887766421       1124468899999999999999999877322   22222 11111111    


Q ss_pred             HHHHHHHHHhhccccCCCCCchHHHHHHhcCC-eEEEEEeCCCCH--HHHHHHhcCCCCC-----------CCCcEEEee
Q 046970          241 LRERVLSEILEENLKIGTLNLPEYIKERLQQM-KVFIVLDDVNKP--EQLIFLVGGLDRF-----------GPRSRIIVT  306 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~-~~LlVLDdv~~~--~~l~~l~~~~~~~-----------~~g~~IIiT  306 (420)
                          ....+.+.....-..+....+.+.++.+ ..+++||+++..  +....|+..+...           -.++.||+|
T Consensus       525 ----~~~~lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~T  600 (731)
T TIGR02639       525 ----TVSRLIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMT  600 (731)
T ss_pred             ----cHHHHhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEEC
Confidence                1122222222111112223344555444 469999999643  3344444433211           123447777


Q ss_pred             cCChh--hhh--------------------hc------CCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          307 TRDKQ--VFD--------------------EC------EVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       307 tR~~~--~~~--------------------~~------~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      |....  +..                    ..      ..+.++.+++|+.++..+++....
T Consensus       601 sn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L  662 (731)
T TIGR02639       601 SNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFV  662 (731)
T ss_pred             CCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHH
Confidence            73210  000                    00      134677888888888888776543

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.64  E-value=0.00016  Score=64.12  Aligned_cols=110  Identities=15%  Similarity=0.141  Sum_probs=65.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQ  271 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~  271 (420)
                      .++.|.|++|.||||++..+...+.......++..    ...   ........ .....+..-..+... .+.++..++.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~----e~~---~E~~~~~~-~~~i~q~~vg~~~~~~~~~i~~aLr~   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTI----EDP---IEFVHESK-RSLINQREVGLDTLSFENALKAALRQ   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEE----cCC---ccccccCc-cceeeecccCCCccCHHHHHHHHhcC
Confidence            37899999999999999998887765444444432    100   00000000 000011000011122 6778888888


Q ss_pred             CeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhh
Q 046970          272 MKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVF  313 (420)
Q Consensus       272 ~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~  313 (420)
                      .+=++++|++.+.+.+...+...   ..|..++.|+......
T Consensus        74 ~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          74 DPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSAA  112 (198)
T ss_pred             CcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcHH
Confidence            88999999998887766554432   2456688888766543

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.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.63  E-value=0.0013  Score=63.07  Aligned_cols=160  Identities=11%  Similarity=0.077  Sum_probs=89.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccC--C----CC--CchH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKI--G----TL--NLPE  263 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~--~----~~--~~~~  263 (420)
                      ...+.++|+.|+||+++|..++..+--.-+..         ....+.-.-.+.+.......-..+  .    ..  +...
T Consensus        24 ~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~---------~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR   94 (334)
T PRK07993         24 HHALLIQALPGMGDDALIYALSRWLMCQQPQG---------HKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVR   94 (334)
T ss_pred             ceEEeeECCCCCCHHHHHHHHHHHHcCCCCCC---------CCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHH
Confidence            56788999999999999999998752210000         000000011111111000000000  0    00  1122


Q ss_pred             HHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCeEEEeCCCCHHHHHH
Q 046970          264 YIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDSIYEVEGLNKDESLE  334 (420)
Q Consensus       264 ~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~  334 (420)
                      .+.+.+     .+++-++|+|+++..  .....|+..+..-.+++.+|++|.+.. +++. .+....+.+.+++.+++.+
T Consensus        95 ~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~  174 (334)
T PRK07993         95 EVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALT  174 (334)
T ss_pred             HHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHH
Confidence            233332     245678999998654  456677777776667777777666543 4433 2334678999999999999


Q ss_pred             HHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          335 LFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       335 L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      .+....   ..++    +.+..++..++|.|..
T Consensus       175 ~L~~~~---~~~~----~~a~~~~~la~G~~~~  200 (334)
T PRK07993        175 WLSREV---TMSQ----DALLAALRLSAGAPGA  200 (334)
T ss_pred             HHHHcc---CCCH----HHHHHHHHHcCCCHHH
Confidence            886542   1111    2356788999999963

>PRK06921 hypothetical protein; Provisional

Probab=97.62  E-value=0.00012  Score=67.77  Aligned_cols=36  Identities=19%  Similarity=0.212  Sum_probs=29.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      ...+.++|.+|+|||+||..+++.+..+ ...++|+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            4578899999999999999999987655 44556665

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

Probab=97.62  E-value=0.00044  Score=63.85  Aligned_cols=134  Identities=22%  Similarity=0.297  Sum_probs=69.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh----ccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS----SEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIK  266 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~----~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~  266 (420)
                      .+++.++|+||.|||+|++++++++.    .+|....-+.    .    .-.++....+++.+.-      ... .+.+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE----i----nshsLFSKWFsESgKl------V~kmF~kI~  242 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE----I----NSHSLFSKWFSESGKL------VAKMFQKIQ  242 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE----E----ehhHHHHHHHhhhhhH------HHHHHHHHH
Confidence            57999999999999999999999753    3455444443    1    1222333332221111      011 34455


Q ss_pred             HHhcCC--eEEEEEeCCCCHHH-----------------HHHHhcCCCCCC--CCcEEEeecCCh-hhhh---hcCCCeE
Q 046970          267 ERLQQM--KVFIVLDDVNKPEQ-----------------LIFLVGGLDRFG--PRSRIIVTTRDK-QVFD---ECEVDSI  321 (420)
Q Consensus       267 ~~l~~~--~~LlVLDdv~~~~~-----------------l~~l~~~~~~~~--~g~~IIiTtR~~-~~~~---~~~~~~~  321 (420)
                      +.+.++  =+.+.+|.|+....                 +..++..+....  ++. +|+||.+- .-..   ....+-.
T Consensus       243 ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~Nv-liL~TSNl~~siD~AfVDRADi~  321 (423)
T KOG0744|consen  243 ELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNV-LILATSNLTDSIDVAFVDRADIV  321 (423)
T ss_pred             HHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCE-EEEeccchHHHHHHHhhhHhhhe
Confidence            555554  35677888854321                 233333322221  333 44444432 1111   1123334


Q ss_pred             EEeCCCCHHHHHHHHHhcc
Q 046970          322 YEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~~~~a  340 (420)
                      ..+++-+.+...++++.+.
T Consensus       322 ~yVG~Pt~~ai~~Ilksci  340 (423)
T KOG0744|consen  322 FYVGPPTAEAIYEILKSCI  340 (423)
T ss_pred             eecCCccHHHHHHHHHHHH
Confidence            5677777777777776553

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.62  E-value=0.00036  Score=75.36  Aligned_cols=51  Identities=18%  Similarity=0.246  Sum_probs=39.6

Q ss_pred             CCcccccccceeeecccccC-------CCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          169 TGSVGVNSRIRHIKSLLHLG-------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..++|.+..++.+...+...       .....++.++|++|+|||++|+.++..+...
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~  622 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD  622 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence            56899999999888877531       1124578899999999999999999876443

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

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

Probab=97.62  E-value=0.0022  Score=61.09  Aligned_cols=29  Identities=34%  Similarity=0.581  Sum_probs=25.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+..++|||++|+|||.+|+.++......
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            47899999999999999999999987544

>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=97.62  E-value=0.0002  Score=60.01  Aligned_cols=113  Identities=18%  Similarity=0.210  Sum_probs=62.8

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKER  268 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~  268 (420)
                      ....+++|.|.+|.|||||++.++..... ..+.+++.......--+.                  ....+. .-.+.+.
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~~~~~i~~~~~------------------lS~G~~~rv~lara   84 (144)
T cd03221          24 NPGDRIGLVGRNGAGKSTLLKLIAGELEP-DEGIVTWGSTVKIGYFEQ------------------LSGGEKMRLALAKL   84 (144)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCCC-CceEEEECCeEEEEEEcc------------------CCHHHHHHHHHHHH
Confidence            34679999999999999999999875432 345555542111110000                  111111 3445666


Q ss_pred             hcCCeEEEEEeCCC---CHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          269 LQQMKVFIVLDDVN---KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       269 l~~~~~LlVLDdv~---~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      +..++-++++|+..   +......+...+...  +..||++|.+....... .++++.+
T Consensus        85 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~~-~d~v~~l  140 (144)
T cd03221          85 LLENPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQV-ATKIIEL  140 (144)
T ss_pred             HhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHHh-CCEEEEE
Confidence            67788899999873   222222222222221  24688888877655432 3444444

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.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.61  E-value=0.0006  Score=68.66  Aligned_cols=132  Identities=20%  Similarity=0.266  Sum_probs=75.6

Q ss_pred             CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHH-HH
Q 046970          189 LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYI-KE  267 (420)
Q Consensus       189 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l-~~  267 (420)
                      .+..+-|.++|+||+|||++|+.+++...-+|-.+         ..        .++++...++..     .....+ .+
T Consensus       465 i~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsv---------kg--------pEL~sk~vGeSE-----r~ir~iF~k  522 (693)
T KOG0730|consen  465 ISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSV---------KG--------PELFSKYVGESE-----RAIREVFRK  522 (693)
T ss_pred             CCCCceEEEECCCCcchHHHHHHHhhhhcCCeeec---------cC--------HHHHHHhcCchH-----HHHHHHHHH
Confidence            35678899999999999999999999866555211         00        012222221110     001112 22


Q ss_pred             HhcCCeEEEEEeCCCCHH-------------HHHHHhcCCCCCCCCcEEEe---ecCChh----hhhhcCCCeEEEeCCC
Q 046970          268 RLQQMKVFIVLDDVNKPE-------------QLIFLVGGLDRFGPRSRIIV---TTRDKQ----VFDECEVDSIYEVEGL  327 (420)
Q Consensus       268 ~l~~~~~LlVLDdv~~~~-------------~l~~l~~~~~~~~~g~~IIi---TtR~~~----~~~~~~~~~~~~l~~L  327 (420)
                      .-+..++++.||.++...             .+..|+..+........|+|   |.|...    ++..-..+..+.++.-
T Consensus       523 AR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplP  602 (693)
T KOG0730|consen  523 ARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLP  602 (693)
T ss_pred             HhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCc
Confidence            222357899999874331             24555555544333333333   344322    2332236678888888


Q ss_pred             CHHHHHHHHHhcccC
Q 046970          328 NKDESLELFSNFAFR  342 (420)
Q Consensus       328 ~~~ea~~L~~~~a~~  342 (420)
                      +.+.-.++|+.++-+
T Consensus       603 D~~aR~~Ilk~~~kk  617 (693)
T KOG0730|consen  603 DLEARLEILKQCAKK  617 (693)
T ss_pred             cHHHHHHHHHHHHhc
Confidence            888888999988844

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.60  E-value=0.0066  Score=57.60  Aligned_cols=90  Identities=11%  Similarity=0.186  Sum_probs=62.5

Q ss_pred             CeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhhhhc-CCCeEEEeCCCCHHHHHHHHHhcccCCCCCc
Q 046970          272 MKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDEC-EVDSIYEVEGLNKDESLELFSNFAFRQKICP  347 (420)
Q Consensus       272 ~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  347 (420)
                      +.-++|+|+++..  .....|+..+..-.+++.+|++|.+. .+++.. .....+.+.+++.+++.+.+....    . +
T Consensus       108 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~----~-~  182 (319)
T PRK06090        108 GYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQG----I-T  182 (319)
T ss_pred             CceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcC----C-c
Confidence            4568899998654  45667777776666777777666654 444332 345788999999999999887642    1 1


Q ss_pred             hhHHHHHHHHHHHhcCChHHHHHH
Q 046970          348 KDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       348 ~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                           ....++..++|.|+....+
T Consensus       183 -----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        183 -----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             -----hHHHHHHHcCCCHHHHHHH
Confidence                 1246788999999876554

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.59  E-value=0.0015  Score=62.77  Aligned_cols=157  Identities=13%  Similarity=0.070  Sum_probs=83.3

Q ss_pred             ccc-ccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc--ccceEEEEeccccccccCHHHHHHHHHH
Q 046970          171 SVG-VNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE--FEGECFITNVREESERVGLVHLRERVLS  247 (420)
Q Consensus       171 ~vG-R~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--f~~~~~v~~~~~~~~~~~~~~l~~~ll~  247 (420)
                      ++| -+..++.|...+..+ .-.....++|+.|+||||+|+.+++.+-..  ....           ..+.-...+.+..
T Consensus         7 i~~~q~~~~~~L~~~~~~~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~-----------~cg~C~~c~~~~~   74 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKN-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-----------PCGTCTNCKRIDS   74 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC-----------CCCcCHHHHHHhc
Confidence            344 333444455555422 225677899999999999999999875221  0000           0000001111100


Q ss_pred             HHhhccc--cCCC----CCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hh
Q 046970          248 EILEENL--KIGT----LNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VF  313 (420)
Q Consensus       248 ~l~~~~~--~~~~----~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~  313 (420)
                      .....-.  ....    .+....+.+.+     .+.+-++|+|+++..  +..+.|+..+....+++.+|++|.+.. +.
T Consensus        75 ~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll  154 (329)
T PRK08058         75 GNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQIL  154 (329)
T ss_pred             CCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCc
Confidence            0000000  0000    00111122222     245568999998644  345667777766567777777776543 33


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhc
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNF  339 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~  339 (420)
                      +. ......+++.+++.++..+.+...
T Consensus       155 ~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        155 PTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             HHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            22 234578899999999998888754

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.57  E-value=0.0023  Score=61.29  Aligned_cols=88  Identities=11%  Similarity=0.129  Sum_probs=58.8

Q ss_pred             CeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhhhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCc
Q 046970          272 MKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQVFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICP  347 (420)
Q Consensus       272 ~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~  347 (420)
                      +.-++|+|+++..  .....|+..+..-.+++.+|++|.+ ..+++. ......+.+.+++.++..+.+....    .+.
T Consensus       132 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~----~~~  207 (342)
T PRK06964        132 GARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG----VAD  207 (342)
T ss_pred             CceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC----CCh
Confidence            4568889998644  4567777777766677776665555 444433 2345788999999999999997752    111


Q ss_pred             hhHHHHHHHHHHHhcCChHHHH
Q 046970          348 KDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       348 ~~~~~~~~~i~~~~~G~PLal~  369 (420)
                            ...++..++|.|+...
T Consensus       208 ------~~~~l~~~~Gsp~~Al  223 (342)
T PRK06964        208 ------ADALLAEAGGAPLAAL  223 (342)
T ss_pred             ------HHHHHHHcCCCHHHHH
Confidence                  1235677899996443

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.57  E-value=0.0042  Score=59.09  Aligned_cols=159  Identities=9%  Similarity=0.101  Sum_probs=90.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccC---CCCCc-hHHHH-
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKI---GTLNL-PEYIK-  266 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~---~~~~~-~~~l~-  266 (420)
                      .....++|+.|+||+++|+.++..+--.-+..         ....+.-...+.+.......-..+   ..... .+.++ 
T Consensus        24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~---------~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~   94 (325)
T PRK06871         24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQG---------DQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVRE   94 (325)
T ss_pred             ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCC---------CCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHH
Confidence            45778999999999999999998652211000         000111111111111100000000   00011 22333 


Q ss_pred             --HHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhhhh-cCCCeEEEeCCCCHHHHHHH
Q 046970          267 --ERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDE-CEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       267 --~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L  335 (420)
                        +.+     .++.-++|+|+++..  .....|+..+..-.+++.+|++|.+. .+++. ......+.+.+++.+++.+.
T Consensus        95 l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~  174 (325)
T PRK06871         95 INEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDW  174 (325)
T ss_pred             HHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHH
Confidence              222     245668889998654  44667777777666777777777665 44433 23457889999999999998


Q ss_pred             HHhcccCCCCCchhHHHHHHHHHHHhcCChH
Q 046970          336 FSNFAFRQKICPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       336 ~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      +.....   ...    ..+..++..++|.|+
T Consensus       175 L~~~~~---~~~----~~~~~~~~l~~g~p~  198 (325)
T PRK06871        175 LQAQSS---AEI----SEILTALRINYGRPL  198 (325)
T ss_pred             HHHHhc---cCh----HHHHHHHHHcCCCHH
Confidence            887641   111    124567788999996

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

Probab=97.55  E-value=0.00037  Score=63.20  Aligned_cols=123  Identities=18%  Similarity=0.248  Sum_probs=71.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc-------------c---cceEEEEecccccc--ccCH--------------
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE-------------F---EGECFITNVREESE--RVGL--------------  238 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------f---~~~~~v~~~~~~~~--~~~~--------------  238 (420)
                      ....++|+|++|.|||||.+.+..-++..             .   ..+.|+..-.....  +-.+              
T Consensus        29 ~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~  108 (254)
T COG1121          29 KGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGW  108 (254)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccc
Confidence            44799999999999999999999743221             0   12333331110000  0011              


Q ss_pred             --------HHHHHHHHHHHhhccc---cCCCCC---c-hHHHHHHhcCCeEEEEEeCC------CCHHHHHHHhcCCCCC
Q 046970          239 --------VHLRERVLSEILEENL---KIGTLN---L-PEYIKERLQQMKVFIVLDDV------NKPEQLIFLVGGLDRF  297 (420)
Q Consensus       239 --------~~l~~~ll~~l~~~~~---~~~~~~---~-~~~l~~~l~~~~~LlVLDdv------~~~~~l~~l~~~~~~~  297 (420)
                              .....+.+..+.....   .+..+.   . ...+.+.|..++=||+||.-      .....+-.++..+.. 
T Consensus       109 ~~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~-  187 (254)
T COG1121         109 FRRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQ-  187 (254)
T ss_pred             cccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHH-
Confidence                    1222233333322211   222222   2 66788889999999999964      233445566666553 


Q ss_pred             CCCcEEEeecCChhhhhh
Q 046970          298 GPRSRIIVTTRDKQVFDE  315 (420)
Q Consensus       298 ~~g~~IIiTtR~~~~~~~  315 (420)
                       .|+-||++|.|......
T Consensus       188 -eg~tIl~vtHDL~~v~~  204 (254)
T COG1121         188 -EGKTVLMVTHDLGLVMA  204 (254)
T ss_pred             -CCCEEEEEeCCcHHhHh
Confidence             48889999998766544

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

Probab=97.55  E-value=0.00023  Score=71.11  Aligned_cols=187  Identities=17%  Similarity=0.160  Sum_probs=108.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...++||-+.-...|...+..+. -.......|+-|+||||+|+.++..+--.  ..       ....+.+--...+.+.
T Consensus        14 ~F~evvGQe~v~~~L~nal~~~r-i~hAYlfsG~RGvGKTt~Ari~AkalNC~--~~-------~~~ePC~~C~~Ck~I~   83 (515)
T COG2812          14 TFDDVVGQEHVVKTLSNALENGR-IAHAYLFSGPRGVGKTTIARILAKALNCE--NG-------PTAEPCGKCISCKEIN   83 (515)
T ss_pred             cHHHhcccHHHHHHHHHHHHhCc-chhhhhhcCCCCcCchhHHHHHHHHhcCC--CC-------CCCCcchhhhhhHhhh
Confidence            44668999988888888876442 24456789999999999999999864111  00       0111122222222222


Q ss_pred             HHHhhccccCC-----CCCchHHHHHHhc-----CCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhh-h
Q 046970          247 SEILEENLKIG-----TLNLPEYIKERLQ-----QMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQV-F  313 (420)
Q Consensus       247 ~~l~~~~~~~~-----~~~~~~~l~~~l~-----~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~-~  313 (420)
                      ..-...-..++     ..+....+.+...     ++.-+.|+|.|+..  ..+..|+..+.........|..|.+.+- .
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip  163 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIP  163 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCc
Confidence            11000000111     1112333333332     34568999999654  5588888888766666666666665433 2


Q ss_pred             h-hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh
Q 046970          314 D-ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       314 ~-~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      . .......|.++.++.++....+...+-...-..  .++...-|++..+|..
T Consensus       164 ~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~--e~~aL~~ia~~a~Gs~  214 (515)
T COG2812         164 NTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINI--EEDALSLIARAAEGSL  214 (515)
T ss_pred             hhhhhccccccccCCCHHHHHHHHHHHHHhcCCcc--CHHHHHHHHHHcCCCh
Confidence            2 223457899999999999988887774333221  1234555666666643

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.53  E-value=0.0011  Score=67.25  Aligned_cols=159  Identities=14%  Similarity=0.156  Sum_probs=82.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ  270 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~  270 (420)
                      ..-|.|.|+.|+|||+||+++++.+...- -.+.+++ +.. .....+.++++.+                .....+.+.
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~-Cs~-l~~~~~e~iQk~l----------------~~vfse~~~  492 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVS-CST-LDGSSLEKIQKFL----------------NNVFSEALW  492 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEe-chh-ccchhHHHHHHHH----------------HHHHHHHHh
Confidence            46788999999999999999999876432 2223332 111 1122233443333                122344556


Q ss_pred             CCeEEEEEeCCCCHH---------------HHHHHh----cCCCCCCCCcEEEeecCChhhh-----hhcCCCeEEEeCC
Q 046970          271 QMKVFIVLDDVNKPE---------------QLIFLV----GGLDRFGPRSRIIVTTRDKQVF-----DECEVDSIYEVEG  326 (420)
Q Consensus       271 ~~~~LlVLDdv~~~~---------------~l~~l~----~~~~~~~~g~~IIiTtR~~~~~-----~~~~~~~~~~l~~  326 (420)
                      ..+-++||||++...               -+..++    ..+...+....+|.|.....-+     ...-......|+.
T Consensus       493 ~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~a  572 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPA  572 (952)
T ss_pred             hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCC
Confidence            789999999984321               011111    1111112222345555433221     1122345678999


Q ss_pred             CCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCC-hHHHHH
Q 046970          327 LNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGN-PLALKV  370 (420)
Q Consensus       327 L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~  370 (420)
                      +..++-.++++... ........ .+...-+..+|+|. |.-+++
T Consensus       573 p~~~~R~~IL~~~~-s~~~~~~~-~~dLd~ls~~TEGy~~~DL~i  615 (952)
T KOG0735|consen  573 PAVTRRKEILTTIF-SKNLSDIT-MDDLDFLSVKTEGYLATDLVI  615 (952)
T ss_pred             cchhHHHHHHHHHH-Hhhhhhhh-hHHHHHHHHhcCCccchhHHH
Confidence            99888887776544 22221111 12223366667664 444443

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

Probab=97.53  E-value=0.00012  Score=63.56  Aligned_cols=36  Identities=33%  Similarity=0.269  Sum_probs=26.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..-+.|+|.+|+|||.||..+++....+-..+.|+.
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            346889999999999999999987655444566665

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.49  E-value=0.00044  Score=61.80  Aligned_cols=44  Identities=25%  Similarity=0.273  Sum_probs=35.8

Q ss_pred             ccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          184 LLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       184 ~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +|..+-+...++.|+|++|+|||+|+.+++.....+-..++|++
T Consensus         4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237         4 LLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             hhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            45545556789999999999999999999987755556788887

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

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.49  E-value=0.0021  Score=63.17  Aligned_cols=127  Identities=24%  Similarity=0.250  Sum_probs=74.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHH-
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKER-  268 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~-  268 (420)
                      .....+.+.|++|.|||+||..++..  ..|+.+-.+.       +.++..+               ........+++. 
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~--S~FPFvKiiS-------pe~miG~---------------sEsaKc~~i~k~F  591 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS--SDFPFVKIIS-------PEDMIGL---------------SESAKCAHIKKIF  591 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh--cCCCeEEEeC-------hHHccCc---------------cHHHHHHHHHHHH
Confidence            45678889999999999999998764  4566443332       1100000               000002223332 


Q ss_pred             ---hcCCeEEEEEeCCCCHHH------------HHHHhcCCCCC-CCCcE--EEeecCChhhhhhcC----CCeEEEeCC
Q 046970          269 ---LQQMKVFIVLDDVNKPEQ------------LIFLVGGLDRF-GPRSR--IIVTTRDKQVFDECE----VDSIYEVEG  326 (420)
Q Consensus       269 ---l~~~~~LlVLDdv~~~~~------------l~~l~~~~~~~-~~g~~--IIiTtR~~~~~~~~~----~~~~~~l~~  326 (420)
                         -+..--.||+||++..-+            ++.|+-.+... .+|-|  |+-||....++..++    ....++++.
T Consensus       592 ~DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpn  671 (744)
T KOG0741|consen  592 EDAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPN  671 (744)
T ss_pred             HHhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCc
Confidence               334557899999865433            23333222222 23444  555777777887776    456789999


Q ss_pred             CCH-HHHHHHHHhcc
Q 046970          327 LNK-DESLELFSNFA  340 (420)
Q Consensus       327 L~~-~ea~~L~~~~a  340 (420)
                      ++. ++..+.++..-
T Consensus       672 l~~~~~~~~vl~~~n  686 (744)
T KOG0741|consen  672 LTTGEQLLEVLEELN  686 (744)
T ss_pred             cCchHHHHHHHHHcc
Confidence            988 67777776543

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

Probab=97.47  E-value=0.00033  Score=61.79  Aligned_cols=50  Identities=20%  Similarity=0.242  Sum_probs=39.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...++||-++.++.+.-....+  ..+-+.|.||||+||||-+..+++.+-+
T Consensus        25 ~l~dIVGNe~tv~rl~via~~g--nmP~liisGpPG~GKTTsi~~LAr~LLG   74 (333)
T KOG0991|consen   25 VLQDIVGNEDTVERLSVIAKEG--NMPNLIISGPPGTGKTTSILCLARELLG   74 (333)
T ss_pred             HHHHhhCCHHHHHHHHHHHHcC--CCCceEeeCCCCCchhhHHHHHHHHHhC
Confidence            4457899998888876655533  5677889999999999999999987643

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

Probab=97.47  E-value=0.00014  Score=61.30  Aligned_cols=64  Identities=22%  Similarity=0.373  Sum_probs=55.3

Q ss_pred             cEEecCcccccc-CcchHHHHHHHhhC-CCceeeeC-CCCC--CCcchHHHHHHhhhcceeEEEecccc
Q 046970           13 DVFLSFRGEDTR-DNFTSHLFAALRQK-RIKIFIDE-EANR--GDEISLALLNAIEGSKISIVIFSKNY   76 (420)
Q Consensus        13 dvfis~~~~d~~-~~~~~~L~~~L~~~-g~~~~~d~-~~~~--g~~~~~~i~~ai~~s~~~i~v~S~~y   76 (420)
                      -|||||+.+... ...|..|++.|++. |+.|.+|. +...  +..+..++.+.++++..+|+|.||.|
T Consensus         2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~   70 (150)
T PF08357_consen    2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY   70 (150)
T ss_pred             eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence            489999985543 46799999999999 99999998 7744  77899999999999999999999754

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

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.45  E-value=0.00048  Score=63.39  Aligned_cols=37  Identities=32%  Similarity=0.245  Sum_probs=29.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...-+.++|.+|+|||.||.++++.+...-..+.|+.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~  140 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT  140 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE
Confidence            4557889999999999999999999874434555554

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.45  E-value=0.00039  Score=66.34  Aligned_cols=35  Identities=20%  Similarity=0.267  Sum_probs=28.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+.++|.+|+|||+||..+++.+..+-..+.|+.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            56899999999999999999998765544566665

>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=97.44  E-value=0.00058  Score=59.51  Aligned_cols=129  Identities=19%  Similarity=0.247  Sum_probs=68.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHH------HHHHHHHHHhhccc---cCCCCC-
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVH------LRERVLSEILEENL---KIGTLN-  260 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~------l~~~ll~~l~~~~~---~~~~~~-  260 (420)
                      ...+++|.|.+|.|||||++.++..... ..+.+++.... ... .....      ...+++..+.-...   ...... 
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~~-~~G~v~~~g~~-~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~  100 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLKP-SSGEILLDGKD-LAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELSG  100 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEECCEE-CCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence            4679999999999999999999876433 34555554211 110 01111      11112333221111   111222 


Q ss_pred             --c-hHHHHHHhcCCeEEEEEeCCC---CHHH---HHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          261 --L-PEYIKERLQQMKVFIVLDDVN---KPEQ---LIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       261 --~-~~~l~~~l~~~~~LlVLDdv~---~~~~---l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                        . .-.+.+.+...+-+++||+..   +...   +..++..+.. ..+..||++|.+....... .+.++.+
T Consensus       101 G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~-~~~~tiii~sh~~~~~~~~-~d~~~~l  171 (180)
T cd03214         101 GERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLAR-ERGKTVVMVLHDLNLAARY-ADRVILL  171 (180)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hcCCEEEEEeCCHHHHHHh-CCEEEEE
Confidence              1 455666777889999999873   2222   3333322211 1156788899887654332 3344444

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.44  E-value=0.00042  Score=62.69  Aligned_cols=47  Identities=23%  Similarity=0.275  Sum_probs=37.1

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |.++|..+-....++.|+|.+|+|||+||.+++......-..++|++
T Consensus        12 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         12 LDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            44455545556789999999999999999999987765556778887

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.44  E-value=0.0009  Score=56.70  Aligned_cols=34  Identities=24%  Similarity=0.353  Sum_probs=26.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ++.|+|.+|+||||++..++......-..++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            3679999999999999999988765444555655

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.

>TIGR00763 lon ATP-dependent protease La

Probab=97.44  E-value=0.0023  Score=68.51  Aligned_cols=52  Identities=23%  Similarity=0.329  Sum_probs=38.6

Q ss_pred             CCcccccccceeeecccc----cCCCCceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          169 TGSVGVNSRIRHIKSLLH----LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~----~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      ...+|.+...+.+.+++.    ......+++.++|++|+|||++|+.+++.+...|
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            346788877777776553    1222346899999999999999999999875443

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

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

Probab=97.43  E-value=0.001  Score=67.73  Aligned_cols=52  Identities=21%  Similarity=0.305  Sum_probs=42.1

Q ss_pred             CCcccccccceeeeccccc----CCCCceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          169 TGSVGVNSRIRHIKSLLHL----GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .+-+|.+.-.++|.+.|..    ..-..++++++|+||+|||+|++.++.-+...|
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rkf  378 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKF  378 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCE
Confidence            4557888888888887742    223468999999999999999999999887766

>PRK04132 replication factor C small subunit; Provisional

Probab=97.42  E-value=0.0024  Score=67.80  Aligned_cols=152  Identities=14%  Similarity=0.124  Sum_probs=90.1

Q ss_pred             Eec--cCcchHHHHHHHHHHHhhc-cccc-eEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          197 IWG--MGGIGKTTFAGAIFNQISS-EFEG-ECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       197 I~G--~gGiGKTtLa~~~~~~~~~-~f~~-~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      +.|  |.++||||+|..+++.+-. .+.. ..-+.    .+...+...+ ++++........ .            -..+
T Consensus       569 ~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElN----ASd~rgid~I-R~iIk~~a~~~~-~------------~~~~  630 (846)
T PRK04132        569 IGGNLPTVLHNTTAALALARELFGENWRHNFLELN----ASDERGINVI-REKVKEFARTKP-I------------GGAS  630 (846)
T ss_pred             hcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEe----CCCcccHHHH-HHHHHHHHhcCC-c------------CCCC
Confidence            347  7899999999999998633 2322 33333    2222233322 223222211100 0            0124


Q ss_pred             eEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCch
Q 046970          273 KVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPK  348 (420)
Q Consensus       273 ~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~  348 (420)
                      .-++|+|+++..  .....|+..+......+++|++|.+.. +... ......+.+++++.++..+.+.+.+-.....-+
T Consensus       631 ~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~  710 (846)
T PRK04132        631 FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT  710 (846)
T ss_pred             CEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCC
Confidence            579999999765  355666666665556777777666543 3222 234578999999999999888776533221111


Q ss_pred             hHHHHHHHHHHHhcCChHHH
Q 046970          349 DFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       349 ~~~~~~~~i~~~~~G~PLal  368 (420)
                        ++....|++.++|.+...
T Consensus       711 --~e~L~~Ia~~s~GDlR~A  728 (846)
T PRK04132        711 --EEGLQAILYIAEGDMRRA  728 (846)
T ss_pred             --HHHHHHHHHHcCCCHHHH
Confidence              246788999999988544

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

Probab=97.41  E-value=9.3e-05  Score=72.49  Aligned_cols=104  Identities=12%  Similarity=0.159  Sum_probs=60.0

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc--cccceEEEEeccccccccCHHHHHHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS--EFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~--~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      .++++.+..++.+...|..    .+.+.++|++|+|||++|+.+++.+..  .+..+.|+.    .....+..++...+ 
T Consensus       175 ~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~Vt----FHpsySYeDFI~G~-  245 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQ----FHQSYSYEDFIQGY-  245 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEe----ecccccHHHHhccc-
Confidence            4466677777777777653    346889999999999999999988743  345555655    33333333332211 


Q ss_pred             HHHhhccccCCCC-Cc-hHHHHHHhc--CCeEEEEEeCCCCH
Q 046970          247 SEILEENLKIGTL-NL-PEYIKERLQ--QMKVFIVLDDVNKP  284 (420)
Q Consensus       247 ~~l~~~~~~~~~~-~~-~~~l~~~l~--~~~~LlVLDdv~~~  284 (420)
                         ........-. .. .+.+.+...  +++++||+|+++..
T Consensus       246 ---rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        246 ---RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             ---CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence               1111111000 11 222333222  36899999998543

>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=97.40  E-value=0.00067  Score=58.28  Aligned_cols=127  Identities=17%  Similarity=0.122  Sum_probs=65.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccc---cccccCH--HHHHHHHHHHHhhccccCCCCCc-hHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVRE---ESERVGL--VHLRERVLSEILEENLKIGTLNL-PEY  264 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~---~~~~~~~--~~l~~~ll~~l~~~~~~~~~~~~-~~~  264 (420)
                      ...+++|.|.+|.|||||++.++...... .+.+++...+.   ..+...+  ..+.+.+...   ........+. .-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~-~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~  101 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWPWG-SGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLA  101 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCC-CceEEECCCceEEEECCCCccccccHHHHhhcc---CCCCCCHHHHHHHH
Confidence            46799999999999999999998764322 33333321110   1111111  1222222110   1111111122 455


Q ss_pred             HHHHhcCCeEEEEEeCCC---CHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeC
Q 046970          265 IKERLQQMKVFIVLDDVN---KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVE  325 (420)
Q Consensus       265 l~~~l~~~~~LlVLDdv~---~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~  325 (420)
                      +.+.+..++-+++||+-.   +....+.+...+...  +..+|++|++.....  ..++++.+.
T Consensus       102 laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~--~~d~i~~l~  161 (166)
T cd03223         102 FARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK--FHDRVLDLD  161 (166)
T ss_pred             HHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh--hCCEEEEEc
Confidence            666777788899999762   222222222222222  356888888876543  245555543

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

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.40  E-value=0.0013  Score=57.23  Aligned_cols=122  Identities=20%  Similarity=0.216  Sum_probs=66.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHh--hcccc----------CCC
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEIL--EENLK----------IGT  258 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~--~~~~~----------~~~  258 (420)
                      ...+++|.|.+|.|||||++.++..... ..+.+++....       +......+-..+.  .+...          ...
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~~-------~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~   98 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDLKP-QQGEITLDGVP-------VSDLEKALSSLISVLNQRPYLFDTTLRNNLGRR   98 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCCC-CCCEEEECCEE-------HHHHHHHHHhhEEEEccCCeeecccHHHhhccc
Confidence            4578999999999999999999875432 23445544210       0000000000000  00000          111


Q ss_pred             C---Cc-hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeC
Q 046970          259 L---NL-PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVE  325 (420)
Q Consensus       259 ~---~~-~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~  325 (420)
                      .   +. .-.+.+.+-.++-+++||+..+   .   +.+..++..+   ..+..||++|++......  .++++.+.
T Consensus        99 LS~G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~---~~~~tii~~sh~~~~~~~--~d~~~~l~  170 (178)
T cd03247          99 FSGGERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEV---LKDKTLIWITHHLTGIEH--MDKILFLE  170 (178)
T ss_pred             CCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHH---cCCCEEEEEecCHHHHHh--CCEEEEEE
Confidence            1   11 4455666778889999998732   2   2233333333   235678899988876643  45555543

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.

>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=97.39  E-value=0.00046  Score=59.83  Aligned_cols=116  Identities=22%  Similarity=0.230  Sum_probs=64.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecc--ccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVR--EESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKE  267 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~--~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~  267 (420)
                      ...+++|.|++|.|||||++.++..... ..+.+.+....  -..+...                  ....+. .-.+.+
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p-~~G~i~~~g~~i~~~~q~~~------------------LSgGq~qrv~lar   84 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQLIP-NGDNDEWDGITPVYKPQYID------------------LSGGELQRVAIAA   84 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCCC-CCcEEEECCEEEEEEcccCC------------------CCHHHHHHHHHHH
Confidence            4569999999999999999998875433 23444443210  0000000                  111111 445566


Q ss_pred             HhcCCeEEEEEeCCC---CHHH---HHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeCCC
Q 046970          268 RLQQMKVFIVLDDVN---KPEQ---LIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGL  327 (420)
Q Consensus       268 ~l~~~~~LlVLDdv~---~~~~---l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~~L  327 (420)
                      .+..++-+++||+..   +...   +..++..+.. ..+..||++|.+....... .+.++.+..-
T Consensus        85 al~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~-~~~~tiiivsH~~~~~~~~-~d~i~~l~~~  148 (177)
T cd03222          85 ALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSE-EGKKTALVVEHDLAVLDYL-SDRIHVFEGE  148 (177)
T ss_pred             HHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHH-cCCCEEEEEECCHHHHHHh-CCEEEEEcCC
Confidence            677788899999863   2222   2223322211 1235688888887665533 3455555533

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.38  E-value=0.00096  Score=66.62  Aligned_cols=52  Identities=27%  Similarity=0.375  Sum_probs=40.4

Q ss_pred             CCCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          168 FTGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..++=|.+..+.+|.+++..          +-...+-|.+||++|+|||.||++++..+.--
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP  250 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP  250 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc
Confidence            45677899988888776532          22346889999999999999999999986443

>PRK07261 topology modulation protein; Provisional

Probab=97.37  E-value=0.00074  Score=58.31  Aligned_cols=23  Identities=30%  Similarity=0.484  Sum_probs=20.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|+|+|++|+||||||+.++...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

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

Probab=97.37  E-value=0.00076  Score=64.51  Aligned_cols=143  Identities=16%  Similarity=0.103  Sum_probs=76.8

Q ss_pred             cccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc---------------------cceEEEEec
Q 046970          171 SVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF---------------------EGECFITNV  229 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f---------------------~~~~~v~~~  229 (420)
                      ++|-+....++..+..........+.++|++|+||||+|..+++.+....                     +....+.  
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~--   80 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELN--   80 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEec--
Confidence            34445555555555543322344699999999999999999999875332                     1222222  


Q ss_pred             cccccccC---HHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEE
Q 046970          230 REESERVG---LVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRII  304 (420)
Q Consensus       230 ~~~~~~~~---~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~II  304 (420)
                        .+....   ..+..+++........               ..++.-++++|+++...  ....++..+......+.+|
T Consensus        81 --~s~~~~~~i~~~~vr~~~~~~~~~~---------------~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~i  143 (325)
T COG0470          81 --PSDLRKIDIIVEQVRELAEFLSESP---------------LEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFI  143 (325)
T ss_pred             --ccccCCCcchHHHHHHHHHHhccCC---------------CCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEE
Confidence              111111   1111111111110000               02457899999997653  3555666666566788888


Q ss_pred             eecCChh-hhhh-cCCCeEEEeCCCCHHHH
Q 046970          305 VTTRDKQ-VFDE-CEVDSIYEVEGLNKDES  332 (420)
Q Consensus       305 iTtR~~~-~~~~-~~~~~~~~l~~L~~~ea  332 (420)
                      ++|.+.. +... ......+++.+.+..+.
T Consensus       144 l~~n~~~~il~tI~SRc~~i~f~~~~~~~~  173 (325)
T COG0470         144 LITNDPSKILPTIRSRCQRIRFKPPSRLEA  173 (325)
T ss_pred             EEcCChhhccchhhhcceeeecCCchHHHH
Confidence            8887443 3322 22345667776444333

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.37  E-value=0.0019  Score=64.64  Aligned_cols=128  Identities=20%  Similarity=0.257  Sum_probs=78.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERLQ  270 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~  270 (420)
                      ..-|.+||++|+|||-||+++++.-.-+|     +.    +.   +.     +++..-.++..     .. .....+.-.
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NF-----is----VK---GP-----ELlNkYVGESE-----rAVR~vFqRAR~  602 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANF-----IS----VK---GP-----ELLNKYVGESE-----RAVRQVFQRARA  602 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCce-----Ee----ec---CH-----HHHHHHhhhHH-----HHHHHHHHHhhc
Confidence            56788999999999999999999876665     22    10   00     23333333211     01 222333334


Q ss_pred             CCeEEEEEeCCCCH-------------HHHHHHhcCCCCC--CCCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHH
Q 046970          271 QMKVFIVLDDVNKP-------------EQLIFLVGGLDRF--GPRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKD  330 (420)
Q Consensus       271 ~~~~LlVLDdv~~~-------------~~l~~l~~~~~~~--~~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~  330 (420)
                      ..+|+|.+|.++..             ..+..|+..+...  ..|.-||-.|.-+++     +..-..+..+-|+.-+.+
T Consensus       603 saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~  682 (802)
T KOG0733|consen  603 SAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAE  682 (802)
T ss_pred             CCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHH
Confidence            57999999998532             2245566555432  235556655543333     333345678889988999


Q ss_pred             HHHHHHHhccc
Q 046970          331 ESLELFSNFAF  341 (420)
Q Consensus       331 ea~~L~~~~a~  341 (420)
                      |-.++++...-
T Consensus       683 eR~~ILK~~tk  693 (802)
T KOG0733|consen  683 ERVAILKTITK  693 (802)
T ss_pred             HHHHHHHHHhc
Confidence            99999988773

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

Probab=97.36  E-value=0.001  Score=69.38  Aligned_cols=117  Identities=15%  Similarity=0.224  Sum_probs=74.7

Q ss_pred             CCcccccccceeeecccc-------cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLH-------LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHL  241 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~-------~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      ..++|-+..+..+.+.+.       ..+.+.......|+.|+|||.||+.++..+-+.=+.-+-+          ++.+.
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~----------DMSEy  560 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRI----------DMSEY  560 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceee----------chHHH
Confidence            567888888888766553       2233456788899999999999999999874322222222          22222


Q ss_pred             -HHHHHHHHhhccccCCCCCchHHHHHHhcCCeE-EEEEeCCC--CHHHHHHHhcCCC
Q 046970          242 -RERVLSEILEENLKIGTLNLPEYIKERLQQMKV-FIVLDDVN--KPEQLIFLVGGLD  295 (420)
Q Consensus       242 -~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~-LlVLDdv~--~~~~l~~l~~~~~  295 (420)
                       -+.-.+.+.+.++..-.-+.-..|-+..+++|+ ++.||+++  +++.++-|+..+.
T Consensus       561 ~EkHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlD  618 (786)
T COG0542         561 MEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLD  618 (786)
T ss_pred             HHHHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhc
Confidence             234456666665533333334456677778876 99999995  4455666665543

>cd01394 radB RadB

Probab=97.35  E-value=0.0006  Score=61.38  Aligned_cols=48  Identities=21%  Similarity=0.287  Sum_probs=36.6

Q ss_pred             eeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          180 HIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       180 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .|..+|..+-....++.|+|.+|+||||||.+++.....+-..++|++
T Consensus         7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            344455545556789999999999999999999987755545667775

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

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.35  E-value=0.00053  Score=73.74  Aligned_cols=50  Identities=18%  Similarity=0.230  Sum_probs=37.9

Q ss_pred             CCcccccccceeeeccccc-------CCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          169 TGSVGVNSRIRHIKSLLHL-------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ..++|-+..++.+.+.+..       ......++.++|++|+|||.||+.++..+..
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~  622 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG  622 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC
Confidence            4678888888888776531       1223457899999999999999999987643

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.35  E-value=0.00044  Score=63.02  Aligned_cols=47  Identities=21%  Similarity=0.193  Sum_probs=35.1

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |..+|..+-+...++.|+|.+|+|||+|+.+++.....+-..++|+.
T Consensus        14 LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         14 LDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             HHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            44455555566789999999999999999999765433445667776

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

Probab=97.35  E-value=0.001  Score=57.48  Aligned_cols=124  Identities=19%  Similarity=0.254  Sum_probs=66.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc---------c-CCCCC
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL---------K-IGTLN  260 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~---------~-~~~~~  260 (420)
                      ...+++|.|++|.|||||.+.++..... ..+.+++.... ... .........+ . ...+..         . ....+
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~~~-~~G~i~~~g~~-~~~-~~~~~~~~~i-~-~~~~~~~~~~~t~~e~lLS~G~  101 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLYDP-TSGEILIDGVD-LRD-LDLESLRKNI-A-YVPQDPFLFSGTIRENILSGGQ  101 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCC-CCCEEEECCEE-hhh-cCHHHHHhhE-E-EEcCCchhccchHHHHhhCHHH
Confidence            4579999999999999999999886533 34555554211 000 0000000000 0 000000         0 00011


Q ss_pred             c-hHHHHHHhcCCeEEEEEeCCCC------HHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          261 L-PEYIKERLQQMKVFIVLDDVNK------PEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       261 ~-~~~l~~~l~~~~~LlVLDdv~~------~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      . .-.+.+.+..++-+++||+...      ...+..++..+.   .+..||++|.+......  .++++.+
T Consensus       102 ~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~---~~~tii~~sh~~~~~~~--~d~~~~l  167 (171)
T cd03228         102 RQRIAIARALLRDPPILILDEATSALDPETEALILEALRALA---KGKTVIVIAHRLSTIRD--ADRIIVL  167 (171)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhc---CCCEEEEEecCHHHHHh--CCEEEEE
Confidence            1 3445666777889999998632      223334443332   34678899998876653  4555554

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.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.34  E-value=0.00021  Score=64.47  Aligned_cols=34  Identities=29%  Similarity=0.424  Sum_probs=29.7

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .++|.|.+|.|||||+..+.......|..+..+.
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            5779999999999999999999999997766664

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

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.34  E-value=0.0011  Score=62.67  Aligned_cols=36  Identities=19%  Similarity=0.317  Sum_probs=28.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .+-+.|+|..|+|||.||..+++.+..+-..+.|+.
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~  191 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH  191 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            457889999999999999999998765544455665

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

Probab=97.34  E-value=0.00086  Score=60.67  Aligned_cols=47  Identities=28%  Similarity=0.316  Sum_probs=35.3

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc------cceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF------EGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~v~  227 (420)
                      |..+|..+-....++.|+|.+|+|||+||.+++.......      ..++|+.
T Consensus         8 lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~   60 (226)
T cd01393           8 LDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID   60 (226)
T ss_pred             HHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence            3444544555678999999999999999999987654444      5667776

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.

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

Probab=97.33  E-value=0.00017  Score=58.26  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=21.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|+|.|++|+||||+|+.+++++
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999976

...

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.33  E-value=0.0059  Score=59.28  Aligned_cols=106  Identities=11%  Similarity=0.054  Sum_probs=69.7

Q ss_pred             eEEEEEeCCCCH--------HHHHHHhcCCCCCCCCcEEEeecCChhhhhh----c--CCCeEEEeCCCCHHHHHHHHHh
Q 046970          273 KVFIVLDDVNKP--------EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE----C--EVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       273 ~~LlVLDdv~~~--------~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~----~--~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      +-++|+||+...        +.+.++...+-. .+-.+||.+|-+......    +  ...+.+.|.-.+.+-|.++...
T Consensus       149 ~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv~-~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~  227 (431)
T PF10443_consen  149 RPVVVIDNFLHKAEENDFIYDKLAEWAASLVQ-NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLS  227 (431)
T ss_pred             CCEEEEcchhccCcccchHHHHHHHHHHHHHh-cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHH
Confidence            568999998321        122233322221 345678888877544322    1  2446789999999999999988


Q ss_pred             cccCCCCC-------------c-----hhHHHHHHHHHHHhcCChHHHHHHHHHhcCCC
Q 046970          339 FAFRQKIC-------------P-----KDFLVLSKRVVDYANGNPLALKVLGSFFYRKS  379 (420)
Q Consensus       339 ~a~~~~~~-------------~-----~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~~  379 (420)
                      +.......             +     ..........++.+||--.=|..+++.++...
T Consensus       228 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe  286 (431)
T PF10443_consen  228 QLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGE  286 (431)
T ss_pred             HhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCC
Confidence            87432110             0     12345567889999999999999999998743

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK04296 thymidine kinase; Provisional

Probab=97.33  E-value=0.00035  Score=61.47  Aligned_cols=110  Identities=19%  Similarity=0.096  Sum_probs=59.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhcccc--CCCCCc-hHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLK--IGTLNL-PEYIKERL  269 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~--~~~~~~-~~~l~~~l  269 (420)
                      .++.|+|++|.||||++..++.+...+...++.+. . ......+..    .+.+.+......  ...... ...+.+ .
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k-~-~~d~~~~~~----~i~~~lg~~~~~~~~~~~~~~~~~~~~-~   75 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK-P-AIDDRYGEG----KVVSRIGLSREAIPVSSDTDIFELIEE-E   75 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe-c-cccccccCC----cEecCCCCcccceEeCChHHHHHHHHh-h
Confidence            57889999999999999999998766544444442 1 001111111    122222111000  111111 222222 2


Q ss_pred             cCCeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEeecCChh
Q 046970          270 QQMKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIVTTRDKQ  311 (420)
Q Consensus       270 ~~~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIiTtR~~~  311 (420)
                      .++.-+||+|.+.-  .+++..+...+.  ..|..||+|.++..
T Consensus        76 ~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~~  117 (190)
T PRK04296         76 GEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCcc
Confidence            23556999999843  344555544432  46788999998743

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

Probab=97.33  E-value=0.0006  Score=62.14  Aligned_cols=54  Identities=17%  Similarity=0.247  Sum_probs=35.7

Q ss_pred             hHHHHHHhcCCeEEEEEeCCC------CHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVN------KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~------~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      ...+.+.|.+++-+|+||.-.      +.-.+-+++..+.. ..|.-||+++.|.+.+...
T Consensus       146 rv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~~-~~~~tvv~vlHDlN~A~ry  205 (258)
T COG1120         146 RVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLNR-EKGLTVVMVLHDLNLAARY  205 (258)
T ss_pred             HHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHHH-hcCCEEEEEecCHHHHHHh
Confidence            667788889999999999652      22223333333321 2467799999999877665

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

Probab=97.32  E-value=0.0012  Score=60.07  Aligned_cols=179  Identities=17%  Similarity=0.148  Sum_probs=99.8

Q ss_pred             CCCCcccccccceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....|||-+.-.++|.-.+..   ..+..--+.++|+||.||||||.-+++.+..++..    ....-.....++..   
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~----tsGp~leK~gDlaa---   96 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKI----TSGPALEKPGDLAA---   96 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEe----cccccccChhhHHH---
Confidence            446799998877777655532   22346689999999999999999999987554321    10000001111111   


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHHH-HHHH-hcCCC--------CCCCC-----------cE
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQ-LIFL-VGGLD--------RFGPR-----------SR  302 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~~-l~~l-~~~~~--------~~~~g-----------~~  302 (420)
                                           +...|.. .=+|.+|.++.... .+++ .+...        .-+++           +-
T Consensus        97 ---------------------iLt~Le~-~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTL  154 (332)
T COG2255          97 ---------------------ILTNLEE-GDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTL  154 (332)
T ss_pred             ---------------------HHhcCCc-CCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeE
Confidence                                 1111122 22455566643211 1111 11110        01222           33


Q ss_pred             EEeecCChhhhhhc--CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhc
Q 046970          303 IIVTTRDKQVFDEC--EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFY  376 (420)
Q Consensus       303 IIiTtR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~  376 (420)
                      |=.|||--.+....  ...-+.+++-.+.+|-.++..+.+..-...-  .++.+.+|+++..|-|.-..-+-+..+
T Consensus       155 IGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i--~~~~a~eIA~rSRGTPRIAnRLLrRVR  228 (332)
T COG2255         155 IGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEI--DEEAALEIARRSRGTPRIANRLLRRVR  228 (332)
T ss_pred             eeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCC--ChHHHHHHHHhccCCcHHHHHHHHHHH
Confidence            44688865443322  2445678999999999999998873322111  135588999999999976554444443

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

Probab=97.31  E-value=0.00041  Score=59.41  Aligned_cols=124  Identities=16%  Similarity=0.178  Sum_probs=65.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERL  269 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l  269 (420)
                      ...+++|.|.+|.|||||.+.++..... ..+.+++.... ... ........   ..+ .-.......+. .-.+.+.+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~~-~~G~v~~~g~~-~~~-~~~~~~~~---~~i-~~~~qLS~G~~qrl~laral   97 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLYKP-DSGEILVDGKE-VSF-ASPRDARR---AGI-AMVYQLSVGERQMVEIARAL   97 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEECCEE-CCc-CCHHHHHh---cCe-EEEEecCHHHHHHHHHHHHH
Confidence            4579999999999999999999875432 34555554211 110 01111000   000 00001111112 44566667


Q ss_pred             cCCeEEEEEeCCC---CHH---HHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          270 QQMKVFIVLDDVN---KPE---QLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       270 ~~~~~LlVLDdv~---~~~---~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      -.++-++++|+..   +..   .+..++..+.  ..+..||++|++....... .+.++.+
T Consensus        98 ~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~--~~~~tiii~sh~~~~~~~~-~d~~~~l  155 (163)
T cd03216          98 ARNARLLILDEPTAALTPAEVERLFKVIRRLR--AQGVAVIFISHRLDEVFEI-ADRVTVL  155 (163)
T ss_pred             hcCCCEEEEECCCcCCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCHHHHHHh-CCEEEEE
Confidence            7788899999873   222   2333332222  2366788999887654432 3344444

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.31  E-value=0.00072  Score=72.84  Aligned_cols=132  Identities=15%  Similarity=0.157  Sum_probs=72.0

Q ss_pred             CCcccccccceeeeccccc-------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHL-------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHL  241 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      ..++|-+..++.+...+..       .......+.++|++|+|||+||+.+++.+...-...+-++ ..+.......   
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d-~s~~~~~~~~---  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLD-MSEYMEKHTV---  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEE-chhccccccH---
Confidence            5688988888888776642       1112346779999999999999999987643322222222 2221111111   


Q ss_pred             HHHHHHHHhhccccCCCCCchHHHHHHhcCCe-EEEEEeCCCCH--HHHHHHhcCCCCC-----------CCCcEEEeec
Q 046970          242 RERVLSEILEENLKIGTLNLPEYIKERLQQMK-VFIVLDDVNKP--EQLIFLVGGLDRF-----------GPRSRIIVTT  307 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~-~LlVLDdv~~~--~~l~~l~~~~~~~-----------~~g~~IIiTt  307 (420)
                           ..+.+.....-..+....+.+.++.++ .+++||+++..  +..+.|+..+...           ..++-+|+||
T Consensus       585 -----~~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Ts  659 (821)
T CHL00095        585 -----SKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTS  659 (821)
T ss_pred             -----HHhcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeC
Confidence                 112222221111122334556666555 69999999643  4445555444321           1345577776


Q ss_pred             CC
Q 046970          308 RD  309 (420)
Q Consensus       308 R~  309 (420)
                      ..
T Consensus       660 n~  661 (821)
T CHL00095        660 NL  661 (821)
T ss_pred             Cc
Confidence            63

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

Probab=97.31  E-value=0.0011  Score=59.27  Aligned_cols=61  Identities=20%  Similarity=0.287  Sum_probs=41.3

Q ss_pred             hHHHHHHhcCCeEEEEEeCC------CCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeC
Q 046970          262 PEYIKERLQQMKVFIVLDDV------NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVE  325 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv------~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~  325 (420)
                      .-.+.+.|...|-+|+.|+-      .+...+-.++..+.. ..|..||+.|.|+.++..  .+..+.+.
T Consensus       150 RVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~-~~g~tii~VTHd~~lA~~--~dr~i~l~  216 (226)
T COG1136         150 RVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNK-ERGKTIIMVTHDPELAKY--ADRVIELK  216 (226)
T ss_pred             HHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHH-hcCCEEEEEcCCHHHHHh--CCEEEEEe
Confidence            66788889999999999965      223344444444321 247789999999998876  34555554

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.31  E-value=0.0051  Score=58.71  Aligned_cols=67  Identities=10%  Similarity=0.097  Sum_probs=41.5

Q ss_pred             eEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCeEEEeCCCCHHHHHHHHHhc
Q 046970          273 KVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDSIYEVEGLNKDESLELFSNF  339 (420)
Q Consensus       273 ~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~  339 (420)
                      +-++|+|+++..  .....++..+.....++.+|++|.+.. +... ......+.+.+++.+++.+.+...
T Consensus       114 ~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        114 LRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             ceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            345566877543  334444444443345676777887754 3322 123467899999999999888664

>PRK08118 topology modulation protein; Reviewed

Probab=97.29  E-value=0.00025  Score=60.96  Aligned_cols=33  Identities=21%  Similarity=0.370  Sum_probs=26.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhc---cccceEEE
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISS---EFEGECFI  226 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~---~f~~~~~v  226 (420)
                      .|.|+|++|+||||||+.+++.+.-   +++..+|-
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~   38 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK   38 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence            5789999999999999999997633   35555553

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

Probab=97.28  E-value=0.00067  Score=61.66  Aligned_cols=123  Identities=17%  Similarity=0.144  Sum_probs=72.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecc--ccccccCHHHHHHHHHHHHhhccc-------cCCCCCc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVR--EESERVGLVHLRERVLSEILEENL-------KIGTLNL  261 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~--~~~~~~~~~~l~~~ll~~l~~~~~-------~~~~~~~  261 (420)
                      +..+++|+|.+|+|||||++.+..-.... .+.+++.+-.  ... .....+...+++........       .....+.
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt-~G~i~f~g~~i~~~~-~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT-SGEILFEGKDITKLS-KEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC-CceEEEcCcchhhcc-hhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            46799999999999999999998865543 2334433111  011 11223334444444432221       2223333


Q ss_pred             -hHHHHHHhcCCeEEEEEeCCCCH------HHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 -PEYIKERLQQMKVFIVLDDVNKP------EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 -~~~l~~~l~~~~~LlVLDdv~~~------~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                       .-.+.+.|.-++-++|.|...+.      .++-.++..+.. ..|...|..|.|-.+...+
T Consensus       116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~-~~~lt~lFIsHDL~vv~~i  176 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQE-ELGLTYLFISHDLSVVRYI  176 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHH-HhCCeEEEEEEEHHhhhhh
Confidence             66778888999999999976322      334444444332 2355677778887776654

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

Probab=97.27  E-value=0.002  Score=68.63  Aligned_cols=80  Identities=19%  Similarity=0.175  Sum_probs=53.9

Q ss_pred             CchhhHHHHHHHHHHHhhhcccccc----------cCCCCcccccccceeeeccccc----CCCCceEEEEeccCcchHH
Q 046970          141 MRPEARLVDEIVKDIMKKLKDKLLS----------RDFTGSVGVNSRIRHIKSLLHL----GLPDFRIVGIWGMGGIGKT  206 (420)
Q Consensus       141 ~~~e~~~i~~i~~~v~~~l~~~~~~----------~~~~~~vGR~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKT  206 (420)
                      .+.|+..+....+.+....+.....          .-..+.+|.+...+.|.++|..    +.....+++++|++|+|||
T Consensus       284 ~~~e~~~~~~yl~~~~~~pw~~~~~~~~~~~~~~~~l~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKT  363 (784)
T PRK10787        284 MSAEATVVRGYIDWMVQVPWNARSKVKKDLRQAQEILDTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKT  363 (784)
T ss_pred             CCchHHHHHHHHHHHHhCCCCCCCcccccHHHHHHHhhhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHH
Confidence            3346777777776665544333221          0123578888888888877752    2234568999999999999


Q ss_pred             HHHHHHHHHhhccc
Q 046970          207 TFAGAIFNQISSEF  220 (420)
Q Consensus       207 tLa~~~~~~~~~~f  220 (420)
                      |+++.++..+...|
T Consensus       364 tl~~~ia~~l~~~~  377 (784)
T PRK10787        364 SLGQSIAKATGRKY  377 (784)
T ss_pred             HHHHHHHHHhCCCE
Confidence            99999998765443

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

Probab=97.27  E-value=0.0012  Score=59.36  Aligned_cols=171  Identities=18%  Similarity=0.206  Sum_probs=96.0

Q ss_pred             CCccccccccee---eeccccc----CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHH
Q 046970          169 TGSVGVNSRIRH---IKSLLHL----GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHL  241 (420)
Q Consensus       169 ~~~vGR~~~l~~---l~~~L~~----~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      ++.||-+....+   |.+.|..    +...++-|..+|++|.|||.+|+++++....-|     +.    +.        
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~-----l~----vk--------  183 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL-----LL----VK--------  183 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce-----EE----ec--------
Confidence            456665543332   2333432    223478899999999999999999998753322     21    00        


Q ss_pred             HHHHHHHHhhccccCCCCCchHHHH-HHhcCCeEEEEEeCCCCH--------------HHHHHHhcCCCCC--CCCcEEE
Q 046970          242 RERVLSEILEENLKIGTLNLPEYIK-ERLQQMKVFIVLDDVNKP--------------EQLIFLVGGLDRF--GPRSRII  304 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~~~~~~~~l~-~~l~~~~~LlVLDdv~~~--------------~~l~~l~~~~~~~--~~g~~II  304 (420)
                      ..+++..-.+..     ......+- +.-+.-+|++.+|.++..              +.+.+|+..+...  +.|...|
T Consensus       184 at~liGehVGdg-----ar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtI  258 (368)
T COG1223         184 ATELIGEHVGDG-----ARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTI  258 (368)
T ss_pred             hHHHHHHHhhhH-----HHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEE
Confidence            011221111110     00122222 222346899999987433              2245565554422  4566677


Q ss_pred             eecCChhhhhhc---CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCC
Q 046970          305 VTTRDKQVFDEC---EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGN  364 (420)
Q Consensus       305 iTtR~~~~~~~~---~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~  364 (420)
                      ..|.++.++...   ...+-++...-+++|-.+++..++-.-..+..   .-.+.++++.+|+
T Consensus       259 aaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~---~~~~~~~~~t~g~  318 (368)
T COG1223         259 AATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVD---ADLRYLAAKTKGM  318 (368)
T ss_pred             eecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccc---cCHHHHHHHhCCC
Confidence            777776665432   24456777778899999999988833222221   1245677777776

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.27  E-value=0.0028  Score=53.63  Aligned_cols=114  Identities=17%  Similarity=0.163  Sum_probs=59.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhh----ccccC--CCCCc-----
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILE----ENLKI--GTLNL-----  261 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~----~~~~~--~~~~~-----  261 (420)
                      ..|-|++.+|.||||+|...+-+...+-..+.++--+... ...+-..+++.+ ..+.-    .....  .+...     
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~-~~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~a   80 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGG-WKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAAA   80 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCC-CccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHHH
Confidence            3677888889999999999998865554444443322211 112222333322 00000    00000  11111     


Q ss_pred             ---hHHHHHHhcC-CeEEEEEeCCCC--------HHHHHHHhcCCCCCCCCcEEEeecCChh
Q 046970          262 ---PEYIKERLQQ-MKVFIVLDDVNK--------PEQLIFLVGGLDRFGPRSRIIVTTRDKQ  311 (420)
Q Consensus       262 ---~~~l~~~l~~-~~~LlVLDdv~~--------~~~l~~l~~~~~~~~~g~~IIiTtR~~~  311 (420)
                         .+..++.+.. +-=|||||++..        .+.+..++...   .++..+|+|.|+..
T Consensus        81 ~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~r---p~~~evIlTGr~~p  139 (159)
T cd00561          81 AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAK---PEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcC---CCCCEEEEECCCCC
Confidence               2223333444 345999998832        33444454443   46778999999864

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.

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

Probab=97.26  E-value=0.0014  Score=60.41  Aligned_cols=92  Identities=16%  Similarity=0.187  Sum_probs=57.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc----cCCCCCc-----
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL----KIGTLNL-----  261 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~----~~~~~~~-----  261 (420)
                      ..+.++|.|.+|.|||||+..+++..+.+|+..+++..+++..  ..+.++.+.+...-.....    ...+...     
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~--~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  145 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERT--REGNDLYHEMKESGVLSKTALVYGQMNEPPGARAR  145 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCc--HHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            4578899999999999999999999988888778777665432  2344455544332111100    1111100     


Q ss_pred             ----hHHHHHHh--c-CCeEEEEEeCCCCH
Q 046970          262 ----PEYIKERL--Q-QMKVFIVLDDVNKP  284 (420)
Q Consensus       262 ----~~~l~~~l--~-~~~~LlVLDdv~~~  284 (420)
                          .-.+.+++  + ++++|+++||+...
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence                12344455  3 78999999998543

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.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.25  E-value=0.0017  Score=57.35  Aligned_cols=115  Identities=24%  Similarity=0.320  Sum_probs=53.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh--hccccceEEEEeccccccccC--HHHHHHHH---HHHHhhccccCCCCCchHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI--SSEFEGECFITNVREESERVG--LVHLRERV---LSEILEENLKIGTLNLPEY  264 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~--~~~f~~~~~v~~~~~~~~~~~--~~~l~~~l---l~~l~~~~~~~~~~~~~~~  264 (420)
                      ..++.+.|++|.|||.||.+.+-+.  ..+|+..++....-+....-+  ..++.+.+   +..+...-...-.....+.
T Consensus        19 ~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p~~d~l~~~~~~~~~~~   98 (205)
T PF02562_consen   19 NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRPIYDALEELFGKEKLEE   98 (205)
T ss_dssp             -SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHHHHHHHTTTS-TTCHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHHHHHHHHHHhChHhHHH
Confidence            4589999999999999999998643  466777777764432211111  11111111   1111000000001111222


Q ss_pred             HHH----------HhcCC---eEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEeecCC
Q 046970          265 IKE----------RLQQM---KVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIVTTRD  309 (420)
Q Consensus       265 l~~----------~l~~~---~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIiTtR~  309 (420)
                      +.+          .++++   ..++|+|++.+  ..++..++..   .+.+|++|++--.
T Consensus        99 ~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~GD~  155 (205)
T PF02562_consen   99 LIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKIIITGDP  155 (205)
T ss_dssp             HHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE--
T ss_pred             HhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEEEecCc
Confidence            221          23443   57999999944  4577777655   4789999998753

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.25  E-value=0.0027  Score=66.51  Aligned_cols=128  Identities=19%  Similarity=0.182  Sum_probs=72.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQ  271 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~  271 (420)
                      +-+.|+|++|+|||++|+.++......|   +.+. .         ..+....    .+.     .... ...+......
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~f---~~is-~---------~~~~~~~----~g~-----~~~~~~~~f~~a~~~  243 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTIS-G---------SDFVEMF----VGV-----GASRVRDMFEQAKKA  243 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCE---EEEe-h---------HHhHHhh----hcc-----cHHHHHHHHHHHHhc
Confidence            3488999999999999999988764433   1111 0         0011000    000     0001 2222333345


Q ss_pred             CeEEEEEeCCCCHH----------------HHHHHhcCCCCCC--CCcEEEeecCChhhhhh-----cCCCeEEEeCCCC
Q 046970          272 MKVFIVLDDVNKPE----------------QLIFLVGGLDRFG--PRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLN  328 (420)
Q Consensus       272 ~~~LlVLDdv~~~~----------------~l~~l~~~~~~~~--~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~  328 (420)
                      .+++|++|+++...                .+..++..+..+.  .+.-+|.||..+..+..     -..+..+.++..+
T Consensus       244 ~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd  323 (644)
T PRK10733        244 APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD  323 (644)
T ss_pred             CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCC
Confidence            68999999985431                2334443333222  34445557766544322     1346778899889


Q ss_pred             HHHHHHHHHhcccC
Q 046970          329 KDESLELFSNFAFR  342 (420)
Q Consensus       329 ~~ea~~L~~~~a~~  342 (420)
                      .++-.+++..+...
T Consensus       324 ~~~R~~Il~~~~~~  337 (644)
T PRK10733        324 VRGREQILKVHMRR  337 (644)
T ss_pred             HHHHHHHHHHHhhc
Confidence            88888888877643

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.0055  Score=59.49  Aligned_cols=151  Identities=19%  Similarity=0.168  Sum_probs=81.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc-
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ-  270 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~-  270 (420)
                      .|--.++|+||.|||++..++++.+  .|+  ++.-.+.++...                           ..|++.|. 
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L--~yd--IydLeLt~v~~n---------------------------~dLr~LL~~  283 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYL--NYD--IYDLELTEVKLD---------------------------SDLRHLLLA  283 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhc--CCc--eEEeeeccccCc---------------------------HHHHHHHHh
Confidence            4567899999999999999999875  222  222212111111                           11333332 


Q ss_pred             -CCeEEEEEeCCCCHHH--------------------HHHHhcCCC---CCCCCcEEE-eecCChhhh-----hhcCCCe
Q 046970          271 -QMKVFIVLDDVNKPEQ--------------------LIFLVGGLD---RFGPRSRII-VTTRDKQVF-----DECEVDS  320 (420)
Q Consensus       271 -~~~~LlVLDdv~~~~~--------------------l~~l~~~~~---~~~~g~~II-iTtR~~~~~-----~~~~~~~  320 (420)
                       ..+-+||+.|++..-+                    +.-|+..+.   ....+-||| .||...+-+     ..-..+-
T Consensus       284 t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDm  363 (457)
T KOG0743|consen  284 TPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDM  363 (457)
T ss_pred             CCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCccee
Confidence             2455666666632210                    111222222   111234655 577654432     2223556


Q ss_pred             EEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHH-hcCC
Q 046970          321 IYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSF-FYRK  378 (420)
Q Consensus       321 ~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~-L~~~  378 (420)
                      .+.+.--+.+.-..|+..+...+. +.    .++.+|.+...|.-+.=..++.. +..+
T Consensus       364 hI~mgyCtf~~fK~La~nYL~~~~-~h----~L~~eie~l~~~~~~tPA~V~e~lm~~~  417 (457)
T KOG0743|consen  364 HIYMGYCTFEAFKTLASNYLGIEE-DH----RLFDEIERLIEETEVTPAQVAEELMKNK  417 (457)
T ss_pred             EEEcCCCCHHHHHHHHHHhcCCCC-Cc----chhHHHHHHhhcCccCHHHHHHHHhhcc
Confidence            778999999999999999885433 22    33455555555655544444444 4444

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.24  E-value=0.0019  Score=55.14  Aligned_cols=115  Identities=17%  Similarity=0.148  Sum_probs=62.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc--------------------ccceEEEEeccccccccCHHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE--------------------FEGECFITNVREESERVGLVHLRERVLSEILE  251 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~  251 (420)
                      ...+.++|+.|+||+++|..+++.+-..                    ++...|+.... ....-.+..           
T Consensus        19 ~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~-~~~~i~i~~-----------   86 (162)
T PF13177_consen   19 PHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDK-KKKSIKIDQ-----------   86 (162)
T ss_dssp             -SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTT-SSSSBSHHH-----------
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEeccc-ccchhhHHH-----------
Confidence            5578899999999999999999875221                    22223332000 000011111           


Q ss_pred             ccccCCCCCchHHHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhh-hhh-cCCCeEE
Q 046970          252 ENLKIGTLNLPEYIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQV-FDE-CEVDSIY  322 (420)
Q Consensus       252 ~~~~~~~~~~~~~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~-~~~-~~~~~~~  322 (420)
                                ...+.+.+     .++.-++|+||++..  +....|+..+.....++.+|++|++..- ++. ......+
T Consensus        87 ----------ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i  156 (162)
T PF13177_consen   87 ----------IREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVI  156 (162)
T ss_dssp             ----------HHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEE
T ss_pred             ----------HHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEE
Confidence                      12222222     235678999999653  4456666666666688888888887653 222 2344667


Q ss_pred             EeCCCC
Q 046970          323 EVEGLN  328 (420)
Q Consensus       323 ~l~~L~  328 (420)
                      .+++|+
T Consensus       157 ~~~~ls  162 (162)
T PF13177_consen  157 RFRPLS  162 (162)
T ss_dssp             EE----
T ss_pred             ecCCCC
Confidence            777664

...

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.23  E-value=0.0014  Score=62.99  Aligned_cols=90  Identities=20%  Similarity=0.168  Sum_probs=53.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCC------chH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLN------LPE  263 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~------~~~  263 (420)
                      ..+.++|+|.+|+|||||++.+++.+..+. +..+++.-+.+  ....+.++.+.+...+.....+.....      ...
T Consensus       132 kGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgE--R~~EV~df~~~i~~~Vvast~de~~~~~~~v~~~~~  209 (380)
T PRK12608        132 KGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDE--RPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVL  209 (380)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecC--CCCCHHHHHHHHhhhEEeecCCCCHHHHHHHHHHHH
Confidence            346779999999999999999999876654 33333332322  234566777777664443221111111      111


Q ss_pred             HHHHHh--cCCeEEEEEeCCC
Q 046970          264 YIKERL--QQMKVFIVLDDVN  282 (420)
Q Consensus       264 ~l~~~l--~~~~~LlVLDdv~  282 (420)
                      .+.+++  .+++++||+|++.
T Consensus       210 ~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        210 ERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             HHHHHHHHcCCCEEEEEeCcH
Confidence            122222  4689999999984

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.19  E-value=0.00095  Score=64.81  Aligned_cols=49  Identities=20%  Similarity=0.251  Sum_probs=36.9

Q ss_pred             eeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          179 RHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       179 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .+|.+.|..+-....++.|.|.+|+|||||+.+++......-..++|+.
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3444555544455789999999999999999999987766545566765

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.

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

Probab=97.19  E-value=0.00058  Score=58.70  Aligned_cols=79  Identities=16%  Similarity=0.191  Sum_probs=44.1

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcC--C
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQ--M  272 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~--~  272 (420)
                      +.|.|.+|.|||++|.+++..   .....+++.    .....+. ++.+.+..............+....+.+.+.+  +
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~---~~~~~~y~a----t~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~   73 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE---LGGPVTYIA----TAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKELDP   73 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh---cCCCeEEEE----ccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCC
Confidence            679999999999999999865   223555664    2222222 34444433322222223333334445555532  2


Q ss_pred             eEEEEEeCC
Q 046970          273 KVFIVLDDV  281 (420)
Q Consensus       273 ~~LlVLDdv  281 (420)
                      .-.+++|.+
T Consensus        74 ~~~VLIDcl   82 (169)
T cd00544          74 GDVVLIDCL   82 (169)
T ss_pred             CCEEEEEcH
Confidence            347999976

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.

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

Probab=97.19  E-value=0.002  Score=68.11  Aligned_cols=49  Identities=14%  Similarity=0.172  Sum_probs=37.9

Q ss_pred             CCcccccccceeeeccccc-------CCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          169 TGSVGVNSRIRHIKSLLHL-------GLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..++|-+..++.|...+..       .......+.++|++|+|||+||+.++..+.
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578988888888776652       112245788999999999999999998773

>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=97.18  E-value=0.0018  Score=56.08  Aligned_cols=125  Identities=19%  Similarity=0.249  Sum_probs=63.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEec-cccccc-c-CHHHHHHHHHHHHhhcc--c--cCCCCCc-
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNV-REESER-V-GLVHLRERVLSEILEEN--L--KIGTLNL-  261 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~-~~~~~~-~-~~~~l~~~ll~~l~~~~--~--~~~~~~~-  261 (420)
                      ....+++|.|++|+|||||.+.+...     .+.+.+... ...... . -+..  .+++..+.-..  .  ....... 
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il~~-----~G~v~~~~~~~~~~~~~~~~~~q--~~~l~~~~L~~~~~~~~~~~LSgG   91 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGLYA-----SGKARLISFLPKFSRNKLIFIDQ--LQFLIDVGLGYLTLGQKLSTLSGG   91 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhc-----CCcEEECCcccccccccEEEEhH--HHHHHHcCCCccccCCCcCcCCHH
Confidence            34579999999999999999988531     111111100 000000 0 0000  23333333211  1  1122221 


Q ss_pred             ---hHHHHHHhcCC--eEEEEEeCCC---CHHH---HHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeC
Q 046970          262 ---PEYIKERLQQM--KVFIVLDDVN---KPEQ---LIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVE  325 (420)
Q Consensus       262 ---~~~l~~~l~~~--~~LlVLDdv~---~~~~---l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~  325 (420)
                         .-.+.+.+..+  +-+++||+..   +...   +..++..+.  ..|..||++|++......  .+.++.+.
T Consensus        92 q~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~--~~g~tvIivSH~~~~~~~--~d~i~~l~  162 (176)
T cd03238          92 ELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLI--DLGNTVILIEHNLDVLSS--ADWIIDFG  162 (176)
T ss_pred             HHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHH--hCCCEEEEEeCCHHHHHh--CCEEEEEC
Confidence               34455566667  8899999862   2222   223332221  246678899998876542  55666553

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.

>PHA00729 NTP-binding motif containing protein

Probab=97.17  E-value=0.0016  Score=58.18  Aligned_cols=26  Identities=35%  Similarity=0.468  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+.|+|.+|+||||||..+++++.
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34688999999999999999998763

>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=97.16  E-value=0.0012  Score=58.19  Aligned_cols=36  Identities=19%  Similarity=0.327  Sum_probs=27.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ++++.++|+.|+||||.+..++.+...+-..+..+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis   36 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS   36 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeec
Confidence            368999999999999999999988765533444444

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 ....

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.14  E-value=0.00051  Score=57.19  Aligned_cols=37  Identities=24%  Similarity=0.308  Sum_probs=28.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcc-ccc-eEEEEec
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSE-FEG-ECFITNV  229 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~-~~~v~~~  229 (420)
                      --+.|+|+||+|||||+..+++.++.. |.. .+|..-+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EV   44 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEV   44 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeee
Confidence            357899999999999999999988766 653 3444433

>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=97.13  E-value=0.002  Score=55.78  Aligned_cols=126  Identities=17%  Similarity=0.218  Sum_probs=65.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhcccc------------CC
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLK------------IG  257 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~------------~~  257 (420)
                      ....+++|.|.+|.|||||++.++..... ..+.+++.... ... .. ......+ . ...+...            ..
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~~-~~~-~~-~~~~~~i-~-~~~q~~~~~~~~tv~~~~~LS   97 (173)
T cd03230          24 EKGEIYGLLGPNGAGKTTLIKIILGLLKP-DSGEIKVLGKD-IKK-EP-EEVKRRI-G-YLPEEPSLYENLTVRENLKLS   97 (173)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEECCEE-ccc-ch-HhhhccE-E-EEecCCccccCCcHHHHhhcC
Confidence            34679999999999999999999875432 34445543211 000 00 0000000 0 0000000            11


Q ss_pred             CCCc-hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          258 TLNL-PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       258 ~~~~-~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      ..+. .-.+.+.+..++-++++|+...   .   ..+..++..+.  ..|..+|++|.+....... .+.++.+
T Consensus        98 ~G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~--~~g~tiii~th~~~~~~~~-~d~i~~l  168 (173)
T cd03230          98 GGMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELK--KEGKTILLSSHILEEAERL-CDRVAIL  168 (173)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHH--HCCCEEEEECCCHHHHHHh-CCEEEEE
Confidence            1111 3456667778899999998732   2   22333333322  2356789999888765533 3445444

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.

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

Probab=97.13  E-value=0.003  Score=54.28  Aligned_cols=53  Identities=9%  Similarity=0.203  Sum_probs=37.9

Q ss_pred             hHHHHHHhcCCeEEEEEeCC----CCHHH--HHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDV----NKPEQ--LIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv----~~~~~--l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      ...+.+.+-+++-+|+-|.-    +....  +-.++..++  ..|..||++|.+..+...+
T Consensus       145 RvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeein--r~GtTVl~ATHd~~lv~~~  203 (223)
T COG2884         145 RVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEIN--RLGTTVLMATHDLELVNRM  203 (223)
T ss_pred             HHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHh--hcCcEEEEEeccHHHHHhc
Confidence            66788888999999999954    33322  233444444  4688999999999887765

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.11  E-value=0.00015  Score=69.12  Aligned_cols=49  Identities=14%  Similarity=0.209  Sum_probs=41.0

Q ss_pred             CcccccccceeeecccccC----CCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          170 GSVGVNSRIRHIKSLLHLG----LPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~----~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .++|.++.++++.+++...    ....++++|+|++|+||||||+.+++.+..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            7999999999998888542    234689999999999999999999987644

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

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.0027  Score=65.92  Aligned_cols=178  Identities=18%  Similarity=0.222  Sum_probs=101.6

Q ss_pred             CCCcccccccceee---eccccc-------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          168 FTGSVGVNSRIRHI---KSLLHL-------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       168 ~~~~vGR~~~l~~l---~~~L~~-------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      ..++.|.++..++|   .+.|..       +..-++-+.|+|++|.|||-||++++..-     ++-|+.    ++..  
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~s----vSGS--  378 (774)
T KOG0731|consen  310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFS----VSGS--  378 (774)
T ss_pred             cccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceee----echH--
Confidence            35677877655444   445542       22236788999999999999999999763     334444    1110  


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH-----------------HHHHHHhcCCCCCCCC
Q 046970          238 LVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP-----------------EQLIFLVGGLDRFGPR  300 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~-----------------~~l~~l~~~~~~~~~g  300 (420)
                            +++....+.    ......+.....-.+.++++.+|+++..                 ..+..++.....+...
T Consensus       379 ------EFvE~~~g~----~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~  448 (774)
T KOG0731|consen  379 ------EFVEMFVGV----GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETS  448 (774)
T ss_pred             ------HHHHHhccc----chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCC
Confidence                  111111111    0000012222222346788888876322                 2366676666655444


Q ss_pred             cE--EEeecCChhhh-----hhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          301 SR--IIVTTRDKQVF-----DECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       301 ~~--IIiTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      ..  +|-+|+..+++     ..-..+..+.++.-+.....++|.-|+-..... .+..++++ |+...-|++=|-
T Consensus       449 ~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  449 KGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             CcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHH
Confidence            43  33455544443     223356778888888899999999888444332 33345555 888888776553

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.09  E-value=0.0019  Score=58.76  Aligned_cols=47  Identities=23%  Similarity=0.283  Sum_probs=34.3

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc------ccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE------FEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~v~  227 (420)
                      |..+|..+-....++.|+|.+|+|||+||.+++......      -..++|++
T Consensus         8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~   60 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID   60 (235)
T ss_pred             hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence            344555445567899999999999999999998653222      25678887

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 .

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.09  E-value=0.0033  Score=55.88  Aligned_cols=56  Identities=23%  Similarity=0.305  Sum_probs=40.9

Q ss_pred             CCCCcccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEG  222 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~  222 (420)
                      ....++|.|...+.|.+-...  ......-|.+||--|.|||+|++++.+.+....-.
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr  115 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLR  115 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCe
Confidence            445688988887777553221  12234568899999999999999999988776544

>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=97.09  E-value=0.00094  Score=56.73  Aligned_cols=124  Identities=22%  Similarity=0.266  Sum_probs=66.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERL  269 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l  269 (420)
                      +..+++|.|.+|.|||||++.++..+.. ..+.+++.... ... ........    .+.-- ......+. .-.+...+
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~~~-~~G~i~~~~~~-~~~-~~~~~~~~----~i~~~-~qlS~G~~~r~~l~~~l   95 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLLKP-TSGEILIDGKD-IAK-LPLEELRR----RIGYV-PQLSGGQRQRVALARAL   95 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC-CccEEEECCEE-ccc-CCHHHHHh----ceEEE-eeCCHHHHHHHHHHHHH
Confidence            4579999999999999999999876532 45555554211 100 00111100    00000 00111112 44456666


Q ss_pred             cCCeEEEEEeCCC---CHHH---HHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeC
Q 046970          270 QQMKVFIVLDDVN---KPEQ---LIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVE  325 (420)
Q Consensus       270 ~~~~~LlVLDdv~---~~~~---l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~  325 (420)
                      ...+-++++|+..   +...   +..++..+.  ..+..+|++|.+....... .++++.+.
T Consensus        96 ~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~--~~~~tii~~sh~~~~~~~~-~d~i~~l~  154 (157)
T cd00267          96 LLNPDLLLLDEPTSGLDPASRERLLELLRELA--EEGRTVIIVTHDPELAELA-ADRVIVLK  154 (157)
T ss_pred             hcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCHHHHHHh-CCEEEEEe
Confidence            7778899999873   2222   333332222  1246789999887766553 34555543

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.09  E-value=0.0015  Score=66.27  Aligned_cols=59  Identities=20%  Similarity=0.289  Sum_probs=39.2

Q ss_pred             hHHHHHHhcCCeEEEEEeCCC------CHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeCC
Q 046970          262 PEYIKERLQQMKVFIVLDDVN------KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEG  326 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~------~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~~  326 (420)
                      ...|.+.|-.++=+|+||.-.      ...-++.++..+    +| -+||.|.|+..+..+ +..++++..
T Consensus       161 Rv~LA~aL~~~pDlLLLDEPTNHLD~~~i~WLe~~L~~~----~g-tviiVSHDR~FLd~V-~t~I~~ld~  225 (530)
T COG0488         161 RVALARALLEEPDLLLLDEPTNHLDLESIEWLEDYLKRY----PG-TVIVVSHDRYFLDNV-ATHILELDR  225 (530)
T ss_pred             HHHHHHHHhcCCCEEEEcCCCcccCHHHHHHHHHHHHhC----CC-cEEEEeCCHHHHHHH-hhheEEecC
Confidence            456777788889999999653      233345555442    45 699999999888775 344554443

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.09  E-value=0.0015  Score=63.02  Aligned_cols=110  Identities=13%  Similarity=0.228  Sum_probs=64.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhc-cccCCCCCchHHHHHHhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEE-NLKIGTLNLPEYIKERLQ  270 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~-~~~~~~~~~~~~l~~~l~  270 (420)
                      ...+.|.|+.|.||||++..+.+.+.......++..    ...   ....... ...+... ..........+.++..|+
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti----Edp---~E~~~~~-~~~~i~q~evg~~~~~~~~~l~~~lr  193 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI----EDP---IEYVHRN-KRSLINQREVGLDTLSFANALRAALR  193 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE----cCC---hhhhccC-ccceEEccccCCCCcCHHHHHHHhhc
Confidence            468999999999999999999887765544444443    110   1100000 0000000 011111122677888899


Q ss_pred             CCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhh
Q 046970          271 QMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQV  312 (420)
Q Consensus       271 ~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~  312 (420)
                      ..+=.+++|.+.+.+.....+...   ..|..++.|......
T Consensus       194 ~~pd~i~vgEird~~~~~~~l~aa---~tGh~v~~T~Ha~~~  232 (343)
T TIGR01420       194 EDPDVILIGEMRDLETVELALTAA---ETGHLVFGTLHTNSA  232 (343)
T ss_pred             cCCCEEEEeCCCCHHHHHHHHHHH---HcCCcEEEEEcCCCH
Confidence            999999999998887765544332   245556666665433

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

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.08  E-value=0.0079  Score=59.58  Aligned_cols=29  Identities=24%  Similarity=0.314  Sum_probs=25.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+.++.++|.+|+||||++..++..+..+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            46799999999999999999999877654

>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=97.06  E-value=0.0013  Score=57.16  Aligned_cols=128  Identities=18%  Similarity=0.195  Sum_probs=65.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccccc-CHHHHHHHHHHHHhhcccc--------------
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERV-GLVHLRERVLSEILEENLK--------------  255 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~-~~~~l~~~ll~~l~~~~~~--------------  255 (420)
                      ...+++|.|.+|.|||||++.++.... ...+.+.+.... ..... ........+. - ..+...              
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~-~~~G~i~~~g~~-~~~~~~~~~~~~~~i~-~-~~q~~~~~~~~t~~~~l~~~  100 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLEE-PDSGSILIDGED-LTDLEDELPPLRRRIG-M-VFQDFALFPHLTVLENIALG  100 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC-CCceEEEECCEE-ccccchhHHHHhhcEE-E-EecCCccCCCCCHHHheeec
Confidence            457999999999999999999986543 234555543211 10000 0011111000 0 000000              


Q ss_pred             CCCCCc-hHHHHHHhcCCeEEEEEeCCC---CH---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          256 IGTLNL-PEYIKERLQQMKVFIVLDDVN---KP---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       256 ~~~~~~-~~~l~~~l~~~~~LlVLDdv~---~~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      ....+. .-.+.+.+..++-+++||+..   +.   ..+..++..+.. ..+..||++|.+....... .++++.+
T Consensus       101 lS~G~~qr~~la~al~~~p~llilDEP~~~LD~~~~~~l~~~l~~~~~-~~~~tiii~sH~~~~~~~~-~d~i~~l  174 (178)
T cd03229         101 LSGGQQQRVALARALAMDPDVLLLDEPTSALDPITRREVRALLKSLQA-QLGITVVLVTHDLDEAARL-ADRVVVL  174 (178)
T ss_pred             CCHHHHHHHHHHHHHHCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHH-hcCCEEEEEeCCHHHHHHh-cCEEEEE
Confidence            000011 344566677788999999762   22   223333333221 1256788999887665533 3455544

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.

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

Probab=97.05  E-value=0.0024  Score=56.27  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|.|.+|.|||||++.++..
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999864

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.05  E-value=0.0036  Score=57.48  Aligned_cols=26  Identities=38%  Similarity=0.680  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|+|||||++.++...
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999998754

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=97.04  E-value=0.0036  Score=56.02  Aligned_cols=27  Identities=30%  Similarity=0.402  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|+|++|.|||||++.++...
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          23 KPGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            356799999999999999999998753

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.03  E-value=0.0016  Score=60.27  Aligned_cols=114  Identities=17%  Similarity=0.134  Sum_probs=65.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc---cCCCCC---chHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL---KIGTLN---LPEYI  265 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~---~~~~~~---~~~~l  265 (420)
                      ...++|.|++|.|||||.+.++..+... .+.+++.... +.......++...+ .. ..+..   .....+   ....+
T Consensus       111 ~~~~~i~g~~g~GKttl~~~l~~~~~~~-~G~i~~~g~~-v~~~d~~~ei~~~~-~~-~~q~~~~~r~~v~~~~~k~~~~  186 (270)
T TIGR02858       111 VLNTLIISPPQCGKTTLLRDLARILSTG-ISQLGLRGKK-VGIVDERSEIAGCV-NG-VPQHDVGIRTDVLDGCPKAEGM  186 (270)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCccCCC-CceEEECCEE-eecchhHHHHHHHh-cc-cccccccccccccccchHHHHH
Confidence            4688999999999999999999876543 3444443111 11000111121110 00 11111   111111   13334


Q ss_pred             HHHhc-CCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhh
Q 046970          266 KERLQ-QMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQV  312 (420)
Q Consensus       266 ~~~l~-~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~  312 (420)
                      ...+. ..+-++++|.+...+.+..+...+.   .|..+|+||.+..+
T Consensus       187 ~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~  231 (270)
T TIGR02858       187 MMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDV  231 (270)
T ss_pred             HHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHH
Confidence            44444 5789999999988877777766553   57789999997655

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.03  E-value=0.005  Score=62.97  Aligned_cols=47  Identities=28%  Similarity=0.398  Sum_probs=37.0

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++|.+..++.+...+...  ....+.|+|++|+|||++|+.+++..
T Consensus        64 f~~iiGqs~~i~~l~~al~~~--~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCGP--NPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            356899998888888765432  34567899999999999999998753

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>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=97.02  E-value=0.0027  Score=54.87  Aligned_cols=125  Identities=19%  Similarity=0.197  Sum_probs=65.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhcccc----------CCCCC
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLK----------IGTLN  260 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~----------~~~~~  260 (420)
                      ...+++|.|.+|.|||||.+.++..... ..+.+.+.... .. ..........+ . ...+...          ....+
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~~-~~-~~~~~~~~~~i-~-~~~q~~~~~~~tv~~~lLS~G~  101 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLLRP-TSGRVRLDGAD-IS-QWDPNELGDHV-G-YLPQDDELFSGSIAENILSGGQ  101 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCC-CCCeEEECCEE-cc-cCCHHHHHhhe-E-EECCCCccccCcHHHHCcCHHH
Confidence            4569999999999999999999876432 24444443211 00 00111111100 0 0000000          11111


Q ss_pred             c-hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          261 L-PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       261 ~-~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      . .-.+.+.+..++-+++||+...   .   ..+..++..+.  ..|..||++|.+..... . .++++.+
T Consensus       102 ~qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~--~~~~tii~~sh~~~~~~-~-~d~v~~l  168 (173)
T cd03246         102 RQRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALK--AAGATRIVIAHRPETLA-S-ADRILVL  168 (173)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHH--hCCCEEEEEeCCHHHHH-h-CCEEEEE
Confidence            1 4455666777888999998732   2   22333333322  23667889998887654 3 4555555

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

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.011  Score=60.16  Aligned_cols=128  Identities=22%  Similarity=0.203  Sum_probs=75.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc--hHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL--PEYIKER  268 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~--~~~l~~~  268 (420)
                      ..+.+.++|++|.|||.||+++++.....|-..-.-             .    +++...++      .+.  .+.....
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~-------------~----l~sk~vGe------sek~ir~~F~~A  331 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGS-------------E----LLSKWVGE------SEKNIRELFEKA  331 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCH-------------H----Hhccccch------HHHHHHHHHHHH
Confidence            456899999999999999999999654444211100             1    11111111      011  2223333


Q ss_pred             hcCCeEEEEEeCCCCH-------------HHHHHHhcCCCCC--CCCcEEEeecCChhhhhh-----cCCCeEEEeCCCC
Q 046970          269 LQQMKVFIVLDDVNKP-------------EQLIFLVGGLDRF--GPRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLN  328 (420)
Q Consensus       269 l~~~~~LlVLDdv~~~-------------~~l~~l~~~~~~~--~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~  328 (420)
                      .+..++.|.+|+++..             ..+..++..+...  ..+..+|-||..+.....     ......+.+++-+
T Consensus       332 ~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd  411 (494)
T COG0464         332 RKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPD  411 (494)
T ss_pred             HcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCC
Confidence            3467899999998432             2233444333322  233445556654443332     1356788999999


Q ss_pred             HHHHHHHHHhccc
Q 046970          329 KDESLELFSNFAF  341 (420)
Q Consensus       329 ~~ea~~L~~~~a~  341 (420)
                      .++..+.|..+.-
T Consensus       412 ~~~r~~i~~~~~~  424 (494)
T COG0464         412 LEERLEIFKIHLR  424 (494)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999999884

>PRK06762 hypothetical protein; Provisional

Probab=97.02  E-value=0.0037  Score=53.54  Aligned_cols=25  Identities=32%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++.|+|++|+||||+|+.+++.+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3688999999999999999999876

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

Probab=96.98  E-value=0.0011  Score=62.65  Aligned_cols=47  Identities=30%  Similarity=0.313  Sum_probs=36.5

Q ss_pred             eecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |..+|. .+-+..+++-|+|++|+||||||.+++......-..++|++
T Consensus        43 LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId   90 (325)
T cd00983          43 LDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID   90 (325)
T ss_pred             HHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence            344555 44556789999999999999999999887666556677876

RecA couples ATP hydrolysis to DNA strand exchange.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.97  E-value=0.0073  Score=56.41  Aligned_cols=171  Identities=20%  Similarity=0.235  Sum_probs=97.5

Q ss_pred             CCcccccccceeeecccccC--CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccc--ccCHHHHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLG--LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESE--RVGLVHLRER  244 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~--~~~~~~l~~~  244 (420)
                      ..++|-.++-.++..++...  -.+...|.|+|+.|.|||+|......+ .+.+.-...+....+...  +-.+..+..+
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~Lng~~~~dk~al~~I~rq  102 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRLNGELQTDKIALKGITRQ  102 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEECccchhhHHHHHHHHHH
Confidence            46889888888888888642  123456889999999999998877766 334444444433332221  2233344444


Q ss_pred             HHHHHhhccccCCCCCc-hHHHHHHhcC------CeEEEEEeCCCCH----HH--HHHHhcC-CCCCCCCcEEEeecCCh
Q 046970          245 VLSEILEENLKIGTLNL-PEYIKERLQQ------MKVFIVLDDVNKP----EQ--LIFLVGG-LDRFGPRSRIIVTTRDK  310 (420)
Q Consensus       245 ll~~l~~~~~~~~~~~~-~~~l~~~l~~------~~~LlVLDdv~~~----~~--l~~l~~~-~~~~~~g~~IIiTtR~~  310 (420)
                      +..++........+... ...+-..|..      .+++.|+|.++--    .|  +-.+... ...-.|-|-|-+|||-.
T Consensus       103 l~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld  182 (408)
T KOG2228|consen  103 LALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLD  182 (408)
T ss_pred             HHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecccc
Confidence            43333332222333333 5555555543      3689999877422    11  2222211 11124566677899964


Q ss_pred             hh-------hhhcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          311 QV-------FDECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       311 ~~-------~~~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      .+       -....-..++-++.++-++-.++++...
T Consensus       183 ~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  183 ILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            22       2222223466677888999999888765

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.95  E-value=0.0011  Score=57.43  Aligned_cols=37  Identities=24%  Similarity=0.496  Sum_probs=31.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+|.+.|++|+||||+|+.++..+...+...+++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            4568999999999999999999999887777777764

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

Probab=96.93  E-value=0.002  Score=61.77  Aligned_cols=96  Identities=19%  Similarity=0.208  Sum_probs=56.6

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCC
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIG  257 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~  257 (420)
                      +.++.+.|..+--...++.|-|.||||||||..+++.++..+. .+.++..      ..+...+.- -...+.....+..
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsG------EES~~Qikl-RA~RL~~~~~~l~  150 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSG------EESLQQIKL-RADRLGLPTNNLY  150 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeC------CcCHHHHHH-HHHHhCCCccceE
Confidence            3445555554434467999999999999999999999998776 6777761      111221111 1112221111111


Q ss_pred             CCC--chHHHHHHhc-CCeEEEEEeCC
Q 046970          258 TLN--LPEYIKERLQ-QMKVFIVLDDV  281 (420)
Q Consensus       258 ~~~--~~~~l~~~l~-~~~~LlVLDdv  281 (420)
                      -..  ..+.+.+.+. .++-++|+|-+
T Consensus       151 l~aEt~~e~I~~~l~~~~p~lvVIDSI  177 (456)
T COG1066         151 LLAETNLEDIIAELEQEKPDLVVIDSI  177 (456)
T ss_pred             EehhcCHHHHHHHHHhcCCCEEEEecc
Confidence            111  1455555554 57899999987

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

Probab=96.92  E-value=0.006  Score=53.59  Aligned_cols=53  Identities=17%  Similarity=0.177  Sum_probs=34.6

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC---HHHHHH---HhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK---PEQLIF---LVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~---~~~l~~---l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      .-.|.+.|.=++-++.+|...+   ++-..+   .+..+.  ..|...|+.|.+...+...
T Consensus       144 RVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA--~eGmTMivVTHEM~FAr~V  202 (240)
T COG1126         144 RVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLA--EEGMTMIIVTHEMGFAREV  202 (240)
T ss_pred             HHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHH--HcCCeEEEEechhHHHHHh
Confidence            6678888888999999999843   332222   222222  3566788888887766654

>TIGR00416 sms DNA repair protein RadA

Probab=96.92  E-value=0.0024  Score=63.80  Aligned_cols=50  Identities=20%  Similarity=0.244  Sum_probs=37.9

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.+|.++|..+-....++.|.|.+|+|||||+.+++.....+-..++|+.
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            44555666655566789999999999999999999887655434566775

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)).

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

Probab=96.92  E-value=0.00075  Score=55.40  Aligned_cols=69  Identities=22%  Similarity=0.351  Sum_probs=34.0

Q ss_pred             ccEEecCccccccCcchHHHHHHHhhC-------CCce----------eeeC-CCCCCCcchHHHHHHhhhcceeEEEec
Q 046970           12 YDVFLSFRGEDTRDNFTSHLFAALRQK-------RIKI----------FIDE-EANRGDEISLALLNAIEGSKISIVIFS   73 (420)
Q Consensus        12 ~dvfis~~~~d~~~~~~~~L~~~L~~~-------g~~~----------~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S   73 (420)
                      |.|||||++.|.. .....|.+.+...       .+..          +.+. +....+.|...|.+.|..|.++||++|
T Consensus         1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig   79 (130)
T PF08937_consen    1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG   79 (130)
T ss_dssp             ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred             CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence            5799999999854 2567777777663       2211          1121 223445789999999999999999999


Q ss_pred             ccccccCC
Q 046970           74 KNYASSSG   81 (420)
Q Consensus        74 ~~y~~s~w   81 (420)
                      ++=..|.|
T Consensus        80 ~~T~~s~w   87 (130)
T PF08937_consen   80 PNTAKSKW   87 (130)
T ss_dssp             TT----HH
T ss_pred             CCcccCcH
Confidence            99888998

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

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

Probab=96.92  E-value=0.0027  Score=66.23  Aligned_cols=154  Identities=15%  Similarity=0.214  Sum_probs=84.7

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc-ccc-----ceEEEEeccccccccCHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS-EFE-----GECFITNVREESERVGLVH  240 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~-----~~~~v~~~~~~~~~~~~~~  240 (420)
                      ..+..+||+.|++++.+.|.......+  .++|.+|+|||+++.-++.++-. ..+     ..++-.++.         .
T Consensus       168 klDPvIGRd~EI~r~iqIL~RR~KNNP--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g---------~  236 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSRRTKNNP--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLG---------S  236 (786)
T ss_pred             CCCCCcChHHHHHHHHHHHhccCCCCC--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHH---------H
Confidence            346699999999999998875433322  37899999999999999998643 222     112211111         1


Q ss_pred             HHHHHHHHHhhccccCCCCCc-hHHHHHHh-cCCeEEEEEeCCCCH-----------HHHHHHhcCCCCCCCCcEEEeec
Q 046970          241 LRERVLSEILEENLKIGTLNL-PEYIKERL-QQMKVFIVLDDVNKP-----------EQLIFLVGGLDRFGPRSRIIVTT  307 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l-~~~~~LlVLDdv~~~-----------~~l~~l~~~~~~~~~g~~IIiTt  307 (420)
                      +       ..+... ..+.+. ...+.+.+ ...+++|.+|.++..           +...-|.+.+.. +.--.|=.||
T Consensus       237 L-------vAGaky-RGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLAR-GeL~~IGATT  307 (786)
T COG0542         237 L-------VAGAKY-RGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALAR-GELRCIGATT  307 (786)
T ss_pred             H-------hccccc-cCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhc-CCeEEEEecc
Confidence            1       011100 111222 22222222 335899999987321           222334444432 2222344566


Q ss_pred             CChhh------hhhcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          308 RDKQV------FDECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       308 R~~~~------~~~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      -++--      +.....-+.+.|...+.+++..++....
T Consensus       308 ~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         308 LDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            44321      0011133677899999999999887543

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.91  E-value=0.0035  Score=61.83  Aligned_cols=150  Identities=19%  Similarity=0.206  Sum_probs=79.4

Q ss_pred             CCcccccc---cceeeecccccCC-------CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCH
Q 046970          169 TGSVGVNS---RIRHIKSLLHLGL-------PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGL  238 (420)
Q Consensus       169 ~~~vGR~~---~l~~l~~~L~~~~-------~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~  238 (420)
                      ++.-|.|+   |++++.+.|....       .=++-|.++|+||.|||-||++++....     +-|....+..   +  
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~-----VPFF~~sGSE---F--  373 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG-----VPFFYASGSE---F--  373 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC-----CCeEeccccc---h--
Confidence            44556665   5566666775432       1267889999999999999999987542     2222211100   0  


Q ss_pred             HHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCH-------------HHHHHHhcCCCCCCCCcEEE
Q 046970          239 VHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKP-------------EQLIFLVGGLDRFGPRSRII  304 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~-------------~~l~~l~~~~~~~~~g~~II  304 (420)
                      .    +++   .+.    . ... .+.....-..-+|+|.+|.++..             +.+..++..+..|.++.-||
T Consensus       374 d----Em~---VGv----G-ArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiI  441 (752)
T KOG0734|consen  374 D----EMF---VGV----G-ARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGII  441 (752)
T ss_pred             h----hhh---hcc----c-HHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceE
Confidence            0    000   000    0 000 12222223446899999987432             23666776666565544333


Q ss_pred             e--ecCChhhhh-----hcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          305 V--TTRDKQVFD-----ECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       305 i--TtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      |  .|.-++.+.     .-..+..+.|+.-+..--.++|..+.
T Consensus       442 vigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl  484 (752)
T KOG0734|consen  442 VIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYL  484 (752)
T ss_pred             EEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHH
Confidence            3  343333322     22345566666666555566665554

>TIGR02012 tigrfam_recA protein RecA

Probab=96.90  E-value=0.0015  Score=61.73  Aligned_cols=47  Identities=32%  Similarity=0.366  Sum_probs=36.1

Q ss_pred             eecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |..+|. .+-+..+++.|+|++|+||||||.+++......-..++|++
T Consensus        43 LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId   90 (321)
T TIGR02012        43 LDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   90 (321)
T ss_pred             HHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEc
Confidence            344554 45566789999999999999999999887665555667776

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.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.89  E-value=0.0042  Score=55.21  Aligned_cols=28  Identities=25%  Similarity=0.254  Sum_probs=24.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ....+++|.|.+|.|||||++.++....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          31 KPGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            3457999999999999999999987654

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.

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

Probab=96.89  E-value=0.0038  Score=54.45  Aligned_cols=36  Identities=36%  Similarity=0.467  Sum_probs=26.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+++|.|.+|.|||||++.++..... ..+.+++.
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~~-~~G~i~~~   60 (182)
T cd03215          25 AGEIVGIAGLVGNGQTELAEALFGLRPP-ASGEITLD   60 (182)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCC-CCceEEEC
Confidence            4568999999999999999999875432 23444443

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.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.89  E-value=0.0016  Score=54.78  Aligned_cols=36  Identities=22%  Similarity=0.223  Sum_probs=30.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+|-|+|.+|.||||||+++.+++...-..+.+++
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            358899999999999999999999988766677775

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.89  E-value=0.014  Score=56.42  Aligned_cols=37  Identities=22%  Similarity=0.323  Sum_probs=28.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc--cceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF--EGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~v~  227 (420)
                      ...+++++|++|+||||++..++.+....+  ..+.++.
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit  174 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT  174 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence            357999999999999999999998764433  3344443

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.87  E-value=0.0028  Score=63.27  Aligned_cols=49  Identities=22%  Similarity=0.247  Sum_probs=36.9

Q ss_pred             eeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          179 RHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       179 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .+|.+.|..+-....++.|.|.+|+|||||+.+++.....+-..++|+.
T Consensus        67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3455566555556789999999999999999999987754434566765

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

Probab=96.87  E-value=0.00092  Score=57.56  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ++.|.|.+|.||||+|..++.+.
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            58899999999999999998764

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

Probab=96.86  E-value=0.012  Score=54.84  Aligned_cols=38  Identities=18%  Similarity=0.100  Sum_probs=30.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      ....++.|.|.+|+||||++.+++.....+ -..++|+.
T Consensus        28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            345689999999999999999998876444 45566765

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

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.85  E-value=0.0054  Score=50.91  Aligned_cols=24  Identities=25%  Similarity=0.461  Sum_probs=21.0

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      +|.+.|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            578999999999999999987653

...

>PRK07667 uridine kinase; Provisional

Probab=96.84  E-value=0.0012  Score=58.19  Aligned_cols=37  Identities=27%  Similarity=0.403  Sum_probs=28.6

Q ss_pred             cccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          183 SLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       183 ~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      +.+....+...+|+|.|.+|.||||+|..+...+...
T Consensus         8 ~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~   44 (193)
T PRK07667          8 NIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQE   44 (193)
T ss_pred             HHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            3443333456899999999999999999999977543

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

Probab=96.83  E-value=0.0084  Score=52.06  Aligned_cols=29  Identities=31%  Similarity=0.424  Sum_probs=25.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .+..+++|.|++|.||||+.+.++.-+..
T Consensus        26 e~Gei~GlLG~NGAGKTT~LRmiatlL~P   54 (245)
T COG4555          26 EEGEITGLLGENGAGKTTLLRMIATLLIP   54 (245)
T ss_pred             ccceEEEEEcCCCCCchhHHHHHHHhccC
Confidence            35789999999999999999999986533

>PRK06696 uridine kinase; Validated

Probab=96.83  E-value=0.00055  Score=61.88  Aligned_cols=30  Identities=33%  Similarity=0.366  Sum_probs=26.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ....+|+|.|.+|+||||||+.++..+...
T Consensus        20 ~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696         20 TRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            356799999999999999999999987543

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.83  E-value=0.0064  Score=54.54  Aligned_cols=27  Identities=22%  Similarity=0.222  Sum_probs=23.3

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|.+|.|||||++.++...
T Consensus        35 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         35 DAGEALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            346789999999999999999998753

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

Probab=96.81  E-value=0.00095  Score=54.26  Aligned_cols=22  Identities=41%  Similarity=0.690  Sum_probs=20.4

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |+|.|++|+||||||+++..++
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999885

...

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.79  E-value=0.0075  Score=52.44  Aligned_cols=28  Identities=32%  Similarity=0.512  Sum_probs=24.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      +.|.++|.||+||||+|++++..++++-
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i   29 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEI   29 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence            4678999999999999999999876653

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.0055  Score=54.28  Aligned_cols=59  Identities=14%  Similarity=0.148  Sum_probs=38.3

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCCHHHHHH------HhcCCCCCCCCcEEEeecCChhhhhhcCCCeEE
Q 046970          262 PEYIKERLQQMKVFIVLDDVNKPEQLIF------LVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIY  322 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~~~~l~~------l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~  322 (420)
                      ..++.+.+--+|-+.|||..++--+++.      ....+.  .+++-+||.|....++.....+.++
T Consensus       152 R~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr--~~~~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         152 RNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALR--EEGRGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             HHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHh--cCCCeEEEEecHHHHHhhcCCCEEE
Confidence            6667777777899999998765433222      222232  3566788888888888776544443

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.78  E-value=0.0046  Score=55.16  Aligned_cols=27  Identities=26%  Similarity=0.228  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|.+|.|||||++.++...
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         26 AAGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998753

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=96.78  E-value=0.0057  Score=52.46  Aligned_cols=29  Identities=24%  Similarity=0.284  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ....+.|.|++|+|||||.+.++.-.+..
T Consensus        27 ~Ge~~~i~G~NG~GKTtLLRilaGLl~p~   55 (209)
T COG4133          27 AGEALQITGPNGAGKTTLLRILAGLLRPD   55 (209)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcccCCC
Confidence            45688999999999999999999865544

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

Probab=96.77  E-value=0.006  Score=57.46  Aligned_cols=28  Identities=29%  Similarity=0.406  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...++++.|++|.|||||.+.++..++.
T Consensus        30 ~Gei~gllG~NGAGKTTllk~l~gl~~p   57 (293)
T COG1131          30 PGEIFGLLGPNGAGKTTLLKILAGLLKP   57 (293)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCcCC
Confidence            4579999999999999999999986544

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=96.77  E-value=0.0095  Score=53.35  Aligned_cols=24  Identities=29%  Similarity=0.282  Sum_probs=20.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..--.|+|++|.|||||.+.+...
T Consensus        57 ge~W~I~G~NGsGKTTLL~ll~~~   80 (257)
T COG1119          57 GEHWAIVGPNGAGKTTLLSLLTGE   80 (257)
T ss_pred             CCcEEEECCCCCCHHHHHHHHhcc
Confidence            345679999999999999988764

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.77  E-value=0.0055  Score=56.40  Aligned_cols=27  Identities=30%  Similarity=0.378  Sum_probs=23.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|.|.+|.|||||++.++....
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~l~Gl~~   55 (251)
T PRK14249         29 ERQITAIIGPSGCGKSTLLRALNRMND   55 (251)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            457899999999999999999987543

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.76  E-value=0.0073  Score=55.56  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=23.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         28 DNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            46799999999999999999998764

>PRK09354 recA recombinase A; Provisional

Probab=96.76  E-value=0.0024  Score=60.97  Aligned_cols=47  Identities=34%  Similarity=0.371  Sum_probs=37.1

Q ss_pred             eecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |..+|. .+-+..+++-|+|++|+||||||.+++......-..++|++
T Consensus        48 LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId   95 (349)
T PRK09354         48 LDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   95 (349)
T ss_pred             HHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence            444555 45566789999999999999999999887666556778886

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.74  E-value=0.0053  Score=53.44  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|.|+|++|+||||+|+.++.++
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999998865

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.74  E-value=0.0099  Score=57.50  Aligned_cols=36  Identities=28%  Similarity=0.353  Sum_probs=27.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .++++|+|++|+||||++..++..+..+-..+.++.
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~  276 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFIT  276 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEe
Confidence            578999999999999999999987654422344443

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.74  E-value=0.0014  Score=58.64  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .+.+.|+|++|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48899999999999999999884

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

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.74  E-value=0.0043  Score=54.99  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=23.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....+++|.|.+|.|||||.+.++..
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          24 KKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            35679999999999999999998875

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.

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=96.73  E-value=0.01  Score=55.40  Aligned_cols=35  Identities=31%  Similarity=0.455  Sum_probs=27.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+++|+|.+|.|||||++.++..+.  ..+.+++.
T Consensus        29 ~Ge~~~IvG~nGsGKSTLl~~L~gl~~--~~G~I~i~   63 (275)
T cd03289          29 PGQRVGLLGRTGSGKSTLLSAFLRLLN--TEGDIQID   63 (275)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcC--CCcEEEEC
Confidence            456999999999999999999987653  24555543

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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.72  E-value=0.0032  Score=66.09  Aligned_cols=27  Identities=30%  Similarity=0.379  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....|+|+|.+|+|||||++-+....
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~gly  523 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLGLY  523 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356789999999999999999988643

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.72  E-value=0.0046  Score=55.65  Aligned_cols=26  Identities=31%  Similarity=0.451  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45699999999999999999999743

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.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.72  E-value=0.063  Score=50.96  Aligned_cols=49  Identities=27%  Similarity=0.297  Sum_probs=33.2

Q ss_pred             EEEeCCCCHHHHHHHHHhcccCCCCCc-hhHHHHHHHHHHHhcCChHHHH
Q 046970          321 IYEVEGLNKDESLELFSNFAFRQKICP-KDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       321 ~~~l~~L~~~ea~~L~~~~a~~~~~~~-~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      .++|++++.+|+..++..+.-.+-... ...+...+++.-..+|+|.-+.
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el~  307 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPRELE  307 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHhc
Confidence            789999999999999987763332211 1222345666666799997653

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.71  E-value=0.0079  Score=55.48  Aligned_cols=27  Identities=26%  Similarity=0.356  Sum_probs=23.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|.|.+|.|||||++.++..+.
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   58 (254)
T PRK14273         32 KNSITALIGPSGCGKSTFLRTLNRMND   58 (254)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            467999999999999999999987543

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.70  E-value=0.016  Score=57.60  Aligned_cols=40  Identities=25%  Similarity=0.325  Sum_probs=30.6

Q ss_pred             cceeeecccc-----cCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          177 RIRHIKSLLH-----LGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       177 ~l~~l~~~L~-----~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+.++..||.     ...-+.+++.|+|++|+||||..+.++..+
T Consensus        90 KI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel  134 (634)
T KOG1970|consen   90 KISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL  134 (634)
T ss_pred             hHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence            3455566665     334457899999999999999999988764

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

Probab=96.70  E-value=0.0047  Score=55.05  Aligned_cols=26  Identities=38%  Similarity=0.446  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||.+.++...
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          25 KGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            46799999999999999999998643

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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.70  E-value=0.006  Score=54.60  Aligned_cols=27  Identities=30%  Similarity=0.219  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|++|.|||||.+.++...
T Consensus        24 ~~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          24 KKGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998753

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

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.69  E-value=0.0058  Score=55.59  Aligned_cols=26  Identities=27%  Similarity=0.259  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (234)
T cd03251          27 AGETVALVGPSGSGKSTLVNLIPRFY   52 (234)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45799999999999999999998654

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.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.69  E-value=0.00041  Score=57.59  Aligned_cols=45  Identities=27%  Similarity=0.262  Sum_probs=29.3

Q ss_pred             ccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          172 VGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       172 vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ||....++++.+.+..-......|.|+|.+|.||+++|+.++..-
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            345555555555554322334578899999999999999887753

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.68  E-value=0.014  Score=53.63  Aligned_cols=26  Identities=27%  Similarity=0.403  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|.+|.|||||.+.++...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (246)
T PRK14269         27 QNKITALIGASGCGKSTFLRCFNRMN   52 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45799999999999999999998753

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

Probab=96.68  E-value=0.0014  Score=57.75  Aligned_cols=26  Identities=38%  Similarity=0.571  Sum_probs=23.5

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      +|+|.|.+|+||||||+.+...+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            68999999999999999999988643

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.66  E-value=0.0075  Score=61.98  Aligned_cols=50  Identities=22%  Similarity=0.233  Sum_probs=40.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|....++++.+.+..-......|.|+|.+|+|||++|+.+++.-
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            45679999999999888776433345578899999999999999998754

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>TIGR01069 mutS2 MutS2 family protein

Probab=96.66  E-value=0.0022  Score=68.18  Aligned_cols=24  Identities=25%  Similarity=0.109  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .+.++|+|++|.|||||.+.+...
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHH
Confidence            478999999999999999998865

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.65  E-value=0.0064  Score=62.20  Aligned_cols=76  Identities=22%  Similarity=0.342  Sum_probs=46.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      +..+++.++|++|+||||||.-++++.  .|. ++=+.    .+.......+-..+...+.......            .
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqa--GYs-VvEIN----ASDeRt~~~v~~kI~~avq~~s~l~------------a  384 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQA--GYS-VVEIN----ASDERTAPMVKEKIENAVQNHSVLD------------A  384 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhc--Cce-EEEec----ccccccHHHHHHHHHHHHhhccccc------------c
Confidence            457899999999999999999998863  121 22222    3334444444445544433322100            0


Q ss_pred             cCCeEEEEEeCCCCH
Q 046970          270 QQMKVFIVLDDVNKP  284 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~  284 (420)
                      .+++.-||+|.++-.
T Consensus       385 dsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  385 DSRPVCLVIDEIDGA  399 (877)
T ss_pred             CCCcceEEEecccCC
Confidence            257889999998654

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=96.65  E-value=0.0016  Score=52.57  Aligned_cols=29  Identities=34%  Similarity=0.473  Sum_probs=20.8

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccccce
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEFEGE  223 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~  223 (420)
                      |.|+|.+|+||||+|+.++..+...|..+
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~RI   30 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKRI   30 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeEE
Confidence            67999999999999999999887777543

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.64  E-value=0.017  Score=50.75  Aligned_cols=51  Identities=16%  Similarity=0.198  Sum_probs=33.8

Q ss_pred             HHHHHHhcCCeEEEEEeCCCC------HHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          263 EYIKERLQQMKVFIVLDDVNK------PEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       263 ~~l~~~l~~~~~LlVLDdv~~------~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      --+.+.+.-++-+|.+|.--+      ...++++...+.   ....|+|.|++..-+...
T Consensus       158 LcIARalAv~PeVlLmDEPtSALDPIsT~kIEeLi~eLk---~~yTIviVTHnmqQAaRv  214 (253)
T COG1117         158 LCIARALAVKPEVLLMDEPTSALDPISTLKIEELITELK---KKYTIVIVTHNMQQAARV  214 (253)
T ss_pred             HHHHHHHhcCCcEEEecCcccccCchhHHHHHHHHHHHH---hccEEEEEeCCHHHHHHH
Confidence            345566777888999997632      345677776654   556688888887655443

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=96.64  E-value=0.0062  Score=57.73  Aligned_cols=27  Identities=37%  Similarity=0.455  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...+++|.|++|.|||||.+.++...
T Consensus        26 ~~Gei~~l~G~NGaGKTTLl~~l~Gl~   52 (301)
T TIGR03522        26 QKGRIVGFLGPNGAGKSTTMKIITGYL   52 (301)
T ss_pred             eCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998753

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.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.64  E-value=0.0069  Score=55.93  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||++.++...
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         26 SGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999999754

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

Probab=96.63  E-value=0.0083  Score=52.90  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||.+.++...
T Consensus        34 ~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999999998754

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.

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=96.63  E-value=0.015  Score=51.41  Aligned_cols=22  Identities=32%  Similarity=0.370  Sum_probs=19.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +++|+|++|.|||||++.++.-
T Consensus        24 ~~~i~G~nGsGKStll~al~~l   45 (197)
T cd03278          24 LTAIVGPNGSGKSNIIDAIRWV   45 (197)
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            8899999999999999998743

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=96.63  E-value=0.01  Score=53.39  Aligned_cols=25  Identities=36%  Similarity=0.434  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|.|.+|.|||||++.++..
T Consensus        29 ~Ge~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          29 PGEKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            4579999999999999999999864

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.

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.62  E-value=0.051  Score=55.61  Aligned_cols=197  Identities=13%  Similarity=0.109  Sum_probs=116.8

Q ss_pred             CCCCcccccccceeeeccccc--CC-CCceEEEEeccCcchHHHHHHHHHHHhhc-----cccc--eEEEEecccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL--GL-PDFRIVGIWGMGGIGKTTFAGAIFNQISS-----EFEG--ECFITNVREESERV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~--~~-~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----~f~~--~~~v~~~~~~~~~~  236 (420)
                      .+..+-+|+.+..+|.+.+..  .. .....+-|.|.+|.|||..+..|.+.+..     .-+.  .+.+.+.    .-.
T Consensus       394 vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm----~l~  469 (767)
T KOG1514|consen  394 VPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGL----RLA  469 (767)
T ss_pred             ccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcce----eec
Confidence            456788999999999988753  22 33568999999999999999999986542     1222  3344422    233


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhc-----CCeEEEEEeCCCCH-----HHHHHHhcCCCCC-CCCcEEE
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNL-PEYIKERLQ-----QMKVFIVLDDVNKP-----EQLIFLVGGLDRF-GPRSRII  304 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~-----~~~~LlVLDdv~~~-----~~l~~l~~~~~~~-~~g~~II  304 (420)
                      ....+...|...+.++...   ... .+.+..++.     .+++++++|+++..     +.+-.|.   .|. .++++++
T Consensus       470 ~~~~~Y~~I~~~lsg~~~~---~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~f---dWpt~~~sKLv  543 (767)
T KOG1514|consen  470 SPREIYEKIWEALSGERVT---WDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIF---DWPTLKNSKLV  543 (767)
T ss_pred             CHHHHHHHHHHhcccCccc---HHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHh---cCCcCCCCceE
Confidence            4667777777776665331   111 555666554     34789999998543     2233332   222 4677755


Q ss_pred             eec-CChh----------hhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCch-hHHHHHHHHHHHhcCChHHHHHHH
Q 046970          305 VTT-RDKQ----------VFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPK-DFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       305 iTt-R~~~----------~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~-~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      |.+ -+..          +...+ ....+...|.+.++-.++...+..+...-.. ..+=.+++|+...|..-.|+.+.-
T Consensus       544 vi~IaNTmdlPEr~l~nrvsSRl-g~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~  622 (767)
T KOG1514|consen  544 VIAIANTMDLPERLLMNRVSSRL-GLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICR  622 (767)
T ss_pred             EEEecccccCHHHHhccchhhhc-cceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHH
Confidence            433 2211          11112 2245678888888888888776643322121 222345666666666666666554


Q ss_pred             HH
Q 046970          373 SF  374 (420)
Q Consensus       373 ~~  374 (420)
                      +.
T Consensus       623 RA  624 (767)
T KOG1514|consen  623 RA  624 (767)
T ss_pred             HH
Confidence            44

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=96.62  E-value=0.0075  Score=57.28  Aligned_cols=26  Identities=27%  Similarity=0.331  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||.+.++..+
T Consensus        32 ~Gei~gllGpNGaGKSTLl~~l~Gl~   57 (306)
T PRK13537         32 RGECFGLLGPNGAGKTTTLRMLLGLT   57 (306)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45799999999999999999998754

>CHL00206 ycf2 Ycf2; Provisional

Probab=96.61  E-value=0.017  Score=65.39  Aligned_cols=27  Identities=15%  Similarity=0.143  Sum_probs=23.8

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++-|.++|++|.|||.||+++|...
T Consensus      1628 ~pPKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1628 SPSRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHhc
Confidence            356789999999999999999999864

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=96.61  E-value=0.012  Score=54.22  Aligned_cols=26  Identities=23%  Similarity=0.462  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        29 ~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         29 PGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999999998754

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.61  E-value=0.012  Score=52.71  Aligned_cols=128  Identities=20%  Similarity=0.307  Sum_probs=72.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh-
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL-  269 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l-  269 (420)
                      .++-+.++|++|.|||-||+.+++.-     .+.|+. +   +.    ..+.+..+    ++..     .....+.-.. 
T Consensus       180 QPKGvlLygppgtGktLlaraVahht-----~c~fir-v---sg----selvqk~i----gegs-----rmvrelfvmar  237 (404)
T KOG0728|consen  180 QPKGVLLYGPPGTGKTLLARAVAHHT-----DCTFIR-V---SG----SELVQKYI----GEGS-----RMVRELFVMAR  237 (404)
T ss_pred             CCcceEEecCCCCchhHHHHHHHhhc-----ceEEEE-e---ch----HHHHHHHh----hhhH-----HHHHHHHHHHH
Confidence            46678899999999999999998752     333443 2   11    12222221    1110     0011111111 


Q ss_pred             cCCeEEEEEeCCCCHH----------------HHHHHhcCCCCC--CCCcEEEeecCChhh-----hhhcCCCeEEEeCC
Q 046970          270 QQMKVFIVLDDVNKPE----------------QLIFLVGGLDRF--GPRSRIIVTTRDKQV-----FDECEVDSIYEVEG  326 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~--~~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~  326 (420)
                      ..-+.++.+|.+++..                ..-.++..+..|  .++.+||..|.--++     +..-..+..++.++
T Consensus       238 ehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~  317 (404)
T KOG0728|consen  238 EHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPP  317 (404)
T ss_pred             hcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCCC
Confidence            3457788888774431                123344444433  346677776653333     33334566788888


Q ss_pred             CCHHHHHHHHHhcc
Q 046970          327 LNKDESLELFSNFA  340 (420)
Q Consensus       327 L~~~ea~~L~~~~a  340 (420)
                      -+.+.-.+++.-+.
T Consensus       318 p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  318 PNEEARLDILKIHS  331 (404)
T ss_pred             CCHHHHHHHHHHhh
Confidence            88888888887665

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=96.61  E-value=0.0052  Score=58.26  Aligned_cols=27  Identities=26%  Similarity=0.370  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|++|.|||||.+.++..+
T Consensus        17 ~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188        17 REGEVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            346799999999999999999999754

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.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=96.61  E-value=0.0068  Score=55.63  Aligned_cols=27  Identities=22%  Similarity=0.398  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|.+|.|||||++.++...
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        25 PKNQVTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            356799999999999999999998654

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.59  E-value=0.0078  Score=60.98  Aligned_cols=49  Identities=29%  Similarity=0.428  Sum_probs=34.1

Q ss_pred             cceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          177 RIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       177 ~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .++++..||..   +....+++.|+|++|+||||.++.+++.+  .|+..-|..
T Consensus        27 Kv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el--g~~v~Ew~n   78 (519)
T PF03215_consen   27 KVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL--GFEVQEWIN   78 (519)
T ss_pred             HHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh--CCeeEEecC
Confidence            44555555542   22335799999999999999999999876  344455653

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

Probab=96.59  E-value=0.0025  Score=52.79  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=20.8

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|+|++|+|||+||+.+++.+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999987

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.59  E-value=0.0088  Score=53.45  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=20.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +++|.|++|.|||||++.++...
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            89999999999999999998643

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.59  E-value=0.012  Score=53.74  Aligned_cols=24  Identities=17%  Similarity=0.331  Sum_probs=20.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      +..|+|+||+|||+|+..++..+.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            567899999999999999997653

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.

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=96.59  E-value=0.012  Score=53.72  Aligned_cols=26  Identities=23%  Similarity=0.265  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        28 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   53 (238)
T cd03249          28 PGKTVALVGSSGCGKSTVVSLLERFY   53 (238)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            46799999999999999999999754

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=96.59  E-value=0.0048  Score=64.25  Aligned_cols=26  Identities=27%  Similarity=0.302  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...++|+|.+|.|||||++.+....
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL~gl~  385 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLLQRVF  385 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            46789999999999999999988653

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=96.59  E-value=0.0099  Score=55.28  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=23.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|.+|.|||||++.++...
T Consensus        44 ~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   70 (267)
T PRK14237         44 EKNKITALIGPSGSGKSTYLRSLNRMN   70 (267)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            356799999999999999999998765

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.58  E-value=0.018  Score=53.55  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|++|.|||||++.++...
T Consensus        37 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   63 (269)
T PRK14259         37 PRGKVTALIGPSGCGKSTVLRSLNRMN   63 (269)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            356799999999999999999998753

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=96.58  E-value=0.014  Score=52.68  Aligned_cols=26  Identities=38%  Similarity=0.580  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus         5 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   30 (223)
T TIGR03771         5 KGELLGLLGPNGAGKTTLLRAILGLI   30 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35699999999999999999999743

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.

>TIGR00959 ffh signal recognition particle protein

Probab=96.58  E-value=0.17  Score=50.16  Aligned_cols=27  Identities=26%  Similarity=0.369  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+.++.++|.+|+||||++..++..+.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            467999999999999999999998764

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=96.58  E-value=0.019  Score=54.85  Aligned_cols=29  Identities=21%  Similarity=0.275  Sum_probs=25.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+.+++++|++|+||||++..++..+..+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            46899999999999999999999877654

>PRK10867 signal recognition particle protein; Provisional

Probab=96.58  E-value=0.15  Score=50.48  Aligned_cols=29  Identities=28%  Similarity=0.427  Sum_probs=25.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+.++.++|++|+||||++..++..+..+
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            46899999999999999999998876554

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.58  E-value=0.0064  Score=63.33  Aligned_cols=36  Identities=25%  Similarity=0.481  Sum_probs=27.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +....++|+|..|.|||||++-+...+ . ..+.+.+.
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~-p-~~G~I~i~  409 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL-P-YQGSLKIN  409 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC-C-CCcEEEEC
Confidence            356799999999999999999998765 3 24444443

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=96.57  E-value=0.0067  Score=55.40  Aligned_cols=27  Identities=30%  Similarity=0.270  Sum_probs=23.3

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|.+|.|||||++.++..+
T Consensus        25 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (240)
T PRK09493         25 DQGEVVVIIGPSGSGKSTLLRCINKLE   51 (240)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            346799999999999999999998643

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.57  E-value=0.031  Score=47.23  Aligned_cols=28  Identities=29%  Similarity=0.353  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....++|+|++|+|||||.+.++.-+..
T Consensus        28 ~Ge~iaitGPSG~GKStllk~va~Lisp   55 (223)
T COG4619          28 AGEFIAITGPSGCGKSTLLKIVASLISP   55 (223)
T ss_pred             CCceEEEeCCCCccHHHHHHHHHhccCC
Confidence            3457899999999999999999986544

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=96.57  E-value=0.013  Score=52.89  Aligned_cols=26  Identities=27%  Similarity=0.440  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||.+.++...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (223)
T TIGR03740        25 KNSVYGLLGPNGAGKSTLLKMITGIL   50 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999999998753

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.57  E-value=0.0022  Score=57.32  Aligned_cols=26  Identities=42%  Similarity=0.635  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+|+|.|.+|+|||||++.++..+
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999999876

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.57  E-value=0.0047  Score=59.19  Aligned_cols=46  Identities=22%  Similarity=0.155  Sum_probs=32.4

Q ss_pred             cccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          171 SVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ++|....++++.+.+..-......|.|+|.+|+||+++|+.+.+.-
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            3566666666655554333334568899999999999999987643

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.57  E-value=0.01  Score=53.68  Aligned_cols=26  Identities=31%  Similarity=0.318  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||.+.++...
T Consensus        28 ~G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          28 PGETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            45789999999999999999998754

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=96.57  E-value=0.0049  Score=59.11  Aligned_cols=134  Identities=17%  Similarity=0.220  Sum_probs=69.6

Q ss_pred             CCCCceEEEEeccCcchHHHHHHHHHHHhhcccc-------ceEEE-----Eec--cccccccCHHHHHHHHHHHHhh--
Q 046970          188 GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE-------GECFI-----TNV--REESERVGLVHLRERVLSEILE--  251 (420)
Q Consensus       188 ~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~-------~~~~v-----~~~--~~~~~~~~~~~l~~~ll~~l~~--  251 (420)
                      ......++.|+|.+|.||||+.+.+.......-+       +.+-+     ...  ++.....+-..+++++.+..+.  
T Consensus       405 ~ikpGdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~vp~nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~  484 (593)
T COG2401         405 EIKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEVTILEHLRSKTGDLN  484 (593)
T ss_pred             EecCCCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceeccccchhhccCcccccccCchhHHHHHhhccCchh
Confidence            3345679999999999999999999875433211       11111     000  1111122222344444332222  


Q ss_pred             -----------ccc--------cCCCCCc-hHHHHHHhcCCeEEEEEeCCCCH---HHHHHHhcCCCCC--CCCcEEEee
Q 046970          252 -----------ENL--------KIGTLNL-PEYIKERLQQMKVFIVLDDVNKP---EQLIFLVGGLDRF--GPRSRIIVT  306 (420)
Q Consensus       252 -----------~~~--------~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~---~~l~~l~~~~~~~--~~g~~IIiT  306 (420)
                                 .+.        ...+.+. ...|.+.+++++-+++.|.+...   .....++..+...  ..|..+++.
T Consensus       485 ~AveILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllaerpn~~~iDEF~AhLD~~TA~rVArkiselaRe~giTlivv  564 (593)
T COG2401         485 AAVEILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELAREAGITLIVV  564 (593)
T ss_pred             HHHHHHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhcCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEE
Confidence                       111        1112222 67788889999999999987321   1111121111111  146667777


Q ss_pred             cCChhhhhhcCCCeE
Q 046970          307 TRDKQVFDECEVDSI  321 (420)
Q Consensus       307 tR~~~~~~~~~~~~~  321 (420)
                      |+.+++.+.+..+..
T Consensus       565 ThrpEv~~AL~PD~l  579 (593)
T COG2401         565 THRPEVGNALRPDTL  579 (593)
T ss_pred             ecCHHHHhccCCcee
Confidence            777777666544443

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.56  E-value=0.001  Score=66.98  Aligned_cols=51  Identities=20%  Similarity=0.167  Sum_probs=41.9

Q ss_pred             CCcccccccceeeecccc----cCCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          169 TGSVGVNSRIRHIKSLLH----LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~----~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+++|.+..+++|.+.|.    .-....+++.++|++|+||||||+.+++-+...
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            468999999999988772    223456899999999999999999999865443

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

Probab=96.55  E-value=0.0015  Score=51.61  Aligned_cols=26  Identities=31%  Similarity=0.538  Sum_probs=22.0

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccc
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      |-|+|.+|+|||+||..++..+..++
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~   26 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHI   26 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            46899999999999999998776543

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.55  E-value=0.0019  Score=46.48  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=21.0

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +++|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999886

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

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

Probab=96.55  E-value=0.0061  Score=56.44  Aligned_cols=45  Identities=33%  Similarity=0.355  Sum_probs=37.7

Q ss_pred             cccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          183 SLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       183 ~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.|..+-+..+++.|+|.+|+|||+++.++......+...++|+.
T Consensus        14 ~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          14 EILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             HHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            344444567889999999999999999999998877788888887

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.55  E-value=0.033  Score=49.56  Aligned_cols=26  Identities=35%  Similarity=0.473  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45799999999999999999998643

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.

>PRK08233 hypothetical protein; Provisional

Probab=96.55  E-value=0.002  Score=56.06  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+|+|.|.+|+||||||..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999998764

>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=96.54  E-value=0.02  Score=49.38  Aligned_cols=26  Identities=27%  Similarity=0.452  Sum_probs=23.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ++.++|++|+||||++..++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            67899999999999999999887655

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.

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

Probab=96.54  E-value=0.0075  Score=53.97  Aligned_cols=26  Identities=35%  Similarity=0.267  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999999753

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.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.54  E-value=0.0092  Score=52.84  Aligned_cols=24  Identities=29%  Similarity=0.209  Sum_probs=21.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ++++|+|++|.|||||.+.++..+
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHH
Confidence            799999999999999999998643

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

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.53  E-value=0.0051  Score=53.32  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|.|.|.+|.||||+|+.+++++
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            36799999999999999999984

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.53  E-value=0.013  Score=54.75  Aligned_cols=26  Identities=19%  Similarity=0.195  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (274)
T PRK13647         30 EGSKTALLGPNGAGKSTLLLHLNGIY   55 (274)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45799999999999999999998653

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=96.52  E-value=0.012  Score=52.27  Aligned_cols=58  Identities=26%  Similarity=0.380  Sum_probs=34.7

Q ss_pred             HHHHhcCCeEEEEEeCCCC---H---H-HHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeC
Q 046970          265 IKERLQQMKVFIVLDDVNK---P---E-QLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVE  325 (420)
Q Consensus       265 l~~~l~~~~~LlVLDdv~~---~---~-~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~  325 (420)
                      +.+.+..++-++++|+...   .   . .+..++..+.. ..+..||++|++......  .+.++.+.
T Consensus       132 la~al~~~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~-~~~~~iiiitH~~~~~~~--~d~i~~l~  196 (204)
T cd03240         132 LAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKS-QKNFQLIVITHDEELVDA--ADHIYRVE  196 (204)
T ss_pred             HHHHhccCCCEEEEcCCccccCHHHHHHHHHHHHHHHHh-ccCCEEEEEEecHHHHhh--CCEEEEEe
Confidence            4556678899999998732   2   2 33333333221 115568999998876543  45666554

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=0.023  Score=58.61  Aligned_cols=143  Identities=19%  Similarity=0.215  Sum_probs=79.1

Q ss_pred             CCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCH
Q 046970          169 TGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGL  238 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~  238 (420)
                      +++=|.++-..+|.+-++.          +-....-|.+||++|.|||-||++++....-.|     +.    +   .+.
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~F-----lS----V---KGP  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNF-----LS----V---KGP  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeE-----Ee----e---cCH
Confidence            4455666665666554432          222355788999999999999999998764443     22    1   111


Q ss_pred             HHHHHHHHHHHhhccccCCCCCc-hHHHH-HHhcCCeEEEEEeCCCCHH---------------HHHHHhcCCCCCC---
Q 046970          239 VHLRERVLSEILEENLKIGTLNL-PEYIK-ERLQQMKVFIVLDDVNKPE---------------QLIFLVGGLDRFG---  298 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~-~~~l~-~~l~~~~~LlVLDdv~~~~---------------~l~~l~~~~~~~~---  298 (420)
                           +++..-.++.      +. ...+. +.-...+|+|.+|.+++..               .+..++..+....   
T Consensus       740 -----ELLNMYVGqS------E~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~  808 (953)
T KOG0736|consen  740 -----ELLNMYVGQS------EENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSS  808 (953)
T ss_pred             -----HHHHHHhcch------HHHHHHHHHHhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCC
Confidence                 2222222221      11 23333 3334589999999986542               1333443433222   


Q ss_pred             -CCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHH
Q 046970          299 -PRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLE  334 (420)
Q Consensus       299 -~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~  334 (420)
                       .+.-||-.|.-+++     ++.-..++.+.|++=+.++...
T Consensus       809 s~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~  850 (953)
T KOG0736|consen  809 SQDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKL  850 (953)
T ss_pred             CCceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHH
Confidence             33335544443333     3333467788888877776654

>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=96.50  E-value=0.016  Score=52.59  Aligned_cols=26  Identities=27%  Similarity=0.262  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||.+.++...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          25 EGEFFTLLGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999999998754

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.

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

Probab=96.50  E-value=0.013  Score=54.26  Aligned_cols=47  Identities=32%  Similarity=0.357  Sum_probs=37.6

Q ss_pred             ecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEe
Q 046970          182 KSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITN  228 (420)
Q Consensus       182 ~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~  228 (420)
                      ..+|..+-+..+++=|+|+.|.||||||.+++-.....-..++|++.
T Consensus        50 D~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDt   96 (279)
T COG0468          50 DEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDT   96 (279)
T ss_pred             HHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeC
Confidence            34454455568899999999999999999999877666668899983

>TIGR00235 udk uridine kinase

Probab=96.49  E-value=0.0025  Score=56.85  Aligned_cols=27  Identities=44%  Similarity=0.577  Sum_probs=24.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|.|++|+|||||++.++..+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            468999999999999999999998764

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

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=96.49  E-value=0.0087  Score=54.94  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (248)
T PRK09580         26 PGEVHAIMGPNGSGKSTLSATLAGRE   51 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            45799999999999999999998763

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=96.49  E-value=0.012  Score=52.75  Aligned_cols=26  Identities=42%  Similarity=0.494  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||++.++..+
T Consensus        23 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        23 DGEIVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45799999999999999999999754

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.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.49  E-value=0.016  Score=52.76  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          26 AGKKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45799999999999999999998754

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.48  E-value=0.004  Score=53.88  Aligned_cols=36  Identities=25%  Similarity=0.170  Sum_probs=27.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ...+++|.|++|+||||+|+.++..+...-....++
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i   38 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL   38 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            456999999999999999999999875432233444

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.48  E-value=0.0032  Score=63.70  Aligned_cols=50  Identities=16%  Similarity=0.210  Sum_probs=38.8

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +..|.++|..+-....++.|.|++|+|||||+.+++.....+-+.++++.
T Consensus       249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            34556667666667889999999999999999999987755555566665

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.

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.48  E-value=0.0089  Score=55.98  Aligned_cols=26  Identities=27%  Similarity=0.256  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||.+.++..+
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (279)
T PRK13650         32 QGEWLSIIGHNGSGKSTTVRLIDGLL   57 (279)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999999998754

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.48  E-value=0.013  Score=50.27  Aligned_cols=112  Identities=17%  Similarity=0.076  Sum_probs=58.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhh----ccc--cCCCCCc-----
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILE----ENL--KIGTLNL-----  261 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~----~~~--~~~~~~~-----  261 (420)
                      ..|-|++..|.||||.|..++-+...+--.++.+--+.. ....+-...++.+  .+.-    ...  ...+.+.     
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg-~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKG-AWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecC-CcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHHHH
Confidence            467788889999999999999886554333332221111 1111222232222  1100    000  0011111     


Q ss_pred             ---hHHHHHHhcCC-eEEEEEeCCC--------CHHHHHHHhcCCCCCCCCcEEEeecCCh
Q 046970          262 ---PEYIKERLQQM-KVFIVLDDVN--------KPEQLIFLVGGLDRFGPRSRIIVTTRDK  310 (420)
Q Consensus       262 ---~~~l~~~l~~~-~~LlVLDdv~--------~~~~l~~l~~~~~~~~~g~~IIiTtR~~  310 (420)
                         .+..++.+... -=|||||.+.        +.+.+..++...   .++..+|+|.|+.
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~r---p~~~evVlTGR~~  140 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQER---PGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhC---CCCCEEEEECCCC
Confidence               23334444444 4599999873        334444555443   4678999999986

Alternate name: corrinoid adenosyltransferase.

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.47  E-value=0.02  Score=52.70  Aligned_cols=27  Identities=33%  Similarity=0.330  Sum_probs=23.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|.+|.|||||++.++...
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~   54 (252)
T PRK14272         28 QRGTVNALIGPSGCGKTTFLRAINRMH   54 (252)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            346799999999999999999998754

>PRK04040 adenylate kinase; Provisional

Probab=96.46  E-value=0.0028  Score=55.56  Aligned_cols=25  Identities=28%  Similarity=0.561  Sum_probs=23.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|+|+|++|+||||+++.++..+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5899999999999999999999874

>PRK03839 putative kinase; Provisional

Probab=96.46  E-value=0.0023  Score=55.68  Aligned_cols=24  Identities=33%  Similarity=0.584  Sum_probs=21.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .|.|.|++|+||||+++.+++++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999999863

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=96.45  E-value=0.014  Score=53.91  Aligned_cols=26  Identities=27%  Similarity=0.507  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++...
T Consensus        25 ~Ge~~~IvG~nGsGKSTLlk~l~Gl~   50 (255)
T cd03236          25 EGQVLGLVGPNGIGKSTALKILAGKL   50 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45699999999999999999998754

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.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.44  E-value=0.011  Score=49.80  Aligned_cols=25  Identities=28%  Similarity=0.484  Sum_probs=22.0

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ++.|+|.+|.||||||+.+...+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~   25 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQ   25 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999987653

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.44  E-value=0.026  Score=51.77  Aligned_cols=28  Identities=21%  Similarity=0.372  Sum_probs=23.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ....+++|.|.+|.|||||++.++....
T Consensus        27 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   54 (249)
T PRK14253         27 PARQVTALIGPSGCGKSTLLRCLNRMND   54 (249)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            3567999999999999999999987543

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=96.43  E-value=0.053  Score=48.69  Aligned_cols=31  Identities=35%  Similarity=0.449  Sum_probs=26.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      +.++-|.++|++|+|||.||+++++.....|
T Consensus       187 dpprgvllygppg~gktml~kava~~t~a~f  217 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHTTAAF  217 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhccchhe
Confidence            4578899999999999999999999765544

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.43  E-value=0.0073  Score=52.52  Aligned_cols=114  Identities=15%  Similarity=0.070  Sum_probs=60.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHh----hccc--cCCCCCc----
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEIL----EENL--KIGTLNL----  261 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~----~~~~--~~~~~~~----  261 (420)
                      ...|.|+|..|-||||.|..++-+...+--.+..+--+... ...+-...++.+- .+.    +...  ...+.+.    
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~-~~~GE~~~l~~l~-~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGA-WSTGERNLLEFGG-GVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCC-CccCHHHHHhcCC-CcEEEECCCCCcccCCCcHHHHHH
Confidence            35788999999999999999998865543333333322111 1112222222210 000    0000  0001101    


Q ss_pred             ----hHHHHHHhcC-CeEEEEEeCCC--------CHHHHHHHhcCCCCCCCCcEEEeecCCh
Q 046970          262 ----PEYIKERLQQ-MKVFIVLDDVN--------KPEQLIFLVGGLDRFGPRSRIIVTTRDK  310 (420)
Q Consensus       262 ----~~~l~~~l~~-~~~LlVLDdv~--------~~~~l~~l~~~~~~~~~g~~IIiTtR~~  310 (420)
                          .+..++.+.. +-=|||||.+.        +.+++..++..   -.++..||+|-|+.
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~---rp~~~evVlTGR~~  158 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNA---RPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHc---CCCCCEEEEECCCC
Confidence                2333444444 34599999873        23444444444   34678999999976

>PTZ00301 uridine kinase; Provisional

Probab=96.43  E-value=0.003  Score=56.34  Aligned_cols=28  Identities=25%  Similarity=0.568  Sum_probs=24.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..+|+|.|.+|.||||||+.+.+++...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~   30 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAH   30 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence            4689999999999999999998877543

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=96.43  E-value=0.022  Score=52.01  Aligned_cols=26  Identities=31%  Similarity=0.304  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||.+.++...
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        27 PGELRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999999653

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.

>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=96.43  E-value=0.012  Score=54.64  Aligned_cols=27  Identities=22%  Similarity=0.276  Sum_probs=21.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      +.|.|+|.||.||||+|+++...+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~   28 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEK   28 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhc
Confidence            478999999999999999999987663

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=96.42  E-value=0.017  Score=55.72  Aligned_cols=27  Identities=30%  Similarity=0.426  Sum_probs=23.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...+++|.|++|.|||||.+.++..+
T Consensus        65 ~~Gei~gLlGpNGaGKSTLl~~L~Gl~   91 (340)
T PRK13536         65 ASGECFGLLGPNGAGKSTIARMILGMT   91 (340)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            356799999999999999999998754

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.42  E-value=0.0013  Score=57.58  Aligned_cols=21  Identities=29%  Similarity=0.169  Sum_probs=18.8

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ++.|+|++|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            367999999999999999984

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

Probab=96.42  E-value=0.0051  Score=56.57  Aligned_cols=25  Identities=28%  Similarity=0.606  Sum_probs=22.1

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhcc
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      |.++|++|+||||+|+.++..+...
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            7899999999999999999887543

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.41  E-value=0.01  Score=55.01  Aligned_cols=103  Identities=17%  Similarity=0.153  Sum_probs=61.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCC-CCCchHHHHHHhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIG-TLNLPEYIKERLQ  270 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~-~~~~~~~l~~~l~  270 (420)
                      ...+.|.|..|.||||++..+.+.+...-..++.+.+..+.... +           ...-..... .....+.++..++
T Consensus        80 ~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~-~-----------~~q~~v~~~~~~~~~~~l~~~lR  147 (264)
T cd01129          80 HGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIP-G-----------INQVQVNEKAGLTFARGLRAILR  147 (264)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCC-C-----------ceEEEeCCcCCcCHHHHHHHHhc
Confidence            35899999999999999999988764422234444422221100 0           000000111 1122678888899


Q ss_pred             CCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCC
Q 046970          271 QMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRD  309 (420)
Q Consensus       271 ~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~  309 (420)
                      ..+=.++++++.+.+....++....   .|..++-|..-
T Consensus       148 ~~PD~i~vgEiR~~e~a~~~~~aa~---tGh~v~tTlHa  183 (264)
T cd01129         148 QDPDIIMVGEIRDAETAEIAVQAAL---TGHLVLSTLHT  183 (264)
T ss_pred             cCCCEEEeccCCCHHHHHHHHHHHH---cCCcEEEEecc
Confidence            9999999999998887665544422   34444444443

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.41  E-value=0.053  Score=53.80  Aligned_cols=36  Identities=25%  Similarity=0.266  Sum_probs=27.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh--ccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS--SEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~--~~f~~~~~v~  227 (420)
                      .+++.++|++|+||||++..++..+.  ..-..+.++.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~  258 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT  258 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            46899999999999999999988765  3333455554

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=96.41  E-value=0.013  Score=53.06  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        39 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   64 (226)
T cd03248          39 PGEVTALVGPSGSGKSTVVALLENFY   64 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            46799999999999999999998753

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.40  E-value=0.018  Score=54.01  Aligned_cols=37  Identities=24%  Similarity=0.282  Sum_probs=28.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc-c-cceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE-F-EGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f-~~~~~v~  227 (420)
                      ..++++|+|++|+||||++..++..+..+ - ..+..+.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~  231 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT  231 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE
Confidence            45799999999999999999999876543 2 3344444

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.40  E-value=0.027  Score=54.29  Aligned_cols=37  Identities=32%  Similarity=0.381  Sum_probs=28.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.++++|+|+.|+||||++..++..+..+-..+.++.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIt  241 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFIT  241 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            4789999999999999999999987644433455554

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.40  E-value=0.015  Score=54.32  Aligned_cols=60  Identities=18%  Similarity=0.140  Sum_probs=36.5

Q ss_pred             hHHHHHHhcCCeEEEEEeCCC---CH---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEeC
Q 046970          262 PEYIKERLQQMKVFIVLDDVN---KP---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVE  325 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~---~~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~  325 (420)
                      .-.+.+.+..++-+|+||+..   +.   ..+..++..+.   .+..||++|++....... .+.++.|.
T Consensus       169 rv~LAraL~~~p~lllLDEPt~~LD~~~~~~l~~~L~~~~---~~~tiii~sH~~~~~~~~-~d~i~~l~  234 (274)
T PRK14265        169 RLCIARAIAMKPDVLLMDEPCSALDPISTRQVEELCLELK---EQYTIIMVTHNMQQASRV-ADWTAFFN  234 (274)
T ss_pred             HHHHHHHHhhCCCEEEEeCCcccCCHHHHHHHHHHHHHHh---cCCEEEEEeCCHHHHHHh-CCEEEEEe
Confidence            344556667788999999863   22   22333333332   346789999988766543 45666664

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.38  E-value=0.0029  Score=54.50  Aligned_cols=26  Identities=19%  Similarity=0.279  Sum_probs=23.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....|.|+|++|+||||+|+.++..+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999999986

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.38  E-value=0.0091  Score=56.05  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        31 ~Ge~~~i~G~nGaGKSTLl~~i~Gl~   56 (283)
T PRK13636         31 KGEVTAILGGNGAGKSTLFQNLNGIL   56 (283)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45799999999999999999998743

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.38  E-value=0.01  Score=53.87  Aligned_cols=50  Identities=14%  Similarity=0.155  Sum_probs=34.6

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +..|...+..+-+...++.|.|.+|+||||||.+++.....+-..++++.
T Consensus        10 ~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         10 RDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             EeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            34455555544455779999999999999999888776533334556655

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.38  E-value=0.014  Score=56.56  Aligned_cols=101  Identities=17%  Similarity=0.208  Sum_probs=58.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ  270 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~  270 (420)
                      .++-+-|||..|.|||.|+-.+|+.+...-..            +.....+...+-+.+....   ...+....+.+.+.
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~------------R~HFh~Fm~~vh~~l~~~~---~~~~~l~~va~~l~  125 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKR------------RVHFHEFMLDVHSRLHQLR---GQDDPLPQVADELA  125 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccccc------------cccccHHHHHHHHHHHHHh---CCCccHHHHHHHHH
Confidence            46778899999999999999999875432111            1112223333333332221   11122556667778


Q ss_pred             CCeEEEEEeCC--CCH---HHHHHHhcCCCCCCCCcEEEeecC
Q 046970          271 QMKVFIVLDDV--NKP---EQLIFLVGGLDRFGPRSRIIVTTR  308 (420)
Q Consensus       271 ~~~~LlVLDdv--~~~---~~l~~l~~~~~~~~~g~~IIiTtR  308 (420)
                      ++..||.||.+  .+.   .-+..|+..+-  ..|..++.||.
T Consensus       126 ~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gvvlVaTSN  166 (362)
T PF03969_consen  126 KESRLLCFDEFQVTDIADAMILKRLFEALF--KRGVVLVATSN  166 (362)
T ss_pred             hcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCCEEEecCC
Confidence            88889999975  333   33555555442  45665555553

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PRK13409 putative ATPase RIL; Provisional

Probab=96.36  E-value=0.017  Score=59.94  Aligned_cols=133  Identities=22%  Similarity=0.298  Sum_probs=68.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE-ecc---c-c--ccccCHHHH-------------HHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT-NVR---E-E--SERVGLVHL-------------RERVLSEIL  250 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~-~~~---~-~--~~~~~~~~l-------------~~~ll~~l~  250 (420)
                      ...+++|.|++|+|||||++.++...... .+.+++. .+.   + .  .....+.+.             ..+++..+.
T Consensus       364 ~Geiv~l~G~NGsGKSTLlk~L~Gl~~p~-~G~I~~~~~i~y~~Q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~L~~l~  442 (590)
T PRK13409        364 EGEVIGIVGPNGIGKTTFAKLLAGVLKPD-EGEVDPELKISYKPQYIKPDYDGTVEDLLRSITDDLGSSYYKSEIIKPLQ  442 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC-ceEEEEeeeEEEecccccCCCCCcHHHHHHHHhhhcChHHHHHHHHHHCC
Confidence            46799999999999999999999754321 1222211 000   0 0  001111111             112222221


Q ss_pred             hccc---cCCCCC---c-hHHHHHHhcCCeEEEEEeCCC---CH---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcC
Q 046970          251 EENL---KIGTLN---L-PEYIKERLQQMKVFIVLDDVN---KP---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECE  317 (420)
Q Consensus       251 ~~~~---~~~~~~---~-~~~l~~~l~~~~~LlVLDdv~---~~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~  317 (420)
                      -...   ....+.   . .-.+...+..++-+++||+-.   +.   ..+..++..+.. ..|..||++|.+...+... 
T Consensus       443 l~~~~~~~~~~LSGGe~QRvaiAraL~~~p~llLLDEPt~~LD~~~~~~l~~~l~~l~~-~~g~tviivsHD~~~~~~~-  520 (590)
T PRK13409        443 LERLLDKNVKDLSGGELQRVAIAACLSRDADLYLLDEPSAHLDVEQRLAVAKAIRRIAE-EREATALVVDHDIYMIDYI-  520 (590)
T ss_pred             CHHHHhCCcccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hCCCEEEEEeCCHHHHHHh-
Confidence            1110   111222   1 445667778889999999762   22   223333333211 1356689999988766544 


Q ss_pred             CCeEEEeCC
Q 046970          318 VDSIYEVEG  326 (420)
Q Consensus       318 ~~~~~~l~~  326 (420)
                      .+.++.+..
T Consensus       521 aDrvivl~~  529 (590)
T PRK13409        521 SDRLMVFEG  529 (590)
T ss_pred             CCEEEEEcC
Confidence            345555543

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.044  Score=56.15  Aligned_cols=150  Identities=17%  Similarity=0.153  Sum_probs=80.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERLQ  270 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~  270 (420)
                      ..-|.++|++|+|||-||.+++....-+     |+.    +   .+.     +++..-.+..     .+. .+...+.-.
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~~~-----fis----v---KGP-----ElL~KyIGaS-----Eq~vR~lF~rA~~  758 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSNLR-----FIS----V---KGP-----ELLSKYIGAS-----EQNVRDLFERAQS  758 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCCee-----EEE----e---cCH-----HHHHHHhccc-----HHHHHHHHHHhhc
Confidence            4568899999999999999998764322     333    1   111     2222222211     111 333333334


Q ss_pred             CCeEEEEEeCCCCH-------------HHHHHHhcCCCC--CCCCcEEEe-ecCCh----hhhhhcCCCeEEEeCCCCHH
Q 046970          271 QMKVFIVLDDVNKP-------------EQLIFLVGGLDR--FGPRSRIIV-TTRDK----QVFDECEVDSIYEVEGLNKD  330 (420)
Q Consensus       271 ~~~~LlVLDdv~~~-------------~~l~~l~~~~~~--~~~g~~IIi-TtR~~----~~~~~~~~~~~~~l~~L~~~  330 (420)
                      .++|+|.+|.+++.             ..+..++..+..  .-.|.-|+. |||-.    .+++.-..++.+.-+.-+..
T Consensus       759 a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~  838 (952)
T KOG0735|consen  759 AKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEP  838 (952)
T ss_pred             cCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcH
Confidence            58999999988543             234556555431  124555554 66633    22333234455555556677


Q ss_pred             HHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH
Q 046970          331 ESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       331 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      +-.++|....-....+.   .-..+.++.+..|..-
T Consensus       839 eRl~il~~ls~s~~~~~---~vdl~~~a~~T~g~tg  871 (952)
T KOG0735|consen  839 ERLEILQVLSNSLLKDT---DVDLECLAQKTDGFTG  871 (952)
T ss_pred             HHHHHHHHHhhccCCcc---ccchHHHhhhcCCCch
Confidence            77788876653222111   1123456666666643

>PRK06217 hypothetical protein; Validated

Probab=96.36  E-value=0.015  Score=50.73  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=21.2

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|.|.|.+|.||||||+.+...+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999999876

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.02  Score=53.00  Aligned_cols=30  Identities=27%  Similarity=0.376  Sum_probs=26.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .+..++|||++|.|||-||+.++..+.-+|
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            467899999999999999999999875554

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.35  E-value=0.0089  Score=54.54  Aligned_cols=48  Identities=23%  Similarity=0.342  Sum_probs=36.4

Q ss_pred             eeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          180 HIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       180 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .|.++|..+-+...++.|.|.+|+|||+||.++......+-+.++|+.
T Consensus         9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877         9 GMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             hHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            344556556667889999999999999999998876444456677776

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.

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

Probab=96.35  E-value=0.017  Score=51.06  Aligned_cols=35  Identities=23%  Similarity=0.208  Sum_probs=26.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      .+++.|.|.+|.||||+++.+...+...-..++++
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~   52 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGL   52 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEE
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            46888999999999999999888776653333333

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=96.35  E-value=0.016  Score=58.37  Aligned_cols=26  Identities=38%  Similarity=0.575  Sum_probs=23.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||++.++...
T Consensus        49 ~GEivgIiGpNGSGKSTLLkiLaGLl   74 (549)
T PRK13545         49 EGEIVGIIGLNGSGKSTLSNLIAGVT   74 (549)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999998764

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=96.35  E-value=0.017  Score=53.95  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|.+|.|||||++.++...
T Consensus        50 ~Ge~~~I~G~nGsGKSTLl~~laGl~   75 (272)
T PRK14236         50 KNRVTAFIGPSGCGKSTLLRCFNRMN   75 (272)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            46799999999999999999998653

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.34  E-value=0.0089  Score=62.20  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...++|+|.+|.|||||++.+....
T Consensus       368 ~G~~~aIvG~sGsGKSTLl~ll~gl~  393 (582)
T PRK11176        368 AGKTVALVGRSGSGKSTIANLLTRFY  393 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            46789999999999999999998754

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.33  E-value=0.0033  Score=56.57  Aligned_cols=24  Identities=17%  Similarity=-0.042  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ..++++|.|++|.||||+.+.++.
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457889999999999999999887

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

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=96.33  E-value=0.032  Score=49.53  Aligned_cols=27  Identities=30%  Similarity=0.534  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...+++|.|++|.|||||++.++...
T Consensus        29 ~~G~~~~i~G~nG~GKSTLl~~i~G~~   55 (204)
T cd03250          29 PKGELVAIVGPVGSGKSSLLSALLGEL   55 (204)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcC
Confidence            356799999999999999999998754

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.32  E-value=0.0048  Score=56.00  Aligned_cols=183  Identities=16%  Similarity=0.189  Sum_probs=99.5

Q ss_pred             CcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc------cccceEEEEeccc------cccc--
Q 046970          170 GSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS------EFEGECFITNVRE------ESER--  235 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~v~~~~~------~~~~--  235 (420)
                      .+.++++.-..+.++..  ..+.+-+.++|++|.||-|.+..+.+++-+      +-+...|......      ++..  
T Consensus        14 ~l~~~~e~~~~Lksl~~--~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yH   91 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSS--TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYH   91 (351)
T ss_pred             hcccHHHHHHHHHHhcc--cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccce
Confidence            35555555555555544  235678889999999999999888887543      2334445442221      0000  


Q ss_pred             -------c--CHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeE-EEEEeCCCCH--HHHHHHhcCCCCCCCCcEE
Q 046970          236 -------V--GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKV-FIVLDDVNKP--EQLIFLVGGLDRFGPRSRI  303 (420)
Q Consensus       236 -------~--~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~-LlVLDdv~~~--~~l~~l~~~~~~~~~g~~I  303 (420)
                             .  .-.-+.++++.+...... +.         . -..+.+ ++|+-.++..  +.-..|..........+|+
T Consensus        92 lEitPSDaG~~DRvViQellKevAQt~q-ie---------~-~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~Rl  160 (351)
T KOG2035|consen   92 LEITPSDAGNYDRVVIQELLKEVAQTQQ-IE---------T-QGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRL  160 (351)
T ss_pred             EEeChhhcCcccHHHHHHHHHHHHhhcc-hh---------h-ccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceE
Confidence                   0  011122233332221111 00         0 011233 5566655433  1122233333334578888


Q ss_pred             EeecCChh--hhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          304 IVTTRDKQ--VFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       304 IiTtR~~~--~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      |+...+..  +.+.-...-.+.++..+++|....++...-.....-+  .+++.+|+++++|+-.-
T Consensus       161 Il~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRr  224 (351)
T KOG2035|consen  161 ILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRR  224 (351)
T ss_pred             EEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHH
Confidence            87554321  1111123356789999999999999888755443333  47899999999998543

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.32  E-value=0.01  Score=54.53  Aligned_cols=26  Identities=23%  Similarity=0.379  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|.+|.|||||++.++...
T Consensus        29 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (251)
T PRK14251         29 EKELTALIGPSGCGKSTFLRCLNRMN   54 (251)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            45789999999999999999999754

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.31  E-value=0.02  Score=53.09  Aligned_cols=27  Identities=26%  Similarity=0.320  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|.+|.|||||++.++..+
T Consensus        32 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (261)
T PRK14263         32 RKNEITGFIGPSGCGKSTVLRSLNRMN   58 (261)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHccc
Confidence            356799999999999999999997644

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.31  E-value=0.0059  Score=54.03  Aligned_cols=37  Identities=22%  Similarity=0.260  Sum_probs=29.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+++|+|++|+||||||+.+...+...-...+++.
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld   59 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLD   59 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEc
Confidence            4679999999999999999999998755433455554

>PRK00625 shikimate kinase; Provisional

Probab=96.31  E-value=0.003  Score=54.52  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=21.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .|.|+|++|+||||+++.+++++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999998763

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.31  E-value=0.042  Score=53.80  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999999754

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.30  E-value=0.0034  Score=54.84  Aligned_cols=26  Identities=31%  Similarity=0.331  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.++++|.|++|+||||+|+.++..+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998764

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.30  E-value=0.013  Score=52.94  Aligned_cols=33  Identities=36%  Similarity=0.500  Sum_probs=27.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.++-|.++|++|.|||-+|++++++.     ..||+.
T Consensus       209 dppkgvllygppgtgktl~aravanrt-----dacfir  241 (435)
T KOG0729|consen  209 DPPKGVLLYGPPGTGKTLCARAVANRT-----DACFIR  241 (435)
T ss_pred             CCCCceEEeCCCCCchhHHHHHHhccc-----CceEEe
Confidence            456788999999999999999999974     456665

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.29  E-value=0.0054  Score=58.75  Aligned_cols=47  Identities=19%  Similarity=0.138  Sum_probs=37.4

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +.++|+...+.++.+.+..-......|.|+|.+|+||+++|+.+...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            56889988888888777543334557889999999999999988753

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.29  E-value=0.03  Score=50.51  Aligned_cols=140  Identities=18%  Similarity=0.286  Sum_probs=75.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHH-HHHHHHHhhccccCCCCCchHHHHHH-
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLR-ERVLSEILEENLKIGTLNLPEYIKER-  268 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~-~~ll~~l~~~~~~~~~~~~~~~l~~~-  268 (420)
                      .++-+..+|++|.|||-+|++.+.+....|-                  .+. -++.....+.      .  ...++.. 
T Consensus       204 pPKGvLmYGPPGTGKTlmARAcAaqT~aTFL------------------KLAgPQLVQMfIGd------G--AkLVRDAF  257 (424)
T KOG0652|consen  204 PPKGVLMYGPPGTGKTLMARACAAQTNATFL------------------KLAGPQLVQMFIGD------G--AKLVRDAF  257 (424)
T ss_pred             CCCceEeeCCCCCcHHHHHHHHHHhccchHH------------------HhcchHHHhhhhcc------h--HHHHHHHH
Confidence            4667889999999999999999876544331                  000 0111111111      0  1222222 


Q ss_pred             ---hcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCCCC--CcEEEeecCC-----hhhhhhcCCCeEE
Q 046970          269 ---LQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRFGP--RSRIIVTTRD-----KQVFDECEVDSIY  322 (420)
Q Consensus       269 ---l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~~~--g~~IIiTtR~-----~~~~~~~~~~~~~  322 (420)
                         -...+.++.+|.++..                ...-.++..+..|.+  ..+||..|.-     +.++..-..+..+
T Consensus       258 aLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvDiLDPALlRSGRLDRKI  337 (424)
T KOG0652|consen  258 ALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVDILDPALLRSGRLDRKI  337 (424)
T ss_pred             HHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeecccccccCHHHhhcccccccc
Confidence               1345889999977322                113345555555544  4466765543     3333333445667


Q ss_pred             EeCCCCHHHHHHHHHhcccC-CCCCchhHHHHHHH
Q 046970          323 EVEGLNKDESLELFSNFAFR-QKICPKDFLVLSKR  356 (420)
Q Consensus       323 ~l~~L~~~ea~~L~~~~a~~-~~~~~~~~~~~~~~  356 (420)
                      +.+.-+.+.-.++++-++-+ +..++-+++++++.
T Consensus       338 EfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRs  372 (424)
T KOG0652|consen  338 EFPHPNEEARARILQIHSRKMNVSDDVNFEELARS  372 (424)
T ss_pred             cCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhc
Confidence            77665655556666666533 22445566665543

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.27  E-value=0.0054  Score=56.72  Aligned_cols=45  Identities=20%  Similarity=0.285  Sum_probs=33.5

Q ss_pred             cccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          183 SLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       183 ~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.+..+-+...++.|.|.+|+|||+||.+++.....+-..++|+.
T Consensus        27 ~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        27 RKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             cccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            333444455789999999999999999999876544445677776

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

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.26  E-value=0.031  Score=54.51  Aligned_cols=27  Identities=26%  Similarity=0.292  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+++.++|+.|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357999999999999999999998764

>KOG0062 consensus ATPase component of ABC transporters with duplicated ATPase domains/Translation elongation factor EF-3b [Amino acid transport and metabolism; Translation, ribosomal structure and biogenesis]

Probab=96.25  E-value=0.0072  Score=59.46  Aligned_cols=123  Identities=19%  Similarity=0.213  Sum_probs=65.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccc-----eEEEEecccccc-----------------ccCHHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEG-----ECFITNVREESE-----------------RVGLVHLRERVLSEI  249 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~-----~~~v~~~~~~~~-----------------~~~~~~l~~~ll~~l  249 (420)
                      .+.-+++|.+|+|||||.+++++..-..|+.     .+++.....+..                 ......+...++..+
T Consensus       106 GrRYGLvGrNG~GKsTLLRaia~~~v~~f~veqE~~g~~t~~~~~~l~~D~~~~dfl~~e~~l~~~~~l~ei~~~~L~gl  185 (582)
T KOG0062|consen  106 GRRYGLVGRNGIGKSTLLRAIANGQVSGFHVEQEVRGDDTEALQSVLESDTERLDFLAEEKELLAGLTLEEIYDKILAGL  185 (582)
T ss_pred             ccccceeCCCCCcHHHHHHHHHhcCcCccCchhheeccchHHHhhhhhccHHHHHHHHhhhhhhccchHHHHHHHHHHhC
Confidence            5788999999999999999999832222322     222221111000                 001122222233333


Q ss_pred             hhccc----cCCCCC----chHHHHHHhcCCeEEEEEeCCCCHHH---HHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          250 LEENL----KIGTLN----LPEYIKERLQQMKVFIVLDDVNKPEQ---LIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       250 ~~~~~----~~~~~~----~~~~l~~~l~~~~~LlVLDdv~~~~~---l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      +-...    ...+..    ..-.|.+.+-.++=||.||.-.+.-+   +..|-..+..  ....+||.|.+...++..
T Consensus       186 GFt~emq~~pt~slSGGWrMrlaLARAlf~~pDlLLLDEPTNhLDv~av~WLe~yL~t--~~~T~liVSHDr~FLn~V  261 (582)
T KOG0062|consen  186 GFTPEMQLQPTKSLSGGWRMRLALARALFAKPDLLLLDEPTNHLDVVAVAWLENYLQT--WKITSLIVSHDRNFLNTV  261 (582)
T ss_pred             CCCHHHHhccccccCcchhhHHHHHHHHhcCCCEEeecCCcccchhHHHHHHHHHHhh--CCceEEEEeccHHHHHHH
Confidence            22111    111221    15667777788889999997643322   2222222221  225688889998776654

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.24  E-value=0.02  Score=56.51  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ....++|+|++|.||||||+.+..
T Consensus       361 ~G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         361 AGEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CCceEEEECCCCccHHHHHHHHHc
Confidence            456899999999999999999875

>PLN03211 ABC transporter G-25; Provisional

Probab=96.23  E-value=0.035  Score=58.44  Aligned_cols=27  Identities=30%  Similarity=0.453  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|.|++|.|||||.+.++....
T Consensus        93 ~Ge~~aI~GpnGaGKSTLL~iLaG~~~  119 (659)
T PLN03211         93 PGEILAVLGPSGSGKSTLLNALAGRIQ  119 (659)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHhCCCC
Confidence            567999999999999999999998653

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

Probab=96.23  E-value=0.015  Score=52.76  Aligned_cols=26  Identities=23%  Similarity=0.211  Sum_probs=22.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|.|.+|.|||||++.+.--+
T Consensus        29 ~Ge~~~i~G~nGsGKSTL~~~l~GLl   54 (235)
T COG1122          29 KGERVLLIGPNGSGKSTLLKLLNGLL   54 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCcC
Confidence            45689999999999999999987643

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

Probab=96.22  E-value=0.0034  Score=57.93  Aligned_cols=48  Identities=27%  Similarity=0.335  Sum_probs=33.2

Q ss_pred             eeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh--hcc----ccceEEEE
Q 046970          180 HIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI--SSE----FEGECFIT  227 (420)
Q Consensus       180 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~--~~~----f~~~~~v~  227 (420)
                      .|.++|..+-....+.=|+|.+|+|||+|+.+++-..  ...    -..++|++
T Consensus        26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyid   79 (256)
T PF08423_consen   26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYID   79 (256)
T ss_dssp             HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEE
T ss_pred             HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEe
Confidence            3445555444456799999999999999999988643  222    12467776

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 ....

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=96.22  E-value=0.02  Score=52.27  Aligned_cols=26  Identities=31%  Similarity=0.433  Sum_probs=23.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....+++|.|.+|.|||||.+.++..
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~   49 (237)
T TIGR00968        24 PTGSLVALLGPSGSGKSTLLRIIAGL   49 (237)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            35679999999999999999999864

>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=96.20  E-value=0.0035  Score=55.70  Aligned_cols=22  Identities=32%  Similarity=0.238  Sum_probs=20.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .+++|+|++|.|||||.+.++.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            7899999999999999999984

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

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.20  E-value=0.011  Score=60.87  Aligned_cols=27  Identities=30%  Similarity=0.352  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|+.|.|||||++.+....
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356799999999999999999988643

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.20  E-value=0.0047  Score=53.27  Aligned_cols=26  Identities=42%  Similarity=0.461  Sum_probs=23.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+|+|.|++|+||||||+.+++..
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999999864

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=96.20  E-value=0.0088  Score=62.09  Aligned_cols=27  Identities=26%  Similarity=0.247  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|..|.|||||++.+....
T Consensus       356 ~~G~~v~IvG~sGsGKSTLl~lL~gl~  382 (571)
T TIGR02203       356 EPGETVALVGRSGSGKSTLVNLIPRFY  382 (571)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            346789999999999999999988654

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.

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.20  E-value=0.044  Score=47.16  Aligned_cols=24  Identities=38%  Similarity=0.314  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .++..|+|.+|+|||||...++-.
T Consensus        37 apIT~i~GENGsGKSTLLEaiA~~   60 (233)
T COG3910          37 APITFITGENGSGKSTLLEAIAAG   60 (233)
T ss_pred             CceEEEEcCCCccHHHHHHHHHhh
Confidence            578899999999999999998853

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.20  E-value=0.0044  Score=53.69  Aligned_cols=25  Identities=28%  Similarity=0.411  Sum_probs=22.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      +++.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5899999999999999999988753

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

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=96.19  E-value=0.01  Score=63.14  Aligned_cols=26  Identities=27%  Similarity=0.244  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|+|..|.|||||++.+....
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL~gl~  515 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLLLGLY  515 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            46789999999999999999988643

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.

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

Probab=96.19  E-value=0.0069  Score=58.32  Aligned_cols=27  Identities=30%  Similarity=0.417  Sum_probs=23.3

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...+++|.|++|.|||||++.++...
T Consensus        29 ~~Gei~gIiG~sGaGKSTLlr~I~gl~   55 (343)
T TIGR02314        29 PAGQIYGVIGASGAGKSTLIRCVNLLE   55 (343)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345799999999999999999998643

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

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=96.18  E-value=0.0038  Score=56.27  Aligned_cols=24  Identities=29%  Similarity=0.159  Sum_probs=21.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      +.+++.|+|++|.|||||.+.++.
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~   52 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGV   52 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHH
Confidence            567999999999999999998775

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

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.17  E-value=0.0059  Score=54.02  Aligned_cols=30  Identities=40%  Similarity=0.509  Sum_probs=26.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..+.+|+|.|.+|.||||+|+.++..+..+
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            346899999999999999999999988765

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=96.17  E-value=0.019  Score=58.96  Aligned_cols=26  Identities=27%  Similarity=0.393  Sum_probs=22.8

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +....++|+|+.|.|||||++.+...
T Consensus       346 ~~G~~~~ivG~sGsGKSTL~~ll~g~  371 (529)
T TIGR02857       346 PPGERVALVGPSGAGKSTLLNLLLGF  371 (529)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            35679999999999999999998864

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

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.16  E-value=0.0086  Score=61.10  Aligned_cols=49  Identities=22%  Similarity=0.215  Sum_probs=40.7

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...++|....++++.+.+..-......|.|+|..|+|||++|+.+.+.-
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s  234 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAAS  234 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            3569999999998888776544456688999999999999999998764

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.16  E-value=0.004  Score=61.84  Aligned_cols=47  Identities=21%  Similarity=0.106  Sum_probs=38.5

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...++||+..++.+...+..+    ..|.|.|++|+|||+||+.++.....
T Consensus        19 ~~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         19 EKGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             hhhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHhcc
Confidence            356999999999888776533    36889999999999999999986543

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.15  E-value=0.15  Score=48.14  Aligned_cols=130  Identities=8%  Similarity=0.099  Sum_probs=75.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc---------cc-ceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE---------FE-GECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL  261 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------f~-~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~  261 (420)
                      ..+..++|..|.||+++|..+++.+-..         .+ ...+++ .  ....-.+..+. ++...+.-..        
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d-~--~g~~i~vd~Ir-~l~~~~~~~~--------   85 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFD-I--FDKDLSKSEFL-SAINKLYFSS--------   85 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEec-c--CCCcCCHHHHH-HHHHHhccCC--------
Confidence            5678899999999999999999886111         11 112221 0  00111111111 1111111000        


Q ss_pred             hHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCC-hhhhhh-cCCCeEEEeCCCCHHHHHHHHH
Q 046970          262 PEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRD-KQVFDE-CEVDSIYEVEGLNKDESLELFS  337 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~-~~~~~~-~~~~~~~~l~~L~~~ea~~L~~  337 (420)
                            .-.+.+-++|+|+++..  .....|+..+...++.+.+|++|.+ ..+++. ......+++.+++.++..+.+.
T Consensus        86 ------~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~  159 (299)
T PRK07132         86 ------FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLL  159 (299)
T ss_pred             ------cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHH
Confidence                  00146778899998654  3355677666666677777765544 344433 3456889999999999998876


Q ss_pred             hc
Q 046970          338 NF  339 (420)
Q Consensus       338 ~~  339 (420)
                      ..
T Consensus       160 ~~  161 (299)
T PRK07132        160 SK  161 (299)
T ss_pred             Hc
Confidence            64

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.15  E-value=0.011  Score=62.71  Aligned_cols=49  Identities=24%  Similarity=0.249  Sum_probs=38.5

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...++|+...+..+.+.+..-......|.|+|.+|+|||++|+.+.+.-
T Consensus       375 ~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        375 FGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             ccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            3569999988888876665433344578899999999999999998754

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=96.15  E-value=0.031  Score=57.45  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||++.++..+
T Consensus        26 ~Ge~~~liG~NGsGKSTLl~~l~Gl~   51 (530)
T PRK15064         26 GGNRYGLIGANGCGKSTFMKILGGDL   51 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999999754

>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=96.14  E-value=0.0064  Score=52.87  Aligned_cols=25  Identities=52%  Similarity=0.716  Sum_probs=22.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +|+|.|.+|+||||||+.+...+..
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999988754

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

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.14  E-value=0.015  Score=60.32  Aligned_cols=27  Identities=22%  Similarity=0.234  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|++|.|||||++.++...
T Consensus       364 ~~G~~~aivG~sGsGKSTL~~ll~g~~  390 (574)
T PRK11160        364 KAGEKVALLGRTGCGKSTLLQLLTRAW  390 (574)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356799999999999999999998754

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.13  E-value=0.0044  Score=53.20  Aligned_cols=24  Identities=29%  Similarity=0.480  Sum_probs=20.8

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhc
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +.|+|.+|+|||||++.+++.++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            679999999999999999998754

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

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

Probab=96.12  E-value=0.019  Score=52.18  Aligned_cols=49  Identities=12%  Similarity=0.154  Sum_probs=32.5

Q ss_pred             hHHHHHHhcCCeEEEEEeCC------CCHHHHHHHhcCCCCCCCCcEEEeecCChh
Q 046970          262 PEYIKERLQQMKVFIVLDDV------NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQ  311 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv------~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~  311 (420)
                      ...+...|-+++-+|.||.+      .....+..++...+. ..++.|+.||.+-.
T Consensus       164 raeLaaaLLh~p~VLfLDEpTvgLDV~aq~~ir~Flke~n~-~~~aTVllTTH~~~  218 (325)
T COG4586         164 RAELAAALLHPPKVLFLDEPTVGLDVNAQANIREFLKEYNE-ERQATVLLTTHIFD  218 (325)
T ss_pred             HHHHHHHhcCCCcEEEecCCccCcchhHHHHHHHHHHHHHH-hhCceEEEEecchh
Confidence            45555666677889999965      333445566555432 36788999999753

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

Probab=96.12  E-value=0.0068  Score=54.81  Aligned_cols=48  Identities=29%  Similarity=0.290  Sum_probs=34.5

Q ss_pred             eeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          180 HIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       180 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      .|.++|..+-+...++.|.|.+|+|||+|+.+++.....+ -+.++|+.
T Consensus         7 ~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen    7 GLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             THHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             hHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            3445555444567899999999999999999988765444 45667776

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 ....

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.11  E-value=0.0096  Score=57.59  Aligned_cols=96  Identities=18%  Similarity=0.113  Sum_probs=55.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcccc---ceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFE---GECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKE  267 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~---~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~  267 (420)
                      ...|.|+|+.|.||||++..+.+.+....+   .++.+.+.-+.    ....+...  .....+......... ...++.
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~----~~~~~~~~--~~~v~Q~~v~~~~~~~~~~l~~  207 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEF----VYDEIETI--SASVCQSEIPRHLNNFAAGVRN  207 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceE----eccccccc--cceeeeeeccccccCHHHHHHH
Confidence            469999999999999999999987754332   22333211111    11110000  000001110111122 677888


Q ss_pred             HhcCCeEEEEEeCCCCHHHHHHHhcC
Q 046970          268 RLQQMKVFIVLDDVNKPEQLIFLVGG  293 (420)
Q Consensus       268 ~l~~~~~LlVLDdv~~~~~l~~l~~~  293 (420)
                      .|+..+-.+++..+.+.+.....+..
T Consensus       208 aLR~~Pd~i~vGEiRd~et~~~al~a  233 (358)
T TIGR02524       208 ALRRKPHAILVGEARDAETISAALEA  233 (358)
T ss_pred             HhccCCCEEeeeeeCCHHHHHHHHHH
Confidence            89999999999999888877654433

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

>PRK13947 shikimate kinase; Provisional

Probab=96.11  E-value=0.0043  Score=53.41  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=22.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .|.|+|++|+||||+|+.+++++.-
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999998743

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.09  E-value=0.036  Score=52.52  Aligned_cols=47  Identities=19%  Similarity=0.125  Sum_probs=32.0

Q ss_pred             CcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          170 GSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .++=.......+...+..    .+.|.|.|.+|+||||+|+.++..+...+
T Consensus        46 ~y~f~~~~~~~vl~~l~~----~~~ilL~G~pGtGKTtla~~lA~~l~~~~   92 (327)
T TIGR01650        46 AYLFDKATTKAICAGFAY----DRRVMVQGYHGTGKSTHIEQIAARLNWPC   92 (327)
T ss_pred             CccCCHHHHHHHHHHHhc----CCcEEEEeCCCChHHHHHHHHHHHHCCCe
Confidence            343333334445555542    34689999999999999999999875443

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=96.08  E-value=0.028  Score=55.30  Aligned_cols=27  Identities=37%  Similarity=0.506  Sum_probs=23.3

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|++|.|||||.+.++..+
T Consensus        27 ~~Geiv~liGpNGaGKSTLLk~LaGll   53 (402)
T PRK09536         27 REGSLVGLVGPNGAGKTTLLRAINGTL   53 (402)
T ss_pred             CCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            356799999999999999999998743

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=96.07  E-value=0.038  Score=58.03  Aligned_cols=26  Identities=35%  Similarity=0.484  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|+|++|+|||||.+.++...
T Consensus        26 ~Ge~v~LvG~NGsGKSTLLkiL~G~~   51 (638)
T PRK10636         26 PGQKVGLVGKNGCGKSTLLALLKNEI   51 (638)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999999754

>PRK13409 putative ATPase RIL; Provisional

Probab=96.07  E-value=0.026  Score=58.54  Aligned_cols=26  Identities=35%  Similarity=0.565  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||.+.++..+
T Consensus        98 ~Gev~gLvG~NGaGKSTLlkiL~G~l  123 (590)
T PRK13409         98 EGKVTGILGPNGIGKTTAVKILSGEL  123 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            46799999999999999999998754

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.07  E-value=0.47  Score=46.93  Aligned_cols=29  Identities=21%  Similarity=0.255  Sum_probs=25.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+|.++|++|+||||++..++..++.+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            46899999999999999999999876544

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.

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=96.07  E-value=0.042  Score=50.72  Aligned_cols=26  Identities=35%  Similarity=0.506  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|.+|.|||||++.++...
T Consensus        46 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   71 (257)
T cd03288          46 PGQKVGICGRTGSGKSSLSLAFFRMV   71 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccc
Confidence            45799999999999999999998753

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=96.06  E-value=0.029  Score=57.41  Aligned_cols=26  Identities=23%  Similarity=0.314  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++..+
T Consensus        36 ~Ge~~~liG~NGsGKSTLl~~l~Gl~   61 (510)
T PRK15439         36 AGEVHALLGGNGAGKSTLMKIIAGIV   61 (510)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999998753

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.05  E-value=0.016  Score=60.52  Aligned_cols=27  Identities=30%  Similarity=0.468  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|..|.|||||++.+....
T Consensus       365 ~~Ge~iaIvG~SGsGKSTLl~lL~gl~  391 (592)
T PRK10790        365 PSRGFVALVGHTGSGKSTLASLLMGYY  391 (592)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            346789999999999999999998754

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

Probab=96.04  E-value=0.079  Score=52.75  Aligned_cols=73  Identities=23%  Similarity=0.282  Sum_probs=48.1

Q ss_pred             cccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhh-ccccceEEEEeccccccccCHHHHHHHHHHHH
Q 046970          171 SVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS-SEFEGECFITNVREESERVGLVHLRERVLSEI  249 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l  249 (420)
                      ..|...-...|.+++. +-....++.|.|.+|+|||++|..++.... .+-..++|+.      -......+..+++...
T Consensus       174 ~~gi~tG~~~LD~~~~-G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS------lEm~~~~l~~Rl~~~~  246 (421)
T TIGR03600       174 LTGLSTGLPKLDRLTN-GLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFS------LEMSAEQLGERLLASK  246 (421)
T ss_pred             CcceeCCChhHHHHhc-CCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE------CCCCHHHHHHHHHHHH
Confidence            4555555666666655 445567999999999999999999997654 3323455554      2335556666666554


Q ss_pred             h
Q 046970          250 L  250 (420)
Q Consensus       250 ~  250 (420)
                      .
T Consensus       247 ~  247 (421)
T TIGR03600       247 S  247 (421)
T ss_pred             c
Confidence            3

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.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.04  E-value=0.0086  Score=54.27  Aligned_cols=47  Identities=26%  Similarity=0.296  Sum_probs=34.6

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |.++|..+-+....+.|.|.+|+|||+|+.+++.....+-..++|+.
T Consensus         9 LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881         9 LDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             HHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            44445444556789999999999999999998865434445677776

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.

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

Probab=96.03  E-value=0.0052  Score=53.37  Aligned_cols=25  Identities=24%  Similarity=0.396  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+++|.|++|+|||||++.++..+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988753

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

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.01  E-value=0.017  Score=51.87  Aligned_cols=23  Identities=30%  Similarity=0.239  Sum_probs=20.5

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|.|.|++|+||||+|+.++.++
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998765

>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=96.01  E-value=0.015  Score=50.73  Aligned_cols=33  Identities=30%  Similarity=0.241  Sum_probs=26.7

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.|.|++|+|||+|+.+++......-..++|+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            679999999999999999887655445667765

A related protein is found in archaea.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.01  E-value=0.0079  Score=52.47  Aligned_cols=36  Identities=25%  Similarity=0.325  Sum_probs=30.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .+++.|+|++|+|||||+..+.......|...+...
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccceeec
Confidence            468999999999999999999999888886554443

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.01  E-value=0.0029  Score=51.82  Aligned_cols=26  Identities=27%  Similarity=0.261  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...++.+.|..|.|||||++.+++.+
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34589999999999999999999875

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.01  E-value=0.02  Score=50.72  Aligned_cols=107  Identities=18%  Similarity=0.163  Sum_probs=57.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhcc---cc--ceEEEEeccccccc-cCHHHHHHHHHHHHhhccccCCCCCc-hHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSE---FE--GECFITNVREESER-VGLVHLRERVLSEILEENLKIGTLNL-PEYIK  266 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~---f~--~~~~v~~~~~~~~~-~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~  266 (420)
                      -..|.|+||+|||||.+.+++-++..   |.  .++.++..++.... .+........-.       +..+..- .+-+.
T Consensus       139 ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~-------dVld~cpk~~gmm  211 (308)
T COG3854         139 NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRM-------DVLDPCPKAEGMM  211 (308)
T ss_pred             eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhh-------hhcccchHHHHHH
Confidence            36789999999999999999876443   32  23333311111100 000000000000       0111111 22233


Q ss_pred             HHhcC-CeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCCh
Q 046970          267 ERLQQ-MKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDK  310 (420)
Q Consensus       267 ~~l~~-~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~  310 (420)
                      ...++ -+=++|.|.+-..++..++...+   ..|.+++.|..--
T Consensus       212 maIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG~  253 (308)
T COG3854         212 MAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHGN  253 (308)
T ss_pred             HHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeeccc
Confidence            33333 57899999998887777776664   4788888777543

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.00  E-value=0.0047  Score=54.66  Aligned_cols=23  Identities=52%  Similarity=0.729  Sum_probs=21.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|+|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.00  E-value=0.0045  Score=55.72  Aligned_cols=25  Identities=36%  Similarity=0.478  Sum_probs=22.3

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +|+|.|.+|+||||||+.+...+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~   25 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSR   25 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            5899999999999999999988753

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

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=95.99  E-value=0.019  Score=58.50  Aligned_cols=172  Identities=20%  Similarity=0.257  Sum_probs=93.3

Q ss_pred             CCCcccccccceeeec---ccccCC-------CCceEEEEeccCcchHHHHHHHHHHHhhcccc---ceEEEEecccccc
Q 046970          168 FTGSVGVNSRIRHIKS---LLHLGL-------PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE---GECFITNVREESE  234 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~---~L~~~~-------~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~---~~~~v~~~~~~~~  234 (420)
                      ..+..|.|...+++.+   .|....       .-++-+.++|++|.|||.||++++....--|-   +.-|+.       
T Consensus       149 F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVe-------  221 (596)
T COG0465         149 FADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVE-------  221 (596)
T ss_pred             hhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhh-------
Confidence            3556777665555544   333221       22678899999999999999999986433221   111111       


Q ss_pred             ccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCCC
Q 046970          235 RVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRFG  298 (420)
Q Consensus       235 ~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~~  298 (420)
                                   ...    ........+...+..++-++++++|.++..                +.+..++.....++
T Consensus       222 -------------mfV----GvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~  284 (596)
T COG0465         222 -------------MFV----GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFG  284 (596)
T ss_pred             -------------hhc----CCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCC
Confidence                         000    001111134444455567899999976322                24666766666565


Q ss_pred             CCc--EEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCC-chhHHHHHHHHHHHhcCChHH
Q 046970          299 PRS--RIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLELFSNFAFRQKIC-PKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       299 ~g~--~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~-~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      .+.  -||..|.-+++     +..-..+..+.++.-+...-.++++-|+-..... .-++    ..|++.+-|.-.|
T Consensus       285 ~~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl----~~iAr~tpGfsGA  357 (596)
T COG0465         285 GNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDL----KKIARGTPGFSGA  357 (596)
T ss_pred             CCCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCH----HHHhhhCCCcccc
Confidence            333  23333332333     3333456777787777777888888666332221 2222    2366666665443

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

Probab=95.99  E-value=0.0028  Score=64.57  Aligned_cols=51  Identities=24%  Similarity=0.364  Sum_probs=41.2

Q ss_pred             Ccccccccceeeecccc----cCCCCceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          170 GSVGVNSRIRHIKSLLH----LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~----~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      +-+|+++-.+++.+++.    .++.+.++++.+|++|+|||++|+.++..+-..|
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkF  466 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKF  466 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCce
Confidence            45788888888877664    2445689999999999999999999999876655

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=95.99  E-value=0.027  Score=57.33  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||.+.++..+
T Consensus        28 ~Ge~~~liG~nGsGKSTLl~~l~G~~   53 (490)
T PRK10938         28 AGDSWAFVGANGSGKSALARALAGEL   53 (490)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45799999999999999999998754

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=95.96  E-value=0.068  Score=51.80  Aligned_cols=134  Identities=16%  Similarity=0.255  Sum_probs=68.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh-------cccc-ceEEEEecc-c--cccccCHHHHHHHH-------HHHHhh-
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS-------SEFE-GECFITNVR-E--ESERVGLVHLRERV-------LSEILE-  251 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~-------~~f~-~~~~v~~~~-~--~~~~~~~~~l~~~l-------l~~l~~-  251 (420)
                      --..|+|+|+.|+|||||.+.+...+.       .+-. .+-|.+.-. +  .........+++.+       -.+++. 
T Consensus       612 mdSRiaIVGPNGVGKSTlLkLL~Gkl~P~~GE~RKnhrL~iG~FdQh~~E~L~~Eetp~EyLqr~FNlpyq~ARK~LG~f  691 (807)
T KOG0066|consen  612 MDSRIAIVGPNGVGKSTLLKLLIGKLDPNDGELRKNHRLRIGWFDQHANEALNGEETPVEYLQRKFNLPYQEARKQLGTF  691 (807)
T ss_pred             ccceeEEECCCCccHHHHHHHHhcCCCCCcchhhccceeeeechhhhhHHhhccccCHHHHHHHhcCCChHHHHHHhhhh
Confidence            346799999999999999999886532       2211 122322000 0  00011112222211       111111 


Q ss_pred             ------ccccCCCCC---c-hHHHHHHhcCCeEEEEEeCCC---CHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCC
Q 046970          252 ------ENLKIGTLN---L-PEYIKERLQQMKVFIVLDDVN---KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEV  318 (420)
Q Consensus       252 ------~~~~~~~~~---~-~~~l~~~l~~~~~LlVLDdv~---~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~  318 (420)
                            ....+.++.   . ...+.+..-+.+-+||||.-.   +.+.++.|...++.+. |. ||+.|.+..+....+ 
T Consensus       692 GL~sHAHTikikdLSGGQKaRValaeLal~~PDvlILDEPTNNLDIESIDALaEAIney~-Gg-Vi~VsHDeRLi~eT~-  768 (807)
T KOG0066|consen  692 GLASHAHTIKIKDLSGGQKARVALAELALGGPDVLILDEPTNNLDIESIDALAEAINEYN-GG-VIMVSHDERLIVETD-  768 (807)
T ss_pred             hhhhccceEeeeecCCcchHHHHHHHHhcCCCCEEEecCCCCCcchhhHHHHHHHHHhcc-Cc-EEEEecccceeeecC-
Confidence                  011222222   1 455666666788899999653   4456677776666553 33 666677766544332 


Q ss_pred             CeEEEeCCC
Q 046970          319 DSIYEVEGL  327 (420)
Q Consensus       319 ~~~~~l~~L  327 (420)
                      ...+-++.-
T Consensus       769 C~LwVvE~Q  777 (807)
T KOG0066|consen  769 CNLWVVENQ  777 (807)
T ss_pred             ceEEEEccC
Confidence            234444443

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.96  E-value=0.016  Score=51.48  Aligned_cols=24  Identities=29%  Similarity=0.166  Sum_probs=21.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ..++++|.|++|.||||+.+.++.
T Consensus        28 ~~~~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          28 SSRFHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998875

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

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=95.96  E-value=0.036  Score=59.13  Aligned_cols=27  Identities=30%  Similarity=0.338  Sum_probs=23.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|++|.|||||++.+....
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl~  531 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNLY  531 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            356799999999999999999998754

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.95  E-value=0.028  Score=53.93  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|..|.|||||++.++...
T Consensus       107 ~Ge~v~IvG~~GsGKSTLl~~L~g~~  132 (329)
T PRK14257        107 RNKVTAFIGPSGCGKSTFLRNLNQLN  132 (329)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45789999999999999999998654

>PRK05973 replicative DNA helicase; Provisional

Probab=95.95  E-value=0.022  Score=51.61  Aligned_cols=38  Identities=18%  Similarity=0.058  Sum_probs=29.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ....++.|.|.+|+|||+|+.+++.....+-..++++.
T Consensus        62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         62 KPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            35678999999999999999999886644444455554

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=95.94  E-value=0.011  Score=62.89  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|+|.+|.|||||++.++...
T Consensus       482 ~G~~vaivG~sGsGKSTL~~ll~g~~  507 (694)
T TIGR01846       482 PGEFIGIVGPSGSGKSTLTKLLQRLY  507 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            46789999999999999999998754

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.94  E-value=0.026  Score=53.96  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.9

Q ss_pred             EEEeccCcchHHHHHHHHHHHhh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      +.+.|++|.||||+++.+.+.+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999998875

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=95.93  E-value=0.059  Score=51.85  Aligned_cols=145  Identities=19%  Similarity=0.246  Sum_probs=77.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcc----ccc-------------------eEEEEeccccccccCHHHHHHHH-
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSE----FEG-------------------ECFITNVREESERVGLVHLRERV-  245 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----f~~-------------------~~~v~~~~~~~~~~~~~~l~~~l-  245 (420)
                      .....++|+|.+|.|||||.+++..-+...    |.+                   ++|-+-.+..+....+..+..+= 
T Consensus       311 ~~gqTlGlVGESGSGKsTlG~allrL~~s~G~I~F~G~~i~~~~~~~mrplR~~mQvVFQDPygSLsPRmtV~qII~EGL  390 (534)
T COG4172         311 RRGQTLGLVGESGSGKSTLGLALLRLIPSQGEIRFDGQDIDGLSRKEMRPLRRRMQVVFQDPYGSLSPRMTVGQIIEEGL  390 (534)
T ss_pred             cCCCeEEEEecCCCCcchHHHHHHhhcCcCceEEECCccccccChhhhhhhhhhceEEEeCCCCCCCcccCHHHHhhhhh
Confidence            346799999999999999999999865443    221                   22222222222222333322211 


Q ss_pred             ----------------HHHHhh---ccc-------cCCCCCc-hHHHHHHhcCCeEEEEEeCCCCH------HHHHHHhc
Q 046970          246 ----------------LSEILE---ENL-------KIGTLNL-PEYIKERLQQMKVFIVLDDVNKP------EQLIFLVG  292 (420)
Q Consensus       246 ----------------l~~l~~---~~~-------~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~------~~l~~l~~  292 (420)
                                      ...+..   ...       +....+. .-.+.+.+-=|+-+++||.-.+.      .++-+|+.
T Consensus       391 ~vh~~~ls~~eR~~rv~~aL~EVGLDp~~r~RYPhEFSGGQRQRIAIARAliLkP~~i~LDEPTSALD~SVQaQvv~LLr  470 (534)
T COG4172         391 RVHEPKLSAAERDQRVIEALEEVGLDPATRNRYPHEFSGGQRQRIAIARALILKPELILLDEPTSALDRSVQAQVLDLLR  470 (534)
T ss_pred             hhcCCCCCHHHHHHHHHHHHHHcCCChhHhhcCCcccCcchhhHHHHHHHHhcCCcEEEecCCchHhhHHHHHHHHHHHH
Confidence                            111111   000       1112222 45666777778999999986443      23334444


Q ss_pred             CCCCCCCCcEEEeecCChhhhhhcCCCeEEEeCC---CCHHHHHHHH
Q 046970          293 GLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEG---LNKDESLELF  336 (420)
Q Consensus       293 ~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~~---L~~~ea~~L~  336 (420)
                      .+.. ..|-.-|..|.|-.|...+ +.+++-++.   .+..++.++|
T Consensus       471 ~LQ~-k~~LsYLFISHDL~VvrAl-~~~viVm~~GkiVE~G~~~~if  515 (534)
T COG4172         471 DLQQ-KHGLSYLFISHDLAVVRAL-CHRVIVMRDGKIVEQGPTEAVF  515 (534)
T ss_pred             HHHH-HhCCeEEEEeccHHHHHHh-hceEEEEeCCEEeeeCCHHHHh
Confidence            4332 2455677888888876654 333333321   3344555566

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=95.93  E-value=0.021  Score=61.01  Aligned_cols=27  Identities=26%  Similarity=0.239  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|..|.|||||++.+....
T Consensus       503 ~~Ge~vaIvG~sGsGKSTLlklL~gl~  529 (710)
T TIGR03796       503 QPGQRVALVGGSGSGKSTIAKLVAGLY  529 (710)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            346799999999999999999998643

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.

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=95.93  E-value=0.043  Score=57.66  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++...
T Consensus        28 ~Ge~v~LvG~NGsGKSTLLriiaG~~   53 (635)
T PRK11147         28 DNERVCLVGRNGAGKSTLMKILNGEV   53 (635)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45689999999999999999998754

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=95.91  E-value=0.042  Score=50.03  Aligned_cols=25  Identities=24%  Similarity=0.174  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|.|.+|.|||||++.++..
T Consensus        24 ~Ge~~~i~G~nG~GKStLl~~l~G~   48 (235)
T cd03299          24 RGDYFVILGPTGSGKSVLLETIAGF   48 (235)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999999864

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.90  E-value=0.0053  Score=51.56  Aligned_cols=23  Identities=30%  Similarity=0.590  Sum_probs=20.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ++.|+|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            36799999999999999998874

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.90  E-value=0.034  Score=49.62  Aligned_cols=39  Identities=21%  Similarity=0.354  Sum_probs=28.2

Q ss_pred             cccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH
Q 046970          173 GVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       173 GR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |....++.+.--+.    ....|+|.|++|.|||||.+.+...
T Consensus        15 ~~~~aL~~Vnl~I~----~GE~VaiIG~SGaGKSTLLR~lngl   53 (258)
T COG3638          15 GGHQALKDVNLEIN----QGEMVAIIGPSGAGKSTLLRSLNGL   53 (258)
T ss_pred             CCceeeeeEeEEeC----CCcEEEEECCCCCcHHHHHHHHhcc
Confidence            44444454443333    4569999999999999999998864

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=95.90  E-value=0.0081  Score=50.59  Aligned_cols=20  Identities=35%  Similarity=0.370  Sum_probs=18.4

Q ss_pred             EeccCcchHHHHHHHHHHHh
Q 046970          197 IWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       197 I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|+||+||||+|+.++.+.
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999875

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=95.89  E-value=0.0058  Score=50.94  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=21.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|.|.|++|+||||+|+.++..+
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999875

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.89  E-value=0.069  Score=48.70  Aligned_cols=40  Identities=28%  Similarity=0.284  Sum_probs=30.5

Q ss_pred             CCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          188 GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       188 ~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      +-....++.|.|.+|+|||+++.+++.....+ -..++|+.
T Consensus         9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s   49 (242)
T cd00984           9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS   49 (242)
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence            34456799999999999999999998876443 34556665

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.88  E-value=0.022  Score=51.48  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=20.4

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|.|++|+||||+|+.+++++
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998875

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=95.87  E-value=0.039  Score=56.43  Aligned_cols=26  Identities=27%  Similarity=0.480  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||++.++...
T Consensus       288 ~Ge~~~l~G~NGsGKSTLl~~i~Gl~  313 (510)
T PRK15439        288 AGEILGLAGVVGAGRTELAETLYGLR  313 (510)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            46799999999999999999998643

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

Probab=95.87  E-value=0.02  Score=55.92  Aligned_cols=26  Identities=27%  Similarity=0.235  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||.+.++...
T Consensus        28 ~Ge~~~l~G~nGsGKSTLL~~iaGl~   53 (369)
T PRK11000         28 EGEFVVFVGPSGCGKSTLLRMIAGLE   53 (369)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999998743

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=95.87  E-value=0.024  Score=58.95  Aligned_cols=27  Identities=30%  Similarity=0.279  Sum_probs=23.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|++|.|||||++.+....
T Consensus       359 ~~G~~~~ivG~sGsGKSTL~~ll~g~~  385 (585)
T TIGR01192       359 KAGQTVAIVGPTGAGKTTLINLLQRVY  385 (585)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHccCC
Confidence            346799999999999999999887643

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.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.86  E-value=0.0066  Score=50.71  Aligned_cols=23  Identities=35%  Similarity=0.582  Sum_probs=21.3

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|.|.|++|+||||+|+.+++++
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~   24 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL   24 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh
Confidence            58899999999999999999876

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

Probab=95.86  E-value=0.0056  Score=53.44  Aligned_cols=23  Identities=43%  Similarity=0.561  Sum_probs=21.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|+|.|.+|+||||||+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999875

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

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

Probab=95.85  E-value=0.012  Score=48.99  Aligned_cols=35  Identities=20%  Similarity=0.320  Sum_probs=26.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhc-cccceEEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISS-EFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~v~  227 (420)
                      ++|.|+|..|+|||||++.+.+.+.. .+...+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~   36 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKH   36 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEE
Confidence            47899999999999999999998764 444444444

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=95.84  E-value=0.015  Score=56.45  Aligned_cols=106  Identities=16%  Similarity=0.103  Sum_probs=60.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcccc--ceEEEEeccccccccCHHHHHHHHHHHHhhccccC-CCCCc-hHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFE--GECFITNVREESERVGLVHLRERVLSEILEENLKI-GTLNL-PEYIKER  268 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~~~~~-~~~l~~~  268 (420)
                      ..+.|+|+.|.||||++..+.+.+....+  ..+-+.+.-+.... ....    +..  ..+ ... .+... .+.++..
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~-~~~~----~~~--~~q-~evg~~~~~~~~~l~~a  221 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILG-SPDD----LLP--PAQ-SQIGRDVDSFANGIRLA  221 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccC-CCce----eec--ccc-cccCCCccCHHHHHHHh
Confidence            47889999999999999999887754332  23333322111000 0000    000  000 011 11122 6778889


Q ss_pred             hcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCC
Q 046970          269 LQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRD  309 (420)
Q Consensus       269 l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~  309 (420)
                      |+..+=.++++.+.+.+..+..+...   ..|..++-|-.-
T Consensus       222 LR~~PD~I~vGEiRd~et~~~al~aa---~TGH~v~tTlHa  259 (372)
T TIGR02525       222 LRRAPKIIGVGEIRDLETFQAAVLAG---QSGHFCLGTLHV  259 (372)
T ss_pred             hccCCCEEeeCCCCCHHHHHHHHHHH---hcCCcEEEeeCC
Confidence            99999999999999888877544332   245445544443

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.84  E-value=0.0093  Score=54.10  Aligned_cols=30  Identities=33%  Similarity=0.411  Sum_probs=26.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ....+++|.|++|.|||||++.+...+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            357899999999999999999999877654

>PRK13949 shikimate kinase; Provisional

Probab=95.84  E-value=0.0067  Score=52.22  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.7

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      -|.|+|++|.||||+++.++..+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999998764

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.83  E-value=0.014  Score=49.54  Aligned_cols=37  Identities=19%  Similarity=0.233  Sum_probs=30.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+|-++|++|.||||||..+...+.........++
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LD   58 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLD   58 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            4678999999999999999999999877655444443

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=95.83  E-value=0.024  Score=56.92  Aligned_cols=54  Identities=20%  Similarity=0.228  Sum_probs=34.6

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC------HHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK------PEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~------~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      ...+.-.|..++-|||+|.-..      ..++-+++..+.. ..|.-+|++|.+..+....
T Consensus       162 Rv~iAmALa~~P~LLIaDEPTTaLDvt~q~qIL~llk~l~~-e~g~a~l~ITHDl~Vva~~  221 (539)
T COG1123         162 RVMIAMALALKPKLLIADEPTTALDVTTQAQILDLLKDLQR-ELGMAVLFITHDLGVVAEL  221 (539)
T ss_pred             HHHHHHHHhCCCCEEEECCCccccCHHHHHHHHHHHHHHHH-HcCcEEEEEcCCHHHHHHh
Confidence            3455566788899999997632      2333333333221 3577899999999886654

>TIGR01351 adk adenylate kinases

Probab=95.83  E-value=0.022  Score=50.84  Aligned_cols=22  Identities=32%  Similarity=0.315  Sum_probs=19.8

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|.|++|+||||+|+.++.++
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998764

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=95.82  E-value=0.021  Score=60.86  Aligned_cols=27  Identities=30%  Similarity=0.310  Sum_probs=23.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|.+|.|||||++.+....
T Consensus       498 ~~G~~vaIvG~SGsGKSTLlklL~gl~  524 (708)
T TIGR01193       498 KMNSKTTIVGMSGSGKSTLAKLLVGFF  524 (708)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            346789999999999999999998643

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.81  E-value=0.017  Score=49.63  Aligned_cols=29  Identities=21%  Similarity=0.343  Sum_probs=25.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+++|+|..|+|||||++.+...+..+
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            45799999999999999999999887653

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.81  E-value=0.015  Score=54.12  Aligned_cols=37  Identities=19%  Similarity=0.296  Sum_probs=28.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.+++.++|++|+||||++..++..+...-..+.++.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~  107 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA  107 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence            4689999999999999999999987765533344443

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=95.80  E-value=0.058  Score=57.47  Aligned_cols=103  Identities=15%  Similarity=0.205  Sum_probs=64.6

Q ss_pred             CcccccccceeeecccccC---C---CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          170 GSVGVNSRIRHIKSLLHLG---L---PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~---~---~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      .++|-+..+..|.+.+...   .   .....+.+.|+.|+|||-||++++..+.+..+.-+-++          +....+
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriD----------mse~~e  632 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLD----------MSEFQE  632 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEec----------hhhhhh
Confidence            3455555555554444211   1   13567789999999999999999998866655554444          222222


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCe-EEEEEeCCCCH
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMK-VFIVLDDVNKP  284 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~-~LlVLDdv~~~  284 (420)
                        .+.+.+.+...-..+....|.+.++.++ .++.||||+..
T Consensus       633 --vskligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  633 --VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             --hhhccCCCcccccchhHHHHHHHHhcCCceEEEEechhhc
Confidence              3444444443444444667888888876 58889999654

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.80  E-value=0.0069  Score=51.26  Aligned_cols=20  Identities=35%  Similarity=0.562  Sum_probs=18.6

Q ss_pred             EEEEeccCcchHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~  213 (420)
                      .|+|+|.||+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58899999999999999987

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=95.79  E-value=0.043  Score=55.86  Aligned_cols=60  Identities=17%  Similarity=0.180  Sum_probs=36.8

Q ss_pred             hHHHHHHhcCCeEEEEEeCC------CCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          262 PEYIKERLQQMKVFIVLDDV------NKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv------~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      .-.+.+.+..++-+|+||+-      .....+..++..+.  ..|..||++|.+....... +++++.+
T Consensus       399 rv~la~al~~~p~illLDEPt~gLD~~~~~~~~~~l~~l~--~~~~tvi~vsHd~~~~~~~-~d~v~~l  464 (491)
T PRK10982        399 KVIIGRWLLTQPEILMLDEPTRGIDVGAKFEIYQLIAELA--KKDKGIIIISSEMPELLGI-TDRILVM  464 (491)
T ss_pred             HHHHHHHHhcCCCEEEEcCCCcccChhHHHHHHHHHHHHH--HCCCEEEEECCChHHHHhh-CCEEEEE
Confidence            44556667778899999975      23333444443333  2356699999987765543 3455555

>PRK04328 hypothetical protein; Provisional

Probab=95.79  E-value=0.013  Score=53.92  Aligned_cols=48  Identities=21%  Similarity=0.293  Sum_probs=35.6

Q ss_pred             eeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          180 HIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       180 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .|.++|..+-+...++.|.|.+|.|||+|+.+++.....+-+.++|+.
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            344555555556789999999999999999998876434445666765

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.78  E-value=0.03  Score=56.28  Aligned_cols=29  Identities=21%  Similarity=0.332  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+++|+|++|+||||++..++..+..+
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~  377 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQ  377 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            36799999999999999999999876443

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=95.78  E-value=0.024  Score=56.31  Aligned_cols=51  Identities=14%  Similarity=0.202  Sum_probs=33.5

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCCH---H---HHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVNKP---E---QLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~~---~---~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      ...|.+.|-.+|-||.||+-.+-   +   -++.++....   .+ .++|++|+...++..
T Consensus       229 R~aLAr~Lf~kP~LLLLDEPtnhLDleA~~wLee~L~k~d---~~-~lVi~sh~QDfln~v  285 (614)
T KOG0927|consen  229 RAALARALFQKPDLLLLDEPTNHLDLEAIVWLEEYLAKYD---RI-ILVIVSHSQDFLNGV  285 (614)
T ss_pred             HHHHHHHHhcCCCEEEecCCccCCCHHHHHHHHHHHHhcc---Cc-eEEEEecchhhhhhH
Confidence            45566667778999999986332   2   2444444432   22 688999998877665

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.78  E-value=0.0091  Score=53.20  Aligned_cols=27  Identities=22%  Similarity=0.265  Sum_probs=23.2

Q ss_pred             CCCceEEEEeccCcchHHHHHHHHHHH
Q 046970          189 LPDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       189 ~~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....+.+.|+|++|+|||||+..+...
T Consensus        10 ~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         10 PAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            345789999999999999999998754

>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=95.77  E-value=0.0094  Score=54.05  Aligned_cols=30  Identities=27%  Similarity=0.496  Sum_probs=24.5

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ....+|+|+|+||.|||||..++...++..
T Consensus        27 g~a~~iGiTG~PGaGKSTli~~l~~~~~~~   56 (266)
T PF03308_consen   27 GRAHVIGITGPPGAGKSTLIDALIRELRER   56 (266)
T ss_dssp             T-SEEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred             CCceEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence            356799999999999999999999877654

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.

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

Probab=95.77  E-value=0.037  Score=53.76  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|.|++|.|||||.+.++..
T Consensus        30 ~Ge~~~llGpsGsGKSTLLr~iaGl   54 (362)
T TIGR03258        30 AGELLALIGKSGCGKTTLLRAIAGF   54 (362)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999974

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.

>PRK08506 replicative DNA helicase; Provisional

Probab=95.77  E-value=0.11  Score=52.31  Aligned_cols=73  Identities=18%  Similarity=0.213  Sum_probs=46.9

Q ss_pred             cccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHh
Q 046970          171 SVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEIL  250 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~  250 (420)
                      ..|...-+..|.+++ .+-.....+.|-|.+|+|||++|..++.....+-..++|+.      -......+...++....
T Consensus       172 ~~Gi~TG~~~LD~~~-~G~~~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fS------lEMs~~ql~~Rlla~~s  244 (472)
T PRK08506        172 IIGLDTGFVELNKMT-KGFNKGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFS------LEMPAEQLMLRMLSAKT  244 (472)
T ss_pred             CCcccCChHHHHhhc-CCCCCCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEe------CcCCHHHHHHHHHHHhc
Confidence            445555555555554 24445679999999999999999999987644323444443      23455666666665543

>PTZ00494 tuzin-like protein; Provisional

Probab=95.76  E-value=0.19  Score=49.17  Aligned_cols=207  Identities=13%  Similarity=0.106  Sum_probs=110.7

Q ss_pred             hHHhHHHHhhhhcc-------------ccccCCCCCch--hhHHHHHHHHHHHhhhcccc-----cccCCCCcccccccc
Q 046970          119 KVHKWSGALTEASN-------------ISGWDSTNMRP--EARLVDEIVKDIMKKLKDKL-----LSRDFTGSVGVNSRI  178 (420)
Q Consensus       119 ~~~~w~~al~~~~~-------------~~g~~~~~~~~--e~~~i~~i~~~v~~~l~~~~-----~~~~~~~~vGR~~~l  178 (420)
                      +-+.||-++++-+.             .-||.+++...  .+-...-.++...+.+++..     .......+|.|+.+-
T Consensus       301 KERd~RY~l~KYsG~vSa~~a~Lgv~svFgwN~knYr~qQRs~Ql~~Av~TLsk~~~~~~~~~~~a~a~~~~~V~R~~eE  380 (664)
T PTZ00494        301 KDTNFRYALAKYKGTMSCIAGVLVVAYVFTANLRAYRRQQRGHQLRTAIETLSKAARPRKEEGMLAAAAEAFEVRREDEE  380 (664)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccccccccccccccchhhHH
Confidence            34567777765332             24455554432  22333344455555543332     122567899999998


Q ss_pred             eeeeccccc-CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccC-
Q 046970          179 RHIKSLLHL-GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKI-  256 (420)
Q Consensus       179 ~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-  256 (420)
                      .-+.+.|.+ +...++++.+.|.-|.||++|.+....+-   --..++++ ++.      .++-++.+.+.+.-+..+. 
T Consensus       381 ~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE---~~paV~VD-VRg------~EDtLrsVVKALgV~nve~C  450 (664)
T PTZ00494        381 ALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVE---GVALVHVD-VGG------TEDTLRSVVRALGVSNVEVC  450 (664)
T ss_pred             HHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHc---CCCeEEEE-ecC------CcchHHHHHHHhCCCChhhh
Confidence            888888864 34458999999999999999999776542   23455665 221      2223344444444333211 


Q ss_pred             CCC-Cc----hHHHHHHhcCCeEEEEEe--CCCCHHH----HHHHhcCCCCCCCCcEEEeecCChhhhhh---cCCCeEE
Q 046970          257 GTL-NL----PEYIKERLQQMKVFIVLD--DVNKPEQ----LIFLVGGLDRFGPRSRIIVTTRDKQVFDE---CEVDSIY  322 (420)
Q Consensus       257 ~~~-~~----~~~l~~~l~~~~~LlVLD--dv~~~~~----l~~l~~~~~~~~~g~~IIiTtR~~~~~~~---~~~~~~~  322 (420)
                      .+. +-    ....+....++.-+|||-  +-.+...    .-.|...    ..-|+|++.---+.+-..   ...-..|
T Consensus       451 GDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~vaLacD----rRlCHvv~EVplESLT~~n~~LPRLDFy  526 (664)
T PTZ00494        451 GDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVVSLVSD----CQACHIVLAVPMKALTPLNVSSRRLDFY  526 (664)
T ss_pred             ccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHHHHHcc----chhheeeeechHhhhchhhccCccceeE
Confidence            111 11    112222234454555553  2222221    1122222    245677765443332111   1123678


Q ss_pred             EeCCCCHHHHHHHHHhc
Q 046970          323 EVEGLNKDESLELFSNF  339 (420)
Q Consensus       323 ~l~~L~~~ea~~L~~~~  339 (420)
                      -+++++.++|.++-...
T Consensus       527 ~VPnFSr~QAf~YtqH~  543 (664)
T PTZ00494        527 CIPPFSRRQAFAYAEHT  543 (664)
T ss_pred             ecCCcCHHHHHHHHhcc
Confidence            89999999998877654

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=95.76  E-value=0.06  Score=55.65  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=23.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...+++|+|++|+|||||.+.++..+
T Consensus        31 ~~Ge~~~iiG~NGsGKSTLlk~i~G~~   57 (556)
T PRK11819         31 FPGAKIGVLGLNGAGKSTLLRIMAGVD   57 (556)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345789999999999999999999764

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.76  E-value=0.017  Score=55.14  Aligned_cols=48  Identities=21%  Similarity=0.279  Sum_probs=34.6

Q ss_pred             eeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc------cceEEEE
Q 046970          180 HIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF------EGECFIT  227 (420)
Q Consensus       180 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~v~  227 (420)
                      .+.++|..+-+...++-|+|++|+|||+|+.+++.......      ..++|++
T Consensus        90 ~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~  143 (317)
T PRK04301         90 ELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID  143 (317)
T ss_pred             HHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence            34445554455678999999999999999999987643211      3577776

>PRK13948 shikimate kinase; Provisional

Probab=95.75  E-value=0.0087  Score=52.07  Aligned_cols=27  Identities=19%  Similarity=0.265  Sum_probs=23.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+.|.++|+.|+||||+++.+++++.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            356888999999999999999998864

>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=95.74  E-value=0.03  Score=53.00  Aligned_cols=85  Identities=21%  Similarity=0.136  Sum_probs=48.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc-----cCCCCCc-hH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL-----KIGTLNL-PE  263 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~-----~~~~~~~-~~  263 (420)
                      +..+++-|+|+.|+||||||.++.......-..++|++.-+.         +-...+..++-...     ..+..+. ..
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~---------ld~~~a~~lGvdl~rllv~~P~~~E~al~  121 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHA---------LDPEYAESLGVDLDRLLVVQPDTGEQALW  121 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS------------HHHHHHTT--GGGEEEEE-SSHHHHHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCccc---------chhhHHHhcCccccceEEecCCcHHHHHH
Confidence            447899999999999999999999877666566788872211         11222333322111     1122222 44


Q ss_pred             HHHHHhcCC-eEEEEEeCCCC
Q 046970          264 YIKERLQQM-KVFIVLDDVNK  283 (420)
Q Consensus       264 ~l~~~l~~~-~~LlVLDdv~~  283 (420)
                      .+...++.. --++|+|.|..
T Consensus       122 ~~e~lirsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  122 IAEQLIRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             HHHHHHHTTSESEEEEE-CTT
T ss_pred             HHHHHhhcccccEEEEecCcc
Confidence            555555543 45899998743

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 ....

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.73  E-value=0.0081  Score=50.56  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=20.4

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|+|++|.||||+|+.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999876

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.73  E-value=0.0067  Score=50.25  Aligned_cols=26  Identities=19%  Similarity=0.507  Sum_probs=21.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      +++|+|++|+|||||++.++......
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            36899999999999999999875443

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

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

Probab=95.72  E-value=0.0048  Score=54.06  Aligned_cols=91  Identities=20%  Similarity=0.221  Sum_probs=51.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhcccc---CCCCCchHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLK---IGTLNLPEYIKE  267 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~---~~~~~~~~~l~~  267 (420)
                      ....++|.|+.|.|||||++.+...+... ...+.+.+..+.....      .... ++......   .......+.++.
T Consensus        24 ~g~~i~I~G~tGSGKTTll~aL~~~i~~~-~~~i~ied~~E~~~~~------~~~~-~~~~~~~~~~~~~~~~~~~~l~~   95 (186)
T cd01130          24 ARKNILISGGTGSGKTTLLNALLAFIPPD-ERIITIEDTAELQLPH------PNWV-RLVTRPGNVEGSGEVTMADLLRS   95 (186)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEECCccccCCCC------CCEE-EEEEecCCCCCCCccCHHHHHHH
Confidence            35689999999999999999998876532 2333333221111000      0000 00000000   011112566777


Q ss_pred             HhcCCeEEEEEeCCCCHHHHHH
Q 046970          268 RLQQMKVFIVLDDVNKPEQLIF  289 (420)
Q Consensus       268 ~l~~~~~LlVLDdv~~~~~l~~  289 (420)
                      .++..+-.++++.+.+.+.+..
T Consensus        96 ~lR~~pd~i~igEir~~ea~~~  117 (186)
T cd01130          96 ALRMRPDRIIVGEVRGGEALDL  117 (186)
T ss_pred             HhccCCCEEEEEccCcHHHHHH
Confidence            7888889999999988776543

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

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=95.72  E-value=0.026  Score=48.15  Aligned_cols=22  Identities=36%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      +.+.|+|++|.|||++.+.+.-
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~~   43 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIGL   43 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999764

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.

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

Probab=95.71  E-value=0.0094  Score=53.30  Aligned_cols=25  Identities=32%  Similarity=0.391  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|+|.+|+|||||++.++.-
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcc
Confidence            4579999999999999999999864

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=95.71  E-value=0.03  Score=58.09  Aligned_cols=27  Identities=30%  Similarity=0.427  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|++|.|||||++.++...
T Consensus       339 ~~G~~~~ivG~sGsGKSTLl~ll~g~~  365 (569)
T PRK10789        339 KPGQMLGICGPTGSGKSTLLSLIQRHF  365 (569)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            356799999999999999999988643

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

Probab=95.70  E-value=0.036  Score=48.61  Aligned_cols=27  Identities=30%  Similarity=0.266  Sum_probs=23.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ..++.|.|++|+||||++.+++..+..
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~~~   58 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAALAT   58 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            458899999999999999999987643

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.69  E-value=0.0097  Score=52.53  Aligned_cols=25  Identities=36%  Similarity=0.429  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++.|.|.+|+||||+|+.++.++
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999874

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=95.68  E-value=0.0076  Score=57.29  Aligned_cols=109  Identities=17%  Similarity=0.202  Sum_probs=60.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc--cCCCCCchHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL--KIGTLNLPEYIKER  268 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~--~~~~~~~~~~l~~~  268 (420)
                      ....++|.|..|.|||||++.+...+... ...+.+.+..+.....      .... .+.....  ........+.+...
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~~~-~~iv~ied~~El~~~~------~~~~-~l~~~~~~~~~~~~~~~~~l~~~  214 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIPKD-ERIITIEDTREIFLPH------PNYV-HLFYSKGGQGLAKVTPKDLLQSC  214 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCCcc-ccEEEEcCccccCCCC------CCEE-EEEecCCCCCcCccCHHHHHHHH
Confidence            34689999999999999999998766443 2333443222211110      0000 0000000  11112226677778


Q ss_pred             hcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcE-EEeecCChh
Q 046970          269 LQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSR-IIVTTRDKQ  311 (420)
Q Consensus       269 l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~-IIiTtR~~~  311 (420)
                      |+..+-.+++|.+...+.+. ++....   .|.. ++.|++...
T Consensus       215 Lr~~pd~ii~gE~r~~e~~~-~l~a~~---~g~~~~i~T~Ha~~  254 (308)
T TIGR02788       215 LRMRPDRIILGELRGDEAFD-FIRAVN---TGHPGSITTLHAGS  254 (308)
T ss_pred             hcCCCCeEEEeccCCHHHHH-HHHHHh---cCCCeEEEEEeCCC
Confidence            88899999999998866554 343332   3333 466665443

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=95.67  E-value=0.036  Score=49.73  Aligned_cols=22  Identities=27%  Similarity=0.274  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ++++|+|++|.||||+.+.++.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7899999999999999999864

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 clam

>PF13245 AAA_19: Part of AAA domain

Probab=95.67  E-value=0.029  Score=41.15  Aligned_cols=25  Identities=28%  Similarity=0.295  Sum_probs=18.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+++.|.|++|.|||+++.+....+
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4578889999999996666555443

>PRK15453 phosphoribulokinase; Provisional

Probab=95.64  E-value=0.018  Score=53.25  Aligned_cols=28  Identities=25%  Similarity=0.329  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+|+|.|.+|+||||+|+.+.+.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~~   31 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFRR   31 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4679999999999999999999976644

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.64  E-value=0.03  Score=50.53  Aligned_cols=47  Identities=28%  Similarity=0.381  Sum_probs=33.9

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |.+.|..+-+...++.|.|.+|+|||++|.+++.....+-..++|+.
T Consensus         5 LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880         5 LDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             hHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34445444455789999999999999999999876544434556665

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.64  E-value=0.0097  Score=52.87  Aligned_cols=26  Identities=23%  Similarity=0.327  Sum_probs=23.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||++.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45789999999999999999999865

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.63  E-value=0.035  Score=48.37  Aligned_cols=28  Identities=29%  Similarity=0.418  Sum_probs=24.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...++.|.|.+|.||||+|+.+...+..
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~l~~   44 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKKLES   44 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4579999999999999999999987653

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.63  E-value=0.0072  Score=51.56  Aligned_cols=22  Identities=32%  Similarity=0.578  Sum_probs=19.9

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.|+|++|+||||+|+.+.+.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999876

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK14530 adenylate kinase; Provisional

Probab=95.63  E-value=0.0095  Score=53.46  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=21.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.|.|.|++|+||||+|+.++..+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	420
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		8e-18
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		1e-17
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		3e-05
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		2e-04

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

Iteration: 1
 Score = 88.2 bits (217), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 66/173 (38%), Positives = 89/173 (51%), Gaps = 28/173 (16%)
Query: 3   SSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNA 61
           SS  ATK  YDVFLSFRG DTR NF S L+  L ++ I+ F D+ E   G   S  L + 
Sbjct: 2   SSHTATK--YDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSP 59
Query: 62  IEGSKISIVIFSKNYASSSGAW-------------------MNFFLSCSSSDVRNQTGSF 102
           IE S+ ++V+ S+NYA+SS  W                   M  F     + VR QTG  
Sbjct: 60  IEVSRFAVVVVSENYAASS--WCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVL 117
Query: 103 GDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDI 155
            + F K   +  E PEKV KW  ALT  + +SG    +   +++LVD+I  +I
Sbjct: 118 AEQFKKHASR--EDPEKVLKWRQALTNFAQLSG--DCSGDDDSKLVDKIANEI 166

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

Iteration: 1
 Score = 87.4 bits (215), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 56/163 (34%), Positives = 79/163 (48%), Gaps = 21/163 (12%)
Query: 12  YDVFLSFRGEDTRDNFTSHLFAALRQKRIKIF-IDEEANRGDEISLALLNAIEGSKISIV 70
           Y+VFLSFRG DTR+ FT  L+ +LR+ +I  F  D+E  +G EI   LL AI+ SKI + 
Sbjct: 36  YEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVP 95
Query: 71  IFSKNYASSSGAWMNF------------------FLSCSSSDVRNQTGSFGDAFVKLEKQ 112
           I S  YA S    M                    F     SDVR+QTG +  AF K   +
Sbjct: 96  IISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANK 155
Query: 113 FEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDI 155
           F+   + +  W  AL +  ++ GW       +  + D++  DI
Sbjct: 156 FDG--QTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADI 196

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 49/195 (25%), Positives = 86/195 (44%), Gaps = 27/195 (13%)
Query: 195 VGIWGMGGIGKTTFAGAIFNQIS---SEFEGECFITNVREESERVGLVHLRERVLSEILE 251
           V I+GM G GK+  A       S     F G     ++ ++ +   L+ L+   +    E
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 209
Query: 252 ENLKIGTLNLPEYIKERLQQMKVF---------IVLDDVNKPEQLIFLVGGLDRFGPRSR 302
           E+    +  LP  I+E   +++V          ++LDDV  P         L  F  + +
Sbjct: 210 ESF---SQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP-------WVLKAFDNQCQ 259
Query: 303 IIVTTRDKQVFDECE-VDSIYEVE-GLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDY 360
           I++TTRDK V D       +  VE GL +++ LE+ S F   +K   +D    +  ++  
Sbjct: 260 ILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK---EDLPAEAHSIIKE 316
Query: 361 ANGNPLALKVLGSFF 375
             G+PL + ++G+  
Sbjct: 317 CKGSPLVVSLIGALL 331

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 48/195 (24%), Positives = 85/195 (43%), Gaps = 27/195 (13%)
Query: 195 VGIWGMGGIGKTTFAGAIFNQIS---SEFEGECFITNVREESERVGLVHLRERVLSEILE 251
           V I+GM G GK+  A       S     F G     ++ ++ +   L+ L+   +    E
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 216
Query: 252 ENLKIGTLNLPEYIKERLQQMKVF---------IVLDDVNKPEQLIFLVGGLDRFGPRSR 302
           E+    +  LP  I+E   +++V          ++LDDV  P         L  F  + +
Sbjct: 217 ESF---SQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP-------WVLKAFDNQCQ 266
Query: 303 IIVTTRDKQVFDECE-VDSIYEVE-GLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDY 360
           I++TT DK V D       +  VE GL +++ LE+ S F   +K   +D    +  ++  
Sbjct: 267 ILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK---EDLPAEAHSIIKE 323
Query: 361 ANGNPLALKVLGSFF 375
             G+PL + ++G+  
Sbjct: 324 CKGSPLVVSLIGALL 338

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	420
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	1e-69
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	3e-67
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	3e-43
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-35
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-32
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-31
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-19
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	8e-09
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	7e-06

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

 Score =  217 bits (555), Expect = 1e-69
 Identities = 56/178 (31%), Positives = 81/178 (45%), Gaps = 25/178 (14%)

Query: 3   SSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFID-EEANRGDEISLALLNA 61
            S       Y+VFLSFRG DTR+ FT  L+ +LR+ +I  F D +E  +G EI   LL A
Sbjct: 27  PSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRA 86

Query: 62  IEGSKISIVIFSKNYASSSGAW--------MNFFLSCSS------------SDVRNQTGS 101
           I+ SKI + I S  YA S   W        +                    SDVR+QTG 
Sbjct: 87  IDQSKIYVPIISSGYADSK--WCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGC 144

Query: 102 FGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKL 159
           +  AF K   +F+   + +  W  AL +  ++ GW       +  + D++  DI   +
Sbjct: 145 YKKAFRKHANKFDG--QTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHI 200

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

 Score =  210 bits (537), Expect = 3e-67
 Identities = 61/179 (34%), Positives = 89/179 (49%), Gaps = 29/179 (16%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFID-EEANRGDEISLALL 59
           M+S +     +YDVFLSFRG DTR NF S L+  L ++ I+ F D +E   G   S  L 
Sbjct: 1   MSSHT---ATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELK 57

Query: 60  NAIEGSKISIVIFSKNYASSSGAW----MNFFLSCSS---------------SDVRNQTG 100
           + IE S+ ++V+ S+NYA+SS  W    +   +                   + VR QTG
Sbjct: 58  SPIEVSRFAVVVVSENYAASS--WCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTG 115

Query: 101 SFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEARLVDEIVKDIMKKL 159
              + F K   + +   EKV KW  ALT  + +SG  S     +++LVD+I  +I  K 
Sbjct: 116 VLAEQFKKHASREDP--EKVLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEISNKK 170

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

 Score =  147 bits (373), Expect = 3e-43
 Identities = 22/147 (14%), Positives = 53/147 (36%), Gaps = 25/147 (17%)

Query: 1   MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEA-NRGDEISLALL 59
             ++ L +   +D+F+S   ED + +F   L   LR    +++ D+ +   GD +  ++ 
Sbjct: 10  TTNADLTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSID 68

Query: 60  NAIEGSKISIVIFSKNYASSSGAW----MNFFLSCSS---------------SDVRNQTG 100
             +  S+  IV+ S ++      W    ++      S                +V + + 
Sbjct: 69  KGLGSSRFGIVVLSTHFFKKE--WPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSP 126

Query: 101 SFGDAFVKLEKQFEELPEKVHKWSGAL 127
           +  D             +++     A+
Sbjct: 127 TMADKLAFNTSTKSV--DEIVADLMAI 151

>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 =  138 bits (347), Expect = 2e-35
 Identities = 81/438 (18%), Positives = 147/438 (33%), Gaps = 116/438 (26%)

Query: 13  DVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIF 72
           D+   F      +     +    +     I   EE    D I +   +A+ G+     +F
Sbjct: 20  DILSVFEDAFVDNFDCKDVQDMPKS----ILSKEEI---DHI-IMSKDAVSGTL---RLF 68

Query: 73  SKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASN 132
                     W           + ++       FV      EE+    +K+   L     
Sbjct: 69  ----------WT----------LLSKQEEMVQKFV------EEVLRINYKF---LMSP-- 97

Query: 133 ISGWDSTNMRPEARLVDEIVKDIMKKLKDKLLS--RDFT-GSVGVNSRIRHIKSL---LH 186
                +   +P       I +      +D+L +  + F   +V   SR++    L   L 
Sbjct: 98  ---IKTEQRQPSMMTRMYIEQ------RDRLYNDNQVFAKYNV---SRLQPYLKLRQAL- 144

Query: 187 LGLPDFRIVGIWGMGGIGKTTFAGAIFNQ--ISSEFEGECFITNVREESERVGLVHLRER 244
           L L   + V I G+ G GKT  A  +     +  + + + F  N++  +    ++ + ++
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204

Query: 245 VLSEILEENLKI---GTLNLP---EYIKE---RLQQMKVF----IVLDDVNKPEQLIFLV 291
            L   ++ N       + N+      I+    RL + K +    +VL +V   +      
Sbjct: 205 -LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW---- 259

Query: 292 GGLDRFGPRSRIIVTTRDKQVFD------ECEVDSIYEVEGLNKDESLELFSNFAFRQKI 345
              + F    +I++TTR KQV D         +   +    L  DE   L   +      
Sbjct: 260 ---NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL---DC 313

Query: 346 CPKDFLVLSKRVVDYANGNPLALKVLGSFF--------YRKSVKPEK-----QCCFNRGC 392
            P+D   L + V+     NP  L ++              K V  +K     +   N   
Sbjct: 314 RPQD---LPREVLT---TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN--- 364

Query: 393 RLLVAEPRYIFLPLSFMF 410
            L  AE R +F  LS +F
Sbjct: 365 VLEPAEYRKMFDRLS-VF 381

>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 = 62.2 bits (150), Expect = 2e-10
 Identities = 75/510 (14%), Positives = 156/510 (30%), Gaps = 155/510 (30%)

Query: 5   SLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKR---IKIFIDE--EANRGDEISLALL 59
           S+ +K   D  +         + T  LF  L  K+   ++ F++E    N        L+
Sbjct: 44  SILSKEEIDHII---MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK-----FLM 95

Query: 60  NAIEGSKISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEEL--- 116
           + I+  +    + ++ Y        N        D +     F    V   + + +L   
Sbjct: 96  SPIKTEQRQPSMMTRMYIEQRDRLYN--------DNQ----VFAKYNVSRLQPYLKLRQA 143

Query: 117 -----PEK---VH------KWSGALTEASNIS-------G--WDSTNMRPEARLVDEIVK 153
                P K   +       K   AL    +            W +         V E+++
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203

Query: 154 DIMKKLKDKLLSR---DFTGSVGVNSRIRHIKSLLH--------LGLPDFRIVGIWGMGG 202
            ++ ++     SR        + ++S    ++ LL         L L + +    W    
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 203 IG-K---TTFAGAIFNQISSEFEGECFITNVR---EESERVGL----------------- 238
           +  K   TT    + + +S+       + +        E   L                 
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323

Query: 239 -VH----------LRERV-------------LSEILEENLKIGTLNLPEYIKERLQQMKV 274
             +          +R+ +             L+ I+E +L +  L  P   ++   ++ V
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV--LE-PAEYRKMFDRLSV 380

Query: 275 FIVLDDVNKPEQLIFLV-GGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEVEGLNKDESL 333
           F      + P  L+ L+   + +               V ++    S+  VE   K+ ++
Sbjct: 381 F--PPSAHIPTILLSLIWFDVIKSDVM----------VVVNKLHKYSL--VEKQPKESTI 426

Query: 334 ELFS-NFAFRQKICPKDFLVLSKRVVD-YA-----NGNPLALKVLGSFFY-------RKS 379
            + S     + K+  ++   L + +VD Y      + + L    L  +FY       +  
Sbjct: 427 SIPSIYLELKVKL--ENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484

Query: 380 VKPEKQCCFNRGCRLLVAEPRYIFLPLSFM 409
             PE+   F           R +FL   F+
Sbjct: 485 EHPERMTLF-----------RMVFLDFRFL 503

>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 = 48.7 bits (115), Expect = 3e-06
 Identities = 54/348 (15%), Positives = 107/348 (30%), Gaps = 85/348 (24%)

Query: 23  TRDNFTSHLFAALRQKRIKIFIDEEANRG---DEISLALL-------------NAIEGSK 66
           TR      +   L          +  +     DE   +LL               +  + 
Sbjct: 272 TRF---KQVTDFLSAATTTHISLDHHSMTLTPDE-VKSLLLKYLDCRPQDLPREVLTTNP 327

Query: 67  ISIVIFSKNYASSSGAWMNFFLSCSSSDVRNQTGSFGDAFVKLE--KQFEEL---PEKVH 121
             + I +++       W + +   +   +     S  +     E  K F+ L   P    
Sbjct: 328 RRLSIIAESIRDGLATW-DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA- 385

Query: 122 KWSGALTEASNISGWDSTNMRPEARL-------VDEIVKDIMKKLKDK-LLSRDF-TGSV 172
                     +I         P   L       +   V  ++ KL    L+ +     ++
Sbjct: 386 ----------HI---------PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426

Query: 173 GVNSRIRHIKSL------LHLGLPD-FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECF 225
            + S    +K        LH  + D + I   +    +         ++ I    +    
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI-- 484

Query: 226 ITNVREESERVGLVHLRERVLS-EILEENLKIGTL--NLPEYIKERLQQMKV---FIVLD 279
                E  ER+ L   R   L    LE+ ++  +   N    I   LQQ+K    +I  +
Sbjct: 485 -----EHPERMTL--FRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN 537

Query: 280 DVNKPEQLIFLVGGLDRFGPR-SRIIVTTRDK---QVFDECEVDSIYE 323
           D  K E+   LV  +  F P+    ++ ++     ++    E ++I+E
Sbjct: 538 D-PKYER---LVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFE 581

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  128 bits (323), Expect = 1e-32
 Identities = 57/310 (18%), Positives = 105/310 (33%), Gaps = 35/310 (11%)

Query: 86  FFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMRPEA 145
             +        +   SF +A   L + +++L   +H     ++ +S              
Sbjct: 55  MLIKMILKKDNDSYVSFYNA--LLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRT 112

Query: 146 RLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGK 205
            L +  V               F   V     +  I+  L     +   V I GM G GK
Sbjct: 113 VLCEGGVPQ---------RPVVF---VTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGK 160

Query: 206 TTFAGAIFNQ---ISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLP 262
           +  A         +   F G     +V ++ +   L+ L+        +E+         
Sbjct: 161 SVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNI 220

Query: 263 EYIKERLQQM------KVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC 316
           E  K+RL+ +      +  ++LDDV            L  F  + +I++TTRDK V D  
Sbjct: 221 EEAKDRLRILMLRKHPRSLLILDDVWDSWV-------LKAFDSQCQILLTTRDKSVTDSV 273

Query: 317 --EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSF 374
                 +     L K++ LE+ S F         D    +  ++    G+PL + ++G+ 
Sbjct: 274 MGPKYVVPVESSLGKEKGLEILSLFVNM---KKADLPEQAHSIIKECKGSPLVVSLIGAL 330

Query: 375 FYRKSVKPEK 384
                 + E 
Sbjct: 331 LRDFPNRWEY 340

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  125 bits (315), Expect = 1e-31
 Identities = 37/227 (16%), Positives = 79/227 (34%), Gaps = 19/227 (8%)

Query: 181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ----ISSEFEGECFITNVREESERV 236
           IK L  +   D   + + G  G GK+  A    ++    I   ++   ++ +     +  
Sbjct: 141 IKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKST 200

Query: 237 GLVHLRERVLSEILEENLKIGTLN-------LPEYIKERLQQMKVFIVLDDVNKPEQLIF 289
             +     ++ +  ++ L   ++                + +     V DDV + E + +
Sbjct: 201 FDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRW 260

Query: 290 LVGGLDRFGPRSRIIVTTRDKQVFDECE-VDSIYEVEGLNKDESLELFSNFAFRQKICPK 348
                     R R +VTTRD ++ +         EV  L  DE  +    +     +  K
Sbjct: 261 A------QELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEK 314

Query: 349 DFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRLL 395
           +   +  + ++ ++GNP  L +       K+ +   Q       R L
Sbjct: 315 E-EDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGL 360

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 89.5 bits (222), Expect = 3e-19
 Identities = 48/213 (22%), Positives = 86/213 (40%), Gaps = 25/213 (11%)

Query: 178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAI---FNQISSEFEGECF---ITNVRE 231
           +  I+  L     +   V I+GM G GK+  A       + +   F G      I    +
Sbjct: 133 VHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDK 192

Query: 232 ESERVGLVHLRERV-----LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQ 286
               + L +L  R+      S+ L  N++     L   +    +  +  ++LDDV  P  
Sbjct: 193 SGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLM--LRKHPRSLLILDDVWDPWV 250

Query: 287 LIFLVGGLDRFGPRSRIIVTTRDKQVFDE-CEVDSIYEVE-GLNKDESLELFSNFAFRQK 344
                  L  F  + +I++TTRDK V D       +  VE GL +++ LE+ S F   + 
Sbjct: 251 -------LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK- 302

Query: 345 ICPKDFLVLSKRVVDYANGNPLALKVLGSFFYR 377
              +D    +  ++    G+PL + ++G+    
Sbjct: 303 --KEDLPAEAHSIIKECKGSPLVVSLIGALLRD 333

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

 Score = 53.2 bits (128), Expect = 8e-09
 Identities = 15/79 (18%), Positives = 28/79 (35%), Gaps = 7/79 (8%)

Query: 11 RYDVFLSFRGEDTRDNFTSHLFAALRQKR--IKIFIDE-EANRGDEISLALLNAIEGSKI 67
           YDV +    ED        L + L      ++ F+   +A  G  I   L  A+  S  
Sbjct: 10 DYDVCVCHSEEDLV--AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHC 67

Query: 68 SIVIFSKNYASSSGAWMNF 86
           +++ +  +      W  +
Sbjct: 68 RVLLITPGFLQDP--WCKY 84

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

 Score = 45.1 bits (106), Expect = 7e-06
 Identities = 18/89 (20%), Positives = 33/89 (37%), Gaps = 13/89 (14%)

Query: 12 YDVFLSFRGEDTR---------DNFTSHLFAAL--RQKRIKIFIDE-EANRGDEISLALL 59
          YD +LS+   D           + F   +   +  +    K+FI + +          + 
Sbjct: 3  YDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDVA 62

Query: 60 NAIEGSKISIVIFSKNYASSSGAWMNFFL 88
            ++ SK  I++ + NY    G W  F L
Sbjct: 63 RCVDQSKRLIIVMTPNYVVRRG-WSIFEL 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	420
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	100.0
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	100.0
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.97
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.96
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.95
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	99.93
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	99.85
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	99.75
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	99.75
2js7_A	160	Myeloid differentiation primary response protein M	99.74
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	99.71
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.61
2fna_A	357	Conserved hypothetical protein; structural genomic	99.58
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.57
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.49
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.43
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.43
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.41
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.35
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.34
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.3
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.16
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.07
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.01
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.94
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.9
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.88
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.86
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.84
3bos_A	242	Putative DNA replication factor; P-loop containing	98.8
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.78
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.76
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.75
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.73
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.71
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.68
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.67
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.65
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.65
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.64
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.62
3pvs_A	447	Replication-associated recombination protein A; ma	98.62
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.61
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.61
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.6
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.57
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.54
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.53
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.52
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.49
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.44
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.4
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.28
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.26
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.24
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.22
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.22
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.17
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.14
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.12
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.11
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.09
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.09
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.07
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.06
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.06
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.05
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.03
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.03
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.01
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.96
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.95
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.87
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.86
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.85
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.85
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.85
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.83
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.79
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.76
3co5_A	143	Putative two-component system transcriptional RES	97.72
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.65
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.58
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.57
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.57
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.55
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.49
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.47
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.42
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.41
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.31
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.21
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.18
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.18
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.18
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.17
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.14
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.01
2qgz_A	308	Helicase loader, putative primosome component; str	96.99
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.95
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.92
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.89
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.88
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.82
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.69
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.65
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.64
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.63
3io5_A	333	Recombination and repair protein; storage dimer, i	96.62
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.58
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.54
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.51
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.5
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.49
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.48
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.46
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.45
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.45
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.45
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.42
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.38
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.38
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.34
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.33
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.32
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.28
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.27
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.26
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.24
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.23
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.22
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.22
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.22
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.21
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.2
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.19
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.19
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.17
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.17
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.17
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.17
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.15
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.14
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.12
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.12
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.11
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.1
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.06
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.05
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.01
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.0
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.99
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.98
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.97
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.96
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.94
1via_A	175	Shikimate kinase; structural genomics, transferase	95.93
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.93
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.92
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.92
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.92
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.91
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.9
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.9
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.89
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.89
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.88
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.88
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.87
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.86
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.84
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.84
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.84
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.83
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.82
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.81
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.8
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.77
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.76
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.76
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.75
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.75
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.75
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.74
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.74
3ice_A	422	Transcription termination factor RHO; transcriptio	95.74
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.74
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.73
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.73
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.72
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.71
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.69
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.68
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.67
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.67
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.66
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.66
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.65
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.65
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.64
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.64
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.64
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.63
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.62
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.61
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.6
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.58
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.57
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.55
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.54
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.53
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.52
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.51
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.5
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.48
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.47
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.47
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.47
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.47
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.45
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.45
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.45
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.44
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.41
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.4
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.39
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.37
2og2_A	359	Putative signal recognition particle receptor; nuc	95.37
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.36
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.36
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.35
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.35
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.33
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.33
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.3
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.3
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.3
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.3
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.26
2xxa_A	433	Signal recognition particle protein; protein trans	95.25
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.25
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.24
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.22
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.2
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.18
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.16
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.16
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.13
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.11
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.09
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.08
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.07
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.06
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.05
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.04
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.04
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.99
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.99
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.93
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.92
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.91
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.91
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.89
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.88
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.86
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.83
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.82
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.82
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.82
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.81
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.8
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	94.8
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.79
1eiw_A	111	Hypothetical protein MTH538; CHEY-like fold, flavo	94.74
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.73
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.72
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.72
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.72
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.72
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.72
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.71
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.7
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.69
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.68
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.67
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.66
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.66
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.64
1g6h_A	257	High-affinity branched-chain amino acid transport	94.63
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.6
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.59
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.58
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.58
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.57
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	94.57
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.56
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.53
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.52
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.51
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.51
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.51
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.49
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.48
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.47
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.46
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	94.46
3end_A	307	Light-independent protochlorophyllide reductase ir	94.46
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.46
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.45
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	94.44
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.43
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.43
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.41
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.35
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.33
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.31
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.3
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.28
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.27
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.23
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	94.2
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.15
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.12
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	94.09
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.09
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.03
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.02
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.99
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.98
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	93.98
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.96
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.95
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.94
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.93
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.93
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.91
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.9
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.89
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.85
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.84
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.81
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.77
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.76
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.75
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	93.75
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.75
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.71
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.7
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.7
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.69
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.63
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.62
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.6
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.58
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.58
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.57
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.55
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.54
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.45
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.44
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	93.44
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.44
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.38
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.38
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.35
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.35
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	93.34
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.33
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.32
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.32
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	93.21
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.14
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.12
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.1
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.09
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.08
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.07
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.07
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	93.05
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.04
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.96
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.95
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.93
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.93
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.91
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.91
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.88
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.87
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	92.86
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.86
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.85
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.84
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.83
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.83
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.82
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.81
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.77
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.75
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	92.74
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.72
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.7
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	92.68
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.68
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.67
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.63
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.63
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.62
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.62
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.62
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.61
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.57
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.55
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.5
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.47
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.47
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.47
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	92.45
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.44
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.44
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.39
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.37
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	92.35
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.33
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.32
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.3
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.29
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.28
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.22
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.17
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	92.17
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.16
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.15
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.13
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.13
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.09
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.09
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.08
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.08
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.07
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.07
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.06
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.06
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.04
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.03
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.98
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	91.96
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	91.94
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	91.92
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.91
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	91.9
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.89
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	91.89
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	91.87
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.86
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.85
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	91.84
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	91.82
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.82
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	91.79
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.78
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	91.78
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.78
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.77
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	91.77
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.77
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.77
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.77
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.7
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	91.7
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	91.66
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.66
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	91.66
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	91.63
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	91.63
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.62
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.62
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	91.59
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	91.55
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.55
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	91.55
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	91.54
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	91.53
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.52
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	91.51
3igf_A	374	ALL4481 protein; two-domained protein consisting o	91.47
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	91.43
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	91.4
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.38
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.35
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	91.28
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.24
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	91.21
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	91.18
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	91.14
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.14
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	91.13
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.08
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.08

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

Probab=100.00  E-value=1.1e-44  Score=312.28  Aligned_cols=158  Identities=35%  Similarity=0.618  Sum_probs=144.6

Q ss_pred             CCCCCCCCCcccEEecCccccccCcchHHHHHHHhhCCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccC
Q 046970            2 ASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSS   80 (420)
Q Consensus         2 ~~s~~~~~~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~   80 (420)
                      +||++++.++|||||||+|+|+|++|++||+.+|+++||++|+|+ ++++|+.|.++|.+||++|+++|+|||+||++|.
T Consensus        26 ~~s~~~~~~~yDVFISfrg~D~r~~Fv~~L~~aL~~~GI~~f~D~~el~~G~~I~~~l~~aIe~Sri~IvV~S~nYa~S~  105 (204)
T 3ozi_A           26 NPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSK  105 (204)
T ss_dssp             --------CCCCEEEEECHHHHTTTHHHHHHHHHHHTTCCEEEEETTTCCGGGTTTTHHHHHHHCSEEEEEECTTGGGCH
T ss_pred             CCcCCCCCcCCeEEEeccccCCCHHHHHHHHHHHHHCCCcEEEeCCccCCCCchHHHHHHHHHhCcEeeEEEEcccccCc
Confidence            445556889999999999999999999999999999999999998 9999999999999999999999999999999999


Q ss_pred             C------------------eeEeeeeccCccccccccCcchHHHHHHHHhhccchhhHHhHHHHhhhhccccccCCCCCc
Q 046970           81 G------------------AWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMR  142 (420)
Q Consensus        81 w------------------~v~pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~~~~  142 (420)
                      |                  +|+||||+|+|++||+|+|+|+++|.+|..++..  +++++||.||+++++++||++.+..
T Consensus       106 WCl~EL~~I~e~~~~~~~~~ViPIFY~VdPs~Vr~q~g~fg~af~~~~~~~~~--~~v~~Wr~AL~~va~lsG~~~~~~~  183 (204)
T 3ozi_A          106 WCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDG--QTIQNWKDALKKVGDLKGWHIGKND  183 (204)
T ss_dssp             HHHHHHHHHHHHHHHCTTSEECCEEESSCHHHHHHTCTTHHHHHHHHTTTSCH--HHHHHHHHHHHHHHTSCBEEECTTS
T ss_pred             HHHHHHHHHHHHHHhcCCeeeEEEEeecCHHHHHhccccHHHHHHHHHHhhCH--HHHHHHHHHHHHHhccCceecCCCC
Confidence            9                  7999999999999999999999999999988754  7899999999999999999999988


Q ss_pred             hhhHHHHHHHHHHHhhhcc
Q 046970          143 PEARLVDEIVKDIMKKLKD  161 (420)
Q Consensus       143 ~e~~~i~~i~~~v~~~l~~  161 (420)
                      .+.+++++|+++|+.+++.
T Consensus       184 ~e~~~i~~Iv~di~~kl~~  202 (204)
T 3ozi_A          184 KQGAIADKVSADIWSHISK  202 (204)
T ss_dssp             CHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhcc
Confidence            8999999999999998864

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

Probab=100.00  E-value=2.1e-44  Score=306.08  Aligned_cols=157  Identities=41%  Similarity=0.595  Sum_probs=127.5

Q ss_pred             CCCCCCCCCCcccEEecCccccccCcchHHHHHHHhhCCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEeccccccc
Q 046970            1 MASSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASS   79 (420)
Q Consensus         1 ~~~s~~~~~~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s   79 (420)
                      ||||   ..++|||||||+|+|+|++|++||+++|+++||++|+|+ ++++|+.|.++|.+||++|+++|+|||+||++|
T Consensus         1 msss---~~~~yDVFiSfrg~D~r~~Fv~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~l~~aIe~Sri~IvV~S~ny~~S   77 (176)
T 3jrn_A            1 MSSH---TATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAAS   77 (176)
T ss_dssp             ---------CCEEEEEEECHHHHTTTHHHHHHHHHHHTTCCEECCCC--------------CCTTEEEEEEEECTTTTTC
T ss_pred             CCCC---CCCCCeEEEECcCcccChHHHHHHHHHHHHCCCEEEEEcccccCCCchHHHHHHHHHhCCEEEEEecCCcCCC
Confidence            5555   568999999999999999999999999999999999998 999999999999999999999999999999999


Q ss_pred             CC-----------------eeEeeeeccCccccccccCcchHHHHHHHHhhccchhhHHhHHHHhhhhccccccCCCCCc
Q 046970           80 SG-----------------AWMNFFLSCSSSDVRNQTGSFGDAFVKLEKQFEELPEKVHKWSGALTEASNISGWDSTNMR  142 (420)
Q Consensus        80 ~w-----------------~v~pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~~~~  142 (420)
                      .|                 .|+||||+|+|++||+|+|+|+++|.+|+.+  ...+++++|+.||+++++++|+++.  .
T Consensus        78 ~WCl~EL~~i~~~~~~~~~~ViPIfy~V~ps~Vr~q~g~fg~af~~~~~~--~~~~~~~~Wr~AL~~va~~~G~~~~--~  153 (176)
T 3jrn_A           78 SWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR--EDPEKVLKWRQALTNFAQLSGDCSG--D  153 (176)
T ss_dssp             HHHHHHHHHHHHHHHTTSCEEEEEECSSCHHHHHHTCTHHHHHHHHHHTT--SCHHHHHHHHHHHHHHTTSCCEECC--S
T ss_pred             hhHHHHHHHHHhhhccCCCEEEEEEecCCHHHhhhccCcHHHHHHHHHhc--cCHHHHHHHHHHHHHHhcccceecC--C
Confidence            99                 8999999999999999999999999999988  3458999999999999999999984  4


Q ss_pred             hhhHHHHHHHHHHHhhhccccc
Q 046970          143 PEARLVDEIVKDIMKKLKDKLL  164 (420)
Q Consensus       143 ~e~~~i~~i~~~v~~~l~~~~~  164 (420)
                      +|+++|++|+++|.+++++++|
T Consensus       154 ~e~~~i~~Iv~~v~~~l~~~~~  175 (176)
T 3jrn_A          154 DDSKLVDKIANEISNKKTIYAT  175 (176)
T ss_dssp             CHHHHHHHHHHHHHTTCC----
T ss_pred             CHHHHHHHHHHHHHHHhcCCCC
Confidence            5999999999999999987765

>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=100.00  E-value=5.9e-35  Score=297.95  Aligned_cols=238  Identities=17%  Similarity=0.211  Sum_probs=184.3

Q ss_pred             ccccccceeeecccccC-CCCceEEEEeccCcchHHHHHHHHHH----HhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          172 VGVNSRIRHIKSLLHLG-LPDFRIVGIWGMGGIGKTTFAGAIFN----QISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       172 vGR~~~l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLa~~~~~----~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      +||+.++++|.++|..+ .+..++|+|+||||+||||||+++|+    +++.+|++++|+. +++... .+...++..++
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~-vs~~~~-~~~~~~~~~il  208 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK-DSGTAP-KSTFDLFTDIL  208 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE-CCCCST-THHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEE-ECCCCC-CCHHHHHHHHH
Confidence            49999999999999654 34589999999999999999999997    6788999999996 322211 46888999999


Q ss_pred             HHHhhccc--cCCCCC-----c-hHHHHHHhcCC-eEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhcC
Q 046970          247 SEILEENL--KIGTLN-----L-PEYIKERLQQM-KVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECE  317 (420)
Q Consensus       247 ~~l~~~~~--~~~~~~-----~-~~~l~~~l~~~-~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~  317 (420)
                      .++.....  ...+.+     . ...+++.|.++ ++||||||||+.+++ .+..     .+||+||||||+..++..++
T Consensus       209 ~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~-----~~gs~ilvTTR~~~v~~~~~  282 (549)
T 2a5y_B          209 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQ-----ELRLRCLVTTRDVEISNAAS  282 (549)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHH-----HTTCEEEEEESBGGGGGGCC
T ss_pred             HHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cccc-----cCCCEEEEEcCCHHHHHHcC
Confidence            99876532  122211     1 57888899996 999999999998876 3332     27999999999999988765


Q ss_pred             -CCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCCChhHHHhHhhhc----cc
Q 046970          318 -VDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNR----GC  392 (420)
Q Consensus       318 -~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~~~~~~~~~~~~~----~~  392 (420)
                       ....|+|++|+.++|++||.++++.... ++.+.+++++|+++|+|+||||+++|+.|+.+.. +|.+.+...    ..
T Consensus       283 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w-~~~~~l~~~l~~~~~  360 (549)
T 2a5y_B          283 QTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKLESRGL  360 (549)
T ss_dssp             SCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSH-HHHHHHHHHHHHHCS
T ss_pred             CCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccchH-HHHHHhHHHhhcccH
Confidence             4467999999999999999999976543 3567788999999999999999999999987732 232222211    11


Q ss_pred             c-c-CccCCcccCcchhHHHHHH-----------HhhccC
Q 046970          393 R-L-LVAEPRYIFLPLSFMFLVT-----------LVALFD  419 (420)
Q Consensus       393 ~-~-l~~~~~~~~l~~~~~~~~~-----------~~~~f~  419 (420)
                      . . -.-..+|..||.++..||.           |||+|+
T Consensus       361 ~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp  400 (549)
T 2a5y_B          361 VGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMP  400 (549)
T ss_dssp             STTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSC
T ss_pred             HHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeC
Confidence            1 1 1115678889999999999           999995

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.97  E-value=3.8e-31  Score=294.34  Aligned_cols=241  Identities=19%  Similarity=0.245  Sum_probs=177.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH---hhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ---ISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~---~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....||||+.++++|.++|....++.++|+|+||||+||||||++++++   ...+|...+|+..++... .......+.
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~-~~~~~~~~~  200 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQD-KSGLLMKLQ  200 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCC-HHHHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcC-chHHHHHHH
Confidence            6678999999999999999766667899999999999999999999986   355676655443343321 233444556


Q ss_pred             HHHHHHhhccccCCCCC----c-hHHHHHHhcCC--eEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhh-
Q 046970          244 RVLSEILEENLKIGTLN----L-PEYIKERLQQM--KVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE-  315 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~----~-~~~l~~~l~~~--~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~-  315 (420)
                      .++..+...........    . .+.++..+.++  |+||||||||+..+++.+       ++|++||||||++.++.. 
T Consensus       201 ~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~  273 (1249)
T 3sfz_A          201 NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSV  273 (1249)
T ss_dssp             HHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTC
T ss_pred             HHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhh
Confidence            66666654432221111    1 45566666666  999999999998876553       589999999999988744 


Q ss_pred             cCCCeEEEeCC-CCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCCChhHHHhHhhhccccc
Q 046970          316 CEVDSIYEVEG-LNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGCRL  394 (420)
Q Consensus       316 ~~~~~~~~l~~-L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~~~~~~~~~~~~~~~~~  394 (420)
                      .+....+++++ |+.++|++||...++...   +.+.+.+++|+++|+|+||||+++|++|+.++ ..|.+.+..+....
T Consensus       274 ~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~---~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~  349 (1249)
T 3sfz_A          274 MGPKHVVPVESGLGREKGLEILSLFVNMKK---EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQ  349 (1249)
T ss_dssp             CSCBCCEECCSSCCHHHHHHHHHHHHTSCS---TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCC
T ss_pred             cCCceEEEecCCCCHHHHHHHHHHhhCCCh---hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhh
Confidence            45667889996 999999999998884432   23345689999999999999999999999876 46766654432211


Q ss_pred             ---Ccc-------------CCcccCcchhHHHHHHHhhccC
Q 046970          395 ---LVA-------------EPRYIFLPLSFMFLVTLVALFD  419 (420)
Q Consensus       395 ---l~~-------------~~~~~~l~~~~~~~~~~~~~f~  419 (420)
                         +..             +.+|..|+...+.||.|||+|+
T Consensus       350 ~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~  390 (1249)
T 3sfz_A          350 FKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQ  390 (1249)
T ss_dssp             CCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSC
T ss_pred             hhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccC
Confidence               000             2346678889999999999996

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.96  E-value=4e-29  Score=261.15  Aligned_cols=226  Identities=17%  Similarity=0.149  Sum_probs=160.5

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHH--Hhhccccc-eEEEEeccccccccCHHHHHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFN--QISSEFEG-ECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~--~~~~~f~~-~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      +..|||+.++++|.++|... ++.++|+|+||||+||||||+++++  +++.+|+. ++|+.    .+...+...++..+
T Consensus       128 k~~VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVs----Vs~~~d~~~IL~~L  202 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN----LKNCNSPETVLEML  202 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEE----CCCSSSHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEE----eCCCCCHHHHHHHH
Confidence            44599999999999998743 3478999999999999999999997  46888997 66776    34445566666666


Q ss_pred             HHHHhhcccc---CCC--------CCc-hHHHHHHh---cCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCCh
Q 046970          246 LSEILEENLK---IGT--------LNL-PEYIKERL---QQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDK  310 (420)
Q Consensus       246 l~~l~~~~~~---~~~--------~~~-~~~l~~~l---~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~  310 (420)
                      +..+......   ..+        .+. .+.+++.|   .++++||||||||+.++|+.+.       +||+||||||++
T Consensus       203 l~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~  275 (1221)
T 1vt4_I          203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFK  275 (1221)
T ss_dssp             HHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCS
T ss_pred             HHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccCh
Confidence            5544322110   000        011 34556555   6799999999999999888762       789999999999


Q ss_pred             hhhhhcCCCeEEEeC------CCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCC--ChhH
Q 046970          311 QVFDECEVDSIYEVE------GLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRK--SVKP  382 (420)
Q Consensus       311 ~~~~~~~~~~~~~l~------~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~--~~~~  382 (420)
                      .++..+.....|+|+      +|+.+||++||.++. +..  ..   ++..++   |+|+||||+++|++|+++  +.++
T Consensus       276 ~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~--~e---eL~~eI---CgGLPLALkLaGs~Lr~k~~s~ee  346 (1221)
T 1vt4_I          276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR--PQ---DLPREV---LTTNPRRLSIIAESIRDGLATWDN  346 (1221)
T ss_dssp             HHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC--TT---THHHHH---CCCCHHHHHHHHHHHHHSCSSHHH
T ss_pred             HHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC--HH---HHHHHH---hCCCHHHHHHHHHHHhCCCCCHHH
Confidence            887543333345666      899999999999984 322  11   223333   999999999999999987  5667


Q ss_pred             HHhHhhhcccccCc--cCCcccCcchhH-HHHHHHhhccC
Q 046970          383 EKQCCFNRGCRLLV--AEPRYIFLPLSF-MFLVTLVALFD  419 (420)
Q Consensus       383 ~~~~~~~~~~~~l~--~~~~~~~l~~~~-~~~~~~~~~f~  419 (420)
                      |...    ....+.  -+.++..|+... +.||.|||+|+
T Consensus       347 W~~~----~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFP  382 (1221)
T 1vt4_I          347 WKHV----NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP  382 (1221)
T ss_dssp             HHHC----SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSC
T ss_pred             HhcC----ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCC
Confidence            7653    000000  023455666677 99999999996

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.95  E-value=2.7e-28  Score=251.50  Aligned_cols=239  Identities=18%  Similarity=0.232  Sum_probs=166.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh---hcccc-ceEEEEeccccccccCHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI---SSEFE-GECFITNVREESERVGLVHLR  242 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~---~~~f~-~~~~v~~~~~~~~~~~~~~l~  242 (420)
                      .+..||||+.++++|.++|....++.++|+|+||||+||||||.+++++.   +.+|+ +++|+. ++... ...+...+
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~-~~~~~-~~~~~~~l  199 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVS-VGKQD-KSGLLMKL  199 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEE-EESCC-HHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEE-CCCCc-hHHHHHHH
Confidence            56789999999999999997655568999999999999999999999754   67885 567766 32221 11122222


Q ss_pred             HHHHHHHhhccc--cC--CCCCc-hHHHHHHhcC--CeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhhhh
Q 046970          243 ERVLSEILEENL--KI--GTLNL-PEYIKERLQQ--MKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE  315 (420)
Q Consensus       243 ~~ll~~l~~~~~--~~--~~~~~-~~~l~~~l~~--~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~  315 (420)
                      ..+...+.....  ..  .+.+. ...+...+.+  +++||||||+|+..+++.+       +++++||||||+..++..
T Consensus       200 ~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~  272 (591)
T 1z6t_A          200 QNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDS  272 (591)
T ss_dssp             HHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTT
T ss_pred             HHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHh
Confidence            223333321111  11  11112 4556666665  7899999999998776543       578999999999987765


Q ss_pred             cCCCeEEEe---CCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCCChhHHHhHhhhccc
Q 046970          316 CEVDSIYEV---EGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFNRGC  392 (420)
Q Consensus       316 ~~~~~~~~l---~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~~~~~~~~~~~~~~~  392 (420)
                      .. ...+++   ++|+.+|+++||...++..   .....+.+.+|+++|+|+||||+++|++|+.+. ..|...+..+..
T Consensus       273 ~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~---~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~  347 (591)
T 1z6t_A          273 VM-GPKYVVPVESSLGKEKGLEILSLFVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQN  347 (591)
T ss_dssp             CC-SCEEEEECCSSCCHHHHHHHHHHHHTSC---GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHS
T ss_pred             cC-CCceEeecCCCCCHHHHHHHHHHHhCCC---cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHH
Confidence            43 345555   5899999999999988542   222235688999999999999999999998764 467766544321


Q ss_pred             ccCc-------c---------CCcccCcchhHHHHHHHhhccC
Q 046970          393 RLLV-------A---------EPRYIFLPLSFMFLVTLVALFD  419 (420)
Q Consensus       393 ~~l~-------~---------~~~~~~l~~~~~~~~~~~~~f~  419 (420)
                      ....       .         +.++-.|+...+.||.|||+|+
T Consensus       348 ~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~  390 (591)
T 1z6t_A          348 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQ  390 (591)
T ss_dssp             CCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCC
T ss_pred             hHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccC
Confidence            1100       0         2235578888899999999994

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

Probab=99.93  E-value=2.1e-27  Score=200.76  Aligned_cols=100  Identities=19%  Similarity=0.348  Sum_probs=94.1

Q ss_pred             CCCcccEEecCccccccCcchHHHHHHHhhCCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccCC-----
Q 046970            8 TKGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSSG-----   81 (420)
Q Consensus         8 ~~~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w-----   81 (420)
                      +.++|||||||+++| +..|++||+.+|+++|++||+|+ ++.+|+.|.++|.+||++|+++|+|+|+||+.|.|     
T Consensus        17 ~~~~~dvFISy~~~D-~~~~~~~L~~~L~~~gi~v~~D~~~l~~G~~~~~~i~~ai~~s~~~i~v~S~~y~~S~wc~~El   95 (154)
T 3h16_A           17 SAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQKEL   95 (154)
T ss_dssp             -CCSEEEEEEEEGGG-TTTTHHHHHHHHHHHTCCEECGGGEECTTCCHHHHHHHHHTSEEEEEEEEEHHHHTTCCCHHHH
T ss_pred             CCCCceEEEECcccC-hHHHHHHHHHHHHHCCCcEEEcHHhCCCccHHHHHHHHHHHhCcEEEEEeCcchhcChHHHHHH
Confidence            468999999999999 55799999999999999999999 89999999999999999999999999999999999     


Q ss_pred             ------------eeEeeeeccCccccccccCcchHHHHH
Q 046970           82 ------------AWMNFFLSCSSSDVRNQTGSFGDAFVK  108 (420)
Q Consensus        82 ------------~v~pvfy~v~ps~vr~~~~~~~~~~~~  108 (420)
                                  .|+||||+++|++|++|.|.|++.|..
T Consensus        96 ~~~~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~~~~  134 (154)
T 3h16_A           96 DGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLAF  134 (154)
T ss_dssp             HHHTCCCTTSCCCEEEEEESCCTGGGTTTCCCCCSSCCE
T ss_pred             HHHHHHHhcCCCEEEEEEecCCHHHHhhCCccHHHHHhh
Confidence                        799999999999999999999987643

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

Probab=99.85  E-value=3e-23  Score=172.72  Aligned_cols=120  Identities=18%  Similarity=0.233  Sum_probs=80.9

Q ss_pred             CCCCCCCCcccEEecCccccccCcchHHHHHHHhh--CCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEeccccccc
Q 046970            3 SSSLATKGRYDVFLSFRGEDTRDNFTSHLFAALRQ--KRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASS   79 (420)
Q Consensus         3 ~s~~~~~~~~dvfis~~~~d~~~~~~~~L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s   79 (420)
                      ++|+...+.|||||||+++|++  |+++|+.+|++  .|+++|+++ ++.+|+.|.++|.+||++|+++|+|+|+||+.|
T Consensus         2 ~~~~r~~k~YDvFISy~~~D~~--~v~~L~~~Le~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~I~VlS~~y~~S   79 (146)
T 3ub2_A            2 PGSSRWSKDYDVCVCHSEEDLV--AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQD   79 (146)
T ss_dssp             --CCTTSSSEEEEEECCGGGHH--HHHHHHHHHHC------------------CCCEEECCTTCCEEEEEEEECHHHHHC
T ss_pred             CCCCCCCCcceEEEeCChhhHH--HHHHHHHHHhCcCCCeEEEEECccccccccHHHHHHHHHHhCCEEEEEECcccccC
Confidence            4566778899999999999964  69999999998  599999999 999999999999999999999999999999999


Q ss_pred             CC-----------------eeEeeeeccCcccc----ccccCcchHHHHHHHHhhccchhhHHhHHHHh
Q 046970           80 SG-----------------AWMNFFLSCSSSDV----RNQTGSFGDAFVKLEKQFEELPEKVHKWSGAL  127 (420)
Q Consensus        80 ~w-----------------~v~pvfy~v~ps~v----r~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al  127 (420)
                      .|                 +|+||||+++++++    +.....-.   ..+...+....+.+.+|++++
T Consensus        80 ~wc~~El~~al~~~~~~~~~vIpv~~~v~~~~lp~~Lr~~~~id~---~~~d~~f~~l~~~v~~~~~~~  145 (146)
T 3ub2_A           80 PWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYPPELRFMYYVDG---RGPDGGFRQVKEAVMRYLQTL  145 (146)
T ss_dssp             HHHHHHHHHHHHTSSSSSSEEEEEECSCCGGGSCGGGGGSCCEET---TSGGGGHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhhcCCcEEEEEcCCChhhCCHHHhCeeeeec---cChHhhHHHHHHHHHHHHHhc
Confidence            99                 68899999986654    33322111   112233333445788888765

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

Probab=99.75  E-value=3.5e-19  Score=149.07  Aligned_cols=81  Identities=21%  Similarity=0.356  Sum_probs=76.0

Q ss_pred             CCCcccEEecCccccccCcchHH-HHHHHhhC--CCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccCC--
Q 046970            8 TKGRYDVFLSFRGEDTRDNFTSH-LFAALRQK--RIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSSG--   81 (420)
Q Consensus         8 ~~~~~dvfis~~~~d~~~~~~~~-L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w--   81 (420)
                      ..+.|||||||+++|+  .|+.+ |+.+|+++  |+++|+|+ |+.+|+.+.++|.+||++|+++|+|+|+||+.|.|  
T Consensus         2 ~~~~yDvFiSy~~~D~--~~v~~~L~~~Le~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~S~wc~   79 (149)
T 1fyx_A            2 RNIXYDAFVSYSERDA--YWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWXK   79 (149)
T ss_dssp             CSCCEEEEEECCGGGH--HHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTHH
T ss_pred             CCccceEEEECCcccH--HHHHHHHHHHHhcCCCCeEEeeccccCCCchhHHHHHHHHHHHcCEEEEEeCcchhccchHH
Confidence            4678999999999995  69997 99999987  99999999 99999999999999999999999999999999999  


Q ss_pred             ----------------eeEeeeecc
Q 046970           82 ----------------AWMNFFLSC   90 (420)
Q Consensus        82 ----------------~v~pvfy~v   90 (420)
                                      +|+||||+-
T Consensus        80 ~El~~a~~~~~~~~~~~vIpv~~~~  104 (149)
T 1fyx_A           80 YELDFSHFRLFDENNDAAILILLEP  104 (149)
T ss_dssp             HHSCCSCCTTCGGGTTCCEEEESSC
T ss_pred             HHHHHHHHHHHhcCCCEEEEEEecC
Confidence                            699999973

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

Probab=99.75  E-value=6.3e-19  Score=151.37  Aligned_cols=85  Identities=25%  Similarity=0.344  Sum_probs=77.5

Q ss_pred             CCCCCcccEEecCccccccCcchHH-HHHHHhh--CCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccCC
Q 046970            6 LATKGRYDVFLSFRGEDTRDNFTSH-LFAALRQ--KRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSSG   81 (420)
Q Consensus         6 ~~~~~~~dvfis~~~~d~~~~~~~~-L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w   81 (420)
                      ....+.|||||||+++|+  +|+.+ |+.+|++  +|+++|+|+ |+.+|+.|.++|.+||++|+++|+|+|+||+.|.|
T Consensus        30 ~~~~~~yDvFISys~~D~--~fv~~~L~~~LE~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~IvVlS~~yl~S~w  107 (178)
T 2j67_A           30 LKRNVRFHAFISYSEHDS--LWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEW  107 (178)
T ss_dssp             CCCSCCEEEEEECCGGGH--HHHHHTHHHHHTTCC-CCCEEEHHHHCCTTSCHHHHHHHHHHTEEEEEEEECHHHHHHTG
T ss_pred             cCCCccceEEEECCCCCH--HHHHHHHHHHHhcccCCeEEEEecccCCCCccHHHHHHHHHHhCCEEEEEecccccccch
Confidence            356789999999999995  79985 9999998  899999999 99999999999999999999999999999999999


Q ss_pred             ------------------eeEeeeeccCc
Q 046970           82 ------------------AWMNFFLSCSS   92 (420)
Q Consensus        82 ------------------~v~pvfy~v~p   92 (420)
                                        +|+||||+-.|
T Consensus       108 c~~El~~a~~~~~~~~~~~vIpV~~~~i~  136 (178)
T 2j67_A          108 CHYEFYFAHHNLFHENSDHIILILLEPIP  136 (178)
T ss_dssp             GGTHHHHTTCC-------CEEEEESSCCC
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEEEecCCC
Confidence                              79999998443

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

Probab=99.74  E-value=4.1e-19  Score=150.16  Aligned_cols=84  Identities=19%  Similarity=0.332  Sum_probs=77.8

Q ss_pred             CCCCcccEEecCccccccCcchHHHHHHHhhC--CCceeeeC-CCCCCCcchHHHHHHhh-hcceeEEEecccccccCC-
Q 046970            7 ATKGRYDVFLSFRGEDTRDNFTSHLFAALRQK--RIKIFIDE-EANRGDEISLALLNAIE-GSKISIVIFSKNYASSSG-   81 (420)
Q Consensus         7 ~~~~~~dvfis~~~~d~~~~~~~~L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~ai~-~s~~~i~v~S~~y~~s~w-   81 (420)
                      +..+.|||||||+++|  ..|+.+|+.+|+++  |+++|+++ ++.+|+.+.++|.++|+ +|+++|+|+|+||+.|.| 
T Consensus        12 ~~~~~yDvFISys~~D--~~fv~~L~~~Le~~~~g~~~~~~~rd~~~G~~i~~~i~~~I~~~Sr~~IvVlS~~y~~S~wc   89 (160)
T 2js7_A           12 HMPERFDAFICYCPSD--IQFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRMVVVVSDDYLQSKEC   89 (160)
T ss_dssp             CCTTCEEEEEECCGGG--HHHHHHHHHHHHTSSSCCCCEESCCSSSSSCSCCCCCGGGHHHHEEEEEEECCHHHHHSHHH
T ss_pred             CCCcceEEEEEccccc--HHHHHHHHHHHhcCCCceEEEEeCCCCCCCCcHHHHHHHHHHHhCCEEEEEECcchhcCHHH
Confidence            4568999999999999  57999999999985  69999999 99999999999999999 799999999999999999 


Q ss_pred             -----------------eeEeeeeccCc
Q 046970           82 -----------------AWMNFFLSCSS   92 (420)
Q Consensus        82 -----------------~v~pvfy~v~p   92 (420)
                                       +|+||||+..+
T Consensus        90 ~~El~~a~~~~~~~~~~~vIpV~~~~~~  117 (160)
T 2js7_A           90 DFQTKFALSLSPGAHQKRLIPIKYKAMK  117 (160)
T ss_dssp             HHHHHHHHHHCTTHHHHTEEEEESSCCC
T ss_pred             HHHHHHHHHHHHccCCCEEEEEEEcccc
Confidence                             79999999654

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

Probab=99.71  E-value=5.4e-18  Score=143.15  Aligned_cols=84  Identities=19%  Similarity=0.286  Sum_probs=74.4

Q ss_pred             CcccEEecCccccc---------cCcchHHHHH-HHh-hCCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEeccccc
Q 046970           10 GRYDVFLSFRGEDT---------RDNFTSHLFA-ALR-QKRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYA   77 (420)
Q Consensus        10 ~~~dvfis~~~~d~---------~~~~~~~L~~-~L~-~~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~   77 (420)
                      +.|||||||+++|+         +.+||.+|.. .|+ +.|+++|+++ |+.+|+.+.++|.+||++|+++|+|+|+||+
T Consensus         1 k~yDaFISy~~~D~~wv~~~~~~~~~fv~~ll~~~LE~~~g~~l~~~~rD~~~G~~i~~~i~~~I~~Sr~~IvVlS~~y~   80 (159)
T 1t3g_A            1 KDYDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDVARCVDQSKRLIIVMTPNYV   80 (159)
T ss_dssp             CCBSEEEECCCCC-------CCSHHHHHHTHHHHHHHHTSCCCEECHHHHCCCCTTHHHHHHHHHHTBSEEEEEECHHHH
T ss_pred             CCceEEEeCccccchhhhccchhhHHHHHHHHHHHHcCCCCeEEEEEcccccCccchHHHHHHHHHHcCEEEEEEccchh
Confidence            47999999999997         3568888665 699 7999999999 9999999999999999999999999999997


Q ss_pred             -ccCC------------------eeEeeeeccCcc
Q 046970           78 -SSSG------------------AWMNFFLSCSSS   93 (420)
Q Consensus        78 -~s~w------------------~v~pvfy~v~ps   93 (420)
                       .|.|                  +|+||||.-.+.
T Consensus        81 ~~S~wc~~El~~a~~~~~~~~~~~vI~I~~~~~~~  115 (159)
T 1t3g_A           81 VRRGWSIFELETRLRNMLVTGEIKVILIECSELRG  115 (159)
T ss_dssp             HTTTTHHHHHSHHHHHHHHTTSSEEEEEECSCCCS
T ss_pred             hcChHHHHHHHHHHHHHHhcCCCEEEEEEeccccc
Confidence             9999                  899999885443

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.61  E-value=1.6e-15  Score=145.21  Aligned_cols=196  Identities=17%  Similarity=0.179  Sum_probs=121.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccc---cccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREES---ERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~---~~~~~~~l~~  243 (420)
                      .+..|+||+.++++|.+++..+    +++.|+|++|+|||||+++++++..     .+|+. +....   .......+.+
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~~-----~~~~~-~~~~~~~~~~~~~~~~~~   79 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNERP-----GILID-CRELYAERGHITREELIK   79 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHSS-----EEEEE-HHHHHHTTTCBCHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHcC-----cEEEE-eecccccccCCCHHHHHH
Confidence            5577999999999999988742    6899999999999999999998751     55554 22111   0113344444


Q ss_pred             HHHHHHhhc--------------cccC----CCCCc-hHHHHHHhcC-CeEEEEEeCCCCHH--------H-HHHHhcCC
Q 046970          244 RVLSEILEE--------------NLKI----GTLNL-PEYIKERLQQ-MKVFIVLDDVNKPE--------Q-LIFLVGGL  294 (420)
Q Consensus       244 ~ll~~l~~~--------------~~~~----~~~~~-~~~l~~~l~~-~~~LlVLDdv~~~~--------~-l~~l~~~~  294 (420)
                      .+...+...              ....    ..... ...+.+.... ++++|||||++...        . +..+....
T Consensus        80 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~  159 (350)
T 2qen_A           80 ELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAY  159 (350)
T ss_dssp             HHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHH
Confidence            444433210              0000    11111 3334443332 49999999996532        2 22222111


Q ss_pred             CCCCCCcEEEeecCChhhhhh-----------c-CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhc
Q 046970          295 DRFGPRSRIIVTTRDKQVFDE-----------C-EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYAN  362 (420)
Q Consensus       295 ~~~~~g~~IIiTtR~~~~~~~-----------~-~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~  362 (420)
                      .. .++.++|+|++....+..           . .....+++.+|+.+|+.+++............  .+.+.++++.++
T Consensus       160 ~~-~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~--~~~~~~i~~~tg  236 (350)
T 2qen_A          160 DS-LPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVP--ENEIEEAVELLD  236 (350)
T ss_dssp             HH-CTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCC--HHHHHHHHHHHT
T ss_pred             Hh-cCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHhC
Confidence            11 246789999887543211           1 12357899999999999999875422111111  245789999999


Q ss_pred             CChHHHHHHHHHh
Q 046970          363 GNPLALKVLGSFF  375 (420)
Q Consensus       363 G~PLal~~~~~~L  375 (420)
                      |+|+++..++..+
T Consensus       237 G~P~~l~~~~~~~  249 (350)
T 2qen_A          237 GIPGWLVVFGVEY  249 (350)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            9999999998764

>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=99.58  E-value=5.1e-15  Score=142.03  Aligned_cols=196  Identities=17%  Similarity=0.188  Sum_probs=118.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccc--cccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREES--ERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~--~~~~~~~l~~~  244 (420)
                      .+..|+||+.+++.|.+ +..     +++.|+|++|+|||+|+++++++....   .+|+. .....  .......+...
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~~~~   80 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNLP---YIYLD-LRKFEERNYISYKDFLLE   80 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTCC---EEEEE-GGGGTTCSCCCHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCCC---EEEEE-chhhccccCCCHHHHHHH
Confidence            55789999999999998 763     599999999999999999999886432   45665 22110  00122333333


Q ss_pred             HHHHHhh-------------cc---------ccCC----CCCchHHHHHHhcC---CeEEEEEeCCCCHH-----HHHHH
Q 046970          245 VLSEILE-------------EN---------LKIG----TLNLPEYIKERLQQ---MKVFIVLDDVNKPE-----QLIFL  290 (420)
Q Consensus       245 ll~~l~~-------------~~---------~~~~----~~~~~~~l~~~l~~---~~~LlVLDdv~~~~-----~l~~l  290 (420)
                      +...+..             ..         ....    .......+.+.+..   ++++|||||++...     ++..+
T Consensus        81 l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~  160 (357)
T 2fna_A           81 LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPA  160 (357)
T ss_dssp             HHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHH
Confidence            3222211             00         0000    01123334343432   49999999995532     11111


Q ss_pred             hcCCCCCCCCcEEEeecCChhhhhh-----------cC-CCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHH
Q 046970          291 VGGLDRFGPRSRIIVTTRDKQVFDE-----------CE-VDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVV  358 (420)
Q Consensus       291 ~~~~~~~~~g~~IIiTtR~~~~~~~-----------~~-~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~  358 (420)
                      +..+....++.++|+|++.......           .+ ....+++.+|+.+++.+++.............    ...++
T Consensus       161 l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i~  236 (357)
T 2fna_A          161 LAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVVY  236 (357)
T ss_dssp             HHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHHH
T ss_pred             HHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc----HHHHH
Confidence            1111111246789999987643221           11 13678999999999999998754211111111    17899


Q ss_pred             HHhcCChHHHHHHHHHhc
Q 046970          359 DYANGNPLALKVLGSFFY  376 (420)
Q Consensus       359 ~~~~G~PLal~~~~~~L~  376 (420)
                      +.++|+|+++..++..+.
T Consensus       237 ~~t~G~P~~l~~~~~~~~  254 (357)
T 2fna_A          237 EKIGGIPGWLTYFGFIYL  254 (357)
T ss_dssp             HHHCSCHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHc
Confidence            999999999999987764

>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=99.57  E-value=1.1e-14  Score=142.68  Aligned_cols=199  Identities=13%  Similarity=0.082  Sum_probs=124.8

Q ss_pred             CCCCcccccccceeeeccc-cc--CC--CCceEEEE--eccCcchHHHHHHHHHHHhhccc-----c-ceEEEEeccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLL-HL--GL--PDFRIVGI--WGMGGIGKTTFAGAIFNQISSEF-----E-GECFITNVREES  233 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L-~~--~~--~~~~vv~I--~G~gGiGKTtLa~~~~~~~~~~f-----~-~~~~v~~~~~~~  233 (420)
                      .+..|+||+.++++|.+++ ..  ..  ...+.+.|  +|++|+|||||++++++.....+     . ..+|+.    ..
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~----~~   95 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----AF   95 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----GG
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEE----CC
Confidence            4477999999999999988 42  11  23456777  99999999999999998875531     2 234554    22


Q ss_pred             cccCHHHHHHHHHHHHhhccccCC-CCCc-hHHHHHHhc--CCeEEEEEeCCCCH--------HHHHHHhcCCCCC---C
Q 046970          234 ERVGLVHLRERVLSEILEENLKIG-TLNL-PEYIKERLQ--QMKVFIVLDDVNKP--------EQLIFLVGGLDRF---G  298 (420)
Q Consensus       234 ~~~~~~~l~~~ll~~l~~~~~~~~-~~~~-~~~l~~~l~--~~~~LlVLDdv~~~--------~~l~~l~~~~~~~---~  298 (420)
                      .......+...++..+........ +... ...+.+.+.  +++++|||||++..        +.+..+...+...   +
T Consensus        96 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~  175 (412)
T 1w5s_A           96 NAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRD  175 (412)
T ss_dssp             GCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTT
T ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCC
Confidence            334566777787777643321111 1111 445555554  67999999999653        3333333222111   2


Q ss_pred             --CCcEEEeecCChhhhhh---------cCCCeEEEeCCCCHHHHHHHHHhcc---cCCCCCchhHHHHHHHHHHHhc--
Q 046970          299 --PRSRIIVTTRDKQVFDE---------CEVDSIYEVEGLNKDESLELFSNFA---FRQKICPKDFLVLSKRVVDYAN--  362 (420)
Q Consensus       299 --~g~~IIiTtR~~~~~~~---------~~~~~~~~l~~L~~~ea~~L~~~~a---~~~~~~~~~~~~~~~~i~~~~~--  362 (420)
                        ....+|+||++..+...         ......+++++|+.+++.++|...+   +.....+   .+....+++.++  
T Consensus       176 ~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~---~~~~~~i~~~~~~~  252 (412)
T 1w5s_A          176 GVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWE---PRHLELISDVYGED  252 (412)
T ss_dssp             SCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCC---HHHHHHHHHHHCGG
T ss_pred             CCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCC---hHHHHHHHHHHHHh
Confidence              34558878876543211         1122348999999999999997654   2221222   256778999999  


Q ss_pred             ----CChHHHHHHH
Q 046970          363 ----GNPLALKVLG  372 (420)
Q Consensus       363 ----G~PLal~~~~  372 (420)
                          |+|..+..+.
T Consensus       253 ~~~~G~p~~~~~l~  266 (412)
T 1w5s_A          253 KGGDGSARRAIVAL  266 (412)
T ss_dssp             GTSCCCHHHHHHHH
T ss_pred             ccCCCcHHHHHHHH
Confidence                9997655544

>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=99.49  E-value=4.8e-13  Score=129.85  Aligned_cols=193  Identities=15%  Similarity=0.128  Sum_probs=126.0

Q ss_pred             CCCcccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhcc--------ccceEEEEecccccccc-
Q 046970          168 FTGSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE--------FEGECFITNVREESERV-  236 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------f~~~~~v~~~~~~~~~~-  236 (420)
                      +..++||+.+++++..++..  .....+.+.|+|++|+|||+||+.+++.+...        ....+++.    ..... 
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~----~~~~~~   94 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN----CREVGG   94 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE----HHHHCS
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE----CccCCC
Confidence            36799999999999887754  23345689999999999999999999987443        22334444    22223 


Q ss_pred             CHHHHHHHHHHHHhhccccCCCC--Cc-hHHHHHHhcCCeEEEEEeCCCCHH------H-HHHHhcCCCCCCCCcEEEee
Q 046970          237 GLVHLRERVLSEILEENLKIGTL--NL-PEYIKERLQQMKVFIVLDDVNKPE------Q-LIFLVGGLDRFGPRSRIIVT  306 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~--~~-~~~l~~~l~~~~~LlVLDdv~~~~------~-l~~l~~~~~~~~~g~~IIiT  306 (420)
                      ....+...++..+.+........  .. ...+.+.+..++.+|||||++...      . +..+....    .+..+|+|
T Consensus        95 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~  170 (384)
T 2qby_B           95 TPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMI  170 (384)
T ss_dssp             CHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEE
T ss_pred             CHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEE
Confidence            55667777777765433221111  12 566677777766699999996543      2 33444332    67788888


Q ss_pred             cCChhhhhh------cCCCeEEEeCCCCHHHHHHHHHhccc---CCCCCchhHHHHHHHHHHHhc---CChH-HHHHH
Q 046970          307 TRDKQVFDE------CEVDSIYEVEGLNKDESLELFSNFAF---RQKICPKDFLVLSKRVVDYAN---GNPL-ALKVL  371 (420)
Q Consensus       307 tR~~~~~~~------~~~~~~~~l~~L~~~ea~~L~~~~a~---~~~~~~~~~~~~~~~i~~~~~---G~PL-al~~~  371 (420)
                      |+.......      ......+++++++.++..+++...+.   .....++   +..+.+++.++   |.|. ++..+
T Consensus       171 t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~i~~~~~~~~G~~r~a~~~l  245 (384)
T 2qby_B          171 SNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDD---EILSYIAAISAKEHGDARKAVNLL  245 (384)
T ss_dssp             CSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCS---HHHHHHHHHHHTTCCCHHHHHHHH
T ss_pred             ECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCH---HHHHHHHHHHHhccCCHHHHHHHH
Confidence            887532111      11234899999999999999998742   2222222   34667888888   9887 44433

>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=99.43  E-value=1.5e-12  Score=117.47  Aligned_cols=197  Identities=14%  Similarity=0.105  Sum_probs=117.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++||+..++.|..++..+. ....+.|+|++|+||||||+.+++.....+.....-     .   ..... ...+.
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~-----~---~~~~~-~~~~~   90 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATP-----C---GVCDN-CREIE   90 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSC-----C---SCSHH-HHHHH
T ss_pred             cHHHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCC-----C---cccHH-HHHHh
Confidence            34569999999999999887542 235889999999999999999998765432110000     0   00000 00000


Q ss_pred             HHHhhccccCCCCC--chHHHH---HHh-----cCCeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEeecCChhhhh
Q 046970          247 SEILEENLKIGTLN--LPEYIK---ERL-----QQMKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIVTTRDKQVFD  314 (420)
Q Consensus       247 ~~l~~~~~~~~~~~--~~~~l~---~~l-----~~~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~  314 (420)
                      ..............  ....+.   +.+     .+++.+||+||++.  ...++.+...+.....+..+|+||+......
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~  170 (250)
T 1njg_A           91 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  170 (250)
T ss_dssp             TTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             ccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCC
Confidence            00000000000000  011111   111     24679999999954  4455555554443456778888887654221


Q ss_pred             --hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHh
Q 046970          315 --ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       315 --~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                        .......+++++++.++..+++...+........  .+..+.+++.++|+|..+..+...+
T Consensus       171 ~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          171 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE--PRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCBC--HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence              1123468899999999999999887643322211  2457789999999999998776544

>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=99.43  E-value=2.9e-13  Score=131.15  Aligned_cols=196  Identities=17%  Similarity=0.147  Sum_probs=118.8

Q ss_pred             CCCCcccccccceeeecccccC--CCCceEEEEeccCcchHHHHHHHHHHHhhcccc---ceEEEEeccccccccCHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG--LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE---GECFITNVREESERVGLVHL  241 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~---~~~~v~~~~~~~~~~~~~~l  241 (420)
                      .+..|+||+.+++.|.+++...  ....+.+.|+|++|+|||||++.+++.....+.   ..+|+.    .........+
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~----~~~~~~~~~~   93 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN----TRQIDTPYRV   93 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE----HHHHCSHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE----CCCCCCHHHH
Confidence            4578999999999999888742  344678999999999999999999998766532   344444    2222344445


Q ss_pred             HHHHHHHHhhccccCC-CCCc-hHHHHHHhc--CCeEEEEEeCCCCH------HHHHHHhcCCCC-CCCCcEEEeecCCh
Q 046970          242 RERVLSEILEENLKIG-TLNL-PEYIKERLQ--QMKVFIVLDDVNKP------EQLIFLVGGLDR-FGPRSRIIVTTRDK  310 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~-~~~~-~~~l~~~l~--~~~~LlVLDdv~~~------~~l~~l~~~~~~-~~~g~~IIiTtR~~  310 (420)
                      ...++..+........ .... ...+.+.+.  +++.+||||+++..      +.+..+...... ...+..+|+||++.
T Consensus        94 ~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~  173 (386)
T 2qby_A           94 LADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDV  173 (386)
T ss_dssp             HHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCG
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCC
Confidence            5555444422111100 0111 344455554  34899999998543      233334322211 13455677788765


Q ss_pred             hhhhhcC-------CCeEEEeCCCCHHHHHHHHHhccc---CCCCCchhHHHHHHHHHHHhc---CChHHHH
Q 046970          311 QVFDECE-------VDSIYEVEGLNKDESLELFSNFAF---RQKICPKDFLVLSKRVVDYAN---GNPLALK  369 (420)
Q Consensus       311 ~~~~~~~-------~~~~~~l~~L~~~ea~~L~~~~a~---~~~~~~~~~~~~~~~i~~~~~---G~PLal~  369 (420)
                      .......       ....+++++++.++..+++...+.   ......   .+..+.+++.++   |.|..+.
T Consensus       174 ~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~  242 (386)
T 2qby_A          174 KFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLP---DNVIKLCAALAAREHGDARRAL  242 (386)
T ss_dssp             GGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSC---HHHHHHHHHHHHHTTCCHHHHH
T ss_pred             ChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhcCCHHHHH
Confidence            4322211       125899999999999999987642   112222   245667777787   9998443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.41  E-value=9.5e-13  Score=127.63  Aligned_cols=192  Identities=11%  Similarity=0.060  Sum_probs=119.8

Q ss_pred             CCCCcccccccceeeecccccC--CCCceEEEEeccCcchHHHHHHHHHHHhhccc-----c-ceEEEEeccccccccCH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG--LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-----E-GECFITNVREESERVGL  238 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-----~-~~~~v~~~~~~~~~~~~  238 (420)
                      .+..++||+.+++++..++...  ....+.+.|+|++|+||||||+.+++......     . ..+++.    .....+.
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~----~~~~~~~   92 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVN----ARHRETP   92 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEE----TTTSCSH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEE----CCcCCCH
Confidence            4478999999999999988542  34467899999999999999999998774431     2 234444    2233455


Q ss_pred             HHHHHHHHHHHhhccccCCC-CCc-hHHHHHHhc--CCeEEEEEeCCCCHH-------HHHHHhcCCCCC--CCCcEEEe
Q 046970          239 VHLRERVLSEILEENLKIGT-LNL-PEYIKERLQ--QMKVFIVLDDVNKPE-------QLIFLVGGLDRF--GPRSRIIV  305 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~-~~~-~~~l~~~l~--~~~~LlVLDdv~~~~-------~l~~l~~~~~~~--~~g~~IIi  305 (420)
                      ..+...++..+......... ... ...+.+.+.  +++.+||||+++...       .+..+.......  ..+..+|.
T Consensus        93 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~  172 (387)
T 2v1u_A           93 YRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVG  172 (387)
T ss_dssp             HHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEE
Confidence            66677777776432211111 111 445555553  468999999997543       233333322211  34567777


Q ss_pred             ecCChhh--------hhhcCCCeEEEeCCCCHHHHHHHHHhccc---CCCCCchhHHHHHHHHHHHhc---CChH
Q 046970          306 TTRDKQV--------FDECEVDSIYEVEGLNKDESLELFSNFAF---RQKICPKDFLVLSKRVVDYAN---GNPL  366 (420)
Q Consensus       306 TtR~~~~--------~~~~~~~~~~~l~~L~~~ea~~L~~~~a~---~~~~~~~~~~~~~~~i~~~~~---G~PL  366 (420)
                      ||+....        .... ....+.+++++.++..+++...+.   .....++   +..+.+++.++   |.|.
T Consensus       173 ~t~~~~~~~~l~~~l~~r~-~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~G~~r  243 (387)
T 2v1u_A          173 ITNSLGFVENLEPRVKSSL-GEVELVFPPYTAPQLRDILETRAEEAFNPGVLDP---DVVPLCAALAAREHGDAR  243 (387)
T ss_dssp             ECSCSTTSSSSCHHHHTTT-TSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCS---SHHHHHHHHHHSSSCCHH
T ss_pred             EECCCchHhhhCHHHHhcC-CCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCH---HHHHHHHHHHHHhccCHH
Confidence            7776532        1111 125789999999999999987752   2222222   34677888888   9994

>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=99.35  E-value=6.9e-12  Score=121.73  Aligned_cols=197  Identities=13%  Similarity=0.137  Sum_probs=124.3

Q ss_pred             CCCCcccccccceeeeccccc----CCCCceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEEeccccccccCHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL----GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFITNVREESERVGLVHL  241 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      .++.++||+.+++++..++..    ..+..+.+.|+|++|+|||||++.+++...... ...+++.    .........+
T Consensus        15 ~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~----~~~~~~~~~~   90 (389)
T 1fnn_A           15 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN----GFIYRNFTAI   90 (389)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE----TTTCCSHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEe----CccCCCHHHH
Confidence            347799999999999988864    222234899999999999999999999876542 2344444    2233445566


Q ss_pred             HHHHHHHHhhccccCCCCC--c-hHHHHHHhc--CCeEEEEEeCCCC--HHHHHHHhcCCCCCC----CCcEEEeecCCh
Q 046970          242 RERVLSEILEENLKIGTLN--L-PEYIKERLQ--QMKVFIVLDDVNK--PEQLIFLVGGLDRFG----PRSRIIVTTRDK  310 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~~~~--~-~~~l~~~l~--~~~~LlVLDdv~~--~~~l~~l~~~~~~~~----~g~~IIiTtR~~  310 (420)
                      ...++..+...... ....  . ...+.+.+.  +++.+||||+++.  ...+..+...+....    .+..+|++|++.
T Consensus        91 ~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~  169 (389)
T 1fnn_A           91 IGEIARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHND  169 (389)
T ss_dssp             HHHHHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESST
T ss_pred             HHHHHHHhCccCCC-CCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCc
Confidence            66666665332111 1111  1 334444443  5689999999965  344555544443222    366788887766


Q ss_pred             hhhhhcC-------CCeEEEeCCCCHHHHHHHHHhcccC---CCCCchhHHHHHHHHHHHh---------cCChHHHHHH
Q 046970          311 QVFDECE-------VDSIYEVEGLNKDESLELFSNFAFR---QKICPKDFLVLSKRVVDYA---------NGNPLALKVL  371 (420)
Q Consensus       311 ~~~~~~~-------~~~~~~l~~L~~~ea~~L~~~~a~~---~~~~~~~~~~~~~~i~~~~---------~G~PLal~~~  371 (420)
                      .......       ....+.+++++.++..+++...+..   ....+   .+..+.+++.+         +|.|..+..+
T Consensus       170 ~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~  246 (389)
T 1fnn_A          170 AVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYS---EDILQMIADITGAQTPLDTNRGDARLAIDI  246 (389)
T ss_dssp             HHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSC---HHHHHHHHHHHSBSSTTCTTSCCHHHHHHH
T ss_pred             hHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHhhcccCCCCCCcHHHHHHH
Confidence            4322211       1236899999999999999877532   22222   25677888999         7987655443

>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=99.34  E-value=6.9e-12  Score=111.51  Aligned_cols=185  Identities=14%  Similarity=0.102  Sum_probs=112.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ....++|++..++.+.+++....  .+.+.|+|++|+|||+||+.+++.+... +...+...+.   ....+...+.. .
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~-~   88 (226)
T 2chg_A           15 TLDEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNA---SDERGIDVVRH-K   88 (226)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEET---TCTTCHHHHHH-H
T ss_pred             CHHHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecc---ccccChHHHHH-H
Confidence            44679999999999999887542  3348999999999999999999876433 2222222111   11112211111 1


Q ss_pred             HHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhhhh--hcCCCeE
Q 046970          246 LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQVFD--ECEVDSI  321 (420)
Q Consensus       246 l~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~--~~~~~~~  321 (420)
                      +.......    .         ....++.+||+||++..  ...+.+...+.....+.++|+||+......  .......
T Consensus        89 ~~~~~~~~----~---------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~  155 (226)
T 2chg_A           89 IKEFARTA----P---------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAV  155 (226)
T ss_dssp             HHHHHTSC----C---------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHhccc----C---------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCce
Confidence            11111100    0         01256899999999653  334444433333346778888887653211  1122358


Q ss_pred             EEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          322 YEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      +++++++.++..+++...+........  .+....+++.++|+|..+..+.
T Consensus       156 i~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~g~~r~l~~~l  204 (226)
T 2chg_A          156 FRFKPVPKEAMKKRLLEICEKEGVKIT--EDGLEALIYISGGDFRKAINAL  204 (226)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCBC--HHHHHHHHHHHTTCHHHHHHHH
T ss_pred             eecCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHHHH
Confidence            899999999999999887643221111  2456788899999999655443

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.30  E-value=1.9e-12  Score=138.58  Aligned_cols=85  Identities=19%  Similarity=0.338  Sum_probs=77.2

Q ss_pred             CCCCcccEEecCccccccCcch-HHHHHHHhh-----CCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEeccccccc
Q 046970            7 ATKGRYDVFLSFRGEDTRDNFT-SHLFAALRQ-----KRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASS   79 (420)
Q Consensus         7 ~~~~~~dvfis~~~~d~~~~~~-~~L~~~L~~-----~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s   79 (420)
                      ...++|||||||+++|.  .|| .+|...||.     .|+++|+++ |+.+|+.|.++|.+||++||++|+|+|++|+.|
T Consensus       666 ~~~~~yd~fisy~~~d~--~~v~~~l~~~Le~~~~~~~~~~~~~~~rd~~~G~~~~~~i~~~i~~sr~~i~vls~~~~~s  743 (844)
T 3j0a_A          666 PDMYKYDAYLCFSSKDF--TWVQNALLKHLDTQYSDQNRFNLCFEERDFVPGENRIANIQDAIWNSRKIVCLVSRHFLRD  743 (844)
T ss_dssp             SSCCCCSEEEECCSTTH--HHHHHTHHHHHHSTTTTTTCSCEECSSSSCCSSSCHHHHHHHHHHHSSEEEEEECTTHHHH
T ss_pred             ccceeccEEEEeeCCcH--HHHHHHHHHHHhhccccCCceEEEEEccccCCCchHHHHHHHHHHHhCeEEEEeccccccC
Confidence            35789999999999995  567 789999985     689999999 999999999999999999999999999999999


Q ss_pred             CC------------------eeEeeeeccCcc
Q 046970           80 SG------------------AWMNFFLSCSSS   93 (420)
Q Consensus        80 ~w------------------~v~pvfy~v~ps   93 (420)
                      .|                  +|+||||+-.|.
T Consensus       744 ~wc~~e~~~a~~~~~~~~~~~~i~i~~~~~~~  775 (844)
T 3j0a_A          744 GWCLEAFSYAQGRCLSDLNSALIMVVVGSLSQ  775 (844)
T ss_dssp             TSTTHHHHHHHSCCCCSSCTTEEEEESSCCCS
T ss_pred             hHHHHHHHHHHHHHHHhcCCcEEEEEeccCCh
Confidence            99                  799999986554

>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=99.16  E-value=8e-11  Score=111.14  Aligned_cols=186  Identities=16%  Similarity=0.188  Sum_probs=112.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccc-eEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEG-ECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~-~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|++..++.|.+++..+.  .+.+.|+|++|+|||++|+.+++.+... +.. .+.+. .   ....+... .+.
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~-~---~~~~~~~~-i~~   91 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN-A---SDDRGIDV-VRN   91 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC-T---TSCCSHHH-HHT
T ss_pred             CHHHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEec-C---ccccChHH-HHH
Confidence            34679999999999999887543  2338999999999999999999986432 221 22222 1   11112211 122


Q ss_pred             HHHHHhhccccCCCCCchHHHHHHh-cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhhh-hh-cCCC
Q 046970          245 VLSEILEENLKIGTLNLPEYIKERL-QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQVF-DE-CEVD  319 (420)
Q Consensus       245 ll~~l~~~~~~~~~~~~~~~l~~~l-~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~~-~~-~~~~  319 (420)
                      ++..+.....             .+ .+++.++|+||++..  ...+.+...+.....++++|+||+..... .. ....
T Consensus        92 ~~~~~~~~~~-------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~  158 (323)
T 1sxj_B           92 QIKHFAQKKL-------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  158 (323)
T ss_dssp             HHHHHHHBCC-------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHHhccc-------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhc
Confidence            2222211000             01 345889999999653  33333433333334667788887664321 11 1234


Q ss_pred             eEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHHHHH
Q 046970          320 SIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVLGSF  374 (420)
Q Consensus       320 ~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~~~~  374 (420)
                      ..+++++++.++..+++...+.......+  .+.+..+++.++|.|. ++..+...
T Consensus       159 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          159 AILRYSKLSDEDVLKRLLQIIKLEDVKYT--NDGLEAIIFTAEGDMRQAINNLQST  212 (323)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTCCBC--HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             eEEeecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            68999999999999999876632221111  2456789999999995 45555443

>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=99.07  E-value=6.2e-10  Score=105.18  Aligned_cols=185  Identities=15%  Similarity=0.128  Sum_probs=111.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc-cc-eEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EG-ECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~-~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|++..++.+..++..+  ..+.+.|+|++|+||||+|+.+++.+.... .. ...+. ..   ...+... ...
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~-~~---~~~~~~~-~~~   95 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN-AS---DERGINV-IRE   95 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE-TT---CHHHHHT-THH
T ss_pred             CHHHhhCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEee-cc---ccCchHH-HHH
Confidence            4567999999999999888754  333489999999999999999999864322 11 22222 11   1001110 011


Q ss_pred             HHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhhh-hh-cCCCe
Q 046970          245 VLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQVF-DE-CEVDS  320 (420)
Q Consensus       245 ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~~-~~-~~~~~  320 (420)
                      .+.......             ....+++.++|+||++..  .....+...+.....++++|+||...... .. .....
T Consensus        96 ~~~~~~~~~-------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  162 (327)
T 1iqp_A           96 KVKEFARTK-------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  162 (327)
T ss_dssp             HHHHHHHSC-------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             HHHHHHhhC-------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCc
Confidence            111110000             001256889999999643  34444544443334677888888765321 11 11235


Q ss_pred             EEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHH
Q 046970          321 IYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGS  373 (420)
Q Consensus       321 ~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~  373 (420)
                      .+++++++.++..+++...+.......+  .+..+.+++.++|.|..+..+..
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~g~~r~~~~~l~  213 (327)
T 1iqp_A          163 IFRFRPLRDEDIAKRLRYIAENEGLELT--EEGLQAILYIAEGDMRRAINILQ  213 (327)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCEEC--HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHCCCCHHHHHHHHH
Confidence            7899999999999999877643322111  24567889999999996654433

>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=99.01  E-value=3.2e-09  Score=99.89  Aligned_cols=177  Identities=13%  Similarity=0.092  Sum_probs=111.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc-cccc-eEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS-EFEG-ECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~-~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|++..++.+.+++..+.  .+.+.|+|++|+|||++|+.+++.+.. .+.. ...+. .........+      
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~-~~~~~~~~~~------   85 (319)
T 2chq_A           15 TLDEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN-ASDERGIDVV------   85 (319)
T ss_dssp             SGGGSCSCHHHHHHHHTTTTTTC--CCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEE-TTSTTCTTTS------
T ss_pred             CHHHHhCCHHHHHHHHHHHhCCC--CCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEe-CccccChHHH------
Confidence            44669999999999999887542  334899999999999999999987632 2211 12222 1110000001      


Q ss_pred             HHHHHhhccccCCCCCchHHHHHHh------cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhh-hhh
Q 046970          245 VLSEILEENLKIGTLNLPEYIKERL------QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQV-FDE  315 (420)
Q Consensus       245 ll~~l~~~~~~~~~~~~~~~l~~~l------~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~-~~~  315 (420)
                                       ...+....      .+++.++|+|+++..  ...+.+...+.....++++|+||....- ...
T Consensus        86 -----------------~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~  148 (319)
T 2chq_A           86 -----------------RHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEP  148 (319)
T ss_dssp             -----------------SHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHH
T ss_pred             -----------------HHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchH
Confidence                             11111111      246789999998643  4455566666555567788887765432 111


Q ss_pred             -cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          316 -CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       316 -~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                       ......+++.+++.++..+++...+......-.  .+....+++.++|.+..+..+
T Consensus       149 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~--~~~l~~l~~~~~G~~r~~~~~  203 (319)
T 2chq_A          149 IQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKIT--EDGLEALIYISGGDFRKAINA  203 (319)
T ss_dssp             HHTTCEEEECCCCCHHHHHHHHHHHHHTTCCCBC--HHHHHHHHHTTTTCHHHHHHH
T ss_pred             HHhhCeEEEecCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHHHH
Confidence             123468999999999999999877643322211  245678889999999865543

>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=98.94  E-value=4.2e-09  Score=101.42  Aligned_cols=194  Identities=14%  Similarity=0.125  Sum_probs=112.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|++..++.|...+..+. ....+.|+|++|+||||+|+.+++.+.......         ....+.......+.
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~---------~~~~~~~~~~~~~~   83 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT---------ATPCGVCDNCREIE   83 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC---------SSCCSSSHHHHHHH
T ss_pred             chhhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC---------CCCCcccHHHHHHh
Confidence            44679999999999998886542 245788999999999999999998764321100         00000000011111


Q ss_pred             HHHhhc----cc-cCCCCCchHHHHHHhc-----CCeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEeecCChhh-h
Q 046970          247 SEILEE----NL-KIGTLNLPEYIKERLQ-----QMKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIVTTRDKQV-F  313 (420)
Q Consensus       247 ~~l~~~----~~-~~~~~~~~~~l~~~l~-----~~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIiTtR~~~~-~  313 (420)
                      ......    .. .....+....+.+.+.     +++.++|+||++.  ....+.++..+.....+..+|++|.+..- .
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~  163 (373)
T 1jr3_A           84 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (373)
T ss_dssp             TSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSC
T ss_pred             ccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCc
Confidence            000000    00 0011122333333332     4578999999954  34445555444433456677777664432 1


Q ss_pred             h-hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          314 D-ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       314 ~-~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      . .......+++.+++.++..+++...+........  .+.+..+++.++|+|..+..+.
T Consensus       164 ~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~~--~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          164 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE--PRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC--HHHHHHHHHHSSSCHHHHHHHH
T ss_pred             HHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHCCCCHHHHHHHH
Confidence            1 1223478899999999999999876532221111  2456789999999999877554

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.90  E-value=1e-08  Score=95.87  Aligned_cols=164  Identities=12%  Similarity=0.049  Sum_probs=97.1

Q ss_pred             Ccccccccceeeeccccc--CCCCceEEEEeccCcchHHHHHHHHHHHhhcccc-------ceEEEEeccccccccCHHH
Q 046970          170 GSVGVNSRIRHIKSLLHL--GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE-------GECFITNVREESERVGLVH  240 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~-------~~~~v~~~~~~~~~~~~~~  240 (420)
                      .+.||+.|+++|...|..  .......+.|+|++|+|||++++.+++.+.....       ..+.+.    .....+...
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~IN----c~~~~t~~~   96 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHID----ALELAGMDA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEE----TTCCC--HH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEe----ccccCCHHH
Confidence            388999999999887753  2345678899999999999999999998754321       123343    122234456


Q ss_pred             HHHHHHHHHhhccccCCCCCchHHHHHH---h---cCCeEEEEEeCCCCH---HHHHHHhcCCCCCCCCcEEEeecCChh
Q 046970          241 LRERVLSEILEENLKIGTLNLPEYIKER---L---QQMKVFIVLDDVNKP---EQLIFLVGGLDRFGPRSRIIVTTRDKQ  311 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~~~~~~l~~~---l---~~~~~LlVLDdv~~~---~~l~~l~~~~~~~~~g~~IIiTtR~~~  311 (420)
                      +...+..++.+.....  ......+.+.   +   .+++++++||+++..   +.+..+............+|.++...+
T Consensus        97 ~~~~I~~~L~g~~~~~--~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d  174 (318)
T 3te6_A           97 LYEKIWFAISKENLCG--DISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNV  174 (318)
T ss_dssp             HHHHHHHHHSCCC--C--CCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSC
T ss_pred             HHHHHHHHhcCCCCCc--hHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcc
Confidence            6777777775543211  1113333332   2   356899999999654   333333321000011223333343322


Q ss_pred             h----h-----hhcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          312 V----F-----DECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       312 ~----~-----~~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      .    +     ..+ ....+.+++++.++..+++..++
T Consensus       175 ~~~~~L~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          175 TIREQINIMPSLKA-HFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             CCHHHHHTCHHHHT-TEEEEECCCCCHHHHHHHHHHHH
T ss_pred             cchhhcchhhhccC-CceEEEeCCCCHHHHHHHHHHHH
Confidence            1    1     122 12578999999999999998776

>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=98.88  E-value=6.1e-09  Score=98.37  Aligned_cols=176  Identities=14%  Similarity=0.099  Sum_probs=106.9

Q ss_pred             CCCCcccccccceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....++|++..+..+..++..   .......+.|+|++|+|||+||+.+++.....|   .++. ....   ....    
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~---~~~~-~~~~---~~~~----   78 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---RVTS-GPAI---EKPG----   78 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCE---EEEC-TTTC---CSHH----
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCE---EEEe-cccc---CChH----
Confidence            456799999999888887752   112345788999999999999999998764322   2222 1111   1111    


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhc---CCeEEEEEeCCCCHH--HHHHHhcCCCCC------------------CCC
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQ---QMKVFIVLDDVNKPE--QLIFLVGGLDRF------------------GPR  300 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~---~~~~LlVLDdv~~~~--~l~~l~~~~~~~------------------~~g  300 (420)
                                          .+...+.   .++.+|+||+++...  ....+...+...                  .++
T Consensus        79 --------------------~l~~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~  138 (324)
T 1hqc_A           79 --------------------DLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  138 (324)
T ss_dssp             --------------------HHHHHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCC
T ss_pred             --------------------HHHHHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCC
Confidence                                1111221   245689999996542  222222211100                  023


Q ss_pred             cEEEeecCChhhhh-h--cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHh
Q 046970          301 SRIIVTTRDKQVFD-E--CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFF  375 (420)
Q Consensus       301 ~~IIiTtR~~~~~~-~--~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L  375 (420)
                      .++|.||....... .  ......+++++++.++..+++...+........  .+....++++++|+|..+..+...+
T Consensus       139 ~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          139 FTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRIT--EEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             CEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCCC--HHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             EEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHccCCHHHHHHHHHHH
Confidence            55666665432211 1  112358899999999999999887643222111  2557889999999999888776554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.86  E-value=4.8e-09  Score=90.61  Aligned_cols=50  Identities=20%  Similarity=0.290  Sum_probs=41.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....++||+.+++++.+.+...  ..+.+.|+|++|+|||+||+.+++.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            4567999999999999988753  3457889999999999999999987643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.84  E-value=2e-08  Score=92.98  Aligned_cols=181  Identities=18%  Similarity=0.291  Sum_probs=103.2

Q ss_pred             CCCCcccccccceeeecccccC-----------CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG-----------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESER  235 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~  235 (420)
                      ....++|.+..+++|.+.+...           ....+.+.|+|++|+|||+||+.+++.....|   ..+. .......
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~---~~v~-~~~~~~~   90 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATF---IRVV-GSELVKK   90 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEE---EEEE-GGGGCCC
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE---EEEe-hHHHHHh
Confidence            4467889998888887766421           23456789999999999999999998764332   1111 1111000


Q ss_pred             cCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCC--CC
Q 046970          236 VGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLD--RF  297 (420)
Q Consensus       236 ~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~--~~  297 (420)
                      . .... ...+               ...+.......+.+|+||+++..                ..+..++..+.  ..
T Consensus        91 ~-~~~~-~~~~---------------~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           91 F-IGEG-ASLV---------------KDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             S-TTHH-HHHH---------------HHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             c-cchH-HHHH---------------HHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence            0 0000 0000               11122223456789999999543                12333332221  11


Q ss_pred             CCCcEEEeecCChhhhh-----hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC-ChHHHHHH
Q 046970          298 GPRSRIIVTTRDKQVFD-----ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANG-NPLALKVL  371 (420)
Q Consensus       298 ~~g~~IIiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~~  371 (420)
                      ..+..||.||.....+.     .......+.++..+.++..+++............   .....+++.+.| .|-.+..+
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~---~~~~~l~~~~~g~~~~~i~~l  230 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED---VNLEEIAKMTEGCVGAELKAI  230 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHHCTTCCHHHHHHH
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc---CCHHHHHHHcCCCCHHHHHHH
Confidence            24567788887554322     1124457899999999999999887643222111   113567777776 56455544

>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=98.80  E-value=2.5e-09  Score=96.26  Aligned_cols=174  Identities=15%  Similarity=0.149  Sum_probs=98.2

Q ss_pred             CCCCccccc---ccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVN---SRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~---~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ..++|+|.+   ..++.+..++...  ..+.+.|+|++|+||||||+.+++..........++. .......  +     
T Consensus        26 ~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~-~~~~~~~--~-----   95 (242)
T 3bos_A           26 TFTSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIP-LGIHASI--S-----   95 (242)
T ss_dssp             STTTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE-GGGGGGS--C-----
T ss_pred             ChhhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-HHHHHHH--H-----
Confidence            446788743   3344444444422  4578899999999999999999998765544455554 1111000  0     


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH--H--HHHHhcCCCCC-CCC-cEEEeecCChh------
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE--Q--LIFLVGGLDRF-GPR-SRIIVTTRDKQ------  311 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~--~--l~~l~~~~~~~-~~g-~~IIiTtR~~~------  311 (420)
                                        ...+ +.+ .++.+||+||++...  .  .+.+...+... ..+ .++|+||+...      
T Consensus        96 ------------------~~~~-~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~  155 (242)
T 3bos_A           96 ------------------TALL-EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFV  155 (242)
T ss_dssp             ------------------GGGG-TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCC
T ss_pred             ------------------HHHH-Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHh
Confidence                              0000 011 345689999985431  1  22222211100 122 24777776432      


Q ss_pred             ---hhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          312 ---VFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       312 ---~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                         +.........+++++++.++..+++...+........  .+....+++.++|++..+..+-
T Consensus       156 ~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~--~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          156 LPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLP--EDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             CHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCC--HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHccCCHHHHHHHH
Confidence               1111112378899999999999999887632221111  2456788899999998776543

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.78  E-value=1.6e-07  Score=90.04  Aligned_cols=204  Identities=16%  Similarity=0.167  Sum_probs=111.0

Q ss_pred             hhHHHHHHHHHHHhhhcccccccCCCCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHH
Q 046970          144 EARLVDEIVKDIMKKLKDKLLSRDFTGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       144 e~~~i~~i~~~v~~~l~~~~~~~~~~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~  213 (420)
                      +...++.+...+....    +......++|.+..++.|.+.+..          .....+.+.|+|++|+|||+||+.++
T Consensus        63 ~~~~~~~i~~~i~~~~----~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia  138 (357)
T 3d8b_A           63 EPKMIELIMNEIMDHG----PPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIA  138 (357)
T ss_dssp             CHHHHHHHHHHTBCCS----CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHH
T ss_pred             ChHHHHHHHhhcccCC----CCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHH
Confidence            3444555555443322    222446799999998888876642          11235688999999999999999999


Q ss_pred             HHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH---------
Q 046970          214 NQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP---------  284 (420)
Q Consensus       214 ~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~---------  284 (420)
                      +.....|   +.+. ........ ... ....+               ...+......++.+|+||+++..         
T Consensus       139 ~~~~~~~---~~i~-~~~l~~~~-~g~-~~~~~---------------~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~  197 (357)
T 3d8b_A          139 SQSGATF---FSIS-ASSLTSKW-VGE-GEKMV---------------RALFAVARCQQPAVIFIDEIDSLLSQRGDGEH  197 (357)
T ss_dssp             HHTTCEE---EEEE-GGGGCCSS-TTH-HHHHH---------------HHHHHHHHHTCSEEEEEETHHHHTBC------
T ss_pred             HHcCCeE---EEEe-hHHhhccc-cch-HHHHH---------------HHHHHHHHhcCCeEEEEeCchhhhccCCCCcc
Confidence            8763322   1222 21111100 000 00000               11111122356789999998432         


Q ss_pred             ----HHHHHHhcCCC----CCCCCcEEEeecCChhhhhh---cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHH
Q 046970          285 ----EQLIFLVGGLD----RFGPRSRIIVTTRDKQVFDE---CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVL  353 (420)
Q Consensus       285 ----~~l~~l~~~~~----~~~~g~~IIiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~  353 (420)
                          .....++..+.    ....+..||.||.....+..   ......+.++..+.++..+++...+-.....-.  .+.
T Consensus       198 ~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~--~~~  275 (357)
T 3d8b_A          198 ESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLS--EEE  275 (357)
T ss_dssp             CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCCC--HHH
T ss_pred             hHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCcc--HHH
Confidence                11222222211    11234556656654322111   134467889999999999988776633221111  245


Q ss_pred             HHHHHHHhcC-ChHHHHHHHHH
Q 046970          354 SKRVVDYANG-NPLALKVLGSF  374 (420)
Q Consensus       354 ~~~i~~~~~G-~PLal~~~~~~  374 (420)
                      ...+++.+.| .+-.|..+...
T Consensus       276 l~~la~~t~G~s~~dl~~l~~~  297 (357)
T 3d8b_A          276 IEQIVQQSDAFSGADMTQLCRE  297 (357)
T ss_dssp             HHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCHHHHHHHHHH
Confidence            6778888888 56677766554

>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=98.76  E-value=1.7e-08  Score=99.47  Aligned_cols=158  Identities=14%  Similarity=0.185  Sum_probs=94.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccce--EEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGE--CFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~--~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      ...+.|+|++|+||||||+.+++.+...++..  +++.          ...+..++...+...        ....+.+.+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~----------~~~~~~~~~~~~~~~--------~~~~~~~~~  191 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT----------SEKFLNDLVDSMKEG--------KLNEFREKY  191 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEE----------HHHHHHHHHHHHHTT--------CHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee----------HHHHHHHHHHHHHcc--------cHHHHHHHh
Confidence            56789999999999999999999876654332  3333          112233333332211        123344444


Q ss_pred             cCCeEEEEEeCCCCH----HHHHHHhcCCCC-CCCCcEEEeecCChh---------hhhhcCCCeEEEeCCCCHHHHHHH
Q 046970          270 QQMKVFIVLDDVNKP----EQLIFLVGGLDR-FGPRSRIIVTTRDKQ---------VFDECEVDSIYEVEGLNKDESLEL  335 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~----~~l~~l~~~~~~-~~~g~~IIiTtR~~~---------~~~~~~~~~~~~l~~L~~~ea~~L  335 (420)
                      ..++.+|+|||++..    ...+.+...+.. ...|..||+||.+..         +...+.....+.+++++.++..++
T Consensus       192 ~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~i  271 (440)
T 2z4s_A          192 RKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSI  271 (440)
T ss_dssp             TTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHH
T ss_pred             cCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHH
Confidence            446779999999432    222223222111 135677888887631         222232346788999999999999


Q ss_pred             HHhcccCCC-CCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          336 FSNFAFRQK-ICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       336 ~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      +.+.+.... ..++   +....|++.++|++..+.-
T Consensus       272 L~~~~~~~~~~i~~---e~l~~la~~~~gn~R~l~~  304 (440)
T 2z4s_A          272 ARKMLEIEHGELPE---EVLNFVAENVDDNLRRLRG  304 (440)
T ss_dssp             HHHHHHHHTCCCCT---THHHHHHHHCCSCHHHHHH
T ss_pred             HHHHHHHcCCCCCH---HHHHHHHHhcCCCHHHHHH
Confidence            987763211 1122   3456788888999876553

>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=98.75  E-value=5.5e-08  Score=92.83  Aligned_cols=193  Identities=11%  Similarity=0.143  Sum_probs=108.4

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc--cccceEEEEeccccccccCHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS--EFEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~--~f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ....++|++..++.+..++..+..  ..+.|+|++|+||||+|+.+++.+..  .+...+.-.+..   ...+...+ .+
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~---~~~~~~~~-~~  108 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSANL--PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNAS---DERGISIV-RE  108 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTTC--CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSS---SCCCHHHH-TT
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCCC--CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccc---cccchHHH-HH
Confidence            456799999999999988875432  23889999999999999999987642  122222111111   11122222 12


Q ss_pred             HHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCe
Q 046970          245 VLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDS  320 (420)
Q Consensus       245 ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~  320 (420)
                      .+.......  ..... .......-..++-+|++|+++..  .....+...+.......++|++|.... +... .....
T Consensus       109 ~~~~~~~~~--~~~~~-~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~  185 (353)
T 1sxj_D          109 KVKNFARLT--VSKPS-KHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  185 (353)
T ss_dssp             HHHHHHHSC--CCCCC-TTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHHHHhhhc--ccccc-hhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCc
Confidence            222111110  00000 00011111235679999998543  333344433332335566777665442 2111 11235


Q ss_pred             EEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          321 IYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       321 ~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      .+++.+++.++..+.+...+......-+  .+..+.|++.++|.|..+..
T Consensus       186 ~i~~~~~~~~~~~~~l~~~~~~~~~~i~--~~~l~~l~~~~~G~~r~~~~  233 (353)
T 1sxj_D          186 KFRFKALDASNAIDRLRFISEQENVKCD--DGVLERILDISAGDLRRGIT  233 (353)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCCC--HHHHHHHHHHTSSCHHHHHH
T ss_pred             eEEeCCCCHHHHHHHHHHHHHHhCCCCC--HHHHHHHHHHcCCCHHHHHH
Confidence            7899999999999999876633221111  24578899999999987543

>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=98.73  E-value=6.8e-08  Score=97.22  Aligned_cols=185  Identities=16%  Similarity=0.173  Sum_probs=101.7

Q ss_pred             CCCCcccccccceeeecccccC---------------CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG---------------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVRE  231 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~---------------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~  231 (420)
                      ....++|++..+++|.+++...               .+..+.+.|+|++|+||||||+.+++.+.  +. .+.+. ...
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~--~~-~i~in-~s~  112 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG--YD-ILEQN-ASD  112 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT--CE-EEEEC-TTS
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC--CC-EEEEe-CCC
Confidence            3456889998888888887531               01347899999999999999999999872  11 12222 111


Q ss_pred             cccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHH--HhcCCeEEEEEeCCCCH--------HHHHHHhcCCCCCCCC
Q 046970          232 ESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKE--RLQQMKVFIVLDDVNKP--------EQLIFLVGGLDRFGPR  300 (420)
Q Consensus       232 ~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~--~l~~~~~LlVLDdv~~~--------~~l~~l~~~~~~~~~g  300 (420)
                         ... ..+....+.....    ...... .....+  ...+++.+|++|+++..        ..+..++..     .+
T Consensus       113 ---~~~-~~~~~~~i~~~~~----~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~-----~~  179 (516)
T 1sxj_A          113 ---VRS-KTLLNAGVKNALD----NMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK-----TS  179 (516)
T ss_dssp             ---CCC-HHHHHHTGGGGTT----BCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH-----CS
T ss_pred             ---cch-HHHHHHHHHHHhc----cccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh-----cC
Confidence               111 1111111111111    011100 000100  11356889999999532        233333322     23


Q ss_pred             cEEEeecCChh---hhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCChHH-HHHH
Q 046970          301 SRIIVTTRDKQ---VFDECEVDSIYEVEGLNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGNPLA-LKVL  371 (420)
Q Consensus       301 ~~IIiTtR~~~---~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~PLa-l~~~  371 (420)
                      ..||+++.+..   +.........+++++++.++..+++...+.... ..++   +....|++.++|.+.. +..+
T Consensus       180 ~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~---~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          180 TPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             SCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHHHHH
T ss_pred             CCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHcCCcHHHHHHHH
Confidence            34555544322   222223456889999999999999877664322 1121   3467888999996554 4444

>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=98.71  E-value=2.2e-07  Score=85.44  Aligned_cols=191  Identities=15%  Similarity=0.108  Sum_probs=98.3

Q ss_pred             CCcccccccceeeec-------cccc-CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHH
Q 046970          169 TGSVGVNSRIRHIKS-------LLHL-GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVH  240 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~-------~L~~-~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~  240 (420)
                      ..++|....++++..       .+.. .......+.|+|++|+|||+||+.+++.....|   +.+...... .......
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~---~~i~~~~~~-~g~~~~~  108 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPF---IKICSPDKM-IGFSETA  108 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSE---EEEECGGGC-TTCCHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCE---EEEeCHHHh-cCCchHH
Confidence            346666655544443       2211 133467899999999999999999998753322   112111000 0000000


Q ss_pred             HHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH------------HHHHHH---hcCCCCCCCCcEEEe
Q 046970          241 LRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP------------EQLIFL---VGGLDRFGPRSRIIV  305 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~------------~~l~~l---~~~~~~~~~g~~IIi  305 (420)
                      ....+                ...+......++.+|+||+++..            ..++.+   .......+....||.
T Consensus       109 ~~~~~----------------~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~  172 (272)
T 1d2n_A          109 KCQAM----------------KKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIG  172 (272)
T ss_dssp             HHHHH----------------HHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEE
T ss_pred             HHHHH----------------HHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEE
Confidence            00000                11122223456899999998543            122333   332222233455777


Q ss_pred             ecCChhhhhh----cCCCeEEEeCCCCH-HHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC------ChHHHHHHHHH
Q 046970          306 TTRDKQVFDE----CEVDSIYEVEGLNK-DESLELFSNFAFRQKICPKDFLVLSKRVVDYANG------NPLALKVLGSF  374 (420)
Q Consensus       306 TtR~~~~~~~----~~~~~~~~l~~L~~-~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G------~PLal~~~~~~  374 (420)
                      ||.....+..    ......+++++++. ++..+++....   ...    .+....+++.+.|      ..-++..+-..
T Consensus       173 ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~---~~~----~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a  245 (272)
T 1d2n_A          173 TTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG---NFK----DKERTTIAQQVKGKKVWIGIKKLLMLIEMS  245 (272)
T ss_dssp             EESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT---CSC----HHHHHHHHHHHTTSEEEECHHHHHHHHHHH
T ss_pred             ecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC---CCC----HHHHHHHHHHhcCCCccccHHHHHHHHHHH
Confidence            7877654332    12356789999998 66666665532   111    2346778888887      34444444433


Q ss_pred             hcCCChhHHHhH
Q 046970          375 FYRKSVKPEKQC  386 (420)
Q Consensus       375 L~~~~~~~~~~~  386 (420)
                      ........+..+
T Consensus       246 ~~~~~~~~~~~~  257 (272)
T 1d2n_A          246 LQMDPEYRVRKF  257 (272)
T ss_dssp             TTSCGGGHHHHH
T ss_pred             hhhchHHHHHHH
Confidence            333333344443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.68  E-value=2.5e-07  Score=86.13  Aligned_cols=182  Identities=18%  Similarity=0.170  Sum_probs=100.0

Q ss_pred             CCCCcccccccceeeecccccC----------CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccc-
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG----------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESER-  235 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~----------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~-  235 (420)
                      ....++|.+..++.|.+.+...          ....+.+.|+|++|+|||+||+.+++.....|   +.+. ....... 
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~---~~i~-~~~l~~~~   94 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATF---LNIS-AASLTSKY   94 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEE---EEEE-STTTSSSS
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe---EEee-HHHHhhcc
Confidence            4567888888888887765320          12356889999999999999999998764322   1121 1111000 


Q ss_pred             -cCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH-------------HHHHHHhc---CCCCC-
Q 046970          236 -VGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP-------------EQLIFLVG---GLDRF-  297 (420)
Q Consensus       236 -~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~-------------~~l~~l~~---~~~~~-  297 (420)
                       .......+                   ..+......++.+|++|+++..             .....++.   ..... 
T Consensus        95 ~~~~~~~~~-------------------~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  155 (297)
T 3b9p_A           95 VGDGEKLVR-------------------ALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNP  155 (297)
T ss_dssp             CSCHHHHHH-------------------HHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC---
T ss_pred             cchHHHHHH-------------------HHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccC
Confidence             00111111                   1122222356789999998432             11112221   11111 


Q ss_pred             -CCCcEEEeecCChhhhhh---cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHHH
Q 046970          298 -GPRSRIIVTTRDKQVFDE---CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVLG  372 (420)
Q Consensus       298 -~~g~~IIiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~~  372 (420)
                       +.+..||.||..+..+..   ......+.++..+.++..+++...+-.......  .+....+++.+.|.+- +|..+.
T Consensus       156 ~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~~~~la~~~~g~~~~~l~~l~  233 (297)
T 3b9p_A          156 DGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLD--TEALRRLAKITDGYSGSDLTALA  233 (297)
T ss_dssp             ---CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCSC--HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHcCCCCHHHHHHHH
Confidence             134556667765432111   124467788888888888888776532221111  2346788888999875 665554


Q ss_pred             H
Q 046970          373 S  373 (420)
Q Consensus       373 ~  373 (420)
                      .
T Consensus       234 ~  234 (297)
T 3b9p_A          234 K  234 (297)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.67  E-value=1.2e-07  Score=90.69  Aligned_cols=198  Identities=14%  Similarity=0.130  Sum_probs=105.1

Q ss_pred             CCCCcccccccceeeeccc-ccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecc---------------
Q 046970          167 DFTGSVGVNSRIRHIKSLL-HLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVR---------------  230 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L-~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~---------------  230 (420)
                      ....++|.+..++.+.+++ ..+. ... +.|+|++|+|||||++.++..+...-.+.+.+....               
T Consensus        12 ~~~~~vg~~~~~~~l~~~~~~~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~   89 (354)
T 1sxj_E           12 SLNALSHNEELTNFLKSLSDQPRD-LPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   89 (354)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTTC-CCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CHHHhcCCHHHHHHHHHHHhhCCC-CCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeec
Confidence            4467899999999998888 5332 233 899999999999999999986532211111111000               


Q ss_pred             -----c--cccc-cCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCC
Q 046970          231 -----E--ESER-VGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPR  300 (420)
Q Consensus       231 -----~--~~~~-~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g  300 (420)
                           .  .+.. .......++++..+.....    ......+ ..+..++-++|||+++..  ...+.+...+.....+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~----~~~~~~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~  164 (354)
T 1sxj_E           90 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQ----VDFQDSK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKN  164 (354)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC-----------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTT
T ss_pred             ccceEEecHhhcCCcchHHHHHHHHHHHHhcc----ccccccc-cccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCC
Confidence                 0  0000 0000011122221111000    0000000 002346779999999653  2233343333323456


Q ss_pred             cEEEeecCChh-hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          301 SRIIVTTRDKQ-VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       301 ~~IIiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      +.+|++|.+.. +... ......+++++++.++..+.+...+......-+ ..+.+..|++.++|.+..+..+.
T Consensus       165 ~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          165 IRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE-TKDILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             EEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC-CSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCC-cHHHHHHHHHHcCCCHHHHHHHH
Confidence            77887777643 2111 123478999999999999999877632221111 01446788899999987665443

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.65  E-value=4.1e-07  Score=87.03  Aligned_cols=181  Identities=12%  Similarity=0.062  Sum_probs=100.1

Q ss_pred             CCCCcccccccceeeecccc----------cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLH----------LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~----------~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~  236 (420)
                      ....++|.+..++.|.+.+.          ......+.+.|+|++|+|||+||+.+++.....|   +.+. ..      
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~---~~v~-~~------  118 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF---FSVS-SS------  118 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEE---EEEE-HH------
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCE---EEee-HH------
Confidence            44568888888777776552          1112245688999999999999999999874322   1111 11      


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCc-hHH-HHHHhcCCeEEEEEeCCCCHH-------------HHHHHhcC---CCCCC
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNL-PEY-IKERLQQMKVFIVLDDVNKPE-------------QLIFLVGG---LDRFG  298 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~-~~~-l~~~l~~~~~LlVLDdv~~~~-------------~l~~l~~~---~~~~~  298 (420)
                         .+..    ..      ...... ... +......++.+|+||+++...             ....++..   +....
T Consensus       119 ---~l~~----~~------~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~  185 (355)
T 2qp9_X          119 ---DLVS----KW------MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  185 (355)
T ss_dssp             ---HHHS----CC---------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---
T ss_pred             ---HHhh----hh------cchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccC
Confidence               1100    00      000011 111 222223578999999996431             12223222   11113


Q ss_pred             CCcEEEeecCChhhhh---hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC-ChHHHHHHH
Q 046970          299 PRSRIIVTTRDKQVFD---ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANG-NPLALKVLG  372 (420)
Q Consensus       299 ~g~~IIiTtR~~~~~~---~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~~~  372 (420)
                      .+..||.||..+..+.   .......+.++..+.++..+++..+.........  ......|++.+.| .+-.|..+.
T Consensus       186 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~--~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          186 QGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLT--KEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCC--HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCC--HHHHHHHHHHcCCCCHHHHHHHH
Confidence            4555666665442211   1135577889999999999999887643321111  2345778888888 555555544

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.65  E-value=2.8e-07  Score=88.52  Aligned_cols=201  Identities=15%  Similarity=0.071  Sum_probs=104.9

Q ss_pred             CCCcccccccceee---ecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHH
Q 046970          168 FTGSVGVNSRIRHI---KSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRER  244 (420)
Q Consensus       168 ~~~~vGR~~~l~~l---~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~  244 (420)
                      ...++|++..++.+   .+.+..+....+.+.|+|++|+|||+||+.+++.+....+. +.+....-.+..........+
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~  121 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF-TAIAGSEIFSLEMSKTEALTQ  121 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE-EEEEGGGGSCSSSCHHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc-ccccchhhhhcccchhHHHHH
Confidence            46799999887664   34444443335689999999999999999999987543221 111111111112222223333


Q ss_pred             HHHHHhhcc---------------------c---cC--C---C-CCc-hHHHHHHh-----cCC----eEEEEEeCCCCH
Q 046970          245 VLSEILEEN---------------------L---KI--G---T-LNL-PEYIKERL-----QQM----KVFIVLDDVNKP  284 (420)
Q Consensus       245 ll~~l~~~~---------------------~---~~--~---~-~~~-~~~l~~~l-----~~~----~~LlVLDdv~~~  284 (420)
                      .+....+..                     .   ..  .   . ... ...+.+..     .++    +.+|++|+++..
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~~l  201 (368)
T 3uk6_A          122 AFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHML  201 (368)
T ss_dssp             HHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGGGS
T ss_pred             HHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhcccc
Confidence            322211100                     0   00  0   0 001 11121111     122    459999999653


Q ss_pred             --HHHHHHhcCCCCCCCCcEEEeecC-C-----------h-hhh-hhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCch
Q 046970          285 --EQLIFLVGGLDRFGPRSRIIVTTR-D-----------K-QVF-DECEVDSIYEVEGLNKDESLELFSNFAFRQKICPK  348 (420)
Q Consensus       285 --~~l~~l~~~~~~~~~g~~IIiTtR-~-----------~-~~~-~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~  348 (420)
                        +....+...+...... .++++|. .           . .+. ........+.+++++.++..+++...+......-.
T Consensus       202 ~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~~~~  280 (368)
T 3uk6_A          202 DIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMS  280 (368)
T ss_dssp             BHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTCCBC
T ss_pred             ChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCCCCC
Confidence              3344454444432223 3333332 1           1 010 11112345899999999999999877643222111


Q ss_pred             hHHHHHHHHHHHhc-CChHHHHHHH
Q 046970          349 DFLVLSKRVVDYAN-GNPLALKVLG  372 (420)
Q Consensus       349 ~~~~~~~~i~~~~~-G~PLal~~~~  372 (420)
                        .+....+++.+. |.|..+..+.
T Consensus       281 --~~~l~~l~~~~~~G~~r~~~~ll  303 (368)
T 3uk6_A          281 --EDAYTVLTRIGLETSLRYAIQLI  303 (368)
T ss_dssp             --HHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             --HHHHHHHHHHhcCCCHHHHHHHH
Confidence              245778889998 8887665433

>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=98.64  E-value=4.4e-07  Score=85.60  Aligned_cols=183  Identities=13%  Similarity=0.105  Sum_probs=101.8

Q ss_pred             CCCCcccccccceeeecccc----------cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLH----------LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~----------~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~  236 (420)
                      ....++|.+..++.|.+.+.          ......+.+.|+|++|+|||+||+.+++.....|   +.+. ...     
T Consensus        16 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~---~~v~-~~~-----   86 (322)
T 3eie_A           16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF---FSVS-SSD-----   86 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEE---EEEE-HHH-----
T ss_pred             CHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCE---EEEc-hHH-----
Confidence            34567777777777766551          1222346789999999999999999998764332   1111 111     


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCHH-------------HHHHHh---cCCCCCCC
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKPE-------------QLIFLV---GGLDRFGP  299 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~~-------------~l~~l~---~~~~~~~~  299 (420)
                              +.....+..     ... ...+......++.+|+||+++...             ....++   ..+.....
T Consensus        87 --------l~~~~~g~~-----~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           87 --------LVSKWMGES-----EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             --------HHTTTGGGH-----HHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             --------HhhcccchH-----HHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence                    000000000     000 111222224567899999996431             122222   22222234


Q ss_pred             CcEEEeecCChhhhhh---cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC-ChHHHHHHHH
Q 046970          300 RSRIIVTTRDKQVFDE---CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANG-NPLALKVLGS  373 (420)
Q Consensus       300 g~~IIiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~~~~  373 (420)
                      +..||.||..+..+..   ......+.++..+.++-.+++..++........  ......+++.+.| .+-.|..+..
T Consensus       154 ~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          154 GVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLT--KEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             CEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCC--HHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             ceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCC--HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            5566667765433211   124567889999999999999987744332111  1345678888877 4656665544

>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=98.62  E-value=3e-07  Score=86.81  Aligned_cols=178  Identities=13%  Similarity=0.128  Sum_probs=95.8

Q ss_pred             CCCCcc-cccccc--eeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSV-GVNSRI--RHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~v-GR~~~l--~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ..++|+ |.....  ..+..++.........+.|+|++|+||||||+.+++.....-...+++.          ...+..
T Consensus         9 ~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~----------~~~~~~   78 (324)
T 1l8q_A            9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS----------ADDFAQ   78 (324)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE----------HHHHHH
T ss_pred             CcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE----------HHHHHH
Confidence            345565 543322  2233333333223567889999999999999999998754322233443          112222


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH----HHHHHhcCCCC-CCCCcEEEeecCChh-------
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE----QLIFLVGGLDR-FGPRSRIIVTTRDKQ-------  311 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~----~l~~l~~~~~~-~~~g~~IIiTtR~~~-------  311 (420)
                      .+...+...        ....+.+.+. ++.+|++||++...    ..+.+...+.. ...+..||+||.+..       
T Consensus        79 ~~~~~~~~~--------~~~~~~~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~  149 (324)
T 1l8q_A           79 AMVEHLKKG--------TINEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVS  149 (324)
T ss_dssp             HHHHHHHHT--------CHHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSC
T ss_pred             HHHHHHHcC--------cHHHHHHHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhh
Confidence            333222211        1222333333 36799999985432    12222221110 124557888775431       


Q ss_pred             --hhhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          312 --VFDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       312 --~~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                        +...+.....+++++ +.++..+++...+......-+  .+....+++.+ |.+-.
T Consensus       150 ~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~--~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          150 DRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLELR--KEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCC--HHHHHHHHHHC-SSHHH
T ss_pred             hHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHhC-CCHHH
Confidence              122222346789999 999999999887643221111  24566788888 77654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.62  E-value=2.8e-07  Score=90.71  Aligned_cols=177  Identities=14%  Similarity=0.214  Sum_probs=101.7

Q ss_pred             CCCCcccccccc---eeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRI---RHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l---~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....++|.+..+   ..|...+..+  ....+.|+|++|+||||||+.+++.....|..   +. .    ...+...+ +
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~---l~-a----~~~~~~~i-r   92 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANADVER---IS-A----VTSGVKEI-R   92 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEEE---EE-T----TTCCHHHH-H
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeEE---EE-e----ccCCHHHH-H
Confidence            456799999887   5666666543  34679999999999999999999987543321   11 1    01122221 1


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEE-eecCChhh---hhhcC
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRII-VTTRDKQV---FDECE  317 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~II-iTtR~~~~---~~~~~  317 (420)
                      .++....               .....+++.+|++|+++...  +.+.|+..+..  ....+| .||.+...   .....
T Consensus        93 ~~~~~a~---------------~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~s  155 (447)
T 3pvs_A           93 EAIERAR---------------QNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALLS  155 (447)
T ss_dssp             HHHHHHH---------------HHHHTTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHHT
T ss_pred             HHHHHHH---------------HhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHhC
Confidence            1111110               11123568899999996542  23333333321  223333 35555421   11122


Q ss_pred             CCeEEEeCCCCHHHHHHHHHhcccCCC-----CCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          318 VDSIYEVEGLNKDESLELFSNFAFRQK-----ICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       318 ~~~~~~l~~L~~~ea~~L~~~~a~~~~-----~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      ....+.+++++.++..+++.+..-...     ....-..+..+.+++.++|.+..+..+
T Consensus       156 R~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~  214 (447)
T 3pvs_A          156 RARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNT  214 (447)
T ss_dssp             TEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHH
T ss_pred             ceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHH
Confidence            346889999999999999987753210     111112356778888899988766543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.61  E-value=1.7e-07  Score=89.04  Aligned_cols=173  Identities=14%  Similarity=0.139  Sum_probs=102.9

Q ss_pred             CCCCcccccccceeeecccccC---CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLG---LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ....++|++..++.+..++...   ......+.|+|++|+|||+||+.+++.....|   +.+. ....   ...     
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~---~~~~-~~~~---~~~-----   94 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANI---KTTA-APMI---EKS-----   94 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCE---EEEE-GGGC---CSH-----
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe---EEec-chhc---cch-----
Confidence            4467999999999988888642   23445789999999999999999988764432   1121 1111   111     


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHh--cCCeEEEEEeCCCCH--HHHHHHhcCCCCC------------------CCCc
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERL--QQMKVFIVLDDVNKP--EQLIFLVGGLDRF------------------GPRS  301 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l--~~~~~LlVLDdv~~~--~~l~~l~~~~~~~------------------~~g~  301 (420)
                                         ..+...+  ..+..+|+||+++..  .....+...+...                  .++.
T Consensus        95 -------------------~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~  155 (338)
T 3pfi_A           95 -------------------GDLAAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKF  155 (338)
T ss_dssp             -------------------HHHHHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCC
T ss_pred             -------------------hHHHHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCe
Confidence                               1111111  235678999998643  2222222211110                  1134


Q ss_pred             EEEeecCChhhhh---hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 046970          302 RIIVTTRDKQVFD---ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLG  372 (420)
Q Consensus       302 ~IIiTtR~~~~~~---~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~  372 (420)
                      .+|.+|.......   .......+++++++.++..+++...+.......  ..+....+++.+.|+|-.+..+.
T Consensus       156 ~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~--~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          156 TLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKTC--EEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             EEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCEE--CHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             EEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHHCcCHHHHHHHH
Confidence            5666555432211   112347899999999999999987764322111  12456788888999996665443

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.61  E-value=3.6e-07  Score=83.25  Aligned_cols=183  Identities=16%  Similarity=0.208  Sum_probs=95.8

Q ss_pred             CCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCH
Q 046970          169 TGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGL  238 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~  238 (420)
                      .+++|.+..++.|.+++..          +....+.+.|+|++|+|||+||+.+++.....|   +.+. ......... 
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~~~-~~~~~~~~~-   80 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPF---LAMA-GAEFVEVIG-   80 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCE---EEEE-TTTTSSSST-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCE---EEec-hHHHHhhcc-
Confidence            4566666555555443310          112346788999999999999999998764332   2222 111110000 


Q ss_pred             HHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH-----------------HHHHHHhcCCCCC--CC
Q 046970          239 VHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP-----------------EQLIFLVGGLDRF--GP  299 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~-----------------~~l~~l~~~~~~~--~~  299 (420)
                       ......+               ...+.......+.+|++|+++..                 ..+..++..+...  ..
T Consensus        81 -~~~~~~~---------------~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~  144 (262)
T 2qz4_A           81 -GLGAARV---------------RSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTD  144 (262)
T ss_dssp             -THHHHHH---------------HHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTC
T ss_pred             -ChhHHHH---------------HHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCC
Confidence             0000000               11122223346789999999754                 1123333222111  23


Q ss_pred             CcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHHHH
Q 046970          300 RSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVLGS  373 (420)
Q Consensus       300 g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~~~  373 (420)
                      +..+|.||.....+..     ......+.++..+.++..+++..++........ .......+++.+.|.+- .|..+..
T Consensus       145 ~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~l~~l~~  223 (262)
T 2qz4_A          145 HVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQS-STFYSQRLAELTPGFSGADIANICN  223 (262)
T ss_dssp             CEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBT-HHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcc-hhhHHHHHHHHCCCCCHHHHHHHHH
Confidence            4566667765432211     124567889999999999999877643222221 12234678888888754 5554443

>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=98.60  E-value=9.1e-07  Score=87.21  Aligned_cols=184  Identities=13%  Similarity=0.147  Sum_probs=105.5

Q ss_pred             CCCCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~  236 (420)
                      ....++|.+...+.|.+.+..          .....+.+.|+|++|+|||+||+.+++....    ..++.    +... 
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~----~~~~~----v~~~-  202 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN----STFFS----ISSS-  202 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS----SEEEE----ECCC-
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC----CCEEE----EeHH-
Confidence            457789999888888765521          1123578999999999999999999987621    12222    1100 


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCchH-HHHHHhcCCeEEEEEeCCCCH-------------HHHHHHhcCCCCC---CC
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNLPE-YIKERLQQMKVFIVLDDVNKP-------------EQLIFLVGGLDRF---GP  299 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~~~-~l~~~l~~~~~LlVLDdv~~~-------------~~l~~l~~~~~~~---~~  299 (420)
                         .+    .....+.     ...... .+...-..++.+|+||+++..             .....++..+...   ..
T Consensus       203 ---~l----~~~~~g~-----~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  270 (444)
T 2zan_A          203 ---DL----VSKWLGE-----SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  270 (444)
T ss_dssp             ---------------------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCS
T ss_pred             ---HH----Hhhhcch-----HHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCC
Confidence               00    0110110     011122 222223457899999999754             2234555554332   34


Q ss_pred             CcEEEeecCChhhhhh---cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC-ChHHHHHHHH
Q 046970          300 RSRIIVTTRDKQVFDE---CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANG-NPLALKVLGS  373 (420)
Q Consensus       300 g~~IIiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~~~~  373 (420)
                      +..||.||..+..+..   ......+.++..+.++..+++..+.........  ......|++.+.| .+-.|..+..
T Consensus       271 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~--~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          271 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLT--EADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             SCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECC--HHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            5666767765432211   134567889989999999999887633221111  2345678888888 4555555543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.57  E-value=1.8e-06  Score=81.31  Aligned_cols=157  Identities=11%  Similarity=0.076  Sum_probs=86.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh-ccccceEEEEeccccccc--cCHHHHHHHHHHHHhhccccCCCCCchHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS-SEFEGECFITNVREESER--VGLVHLRERVLSEILEENLKIGTLNLPEYIKER  268 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~-~~f~~~~~v~~~~~~~~~--~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  268 (420)
                      .+.+.|+|++|+|||+||+.+++... ..|   +.+. .......  .......                   ...+...
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~~~~~~~---~~i~-~~~l~~~~~g~~~~~~-------------------~~lf~~a  101 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATEANNSTF---FSIS-SSDLVSKWLGESEKLV-------------------KNLFQLA  101 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHHTTSCEE---EEEE-CCSSCCSSCCSCHHHH-------------------HHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHHcCCCcE---EEEE-hHHHHhhhhhHHHHHH-------------------HHHHHHH
Confidence            46789999999999999999998762 211   1121 1111000  0001111                   1111122


Q ss_pred             hcCCeEEEEEeCCCCH-------------HHHHHHhcC---CCCCCCCcEEEeecCChhhhhh---cCCCeEEEeCCCCH
Q 046970          269 LQQMKVFIVLDDVNKP-------------EQLIFLVGG---LDRFGPRSRIIVTTRDKQVFDE---CEVDSIYEVEGLNK  329 (420)
Q Consensus       269 l~~~~~LlVLDdv~~~-------------~~l~~l~~~---~~~~~~g~~IIiTtR~~~~~~~---~~~~~~~~l~~L~~  329 (420)
                      -..++.+|++|+++..             .....++..   +.....+..||.||..+..+..   ......+.++..+.
T Consensus       102 ~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~  181 (322)
T 1xwi_A          102 RENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEP  181 (322)
T ss_dssp             HHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCH
T ss_pred             HhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCH
Confidence            2357889999999654             112223222   2112344556656654432111   13557788999999


Q ss_pred             HHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCC-hHHHHHHHH
Q 046970          330 DESLELFSNFAFRQKICPKDFLVLSKRVVDYANGN-PLALKVLGS  373 (420)
Q Consensus       330 ~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~~~~  373 (420)
                      ++..+++..+.........  ......|++.+.|. +-.|..+..
T Consensus       182 ~~r~~il~~~l~~~~~~l~--~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          182 HARAAMFKLHLGTTQNSLT--EADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             HHHHHHHHHHHTTCCBCCC--HHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCCC--HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            9999999887633221111  23467788888887 555665544

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.54  E-value=2.2e-07  Score=86.92  Aligned_cols=128  Identities=14%  Similarity=0.092  Sum_probs=73.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcccc--ceEEEE-eccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFE--GECFIT-NVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKE  267 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~v~-~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~  267 (420)
                      ....+.|+|++|+|||+||+.+++.+.....  ...++. +.......                    .. ......+..
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~--------------------~~-g~~~~~~~~  124 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQ--------------------YI-GHTAPKTKE  124 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCS--------------------ST-TCHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhh--------------------cc-cccHHHHHH
Confidence            3557899999999999999999987644211  111221 11111000                    00 000111111


Q ss_pred             Hhc-CCeEEEEEeCCC-----------CHHHHHHHhcCCCCCCCCcEEEeecCChh----------hhhhcCCCeEEEeC
Q 046970          268 RLQ-QMKVFIVLDDVN-----------KPEQLIFLVGGLDRFGPRSRIIVTTRDKQ----------VFDECEVDSIYEVE  325 (420)
Q Consensus       268 ~l~-~~~~LlVLDdv~-----------~~~~l~~l~~~~~~~~~g~~IIiTtR~~~----------~~~~~~~~~~~~l~  325 (420)
                      .+. .++.+|++|+++           ....+..|+..+.....+..+|.||....          +...  ....++++
T Consensus       125 ~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R--~~~~i~~~  202 (309)
T 3syl_A          125 VLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSR--IAHHIEFP  202 (309)
T ss_dssp             HHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHH--EEEEEEEC
T ss_pred             HHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHh--CCeEEEcC
Confidence            111 134599999997           33444455544433345667777775432          2222  34788999


Q ss_pred             CCCHHHHHHHHHhccc
Q 046970          326 GLNKDESLELFSNFAF  341 (420)
Q Consensus       326 ~L~~~ea~~L~~~~a~  341 (420)
                      +++.++..+++...+.
T Consensus       203 ~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          203 DYSDEELFEIAGHMLD  218 (309)
T ss_dssp             CCCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHH
Confidence            9999999999987764

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.53  E-value=1.5e-06  Score=84.27  Aligned_cols=183  Identities=17%  Similarity=0.120  Sum_probs=100.4

Q ss_pred             CCCCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~  236 (420)
                      ....++|.+..++.|..++..          .....+.+.|+|++|+|||+||+.+++.....|    +..+........
T Consensus       113 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~~----~~v~~~~l~~~~  188 (389)
T 3vfd_A          113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATF----FNISAASLTSKY  188 (389)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCEE----EEECSCCC----
T ss_pred             ChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCcE----EEeeHHHhhccc
Confidence            456789999988888876621          112246889999999999999999988754322    222111111000


Q ss_pred             --CHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH-------------HHHHHHhcCC----CCC
Q 046970          237 --GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP-------------EQLIFLVGGL----DRF  297 (420)
Q Consensus       237 --~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~-------------~~l~~l~~~~----~~~  297 (420)
                        ......                   ...+.......+.+|+||+++..             .....++..+    ...
T Consensus       189 ~g~~~~~~-------------------~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  249 (389)
T 3vfd_A          189 VGEGEKLV-------------------RALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAG  249 (389)
T ss_dssp             ---CHHHH-------------------HHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---
T ss_pred             cchHHHHH-------------------HHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccC
Confidence              000001                   11112222345689999999643             1111222111    111


Q ss_pred             CCCcEEEeecCChhhhhh---cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHHHH
Q 046970          298 GPRSRIIVTTRDKQVFDE---CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVLGS  373 (420)
Q Consensus       298 ~~g~~IIiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~~~  373 (420)
                      .....||.||.....+..   ......+.++..+.++..+++...+......-.  .+....+++.+.|..- +|..+..
T Consensus       250 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~--~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          250 DDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLT--QKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             --CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSC--HHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            233456656654322111   124467889999999999999877633222111  2346788888888544 6666554


Q ss_pred             H
Q 046970          374 F  374 (420)
Q Consensus       374 ~  374 (420)
                      .
T Consensus       328 ~  328 (389)
T 3vfd_A          328 D  328 (389)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.52  E-value=1.9e-07  Score=80.06  Aligned_cols=50  Identities=20%  Similarity=0.265  Sum_probs=41.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....++||+.+++.+.+.+...  ..+.+.|+|++|+|||+||+.+++.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~--~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSRR--TKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSS--SSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             ccchhhcchHHHHHHHHHHhCC--CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            3467999999999999888643  3456789999999999999999987644

>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=98.49  E-value=7.4e-07  Score=84.03  Aligned_cols=177  Identities=12%  Similarity=0.127  Sum_probs=101.8

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ....++|.+..++.+.+++..+. ...++.++|++|+|||++|+.+++.+...   ...+. ..    ..+.. ..+..+
T Consensus        24 ~~~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~l~~~---~~~i~-~~----~~~~~-~i~~~~   93 (324)
T 3u61_B           24 TIDECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHDVNAD---MMFVN-GS----DCKID-FVRGPL   93 (324)
T ss_dssp             STTTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHHTTEE---EEEEE-TT----TCCHH-HHHTHH
T ss_pred             CHHHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhCCC---EEEEc-cc----ccCHH-HHHHHH
Confidence            45789999999999999887442 34678889999999999999999887322   22222 11    11221 122222


Q ss_pred             HHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH---HHHHHhcCCCCCCCCcEEEeecCChhhhhh--cCCCeE
Q 046970          247 SEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE---QLIFLVGGLDRFGPRSRIIVTTRDKQVFDE--CEVDSI  321 (420)
Q Consensus       247 ~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~---~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~--~~~~~~  321 (420)
                      ........              ..+++.++++|+++...   ..+.|...+.....+.++|+||....-...  ......
T Consensus        94 ~~~~~~~~--------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~  159 (324)
T 3u61_B           94 TNFASAAS--------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRV  159 (324)
T ss_dssp             HHHHHBCC--------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEE
T ss_pred             HHHHhhcc--------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcE
Confidence            21111100              12367899999998654   334444333322356778888765432110  012257


Q ss_pred             EEeCCCCHHHHHHHH-------HhcccCCC-CCchhHHHHHHHHHHHhcCChHHHH
Q 046970          322 YEVEGLNKDESLELF-------SNFAFRQK-ICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~-------~~~a~~~~-~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      +++++++.++-.+++       ...+.... ..++  .+....+++.++|.+..+.
T Consensus       160 i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~--~~~~~~l~~~~~gd~R~a~  213 (324)
T 3u61_B          160 ITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD--MKVVAALVKKNFPDFRKTI  213 (324)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSC--HHHHHHHHHHTCSCTTHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCc--HHHHHHHHHhCCCCHHHHH
Confidence            899999988843332       22221111 1111  1456778888988876443

>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=98.44  E-value=3.6e-06  Score=78.53  Aligned_cols=150  Identities=19%  Similarity=0.236  Sum_probs=86.3

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      .+++|.+..+++|.+++..           +....+.+.|+|++|+|||+||+.+++.....|   +.+.          
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~---i~v~----------   81 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF---ISIK----------   81 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEE---EEEC----------
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCE---EEEE----------
Confidence            4567777666666655431           123456899999999999999999998764321   1111          


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCHHH----------------HHHHhcCCCC--CC
Q 046970          238 LVHLRERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKPEQ----------------LIFLVGGLDR--FG  298 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~~~----------------l~~l~~~~~~--~~  298 (420)
                      ...+    .....+..     ... ...+.......+.+|++|+++....                ...++..+..  ..
T Consensus        82 ~~~l----~~~~~g~~-----~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  152 (301)
T 3cf0_A           82 GPEL----LTMWFGES-----EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  152 (301)
T ss_dssp             HHHH----HHHHHTTC-----TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTT
T ss_pred             hHHH----HhhhcCch-----HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCC
Confidence            1111    12222111     111 2333333445789999999964311                2223222211  12


Q ss_pred             CCcEEEeecCChhhhh-----hcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          299 PRSRIIVTTRDKQVFD-----ECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       299 ~g~~IIiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      .+..||.||..+..+.     .......+.++..+.++-.+++..+.
T Consensus       153 ~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l  199 (301)
T 3cf0_A          153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  199 (301)
T ss_dssp             SSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHH
Confidence            3556777776553322     11345788999999999999887765

>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=98.40  E-value=4.4e-06  Score=79.13  Aligned_cols=163  Identities=10%  Similarity=0.072  Sum_probs=91.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCC----CCCc-hH---
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIG----TLNL-PE---  263 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~----~~~~-~~---  263 (420)
                      ...+.++|++|+|||++|+.+++.+.......         ....+.......+.......-....    .... .+   
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~---------~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir   94 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQG---------HKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVR   94 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---------TBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHH
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCC---------CCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHH
Confidence            45788999999999999999999764322100         0000000001111100000000000    0011 11   


Q ss_pred             HHHHHh-----cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCeEEEeCCCCHHHHHH
Q 046970          264 YIKERL-----QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDSIYEVEGLNKDESLE  334 (420)
Q Consensus       264 ~l~~~l-----~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~  334 (420)
                      .+.+.+     .+++-++|+|+++..  +..+.|+..+....+++.+|++|.++. +.+. ......+++++++.++..+
T Consensus        95 ~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~  174 (334)
T 1a5t_A           95 EVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVT  174 (334)
T ss_dssp             HHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             HHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHH
Confidence            222222     245789999999643  445556655554456677777766553 2222 2344689999999999999


Q ss_pred             HHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          335 LFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       335 L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      .+....   .. +   .+.+..+++.++|.|..+..
T Consensus       175 ~L~~~~---~~-~---~~~~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          175 WLSREV---TM-S---QDALLAALRLSAGSPGAALA  203 (334)
T ss_dssp             HHHHHC---CC-C---HHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHhc---CC-C---HHHHHHHHHHcCCCHHHHHH
Confidence            998775   11 1   13457788999999976543

>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=98.28  E-value=4e-06  Score=79.61  Aligned_cols=180  Identities=16%  Similarity=0.222  Sum_probs=100.2

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHHH
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...++|.+..++.|...+..+  ....+.++|++|+||||+|+.+++.+... +...+.-.+   .+...+...+. +.+
T Consensus        24 ~~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~---~~~~~~~~~ir-~~i   97 (340)
T 1sxj_C           24 LDEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELN---ASDDRGIDVVR-NQI   97 (340)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEEC---TTSCCSHHHHH-THH
T ss_pred             HHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEc---CcccccHHHHH-HHH
Confidence            355788888888887777644  22238999999999999999999976432 211111111   11111222221 111


Q ss_pred             HHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCeEE
Q 046970          247 SEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDSIY  322 (420)
Q Consensus       247 ~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~~~  322 (420)
                      ..+.....             .+.+.+-++|+|+++..  ...+.|...+......+++|++|.... +... ......+
T Consensus        98 ~~~~~~~~-------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~  164 (340)
T 1sxj_C           98 KDFASTRQ-------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  164 (340)
T ss_dssp             HHHHHBCC-------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             HHHHhhcc-------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeE
Confidence            11111000             01234678999998532  333344333332345566776665432 1111 1233578


Q ss_pred             EeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          323 EVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       323 ~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      ++.+++.++..+.+...+-.....-+  .+..+.+++.++|.+--+
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~i~--~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          165 RFQPLPQEAIERRIANVLVHEKLKLS--PNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCBC--HHHHHHHHHHHTTCHHHH
T ss_pred             eccCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHH
Confidence            99999999999888766522221111  245678888999988743

>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=98.26  E-value=2.9e-06  Score=84.32  Aligned_cols=179  Identities=20%  Similarity=0.263  Sum_probs=100.4

Q ss_pred             CCCcccccccceeeecccccC-----------CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccccc
Q 046970          168 FTGSVGVNSRIRHIKSLLHLG-----------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERV  236 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~  236 (420)
                      ...++|.+..+++|.+++...           ....+.+.|+|++|+|||+||+.+++.....|    ...+........
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~f----v~vn~~~l~~~~  278 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF----FLINGPEIMSKL  278 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEE----EEEEHHHHHTSC
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCE----EEEEchHhhhhh
Confidence            356899999999998877532           33456789999999999999999988763222    222111110000


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCCCCC
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRFGPR  300 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~~~g  300 (420)
                       .......                ....+.....+++.+|+||+++..                ..+-.++.... ...+
T Consensus       279 -~g~~~~~----------------~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~-~~~~  340 (489)
T 3hu3_A          279 -AGESESN----------------LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLK-QRAH  340 (489)
T ss_dssp             -TTHHHHH----------------HHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSC-TTSC
T ss_pred             -cchhHHH----------------HHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccc-cCCc
Confidence             0000000                022233334567889999998311                11222222221 1234


Q ss_pred             cEEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCC-hHHHHHH
Q 046970          301 SRIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGN-PLALKVL  371 (420)
Q Consensus       301 ~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~-PLal~~~  371 (420)
                      ..||.||..+..     .........+.++..+.++-.+++..++........   ....++++.+.|. +-.|..+
T Consensus       341 v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~---~~l~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT---CCHHHHHHTCTTCCHHHHHHH
T ss_pred             eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch---hhHHHHHHHccCCcHHHHHHH
Confidence            556666665432     221234567899999999999999887633221111   1134566666664 5555554

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.24  E-value=5.8e-07  Score=74.28  Aligned_cols=47  Identities=19%  Similarity=0.118  Sum_probs=35.5

Q ss_pred             CcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          170 GSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +++|++..+.++.+.+..-......|.|+|++|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            57888888888887765322233467899999999999999998864

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.22  E-value=9e-06  Score=77.98  Aligned_cols=171  Identities=18%  Similarity=0.300  Sum_probs=96.5

Q ss_pred             CCCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccc-
Q 046970          168 FTGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESER-  235 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~-  235 (420)
                      ..++.|.+...++|.+.+..           +....+-+.++|+||+|||.||+++++.....|   +.+. ....... 
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f---~~v~-~s~l~sk~  222 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKF---IRVS-GAELVQKY  222 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEE---EEEE-GGGGSCSS
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCc---eEEE-hHHhhccc
Confidence            35566777777666654421           233467789999999999999999999875543   1122 1111110 


Q ss_pred             c-CHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCC-
Q 046970          236 V-GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRF-  297 (420)
Q Consensus       236 ~-~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~-  297 (420)
                      . ......+.+                   ....-...+++|.+|+++..                ..+..++..+..+ 
T Consensus       223 vGese~~vr~l-------------------F~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  283 (405)
T 4b4t_J          223 IGEGSRMVREL-------------------FVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE  283 (405)
T ss_dssp             TTHHHHHHHHH-------------------HHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT
T ss_pred             cchHHHHHHHH-------------------HHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC
Confidence            0 011111111                   11222457899999998532                0133343333222 


Q ss_pred             -CCCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCCh
Q 046970          298 -GPRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       298 -~~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~P  365 (420)
                       ..+..||.||..+..     ...-..+..++++..+.++-.++|..+.-+... ...+    ...+++.+.|.-
T Consensus       284 ~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          284 TSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             CCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             CCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence             234456667765443     222246788999999999999999877633221 1222    356777777753

>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=98.22  E-value=5.3e-06  Score=88.50  Aligned_cols=50  Identities=20%  Similarity=0.301  Sum_probs=41.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ..+.++||+.++..+.+.|...  ....+.|+|++|+|||+||+.+++.+..
T Consensus       168 ~ld~viGr~~~i~~l~~~l~~~--~~~~vlL~G~pG~GKT~la~~la~~l~~  217 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVK  217 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CCcccCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence            4567999999999999988643  2345789999999999999999998743

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.17  E-value=8.8e-06  Score=73.89  Aligned_cols=178  Identities=17%  Similarity=0.177  Sum_probs=91.0

Q ss_pred             CCCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          168 FTGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      ..+++|.+..++++.+++..          +....+-+.|+|++|+||||||+.+++.....|   +.+. ........ 
T Consensus        11 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~i~-~~~~~~~~-   85 (257)
T 1lv7_A           11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTIS-GSDFVEMF-   85 (257)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE---EEEC-SCSSTTSC-
T ss_pred             HHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCE---EEEe-HHHHHHHh-
Confidence            34566666665555443221          011234588999999999999999998764322   2222 11110000 


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCc--hHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCC--C
Q 046970          238 LVHLRERVLSEILEENLKIGTLNL--PEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDR--F  297 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~--~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~--~  297 (420)
                                        ......  ...+.......+.++++|+++..                ..+..++..+..  .
T Consensus        86 ------------------~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (257)
T 1lv7_A           86 ------------------VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (257)
T ss_dssp             ------------------CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             ------------------hhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc
Confidence                              000000  11222223346789999998321                122333322211  1


Q ss_pred             CCCcEEEeecCChhhh-----hhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcC-ChHHHHHH
Q 046970          298 GPRSRIIVTTRDKQVF-----DECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANG-NPLALKVL  371 (420)
Q Consensus       298 ~~g~~IIiTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G-~PLal~~~  371 (420)
                      ..+..||.||..+...     ........+.++..+.++-.+++..+.-.....++   .....++..+.| ++--|+.+
T Consensus       148 ~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~---~~~~~la~~~~G~~~~dl~~l  224 (257)
T 1lv7_A          148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD---IDAAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHHHHHH
T ss_pred             CCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcc---ccHHHHHHHcCCCCHHHHHHH
Confidence            2345566676654322     11124567888888888888888766532211111   112456667777 77655543

>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=98.14  E-value=9.5e-07  Score=80.86  Aligned_cols=153  Identities=17%  Similarity=0.224  Sum_probs=84.8

Q ss_pred             CCCCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~  236 (420)
                      ....++|.+..++.+.+.+..          +....+.+.|+|++|+|||+||+.+++.....|-.   +. ....... 
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~---v~-~~~~~~~-   83 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFS---MG-GSSFIEM-   83 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCC---CC-SCTTTTS-
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEE---ec-hHHHHHh-
Confidence            446788988888888775541          11223447899999999999999999976443311   10 1000000 


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH-----------------HHHHHhcCCCCCC-
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE-----------------QLIFLVGGLDRFG-  298 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~-----------------~l~~l~~~~~~~~-  298 (420)
                                  ..+.  .....  ...+......++.+|+||+++...                 .+..++..+.... 
T Consensus        84 ------------~~~~--~~~~~--~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (268)
T 2r62_A           84 ------------FVGL--GASRV--RDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS  147 (268)
T ss_dssp             ------------CSSS--CSSSS--STTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC
T ss_pred             ------------hcch--HHHHH--HHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc
Confidence                        0000  00011  222333334567899999995431                 1222333332211 


Q ss_pred             --CCcEEEeecCChhhhh-----hcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          299 --PRSRIIVTTRDKQVFD-----ECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       299 --~g~~IIiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                        ....||.||.....+.     .......+.++..+.++..+++....
T Consensus       148 ~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~  196 (268)
T 2r62_A          148 ENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHI  196 (268)
T ss_dssp             SCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHT
T ss_pred             CCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHH
Confidence              2245666776553221     11234567888999999888887765

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.12  E-value=4.1e-05  Score=74.52  Aligned_cols=172  Identities=15%  Similarity=0.241  Sum_probs=98.3

Q ss_pred             CCCCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccc-
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESE-  234 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~-  234 (420)
                      ...++.|.+...++|.+.+..           +-...+-|.++|++|+|||+||+++++.....|   +.+. ...... 
T Consensus       207 t~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~f---i~vs-~s~L~sk  282 (467)
T 4b4t_H          207 TYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATF---IRVI-GSELVQK  282 (467)
T ss_dssp             CCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEE---EEEE-GGGGCCC
T ss_pred             CHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCe---EEEE-hHHhhcc
Confidence            345688888888888765421           334578899999999999999999999875543   1121 111111 


Q ss_pred             ccC-HHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH----------------HHHHHhcCCCCC
Q 046970          235 RVG-LVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE----------------QLIFLVGGLDRF  297 (420)
Q Consensus       235 ~~~-~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~  297 (420)
                      ..+ .....+.+                   ....-...+++|++|+++...                .+..++..+..+
T Consensus       283 ~vGesek~ir~l-------------------F~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~  343 (467)
T 4b4t_H          283 YVGEGARMVREL-------------------FEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGF  343 (467)
T ss_dssp             SSSHHHHHHHHH-------------------HHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSS
T ss_pred             cCCHHHHHHHHH-------------------HHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhcc
Confidence            000 01111111                   122224578999999985320                122233222211


Q ss_pred             --CCCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCCh
Q 046970          298 --GPRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       298 --~~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~P  365 (420)
                        ..+..||.||..+..     ...-..+..++++..+.++-.++|..+.-.... ...+    ...|++.+.|.-
T Consensus       344 ~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd----l~~LA~~T~GfS  415 (467)
T 4b4t_H          344 DPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR----WELISRLCPNST  415 (467)
T ss_dssp             CCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHHCCSCC
T ss_pred             CCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHHCCCCC
Confidence              234456667764433     222246788999999999999999877633221 1222    346677777753

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.11  E-value=7.1e-06  Score=81.39  Aligned_cols=146  Identities=16%  Similarity=0.193  Sum_probs=82.0

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc-----cceEEEE-eccccccccCHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-----EGECFIT-NVREESERVGLVH  240 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-----~~~~~v~-~~~~~~~~~~~~~  240 (420)
                      ..+.++||+.+++.+...|...  ...-+.|+|++|+|||+||+.+++.+....     ....++. +..          
T Consensus       178 ~ld~iiGr~~~i~~l~~~l~r~--~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~----------  245 (468)
T 3pxg_A          178 SLDPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG----------  245 (468)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------
T ss_pred             CCCCccCcHHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC----------
Confidence            4467999999999999988643  234568999999999999999999874422     1111221 110          


Q ss_pred             HHHHHHHHHhhccccCCCC-Cc-hHHHHHHhcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhh---hh-
Q 046970          241 LRERVLSEILEENLKIGTL-NL-PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQV---FD-  314 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~-~~-~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~---~~-  314 (420)
                            ...      .... .. ...+...-..++.+|++|  ...+....|.+.+.  ....++|.+|.....   .. 
T Consensus       246 ------~~~------~g~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~  309 (468)
T 3pxg_A          246 ------TKY------RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEK  309 (468)
T ss_dssp             -------------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTT
T ss_pred             ------ccc------cchHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhc
Confidence                  000      0001 11 222333333567899999  22222333444443  234556655544331   00 


Q ss_pred             ---hcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          315 ---ECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       315 ---~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                         .......+.+++.+.++..+++....
T Consensus       310 ~~al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             CHHHHHhCccceeCCCCHHHHHHHHHHHH
Confidence               01122468999999999999998765

>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=98.09  E-value=8.2e-06  Score=76.03  Aligned_cols=48  Identities=19%  Similarity=0.167  Sum_probs=33.2

Q ss_pred             Ccccccccceeeeccccc------------CCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          170 GSVGVNSRIRHIKSLLHL------------GLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~------------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .++|.+..++.+...+..            .......+.|+|++|+|||+||+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            356666666655554432            011245688999999999999999998773

>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=98.09  E-value=7.7e-06  Score=76.27  Aligned_cols=143  Identities=10%  Similarity=0.068  Sum_probs=85.3

Q ss_pred             ccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhh---ccccceEEEEeccccccccCHHHHHHHHHHHHhhc
Q 046970          176 SRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS---SEFEGECFITNVREESERVGLVHLRERVLSEILEE  252 (420)
Q Consensus       176 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~---~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~  252 (420)
                      ..++.|...+..+.  .+...++|++|+||||+|+.+++...   ........+...   ....++..+ +++...+...
T Consensus         4 ~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~---~~~~~id~i-r~li~~~~~~   77 (305)
T 2gno_A            4 DQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPE---GENIGIDDI-RTIKDFLNYS   77 (305)
T ss_dssp             CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCS---SSCBCHHHH-HHHHHHHTSC
T ss_pred             HHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCC---cCCCCHHHH-HHHHHHHhhc
Confidence            34445555555443  67889999999999999999987531   112333444311   011222222 2233222111


Q ss_pred             cccCCCCCchHHHHHHhcCCeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEeecCCh-hhhhhcCCCeEEEeCCCCH
Q 046970          253 NLKIGTLNLPEYIKERLQQMKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDECEVDSIYEVEGLNK  329 (420)
Q Consensus       253 ~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~~~~~~~~~l~~L~~  329 (420)
                      .               ..+++-++|+|+++.  ....+.|+..+....+.+.+|++|.++ .+.+..... .+++++++.
T Consensus        78 p---------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~  141 (305)
T 2gno_A           78 P---------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVP  141 (305)
T ss_dssp             C---------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCC
T ss_pred             c---------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCH
Confidence            0               023567899999864  344556665555445677777766544 344444444 899999999


Q ss_pred             HHHHHHHHhcc
Q 046970          330 DESLELFSNFA  340 (420)
Q Consensus       330 ~ea~~L~~~~a  340 (420)
                      ++..+.+....
T Consensus       142 ~~i~~~L~~~~  152 (305)
T 2gno_A          142 KEFRDLVKEKI  152 (305)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998765

>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=98.07  E-value=4.2e-06  Score=71.66  Aligned_cols=26  Identities=31%  Similarity=0.322  Sum_probs=23.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+.|+|++|+|||||++.+++.+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999999875

>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=98.06  E-value=1.3e-05  Score=84.45  Aligned_cols=150  Identities=13%  Similarity=0.154  Sum_probs=86.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc------ccceEEEEecccccc----cc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE------FEGECFITNVREESE----RV  236 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~v~~~~~~~~----~~  236 (420)
                      ....++||+.+++.+.+.|...  ....+.|+|++|+|||+||+.+++.+...      ....++..+......    ..
T Consensus       184 ~~d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g  261 (758)
T 1r6b_X          184 GIDPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRG  261 (758)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSS
T ss_pred             CCCCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccc
Confidence            4467999999999999988754  34567899999999999999999876332      122333221111100    00


Q ss_pred             CHHHHHHHHHHHHhhccccCCCCCchHHHHHHh-cCCeEEEEEeCCCCH----------HHHHHHh-cCCCCCCCCcEEE
Q 046970          237 GLVHLRERVLSEILEENLKIGTLNLPEYIKERL-QQMKVFIVLDDVNKP----------EQLIFLV-GGLDRFGPRSRII  304 (420)
Q Consensus       237 ~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l-~~~~~LlVLDdv~~~----------~~l~~l~-~~~~~~~~g~~II  304 (420)
                      .....                    ...+.+.+ ..++.+|++|+++..          .+...++ ..+.  ....++|
T Consensus       262 ~~e~~--------------------l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I  319 (758)
T 1r6b_X          262 DFEKR--------------------FKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVI  319 (758)
T ss_dssp             CHHHH--------------------HHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEE
T ss_pred             hHHHH--------------------HHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEE
Confidence            01111                    11222222 235789999999644          2233333 3332  2345566


Q ss_pred             eecCChhhhhh-------cCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          305 VTTRDKQVFDE-------CEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       305 iTtR~~~~~~~-------~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      .+|........       ......+.+++.+.++..+++....
T Consensus       320 ~at~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          320 GSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             EEECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             EEeCchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            66554321100       1112468999999999998887644

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.06  E-value=1.2e-05  Score=78.11  Aligned_cols=169  Identities=20%  Similarity=0.253  Sum_probs=89.6

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccc-ccc
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREES-ERV  236 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~-~~~  236 (420)
                      .++.|.+...++|.+.+..           +....+-+.++|++|+|||+||+++++.....|   +.+. ..... ...
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~---~~v~-~~~l~~~~~  247 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAF---IRVN-GSEFVHKYL  247 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEE---EEEE-GGGTCCSSC
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe---EEEe-cchhhcccc
Confidence            5667888777777664431           334567899999999999999999999875433   1122 11111 000


Q ss_pred             C-HHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCC--C
Q 046970          237 G-LVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDR--F  297 (420)
Q Consensus       237 ~-~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~--~  297 (420)
                      + .....+.+                   +...-...++++.+|+++..                ..+..|+..+..  .
T Consensus       248 Ge~e~~ir~l-------------------F~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~  308 (428)
T 4b4t_K          248 GEGPRMVRDV-------------------FRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQ  308 (428)
T ss_dssp             SHHHHHHHHH-------------------HHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCS
T ss_pred             chhHHHHHHH-------------------HHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCC
Confidence            0 11111111                   11222356899999988321                112333322221  1


Q ss_pred             CCCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHH-HHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCC
Q 046970          298 GPRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKD-ESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGN  364 (420)
Q Consensus       298 ~~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~-ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~  364 (420)
                      ..+..||.||..+..     ......+..++++.++.. +-.++|..+.-+.. .+..+    ...+++.+.|.
T Consensus       309 ~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~d----l~~lA~~t~G~  378 (428)
T 4b4t_K          309 STNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEAD----LDSLIIRNDSL  378 (428)
T ss_dssp             SCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCC----HHHHHHHTTTC
T ss_pred             CCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHHCCCC
Confidence            234556777765433     222234567788766544 44556655543222 12222    34666777765

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.05  E-value=3.7e-05  Score=74.80  Aligned_cols=171  Identities=23%  Similarity=0.363  Sum_probs=96.6

Q ss_pred             CCCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccc-
Q 046970          168 FTGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESER-  235 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~-  235 (420)
                      ..++.|.+..+++|.+.+..           +....+-|.++|+||+|||+||+++++.....|    +.......... 
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~----~~v~~s~l~sk~  255 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF----IFSPASGIVDKY  255 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE----EEEEGGGTCCSS
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE----EEEehhhhcccc
Confidence            35667888777777664431           234467899999999999999999999875433    22111111110 


Q ss_pred             cC-HHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCC-
Q 046970          236 VG-LVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRF-  297 (420)
Q Consensus       236 ~~-~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~-  297 (420)
                      .+ .....+.+                   ....-...+++|.+|+++..                ..+..|+..+..+ 
T Consensus       256 ~Gese~~ir~~-------------------F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          256 IGESARIIREM-------------------FAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             SSHHHHHHHHH-------------------HHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             chHHHHHHHHH-------------------HHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence            00 01111111                   11222457899999998532                0123333332211 


Q ss_pred             -CCCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCCh
Q 046970          298 -GPRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       298 -~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~P  365 (420)
                       ..+..||.||..+..++.     ...+..++++..+.++-.++|..+.-+.. ....+    ...+++.+.|.-
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d----l~~lA~~t~G~s  387 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD----FEAAVKMSDGFN  387 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC----HHHHHHTCCSCC
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhCCCCC
Confidence             234567777765544322     22456788988888888888887763322 12222    345667777653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.03  E-value=2.6e-05  Score=75.79  Aligned_cols=170  Identities=16%  Similarity=0.240  Sum_probs=94.1

Q ss_pred             CCCcccccccceeeecccc-----------cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccc-c
Q 046970          168 FTGSVGVNSRIRHIKSLLH-----------LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESE-R  235 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~-----------~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~-~  235 (420)
                      ..++.|.+...++|.+.+.           .+....+-|.++|+||+|||.||+++++.....|    +......... .
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f----~~v~~s~l~~~~  255 (434)
T 4b4t_M          180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATF----LKLAAPQLVQMY  255 (434)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE----EEEEGGGGCSSC
T ss_pred             hHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCE----EEEehhhhhhcc
Confidence            3556677776666655432           1233467899999999999999999999865432    2211111111 0


Q ss_pred             cC-HHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCCC
Q 046970          236 VG-LVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRFG  298 (420)
Q Consensus       236 ~~-~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~~  298 (420)
                      .+ .....+.++                   ...-...+++|.+|+++..                ..+..++..+..+.
T Consensus       256 vGese~~ir~lF-------------------~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          256 IGEGAKLVRDAF-------------------ALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             SSHHHHHHHHHH-------------------HHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             cchHHHHHHHHH-------------------HHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence            00 111111111                   1112346899999998422                01233443333222


Q ss_pred             --CCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCC
Q 046970          299 --PRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGN  364 (420)
Q Consensus       299 --~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~  364 (420)
                        .+..||.||..+..+..     -..+..++++..+.++-.++|..+.-+-. ....+    ...+++.+.|.
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd----l~~lA~~t~G~  386 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN----WQELARSTDEF  386 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC----HHHHHHHCSSC
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCC
Confidence              34456667765544322     23567889998898888888876653222 11222    34667777765

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.03  E-value=1e-05  Score=75.59  Aligned_cols=48  Identities=21%  Similarity=0.280  Sum_probs=33.1

Q ss_pred             cccccccceeeecccccC-------CCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          171 SVGVNSRIRHIKSLLHLG-------LPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ++|.+..++.+...+...       ......+.|+|++|+|||++|+.+++....
T Consensus        19 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~   73 (311)
T 4fcw_A           19 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD   73 (311)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHS
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcC
Confidence            556555555554444321       112357999999999999999999997644

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=98.01  E-value=3.4e-05  Score=76.15  Aligned_cols=172  Identities=14%  Similarity=0.179  Sum_probs=90.9

Q ss_pred             CCcccccccceeeeccccc----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCH
Q 046970          169 TGSVGVNSRIRHIKSLLHL----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGL  238 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~  238 (420)
                      .+++|.+..++++.+.+..          +....+-+.|+|++|+|||+||+.++......|   +.+. ........ .
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f---~~is-~~~~~~~~-~   90 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPF---FHIS-GSDFVELF-V   90 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCE---EEEE-GGGTTTCC-T
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCe---eeCC-HHHHHHHH-h
Confidence            4466666655555443321          111234588999999999999999998764332   1121 11111100 0


Q ss_pred             HHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCC--CCC
Q 046970          239 VHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRF--GPR  300 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~--~~g  300 (420)
                      .. ...               .....+.......+.+|+||+++..                ..+..++..+..+  ..+
T Consensus        91 g~-~~~---------------~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~  154 (476)
T 2ce7_A           91 GV-GAA---------------RVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEG  154 (476)
T ss_dssp             TH-HHH---------------HHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGT
T ss_pred             cc-cHH---------------HHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCC
Confidence            00 000               0022333444567899999998432                1233343322111  235


Q ss_pred             cEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCCC-chhHHHHHHHHHHHhcCCh
Q 046970          301 SRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKIC-PKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       301 ~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~-~~~~~~~~~~i~~~~~G~P  365 (420)
                      ..||.||..+..+..     ......+.++..+.++-.+++..+.-..... ...    ...+++.+.|+.
T Consensus       155 viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~----l~~la~~t~G~s  221 (476)
T 2ce7_A          155 IIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVN----LEIIAKRTPGFV  221 (476)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             EEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhh----HHHHHHhcCCCc
Confidence            567777766544321     1345688899989888888887665322211 111    234666677766

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.96  E-value=5.5e-05  Score=74.73  Aligned_cols=50  Identities=26%  Similarity=0.220  Sum_probs=37.7

Q ss_pred             CCCcccccccceeeeccc---ccCCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          168 FTGSVGVNSRIRHIKSLL---HLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L---~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...++|.+..++.+..++   ..+....+.+.++|++|+|||+||+.+++.+.
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            367999998877654433   33333346788999999999999999998764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.95  E-value=1.8e-05  Score=83.31  Aligned_cols=146  Identities=16%  Similarity=0.181  Sum_probs=83.0

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc------cceEEEEeccccccccCHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF------EGECFITNVREESERVGLVH  240 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~v~~~~~~~~~~~~~~  240 (420)
                      ..+.++||+.+++.+...|...  ...-+.|+|++|+|||++|+.+++.+....      ...++..+.           
T Consensus       178 ~ld~iiG~~~~i~~l~~~l~~~--~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~-----------  244 (758)
T 3pxi_A          178 SLDPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM-----------  244 (758)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------
T ss_pred             CCCCccCchHHHHHHHHHHhCC--CCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc-----------
Confidence            4467999999999999988653  234578999999999999999999863321      111111100           


Q ss_pred             HHHHHHHHHhhccccCCCCC-c-hHHHHHHhcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhh---hh
Q 046970          241 LRERVLSEILEENLKIGTLN-L-PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVF---DE  315 (420)
Q Consensus       241 l~~~ll~~l~~~~~~~~~~~-~-~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~---~~  315 (420)
                                +... ....+ . ...+......++.+|++|  ...+....+.+.+.  ....++|.||......   ..
T Consensus       245 ----------g~~~-~G~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~  309 (758)
T 3pxi_A          245 ----------GTKY-RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEK  309 (758)
T ss_dssp             -------------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTT
T ss_pred             ----------cccc-cchHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhc
Confidence                      0000 00111 1 233333344678899999  22233333444443  2345666665543310   00


Q ss_pred             ----cCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          316 ----CEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       316 ----~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                          ......+.+++.+.++..+++....
T Consensus       310 d~al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             cHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence                0122568999999999999998654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.87  E-value=6.4e-06  Score=68.30  Aligned_cols=37  Identities=22%  Similarity=0.370  Sum_probs=28.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ....++|+|++|+|||||++.++......-....++.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~   71 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYID   71 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEc
Confidence            3568999999999999999999997654311255554

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.86  E-value=1.2e-05  Score=73.41  Aligned_cols=49  Identities=20%  Similarity=0.137  Sum_probs=34.3

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      +.++|.+..+.++.+.+..-......+.|+|.+|+|||+||+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            5688988888877765543222235678999999999999999998654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.85  E-value=6.1e-05  Score=69.79  Aligned_cols=29  Identities=31%  Similarity=0.544  Sum_probs=24.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .++.+.|+|++|+|||+||+.+++.....
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~~   63 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGIN   63 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            35678899999999999999999987443

>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=97.85  E-value=0.00012  Score=69.18  Aligned_cols=172  Identities=17%  Similarity=0.172  Sum_probs=90.4

Q ss_pred             CCcccccccceeeecccccC---CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLG---LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ..++|.+..++.+...+...   ......++|+|++|+||||||+.+++.+...+.   ...  ....  .....+    
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~---~~s--g~~~--~~~~~l----   93 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH---VTS--GPVL--VKQGDM----   93 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE---EEE--TTTC--CSHHHH----
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEE---EEe--chHh--cCHHHH----
Confidence            45777776666665555421   123467899999999999999999998743321   111  0000  000111    


Q ss_pred             HHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCC--------C----------CCcEEE-
Q 046970          246 LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRF--------G----------PRSRII-  304 (420)
Q Consensus       246 l~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~--------~----------~g~~II-  304 (420)
                                       ..+...+ .++.++++|+++..  ...+.+...+...        +          +...++ 
T Consensus        94 -----------------~~~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~  155 (334)
T 1in4_A           94 -----------------AAILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVG  155 (334)
T ss_dssp             -----------------HHHHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEE
T ss_pred             -----------------HHHHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEE
Confidence                             0011111 13346777877432  2222222111000        0          112222 


Q ss_pred             eecCChhhhhh--cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHH
Q 046970          305 VTTRDKQVFDE--CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVL  371 (420)
Q Consensus       305 iTtR~~~~~~~--~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~  371 (420)
                      .|++...+...  ........+++.+.++..+++.+.+-.....-  ..+.+..|++.+.|.|..+..+
T Consensus       156 at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~--~~~~~~~ia~~~~G~~R~a~~l  222 (334)
T 1in4_A          156 ATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEI--EDAAAEMIAKRSRGTPRIAIRL  222 (334)
T ss_dssp             EESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCB--CHHHHHHHHHTSTTCHHHHHHH
T ss_pred             ecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCc--CHHHHHHHHHhcCCChHHHHHH
Confidence            34443322111  12334688999999999999987763222111  1255788999999999765433

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.85  E-value=0.00014  Score=69.98  Aligned_cols=169  Identities=20%  Similarity=0.273  Sum_probs=94.0

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccc-c
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESER-V  236 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~-~  236 (420)
                      .++.|.+...++|.+.+..           +....+-|.++|++|.|||.||+++++.....|    +..+....... .
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~f----i~v~~s~l~sk~v  257 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF----LRIVGSELIQKYL  257 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEE----EEEESGGGCCSSS
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCE----EEEEHHHhhhccC
Confidence            4566777777777664421           223467899999999999999999999875543    11111111110 0


Q ss_pred             -CHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------------HHHHHHhcCCCCC--
Q 046970          237 -GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------------EQLIFLVGGLDRF--  297 (420)
Q Consensus       237 -~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~--  297 (420)
                       ......+.+                   ....-...+++|.+|+++..                ..+..++..+..+  
T Consensus       258 Gesek~ir~l-------------------F~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          258 GDGPRLCRQI-------------------FKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             SHHHHHHHHH-------------------HHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             chHHHHHHHH-------------------HHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence             011111111                   11122356899999987421                1122333222211  


Q ss_pred             CCCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCC
Q 046970          298 GPRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGN  364 (420)
Q Consensus       298 ~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~  364 (420)
                      ..+..||.||..+..++.     -..+..++++.-+.++-.++|..+.-.... ...+    ...+++.+.|.
T Consensus       319 ~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvd----l~~LA~~T~Gf  387 (437)
T 4b4t_I          319 RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVN----LETLVTTKDDL  387 (437)
T ss_dssp             SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCC----HHHHHHHCCSC
T ss_pred             CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCC
Confidence            234456667765544332     134567888888888888898877633221 1222    34666777665

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.83  E-value=2.5e-05  Score=68.02  Aligned_cols=35  Identities=23%  Similarity=0.284  Sum_probs=28.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.+.|+|++|+|||+||+.+++....+....+++.
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            68899999999999999999998766544555554

>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=97.79  E-value=2.8e-05  Score=81.27  Aligned_cols=171  Identities=18%  Similarity=0.217  Sum_probs=96.1

Q ss_pred             CCCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccc-cc
Q 046970          168 FTGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREES-ER  235 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~-~~  235 (420)
                      ...+.|.+..+++|.+.+..           +...++-|.++|++|+|||+||+.+++....+|   +.+. ..... ..
T Consensus       203 ~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~---~~v~-~~~l~sk~  278 (806)
T 3cf2_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF---FLIN-GPEIMSKL  278 (806)
T ss_dssp             GGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEE---EEEE-HHHHHSSC
T ss_pred             hhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeE---EEEE-hHHhhccc
Confidence            35678899888888775431           223467899999999999999999998764432   2222 11100 00


Q ss_pred             cC-HHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH-------------HHHHHHhcCCCCC--CC
Q 046970          236 VG-LVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP-------------EQLIFLVGGLDRF--GP  299 (420)
Q Consensus       236 ~~-~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~-------------~~l~~l~~~~~~~--~~  299 (420)
                      .+ ....+                   ...+.......+++|++|+++..             ..+..|+..+..+  ..
T Consensus       279 ~gese~~l-------------------r~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~  339 (806)
T 3cf2_A          279 AGESESNL-------------------RKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA  339 (806)
T ss_dssp             TTHHHHHH-------------------HHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGG
T ss_pred             chHHHHHH-------------------HHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccC
Confidence            00 00001                   12222233457899999998432             1122333222111  12


Q ss_pred             CcEEEeecCChhhh-----hhcCCCeEEEeCCCCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCCh
Q 046970          300 RSRIIVTTRDKQVF-----DECEVDSIYEVEGLNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       300 g~~IIiTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      +..||.||.....+     ........++++..+.++-.++|..+.-... ....+    ...+++.+.|.-
T Consensus       340 ~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             CEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             CEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            33455566544332     2123567889999999999999987763322 11222    345667777663

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.76  E-value=1.5e-05  Score=74.40  Aligned_cols=48  Identities=23%  Similarity=0.295  Sum_probs=37.2

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.++|+...+.++.+.+..-......|.|+|.+|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            358888888888877765422334568899999999999999998864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.72  E-value=2.2e-06  Score=70.61  Aligned_cols=48  Identities=15%  Similarity=0.060  Sum_probs=33.4

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      -.++|++..++++.+.+..-......|.|+|.+|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            357888888888877765321223457899999999999999987654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.58  E-value=0.00011  Score=77.33  Aligned_cols=147  Identities=18%  Similarity=0.222  Sum_probs=81.6

Q ss_pred             CCcccccccceeeecccccC-------CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHH
Q 046970          169 TGSVGVNSRIRHIKSLLHLG-------LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHL  241 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      ..++|.+..++.+...+...       ......+.++|++|+|||+||+.+++.....-...+.+. +..........  
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~-~s~~~~~~~~~--  567 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRID-MSEYMEKHSTS--  567 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEE-GGGGCSSCCCC--
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEe-chhcccccccc--
Confidence            46889888887777666421       112337999999999999999999998643322233333 22222111100  


Q ss_pred             HHHHHHHHhhccccCCCCCc-hHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCC-----------CCCCcEEEeec
Q 046970          242 RERVLSEILEENLKIGTLNL-PEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDR-----------FGPRSRIIVTT  307 (420)
Q Consensus       242 ~~~ll~~l~~~~~~~~~~~~-~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~-----------~~~g~~IIiTt  307 (420)
                                       ... ...++   .....+|+||+++..  +....|+..+..           ...+.+||+||
T Consensus       568 -----------------~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~tt  627 (758)
T 3pxi_A          568 -----------------GGQLTEKVR---RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTS  627 (758)
T ss_dssp             --------------------CHHHHH---HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEE
T ss_pred             -----------------cchhhHHHH---hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeC
Confidence                             001 12222   123458999999543  223333322110           12356788888


Q ss_pred             CCh-----------------hhhhhcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          308 RDK-----------------QVFDECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       308 R~~-----------------~~~~~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      ...                 .+..  ....++.+.+|+.++..+++....
T Consensus       628 n~~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          628 NVGASEKDKVMGELKRAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             SSSTTCCHHHHHHHHHHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHH
T ss_pred             CCChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHH
Confidence            731                 1111  234688999999999988886654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.57  E-value=0.00073  Score=67.03  Aligned_cols=145  Identities=13%  Similarity=0.145  Sum_probs=77.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhc--
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQ--  270 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~--  270 (420)
                      +-+.|+|++|+||||||+.++.....   ..+.+. ........ ....                    ...+...++  
T Consensus        65 ~GvLL~GppGtGKTtLaraIa~~~~~---~~i~i~-g~~~~~~~-~g~~--------------------~~~v~~lfq~a  119 (499)
T 2dhr_A           65 KGVLLVGPPGVGKTHLARAVAGEARV---PFITAS-GSDFVEMF-VGVG--------------------AARVRDLFETA  119 (499)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHHTTC---CEEEEE-GGGGTSSC-TTHH--------------------HHHHHHHTTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCC---CEEEEe-hhHHHHhh-hhhH--------------------HHHHHHHHHHH
Confidence            34899999999999999999987642   222232 11111100 0000                    111222222  


Q ss_pred             --CCeEEEEEeCCCCH----------------HHHHHHhcCCCCC--CCCcEEEeecCChhhhhh-----cCCCeEEEeC
Q 046970          271 --QMKVFIVLDDVNKP----------------EQLIFLVGGLDRF--GPRSRIIVTTRDKQVFDE-----CEVDSIYEVE  325 (420)
Q Consensus       271 --~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~--~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~  325 (420)
                        ..+.++++|+++..                ..+..++..+..+  ..+..++.||..+..+..     ......+.++
T Consensus       120 ~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~  199 (499)
T 2dhr_A          120 KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAID  199 (499)
T ss_dssp             SSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECC
T ss_pred             HhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcccccccccceEEecC
Confidence              23589999998421                1233444332211  233456666766654332     1345688999


Q ss_pred             CCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh
Q 046970          326 GLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       326 ~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      ..+.++-.+++..++-.....+..   ....++..+.|+.
T Consensus       200 ~Pd~~~R~~IL~~~~~~~~l~~dv---~l~~lA~~t~G~~  236 (499)
T 2dhr_A          200 APDVKGREQILRIHARGKPLAEDV---DLALLAKRTPGFV  236 (499)
T ss_dssp             CCCHHHHHHHHHHTTSSSCCCCSS---TTHHHHTTSCSCC
T ss_pred             CCCHHHHHHHHHHHHhcCCCChHH---HHHHHHHhcCCCC
Confidence            999999999998776322111110   1234555666654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.57  E-value=0.0016  Score=59.47  Aligned_cols=124  Identities=18%  Similarity=0.161  Sum_probs=68.0

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHH-hcCCe
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKER-LQQMK  273 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~-l~~~~  273 (420)
                      ++|+|++|+||||||+.++.....   ..+.+.. ...... ......+ .+                ..+.+. -...+
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~~---~~i~i~g-~~l~~~-~~~~~~~-~i----------------~~vf~~a~~~~p  104 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESGL---NFISVKG-PELLNM-YVGESER-AV----------------RQVFQRAKNSAP  104 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTTC---EEEEEET-TTTCSS-TTHHHHH-HH----------------HHHHHHHHHTCS
T ss_pred             EEEECCCCCcHHHHHHHHHHHcCC---CEEEEEc-HHHHhh-hhhHHHH-HH----------------HHHHHHHHhcCC
Confidence            899999999999999999987643   2233331 111100 0111111 11                111111 13357


Q ss_pred             EEEEEeCCCCH-------------HHHHHHhcCCCC--CCCCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHH
Q 046970          274 VFIVLDDVNKP-------------EQLIFLVGGLDR--FGPRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESL  333 (420)
Q Consensus       274 ~LlVLDdv~~~-------------~~l~~l~~~~~~--~~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~  333 (420)
                      .++++|+++..             .....++..+..  .....-++.+|..+.++..     ......+.++..+.++-.
T Consensus       105 ~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~  184 (274)
T 2x8a_A          105 CVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRL  184 (274)
T ss_dssp             EEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHH
T ss_pred             CeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHH
Confidence            88899988532             011222222211  1123345567766655432     246678899999999999


Q ss_pred             HHHHhcc
Q 046970          334 ELFSNFA  340 (420)
Q Consensus       334 ~L~~~~a  340 (420)
                      +++..+.
T Consensus       185 ~il~~~~  191 (274)
T 2x8a_A          185 AILKTIT  191 (274)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHH
Confidence            9998765

>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=97.55  E-value=6.8e-05  Score=65.97  Aligned_cols=35  Identities=17%  Similarity=0.058  Sum_probs=27.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ....++.|+|.+|+|||||+..++.   ..-..++|+.
T Consensus        18 ~~G~~~~i~G~~GsGKTtl~~~l~~---~~~~~v~~i~   52 (220)
T 2cvh_A           18 APGVLTQVYGPYASGKTTLALQTGL---LSGKKVAYVD   52 (220)
T ss_dssp             CTTSEEEEECSTTSSHHHHHHHHHH---HHCSEEEEEE
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHH---HcCCcEEEEE
Confidence            3567999999999999999999988   2224566665

>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=97.49  E-value=0.00086  Score=60.43  Aligned_cols=146  Identities=14%  Similarity=0.143  Sum_probs=74.7

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh-cCCe
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL-QQMK  273 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l-~~~~  273 (420)
                      +.|+|++|+|||||++.++.....   ..+.+.. ....... ......                 ....+.+.. ...+
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~~~---~~i~~~~-~~~~~~~-~~~~~~-----------------~i~~~~~~~~~~~~  109 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEARV---PFITASG-SDFVEMF-VGVGAA-----------------RVRDLFETAKRHAP  109 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTC---CEEEEEH-HHHHHSC-TTHHHH-----------------HHHHHHHHHTTSSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC---CEEEeeH-HHHHHHH-hhHHHH-----------------HHHHHHHHHHhcCC
Confidence            889999999999999999987642   2223320 0000000 000000                 011122222 2356


Q ss_pred             EEEEEeCCCCH----------------HHHHHHhcCCCCC--CCCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHH
Q 046970          274 VFIVLDDVNKP----------------EQLIFLVGGLDRF--GPRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKD  330 (420)
Q Consensus       274 ~LlVLDdv~~~----------------~~l~~l~~~~~~~--~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~  330 (420)
                      .++++|+++..                ..+..++..+...  .....++.||..+..+..     ......++++..+.+
T Consensus       110 ~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~  189 (254)
T 1ixz_A          110 CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVK  189 (254)
T ss_dssp             EEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHH
T ss_pred             eEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHH
Confidence            89999998321                0122333222111  122334556665554322     235678899999999


Q ss_pred             HHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh
Q 046970          331 ESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       331 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      +-.+++..++-......+   .....+++.+.|+-
T Consensus       190 ~r~~il~~~~~~~~~~~~---~~~~~la~~~~G~~  221 (254)
T 1ixz_A          190 GREQILRIHARGKPLAED---VDLALLAKRTPGFV  221 (254)
T ss_dssp             HHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCC
T ss_pred             HHHHHHHHHHcCCCCCcc---cCHHHHHHHcCCCC
Confidence            888888766522211111   11345666677654

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.47  E-value=0.00047  Score=64.81  Aligned_cols=47  Identities=17%  Similarity=0.185  Sum_probs=37.9

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..++|++..++.+...+..+    ..+.|+|++|+|||+||+.+++.....
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~~~   73 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMDLD   73 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTTCC
T ss_pred             cceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            56899998888877766543    368899999999999999999876443

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.42  E-value=0.0011  Score=60.65  Aligned_cols=146  Identities=14%  Similarity=0.126  Sum_probs=75.4

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh-cCCe
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL-QQMK  273 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l-~~~~  273 (420)
                      +.|+|++|+|||||++.++.....   ..+.+.. ....... ......                 ....+.+.. ...+
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~~~---~~i~~~~-~~~~~~~-~~~~~~-----------------~i~~~~~~~~~~~~  133 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEARV---PFITASG-SDFVEMF-VGVGAA-----------------RVRDLFETAKRHAP  133 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTC---CEEEEEH-HHHHHST-TTHHHH-----------------HHHHHHHHHHTSCS
T ss_pred             EEEECCCcChHHHHHHHHHHHcCC---CEEEecH-HHHHHHH-hhHHHH-----------------HHHHHHHHHHhcCC
Confidence            889999999999999999987642   2233321 0000000 000000                 011122222 2356


Q ss_pred             EEEEEeCCCCH----------------HHHHHHhcCCCCCC--CCcEEEeecCChhhhh-----hcCCCeEEEeCCCCHH
Q 046970          274 VFIVLDDVNKP----------------EQLIFLVGGLDRFG--PRSRIIVTTRDKQVFD-----ECEVDSIYEVEGLNKD  330 (420)
Q Consensus       274 ~LlVLDdv~~~----------------~~l~~l~~~~~~~~--~g~~IIiTtR~~~~~~-----~~~~~~~~~l~~L~~~  330 (420)
                      .++++|+++..                ..+..++..+....  ....++.||..+..+.     .......++++..+.+
T Consensus       134 ~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~  213 (278)
T 1iy2_A          134 CIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVK  213 (278)
T ss_dssp             EEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHH
T ss_pred             cEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHH
Confidence            89999998421                11233333222111  1233445666554432     1235568899999999


Q ss_pred             HHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh
Q 046970          331 ESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       331 ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      +-.+++..++-......+.   ....+++.+.|+.
T Consensus       214 ~r~~il~~~~~~~~~~~~~---~~~~la~~~~G~~  245 (278)
T 1iy2_A          214 GREQILRIHARGKPLAEDV---DLALLAKRTPGFV  245 (278)
T ss_dssp             HHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCC
T ss_pred             HHHHHHHHHHccCCCCccc---CHHHHHHHcCCCC
Confidence            8888887665222111111   1345667777765

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.41  E-value=0.00022  Score=71.97  Aligned_cols=29  Identities=28%  Similarity=0.401  Sum_probs=25.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ....++|+|++|+||||||+.++......
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l~~~  135 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSLGRK  135 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHHTCE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCC
Confidence            45689999999999999999999887443

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=97.31  E-value=0.00032  Score=67.29  Aligned_cols=26  Identities=23%  Similarity=0.280  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+.|+|++|+|||+||+.+++.+.
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            34688999999999999999998773

>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=97.21  E-value=0.0027  Score=54.50  Aligned_cols=112  Identities=19%  Similarity=0.097  Sum_probs=59.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHh----hccccCCC---------C
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEIL----EENLKIGT---------L  259 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~----~~~~~~~~---------~  259 (420)
                      ..|.|++..|.||||+|..++-+...+-..+.++.-.... ...+-..+.+.+.  +.    +.......         .
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~-~~~gE~~~l~~L~--v~~~~~g~gf~~~~~~~~~~~~~a  105 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGT-WPNGERNLLEPHG--VEFQVMATGFTWETQNREADTAAC  105 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCS-SCCHHHHHHGGGT--CEEEECCTTCCCCGGGHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCC-CCccHHHHHHhCC--cEEEEcccccccCCCCcHHHHHHH
Confidence            4566777777999999999998876654455555322211 1122223333320  00    00000000         0


Q ss_pred             Cc-hHHHHHHhcCC-eEEEEEeCCC--------CHHHHHHHhcCCCCCCCCcEEEeecCCh
Q 046970          260 NL-PEYIKERLQQM-KVFIVLDDVN--------KPEQLIFLVGGLDRFGPRSRIIVTTRDK  310 (420)
Q Consensus       260 ~~-~~~l~~~l~~~-~~LlVLDdv~--------~~~~l~~l~~~~~~~~~g~~IIiTtR~~  310 (420)
                      .. ...+++.+.+. -=|||||++.        +.+.+-.++...   .....||+|+|+.
T Consensus       106 ~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~R---p~~~~vIlTGr~a  163 (196)
T 1g5t_A          106 MAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNAR---PGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTS---CTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhC---cCCCEEEEECCCC
Confidence            01 33445555544 4599999872        334444444433   3667899999986

>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=97.18  E-value=0.0035  Score=53.19  Aligned_cols=24  Identities=33%  Similarity=0.484  Sum_probs=21.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .++|+|++|+|||||++.++..+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999998764

>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=97.18  E-value=0.00016  Score=67.02  Aligned_cols=25  Identities=28%  Similarity=0.283  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..+++.|+|++|+|||+||.+++..
T Consensus       122 ~gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          122 ASGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             ESEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            4567889999999999999999886

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.18  E-value=0.00044  Score=62.79  Aligned_cols=111  Identities=12%  Similarity=0.100  Sum_probs=64.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhc-cccCCCCCchHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEE-NLKIGTLNLPEYIKERL  269 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~-~~~~~~~~~~~~l~~~l  269 (420)
                      ...+++|+|++|.|||||++.+...+...+.+.+.+....-........        .+..+ ............+.+.+
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~--------~~v~q~~~gl~~~~l~~~la~aL   95 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKK--------SIVNQREVGEDTKSFADALRAAL   95 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSS--------SEEEEEEBTTTBSCHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCcc--------eeeeHHHhCCCHHHHHHHHHHHH
Confidence            4579999999999999999999987655434555544211000000000        00000 00111111256677777


Q ss_pred             cCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhh
Q 046970          270 QQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQV  312 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~  312 (420)
                      ..++-+|++|...+.+....++...   ..|.-|++||.+...
T Consensus        96 ~~~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A           96 REDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTA  135 (261)
T ss_dssp             HHCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCSSH
T ss_pred             hhCCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcchH
Confidence            7788899999997666655444332   246668888877543

>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=97.17  E-value=0.00012  Score=69.50  Aligned_cols=110  Identities=15%  Similarity=0.143  Sum_probs=66.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceE-EEEeccccccccCHHHHHHHHHHHHhhccc-cCCCCCchHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGEC-FITNVREESERVGLVHLRERVLSEILEENL-KIGTLNLPEYIKERL  269 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~-~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~-~~~~~~~~~~l~~~l  269 (420)
                      ..+++|+|+.|.|||||.+.+...+.......+ .+.+..+......         .....+.. ........+.+...|
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~---------~~~v~q~~~~~~~~~~~~~La~aL  193 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESK---------KCLVNQREVHRDTLGFSEALRSAL  193 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCS---------SSEEEEEEBTTTBSCHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhcc---------ccceeeeeeccccCCHHHHHHHHh
Confidence            459999999999999999999987655433333 2221111100000         00000000 111112266888999


Q ss_pred             cCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChhhh
Q 046970          270 QQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVF  313 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~  313 (420)
                      ...+=+|++|...+.+.++.+....   ..|..+|+|+.+....
T Consensus       194 ~~~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          194 REDPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             TSCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCSSHH
T ss_pred             hhCcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccChHH
Confidence            9999999999998877766554432   2466689999877654

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.14  E-value=0.00022  Score=75.09  Aligned_cols=48  Identities=15%  Similarity=0.182  Sum_probs=36.6

Q ss_pred             CCcccccccceeeecccccC-------CCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          169 TGSVGVNSRIRHIKSLLHLG-------LPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++|.+..++.+...+...       ......+.++|++|+|||+||+.+++..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            45888888887776655421       1123578999999999999999999877

>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=97.01  E-value=0.00087  Score=71.44  Aligned_cols=49  Identities=20%  Similarity=0.268  Sum_probs=37.3

Q ss_pred             CcccccccceeeecccccC-------CCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          170 GSVGVNSRIRHIKSLLHLG-------LPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .++|.+..++.+...+...       ......+.|+|++|+|||+||+.+++....
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~  614 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD  614 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHS
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            4789888888876665421       112358899999999999999999987643

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.99  E-value=0.0015  Score=60.85  Aligned_cols=36  Identities=19%  Similarity=0.286  Sum_probs=28.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh-ccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS-SEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~-~~f~~~~~v~  227 (420)
                      ...+.|+|++|+|||+||..+++... ..-..+.++.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~  188 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH  188 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            46788999999999999999999876 5433445554

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=96.95  E-value=0.02  Score=53.83  Aligned_cols=155  Identities=10%  Similarity=-0.037  Sum_probs=93.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh-ccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS-SEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERL  269 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~-~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l  269 (420)
                      -.++..++|+.|.||++.+..+...+. ..|+....+. ..   ...++..+...+-.                   .-+
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~-~~---~~~~~~~l~~~~~~-------------------~pl   73 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFS-ID---PNTDWNAIFSLCQA-------------------MSL   73 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEE-CC---TTCCHHHHHHHHHH-------------------HHH
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEE-ec---CCCCHHHHHHHhcC-------------------cCC
Confidence            356899999999999999999998764 3343211111 11   12333333322211                   112


Q ss_pred             cCCeEEEEEeCCCC---HHHHHHHhcCCCCCCCCcEEEeecCC-------hhhhhh-cCCCeEEEeCCCCHHHHHHHHHh
Q 046970          270 QQMKVFIVLDDVNK---PEQLIFLVGGLDRFGPRSRIIVTTRD-------KQVFDE-CEVDSIYEVEGLNKDESLELFSN  338 (420)
Q Consensus       270 ~~~~~LlVLDdv~~---~~~l~~l~~~~~~~~~g~~IIiTtR~-------~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~  338 (420)
                      .+++-++|+|+++.   ....+.|...+....+++.+|+++.+       ..+... ......++..+++.++..+.+..
T Consensus        74 f~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~  153 (343)
T 1jr3_D           74 FASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAA  153 (343)
T ss_dssp             CCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHH
Confidence            35667889999865   24455555555444567777766543       123333 23457889999999999988877


Q ss_pred             cccCCCCCchhHHHHHHHHHHHhcCChHHHHH
Q 046970          339 FAFRQKICPKDFLVLSKRVVDYANGNPLALKV  370 (420)
Q Consensus       339 ~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~  370 (420)
                      .+-.....-+  .+.+..+++.++|.+..+..
T Consensus       154 ~~~~~g~~i~--~~a~~~l~~~~~gdl~~~~~  183 (343)
T 1jr3_D          154 RAKQLNLELD--DAANQVLCYCYEGNLLALAQ  183 (343)
T ss_dssp             HHHHTTCEEC--HHHHHHHHHSSTTCHHHHHH
T ss_pred             HHHHcCCCCC--HHHHHHHHHHhchHHHHHHH
Confidence            6633221111  24567888888988877664

>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=96.92  E-value=0.0032  Score=59.59  Aligned_cols=49  Identities=31%  Similarity=0.258  Sum_probs=36.0

Q ss_pred             eeeecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          179 RHIKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       179 ~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..|...|. .+-+...++.|+|++|+|||||+.+++......-..++|+.
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId   96 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFID   96 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            34445554 34445789999999999999999999987655434566776

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.89  E-value=0.0033  Score=56.96  Aligned_cols=25  Identities=40%  Similarity=0.328  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++|.|++|.|||||.+.++...
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            5689999999999999999998755

>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=96.88  E-value=0.003  Score=56.34  Aligned_cols=26  Identities=23%  Similarity=0.475  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||++.++..+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999998754

>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=96.82  E-value=0.0033  Score=55.74  Aligned_cols=61  Identities=10%  Similarity=0.032  Sum_probs=36.6

Q ss_pred             hHHHHHHhcCCeEEEEEeCCC---CHHHHHHHhcC-CCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          262 PEYIKERLQQMKVFIVLDDVN---KPEQLIFLVGG-LDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~---~~~~l~~l~~~-~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      .-.+.+.+..++-+++||+..   +......+... +.....+..||++|++......  .++++.+
T Consensus       138 rv~lAral~~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~tvi~vtH~~~~~~~--~d~v~~l  202 (229)
T 2pze_A          138 RISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKMEHLKK--ADKILIL  202 (229)
T ss_dssp             HHHHHHHHHSCCSEEEEESTTTTSCHHHHHHHHHHCCCCCTTTSEEEEECCCHHHHHH--CSEEEEE
T ss_pred             HHHHHHHHhcCCCEEEEECcccCCCHHHHHHHHHHHHHHhhCCCEEEEEcCChHHHHh--CCEEEEE
Confidence            445666777888899999873   23333333332 2222346678999998766543  4555544

>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=96.69  E-value=0.00072  Score=64.71  Aligned_cols=109  Identities=12%  Similarity=0.126  Sum_probs=64.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEE-EeccccccccCHHHHHHHHHHHHhhc-cccCCCCCchHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI-TNVREESERVGLVHLRERVLSEILEE-NLKIGTLNLPEYIKER  268 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v-~~~~~~~~~~~~~~l~~~ll~~l~~~-~~~~~~~~~~~~l~~~  268 (420)
                      ...+++|+|++|.|||||++.+...+.....+.+.+ .+.-+.......         .+..+ ............++..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~---------~~v~Q~~~g~~~~~~~~~l~~~  205 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKK---------SIVNQREVGEDTKSFADALRAA  205 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSS---------SEEEEEEBTTTBSCSHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCc---------eEEEeeecCCCHHHHHHHHHHH
Confidence            457899999999999999999998765543344433 211000000000         00000 0011111126678888


Q ss_pred             hcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCChh
Q 046970          269 LQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQ  311 (420)
Q Consensus       269 l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~~  311 (420)
                      +...+-+|++|.+.+.+.+...+...   ..|..+|.|+....
T Consensus       206 L~~~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          206 LREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNT  245 (372)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCS
T ss_pred             hhhCcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEECcch
Confidence            88888899999998777665544332   24666888887654

>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=96.65  E-value=0.00087  Score=56.68  Aligned_cols=25  Identities=16%  Similarity=0.291  Sum_probs=22.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|.|+|++|+||||+|+.++.++.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999998764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.64  E-value=0.0015  Score=58.94  Aligned_cols=26  Identities=23%  Similarity=0.383  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++..+
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45699999999999999999998754

>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=96.63  E-value=0.0006  Score=60.18  Aligned_cols=36  Identities=17%  Similarity=-0.210  Sum_probs=28.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ...++.|+|.+|+||||++..++++...+-..+..+
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~   46 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVF   46 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            357899999999999999999999876654444444

>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=96.62  E-value=0.0031  Score=58.27  Aligned_cols=34  Identities=12%  Similarity=0.114  Sum_probs=27.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccc--cceEEEE
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEF--EGECFIT  227 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~v~  227 (420)
                      ++.|+|++|+|||||+.+++......+  ..++|++
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId   65 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYD   65 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEe
Confidence            789999999999999999998765542  4567776

>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=96.58  E-value=0.0026  Score=66.55  Aligned_cols=149  Identities=17%  Similarity=0.231  Sum_probs=75.9

Q ss_pred             CCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccC
Q 046970          169 TGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVG  237 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~  237 (420)
                      ..+.|.+...++|.+.+..           +....+-+.++|++|.|||.||+++++.....|     +.    ++    
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f-----~~----v~----  543 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF-----IS----IK----  543 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEE-----EE----CC----
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCce-----EE----ec----
Confidence            4556776666666554431           112356688999999999999999999764432     22    10    


Q ss_pred             HHHHHHHHHHHHhhccccCCCCCc-hHHHHHHh-cCCeEEEEEeCCCCH----------------HHHHHHhcCCCCCC-
Q 046970          238 LVHLRERVLSEILEENLKIGTLNL-PEYIKERL-QQMKVFIVLDDVNKP----------------EQLIFLVGGLDRFG-  298 (420)
Q Consensus       238 ~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l-~~~~~LlVLDdv~~~----------------~~l~~l~~~~~~~~-  298 (420)
                      ..    .+++...+      ..+. ...+.+.. ...+++|++|+++..                ..+..|+..+.... 
T Consensus       544 ~~----~l~s~~vG------ese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~  613 (806)
T 3cf2_A          544 GP----ELLTMWFG------ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  613 (806)
T ss_dssp             HH----HHHTTTCS------SCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCS
T ss_pred             cc----hhhccccc------hHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCC
Confidence            01    11111111      1111 22233333 457899999998431                01333443332222 


Q ss_pred             -CCcEEEeecCChhh-----hhhcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          299 -PRSRIIVTTRDKQV-----FDECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       299 -~g~~IIiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                       .+.-||.||..+..     +..-.....+.++.-+.++-.++|..+.
T Consensus       614 ~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l  661 (806)
T 3cf2_A          614 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  661 (806)
T ss_dssp             SSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTS
T ss_pred             CCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHh
Confidence             23334445554332     2222456788888777777777887665

>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=96.51  E-value=0.015  Score=53.36  Aligned_cols=61  Identities=10%  Similarity=0.032  Sum_probs=36.6

Q ss_pred             hHHHHHHhcCCeEEEEEeCCC---CHHHHHHHhcC-CCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          262 PEYIKERLQQMKVFIVLDDVN---KPEQLIFLVGG-LDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~---~~~~l~~l~~~-~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      .-.+.+.+..++-+++||...   +...-..+... +.....|..||++|.+......  .+.++.+
T Consensus       167 Rv~lAraL~~~p~lllLDEPts~LD~~~~~~i~~~ll~~~~~~~tviivtHd~~~~~~--~d~i~~l  231 (290)
T 2bbs_A          167 RISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKMEHLKK--ADKILIL  231 (290)
T ss_dssp             HHHHHHHHHSCCSEEEEESTTTTCCHHHHHHHHHHCCCCCTTTSEEEEECCCHHHHHH--SSEEEEE
T ss_pred             HHHHHHHHHCCCCEEEEECCcccCCHHHHHHHHHHHHHHhhCCCEEEEEecCHHHHHc--CCEEEEE
Confidence            445666777888899999873   23333333332 2222346679999998776543  4455544

>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=96.50  E-value=0.004  Score=59.73  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45799999999999999999998643

>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=96.49  E-value=0.0045  Score=58.47  Aligned_cols=47  Identities=21%  Similarity=0.210  Sum_probs=33.7

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc------cccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS------EFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~v~  227 (420)
                      |..+|..+-+...++.|+|.+|+||||||.+++.....      .-..++|+.
T Consensus       111 LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~  163 (343)
T 1v5w_A          111 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID  163 (343)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEE
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEE
Confidence            44445434456789999999999999999999986422      223566776

>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=96.48  E-value=0.0014  Score=54.83  Aligned_cols=25  Identities=16%  Similarity=0.147  Sum_probs=22.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|+|.|++|+||||+++.++.++.
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999998763

>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=96.46  E-value=0.013  Score=54.29  Aligned_cols=29  Identities=28%  Similarity=0.383  Sum_probs=25.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+++|+|++|+||||++..++..+...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~  131 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE  131 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc
Confidence            46899999999999999999999887654

>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=96.45  E-value=0.0031  Score=54.55  Aligned_cols=27  Identities=26%  Similarity=0.352  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|.|++|.|||||++.++..+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467999999999999999999998875

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.45  E-value=0.0013  Score=57.42  Aligned_cols=28  Identities=25%  Similarity=0.446  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|.|++|.|||||++.++..+..
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~~~~   48 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAALSA   48 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4679999999999999999999987653

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.45  E-value=0.0016  Score=56.27  Aligned_cols=26  Identities=27%  Similarity=0.318  Sum_probs=23.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....|.|+|++|+||||+++.++..+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999999876

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.42  E-value=0.0077  Score=56.12  Aligned_cols=50  Identities=18%  Similarity=0.145  Sum_probs=35.2

Q ss_pred             cceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          177 RIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       177 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      -+..|..++ .+-....++.|.|.+|+||||||.+++.....+-..++|+.
T Consensus        54 G~~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           54 GFTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             SCHHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             ChHHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            344444444 34445679999999999999999999977644335566665

>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=96.38  E-value=0.012  Score=55.86  Aligned_cols=50  Identities=34%  Similarity=0.304  Sum_probs=35.8

Q ss_pred             ceeeecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          178 IRHIKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       178 l~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +..|..+|. .+-+...++.|+|.+|+||||||.+++......-..++|++
T Consensus        59 ~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~  109 (366)
T 1xp8_A           59 SLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID  109 (366)
T ss_dssp             CHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE
Confidence            334444454 23344678999999999999999999987654444677776

>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=96.38  E-value=0.0022  Score=60.14  Aligned_cols=47  Identities=19%  Similarity=0.280  Sum_probs=32.8

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc------ccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE------FEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~v~  227 (420)
                      |..+|..+-+...++.|+|.+|+||||||.+++......      -..++|+.
T Consensus        96 LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~  148 (324)
T 2z43_A           96 LDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYID  148 (324)
T ss_dssp             HHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEE
T ss_pred             HHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEE
Confidence            334443333346799999999999999999999865322      23567776

>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=96.34  E-value=0.0019  Score=55.22  Aligned_cols=25  Identities=36%  Similarity=0.349  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|+|++|+|||||++.++..
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4578999999999999999999875

>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=96.33  E-value=0.0028  Score=53.35  Aligned_cols=26  Identities=31%  Similarity=0.543  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+||||+++.++..+
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            35789999999999999999998765

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.32  E-value=0.002  Score=54.82  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+.|.|+|++|+||||+|+.++..+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578899999999999999999876

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.28  E-value=0.0012  Score=62.96  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=22.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+.|+|++|+|||++|+.+++...
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            45688999999999999999998763

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.27  E-value=0.005  Score=53.58  Aligned_cols=23  Identities=30%  Similarity=0.312  Sum_probs=20.5

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|.|.|+||+||+|.|+.++.++
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47789999999999999998865

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.26  E-value=0.0034  Score=54.27  Aligned_cols=26  Identities=35%  Similarity=0.470  Sum_probs=23.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||++.++..+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            45789999999999999999998876

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.23  E-value=0.0024  Score=55.36  Aligned_cols=28  Identities=29%  Similarity=0.417  Sum_probs=24.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|.|.+|+|||||++.+...+..
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4579999999999999999999987643

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.22  E-value=0.0044  Score=52.83  Aligned_cols=26  Identities=23%  Similarity=0.405  Sum_probs=23.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ..|.|.|++|+||||+|+.++.++..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999998754

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.22  E-value=0.0019  Score=54.16  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=22.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|+|+|++|+|||||++.++..+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988753

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.22  E-value=0.0016  Score=55.75  Aligned_cols=28  Identities=32%  Similarity=0.535  Sum_probs=23.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      |.|.|+|++|+|||||++.+..+....|
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            4688999999999999999988765444

>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=96.21  E-value=0.0039  Score=58.57  Aligned_cols=102  Identities=21%  Similarity=0.192  Sum_probs=61.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhcccc-C--CCCCchHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLK-I--GTLNLPEYIKER  268 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~-~--~~~~~~~~l~~~  268 (420)
                      ...++|+|++|.|||||++.++..+.. ..+.+.+.+..+..... .            ..... .  ........+...
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~-~~g~i~i~~~~e~~~~~-~------------~~~i~~~~ggg~~~r~~la~a  236 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPK-EERIISIEDTEEIVFKH-H------------KNYTQLFFGGNITSADCLKSC  236 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCT-TSCEEEEESSCCCCCSS-C------------SSEEEEECBTTBCHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcC-CCcEEEECCeecccccc-c------------hhEEEEEeCCChhHHHHHHHH
Confidence            458999999999999999999876544 24566665432211000 0            00000 0  122226778888


Q ss_pred             hcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCc-EEEeecCChh
Q 046970          269 LQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRS-RIIVTTRDKQ  311 (420)
Q Consensus       269 l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~-~IIiTtR~~~  311 (420)
                      |..++-+|+||++.+.+.++.+ ..+.   .|. -+|+|+....
T Consensus       237 L~~~p~ilildE~~~~e~~~~l-~~~~---~g~~tvi~t~H~~~  276 (330)
T 2pt7_A          237 LRMRPDRIILGELRSSEAYDFY-NVLC---SGHKGTLTTLHAGS  276 (330)
T ss_dssp             TTSCCSEEEECCCCSTHHHHHH-HHHH---TTCCCEEEEEECSS
T ss_pred             hhhCCCEEEEcCCChHHHHHHH-HHHh---cCCCEEEEEEcccH
Confidence            8888999999999775544433 2322   232 3677776544

>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=96.20  E-value=0.0033  Score=53.68  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+|.|.|++|+||||+++.++..+
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998876

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.19  E-value=0.0027  Score=56.57  Aligned_cols=45  Identities=27%  Similarity=0.360  Sum_probs=32.0

Q ss_pred             cccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          183 SLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       183 ~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.|..+-....++.|.|.+|+||||||.+++......-..++|+.
T Consensus        14 ~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           14 EILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             HHTTTSEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            333333334679999999999999999999876544434566665

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.19  E-value=0.0027  Score=53.56  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .+|.|.|++|+||||+|+.++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.17  E-value=0.0028  Score=53.03  Aligned_cols=26  Identities=19%  Similarity=0.302  Sum_probs=22.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .++|+|.|++|+||||+++.++.++.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999998763

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.17  E-value=0.0055  Score=52.14  Aligned_cols=28  Identities=29%  Similarity=0.335  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...++.|.|++|+||||+++.++..+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            3578999999999999999999988754

>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=96.17  E-value=0.0025  Score=53.32  Aligned_cols=20  Identities=40%  Similarity=0.670  Sum_probs=18.7

Q ss_pred             eEEEEeccCcchHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAI  212 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~  212 (420)
                      .+|+|.|++|+||||+|+.+
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            37899999999999999999

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.15  E-value=0.0027  Score=53.89  Aligned_cols=26  Identities=12%  Similarity=0.362  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .++++|+|++|+|||||++.+.....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999988654

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.14  E-value=0.01  Score=55.71  Aligned_cols=54  Identities=15%  Similarity=0.201  Sum_probs=35.8

Q ss_pred             cccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          173 GVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       173 GR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |...-...|..++. +-....++.|.|.+|+||||||..++.....+-..++|+.
T Consensus        28 gi~TG~~~LD~~~g-Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS   81 (338)
T 4a1f_A           28 GIPTGFVQLDNYTS-GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS   81 (338)
T ss_dssp             SBCCSCHHHHHHHC-SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             cccCCChHHHHHhc-CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            33333444444443 3345679999999999999999999987654333455554

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.12  E-value=0.003  Score=54.60  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++|+|++|+|||||++.++...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998764

>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=96.12  E-value=0.0029  Score=55.14  Aligned_cols=28  Identities=25%  Similarity=0.381  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|+|++|+|||||++.++.....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            4578999999999999999999987643

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.11  E-value=0.0024  Score=55.27  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+|+|.|++|+||||+|+.++..+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999876

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.10  E-value=0.0032  Score=55.41  Aligned_cols=37  Identities=19%  Similarity=0.196  Sum_probs=28.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+++|.|++|+|||||++.++......-..+.|+.
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            4568999999999999999999976544323445554

>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=96.06  E-value=0.0033  Score=53.55  Aligned_cols=26  Identities=23%  Similarity=0.463  Sum_probs=23.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .+|.|.|++|+||||+++.++.++..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999987753

>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=96.05  E-value=0.0034  Score=55.25  Aligned_cols=38  Identities=21%  Similarity=0.205  Sum_probs=28.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhc------cccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISS------EFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~v~  227 (420)
                      ....+++|+|++|+|||||++.++.....      .-...+|+.
T Consensus        23 ~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~   66 (231)
T 4a74_A           23 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWID   66 (231)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEE
Confidence            35679999999999999999999875432      123466665

>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=96.01  E-value=0.0029  Score=53.59  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+.|.|+|++|+||||+++.++..+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.00  E-value=0.0042  Score=54.03  Aligned_cols=27  Identities=33%  Similarity=0.396  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|.|++|.|||||++.++..+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457999999999999999999988764

>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=95.99  E-value=0.0044  Score=57.95  Aligned_cols=36  Identities=25%  Similarity=0.284  Sum_probs=27.4

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |..+|..+-+...++.|+|.+|+|||+||.+++...
T Consensus        87 LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           87 LDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             HHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            344444333456899999999999999999999763

>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=95.98  E-value=0.0068  Score=50.83  Aligned_cols=29  Identities=21%  Similarity=0.209  Sum_probs=24.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..++++|.|.+|+|||||+..+...+..+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            35689999999999999999999887654

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.97  E-value=0.004  Score=56.10  Aligned_cols=24  Identities=29%  Similarity=0.234  Sum_probs=21.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .++.|.|++|+||||||+.++.++
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            478999999999999999999875

>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=95.96  E-value=0.0046  Score=62.03  Aligned_cols=38  Identities=18%  Similarity=0.177  Sum_probs=28.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ....+++|.|.+|+|||||++.++......-..++++.
T Consensus       279 ~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~  316 (525)
T 1tf7_A          279 FKDSIILATGATGTGKTLLVSRFVENACANKERAILFA  316 (525)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEE
Confidence            34679999999999999999999986654322234443

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.94  E-value=0.0061  Score=54.25  Aligned_cols=47  Identities=32%  Similarity=0.371  Sum_probs=31.6

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHh-hccccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI-SSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~-~~~f~~~~~v~  227 (420)
                      |.++|..+-+...++.|.|.+|+|||+||.+++... ...-..++++.
T Consensus        19 LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s   66 (251)
T 2zts_A           19 FDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVT   66 (251)
T ss_dssp             TGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             HHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeec
Confidence            334444333456799999999999999999987653 33334455554

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.93  E-value=0.0032  Score=53.08  Aligned_cols=24  Identities=29%  Similarity=0.429  Sum_probs=21.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .|.|.|++|+||||+|+.++.++.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999998763

>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=95.93  E-value=0.0049  Score=52.47  Aligned_cols=24  Identities=33%  Similarity=0.260  Sum_probs=22.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|+|++|+||||+++.++..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999886

>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=95.92  E-value=0.0097  Score=56.25  Aligned_cols=48  Identities=29%  Similarity=0.316  Sum_probs=35.0

Q ss_pred             eeecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          180 HIKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       180 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .|..+|. .+-+..+++.|+|.+|+||||||.+++......-..++|+.
T Consensus        48 ~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~   96 (349)
T 2zr9_A           48 SLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFID   96 (349)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            3444454 33345679999999999999999999987655444567776

>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=95.92  E-value=0.029  Score=54.77  Aligned_cols=33  Identities=27%  Similarity=0.519  Sum_probs=26.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGEC  224 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~  224 (420)
                      .+.++|+|.+|+|||||+..++.....++...+
T Consensus       151 Gq~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~  183 (473)
T 1sky_E          151 GGKIGLFGGAGVGKTVLIQELIHNIAQEHGGIS  183 (473)
T ss_dssp             TCEEEEECCSSSCHHHHHHHHHHHHHHHTCCCE
T ss_pred             CCEEEEECCCCCCccHHHHHHHhhhhhccCcEE
Confidence            346889999999999999999987665443333

>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=95.92  E-value=0.0042  Score=53.02  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .+++|.|++|+|||||++.++.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999976

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.91  E-value=0.0047  Score=52.72  Aligned_cols=25  Identities=28%  Similarity=0.266  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+|+|.|++|+||||+|+.++..+
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            3579999999999999999998765

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.90  E-value=0.0033  Score=54.52  Aligned_cols=27  Identities=19%  Similarity=0.397  Sum_probs=23.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|+|++|+|||||++.+.....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            356899999999999999999988763

>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=95.90  E-value=0.0046  Score=55.57  Aligned_cols=27  Identities=19%  Similarity=0.354  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+|+|.|++|+||||+|+.+...+.
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            457899999999999999999988654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.89  E-value=0.005  Score=52.28  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...|+|.|++|+||||+++.+++.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999998865

>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=95.89  E-value=0.0041  Score=55.21  Aligned_cols=47  Identities=19%  Similarity=0.205  Sum_probs=32.5

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc------cccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS------EFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~v~  227 (420)
                      |..+|..+-....++.|+|++|+|||||+..++.....      .-..++|+.
T Consensus        13 LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~   65 (243)
T 1n0w_A           13 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYID   65 (243)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEE
T ss_pred             HHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEE
Confidence            33344333334679999999999999999999985322      124567776

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.88  E-value=0.0044  Score=53.53  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++|+|++|+|||||++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998865

>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=95.88  E-value=0.0038  Score=57.48  Aligned_cols=28  Identities=21%  Similarity=0.173  Sum_probs=24.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+|+|.|.+|+||||||+.+...+..
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            4679999999999999999999887654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.87  E-value=0.0047  Score=52.86  Aligned_cols=25  Identities=28%  Similarity=0.272  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+|+|.|++|+||||+|+.++..+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998865

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.86  E-value=0.0034  Score=53.13  Aligned_cols=26  Identities=31%  Similarity=0.363  Sum_probs=18.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+|.|.|++|+||||+|+.++..+.
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45899999999999999999988753

>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=95.84  E-value=0.0035  Score=53.21  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=21.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+|+|.|++|+||||+|+.++.++
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            358899999999999999999875

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.84  E-value=0.0047  Score=53.19  Aligned_cols=24  Identities=29%  Similarity=0.566  Sum_probs=21.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .|+|.|++|+||||+++.++..+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            588999999999999999998764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.84  E-value=0.012  Score=58.87  Aligned_cols=25  Identities=32%  Similarity=0.579  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|+|++|+|||||.+.++..
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            4689999999999999999998864

>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=95.83  E-value=0.0083  Score=52.12  Aligned_cols=28  Identities=14%  Similarity=0.244  Sum_probs=24.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..+|+|.|++|+||||+++.++..+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~   36 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAA   36 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999987543

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.82  E-value=0.0059  Score=52.70  Aligned_cols=26  Identities=19%  Similarity=0.300  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+|+|.|++|+||||+++.+++.+
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            45789999999999999999998764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.81  E-value=0.0047  Score=52.98  Aligned_cols=26  Identities=27%  Similarity=0.325  Sum_probs=23.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+|+|.|++|+||||+|+.++..+.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999998763

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.80  E-value=0.0057  Score=52.98  Aligned_cols=28  Identities=21%  Similarity=0.270  Sum_probs=24.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...|+|.|++|+||||+|+.++..+...
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            3589999999999999999999987543

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.77  E-value=0.0043  Score=52.23  Aligned_cols=22  Identities=36%  Similarity=0.581  Sum_probs=19.5

Q ss_pred             CceEEEEeccCcchHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAI  212 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~  212 (420)
                      ...+++|+|++|+|||||++.+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999963

>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=95.76  E-value=0.0043  Score=51.92  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=21.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+|.|.|++|+||||+|+.++..+
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            368999999999999999999875

>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=95.76  E-value=0.0051  Score=53.00  Aligned_cols=27  Identities=19%  Similarity=0.426  Sum_probs=23.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..++++|+|++|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            357899999999999999999998654

>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=95.75  E-value=0.0052  Score=53.41  Aligned_cols=27  Identities=26%  Similarity=0.340  Sum_probs=23.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|+|++|+|||||++.+...+.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            456999999999999999999988653

>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=95.75  E-value=0.0063  Score=52.76  Aligned_cols=26  Identities=35%  Similarity=0.488  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||++.+...+
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45799999999999999999988753

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.75  E-value=0.0064  Score=54.38  Aligned_cols=27  Identities=22%  Similarity=0.300  Sum_probs=23.8

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|+.|.|||||++.++..+
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            346799999999999999999998865

>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=95.74  E-value=0.0062  Score=50.56  Aligned_cols=26  Identities=31%  Similarity=0.347  Sum_probs=23.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|+.|.|||||++.++..+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45799999999999999999999876

>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=95.74  E-value=0.013  Score=55.48  Aligned_cols=48  Identities=33%  Similarity=0.364  Sum_probs=35.1

Q ss_pred             eeecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          180 HIKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       180 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .|..+|. .+-+..+++.|.|.+|+||||||.+++......-..++|++
T Consensus        50 ~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid   98 (356)
T 1u94_A           50 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   98 (356)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            3444444 33345679999999999999999999987655444677776

>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=95.74  E-value=0.034  Score=52.80  Aligned_cols=30  Identities=20%  Similarity=-0.001  Sum_probs=25.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      ..+.++|+|.+|+|||||++.+++.+..+.
T Consensus       173 rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~  202 (422)
T 3ice_A          173 RGQRGLIVAPPKAGKTMLLQNIAQSIAYNH  202 (422)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHHHHHHHHC
T ss_pred             CCcEEEEecCCCCChhHHHHHHHHHHhhcC
Confidence            467899999999999999999998775543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.74  E-value=0.034  Score=56.46  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|+|++|+|||||.+.++..
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            4679999999999999999998864

>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=95.73  E-value=0.0058  Score=53.60  Aligned_cols=25  Identities=24%  Similarity=0.173  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...|.|.|++|+||||+|+.++..+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4578999999999999999998876

>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=95.73  E-value=0.0073  Score=51.38  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=22.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+|+|.|++|+||||+|+.++..+
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            4689999999999999999998865

>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=95.72  E-value=0.0055  Score=54.83  Aligned_cols=25  Identities=28%  Similarity=0.258  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++|.|++|+|||||++.++..+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999765

>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=95.71  E-value=0.0056  Score=53.80  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=21.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+|+|+|++|+||||+++.++..+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998765

>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=95.69  E-value=0.01  Score=54.93  Aligned_cols=36  Identities=22%  Similarity=0.261  Sum_probs=28.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+++|+|++|+|||||++.++..+... .+.+.+.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~-~g~V~l~  136 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL-GKKVMFC  136 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT-TCCEEEE
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc-CCEEEEE
Confidence            46799999999999999999999876543 3344443

>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=95.68  E-value=0.0073  Score=52.09  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...|+|.|++|+||||+|+.++..+
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999998876

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.67  E-value=0.0041  Score=53.73  Aligned_cols=40  Identities=23%  Similarity=0.308  Sum_probs=28.5

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +..+..++.. .+....+.|+|++|+||||+|..+++.+..
T Consensus        45 ~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           45 LGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             HHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3344444442 223446899999999999999999988754

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.67  E-value=0.0049  Score=53.25  Aligned_cols=26  Identities=35%  Similarity=0.432  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+.++|+|++|+|||||++.+.....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            45789999999999999999987653

>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=95.66  E-value=0.0072  Score=51.03  Aligned_cols=28  Identities=29%  Similarity=0.250  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|.|++|+||||+++.+...+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3568999999999999999999987643

>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=95.66  E-value=0.023  Score=57.60  Aligned_cols=27  Identities=30%  Similarity=0.394  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|++|.|||||++.++..+
T Consensus       367 ~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          367 PQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            346799999999999999999988643

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.65  E-value=0.0064  Score=50.63  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=21.5

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .|+|.|++|+||||+|+.+.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999998763

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.65  E-value=0.0076  Score=52.29  Aligned_cols=27  Identities=15%  Similarity=0.219  Sum_probs=24.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ..+|+|.|++|+||||+++.++..+..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999987654

>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=95.64  E-value=0.0055  Score=52.93  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .+|+|+|++|+||||+++.++.
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3689999999999999999987

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.64  E-value=0.0067  Score=54.80  Aligned_cols=26  Identities=27%  Similarity=0.544  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+|.|.|++|+||||+|+.++..+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.63  E-value=0.012  Score=54.41  Aligned_cols=36  Identities=25%  Similarity=0.398  Sum_probs=28.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+++|+|++|+|||||++.++..+... .+.+.+.
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~-~g~V~l~  134 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKNE-GTKVLMA  134 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHHT-TCCEEEE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEE
Confidence            46799999999999999999999876543 3344443

>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=95.62  E-value=0.0068  Score=52.14  Aligned_cols=25  Identities=36%  Similarity=0.355  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+|+|+|++|+||||+++.++..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4678999999999999999999875

>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=95.61  E-value=0.034  Score=56.58  Aligned_cols=132  Identities=17%  Similarity=0.173  Sum_probs=67.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc-----cc-ceEEEEeccccccccCHHHHH--------------HHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE-----FE-GECFITNVREESERVGLVHLR--------------ERVLSEIL  250 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----f~-~~~~v~~~~~~~~~~~~~~l~--------------~~ll~~l~  250 (420)
                      ...+++|.|++|+|||||++.++..+...     +. ...++..-........+....              .+++..+.
T Consensus       381 ~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~~~  460 (607)
T 3bk7_A          381 KGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELLKPLG  460 (607)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHcC
Confidence            35699999999999999999999754321     11 122332111010111222221              11222221


Q ss_pred             hccc---cCCCCCc----hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcC
Q 046970          251 EENL---KIGTLNL----PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECE  317 (420)
Q Consensus       251 ~~~~---~~~~~~~----~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~  317 (420)
                      -...   ....+..    .-.+.+.|..++-+|+||.-.+   .   ..+..++..+.. ..|..||++|.+...+... 
T Consensus       461 l~~~~~~~~~~LSGGe~QRv~iAraL~~~p~lLlLDEPt~~LD~~~~~~l~~~l~~l~~-~~g~tvi~vsHd~~~~~~~-  538 (607)
T 3bk7_A          461 IIDLYDRNVEDLSGGELQRVAIAATLLRDADIYLLDEPSAYLDVEQRLAVSRAIRHLME-KNEKTALVVEHDVLMIDYV-  538 (607)
T ss_dssp             CTTTTTSBGGGCCHHHHHHHHHHHHHTSCCSEEEEECTTTTCCHHHHHHHHHHHHHHHH-HTTCEEEEECSCHHHHHHH-
T ss_pred             CchHhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hCCCEEEEEeCCHHHHHHh-
Confidence            1111   1111221    4466777888899999997622   2   223333322210 1356789999987766543 


Q ss_pred             CCeEEEe
Q 046970          318 VDSIYEV  324 (420)
Q Consensus       318 ~~~~~~l  324 (420)
                      .+.++.+
T Consensus       539 adrv~vl  545 (607)
T 3bk7_A          539 SDRLIVF  545 (607)
T ss_dssp             CSEEEEE
T ss_pred             CCEEEEE
Confidence            3455544

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.60  E-value=0.0067  Score=51.74  Aligned_cols=25  Identities=28%  Similarity=0.540  Sum_probs=22.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +|+|.|++|+||||+++.+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~   26 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQ   26 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999997743

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.58  E-value=0.0092  Score=52.30  Aligned_cols=27  Identities=19%  Similarity=0.309  Sum_probs=24.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...++|.|.|+||+||||.|+.++.++
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999998865

>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=95.57  E-value=0.0079  Score=55.92  Aligned_cols=29  Identities=28%  Similarity=0.363  Sum_probs=25.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....+++|.|++|+|||||++.++..+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccc
Confidence            35689999999999999999999986643

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.55  E-value=0.029  Score=54.87  Aligned_cols=69  Identities=20%  Similarity=0.191  Sum_probs=43.0

Q ss_pred             cccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHHHHH
Q 046970          173 GVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERVLSE  248 (420)
Q Consensus       173 GR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~ll~~  248 (420)
                      |...-+..|..++ .+-....++.|.|.+|+||||||..++...... -..++|+.      ...+...+...++..
T Consensus       182 ~i~tG~~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s------lE~~~~~l~~R~~~~  251 (444)
T 2q6t_A          182 GVRTGFKELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS------LEMPAAQLTLRMMCS  251 (444)
T ss_dssp             -CCCSCHHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE------SSSCHHHHHHHHHHH
T ss_pred             cccCCCHhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE------CCCCHHHHHHHHHHH
Confidence            3333344454555 344456799999999999999999999876543 23456654      123344555555543

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.54  E-value=0.0076  Score=55.37  Aligned_cols=26  Identities=31%  Similarity=0.386  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...++.|.|++|+||||+|+.+..++
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998765

>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=95.53  E-value=0.0069  Score=53.26  Aligned_cols=27  Identities=15%  Similarity=0.203  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|+|++|+|||||.+.+.....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            457999999999999999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.52  E-value=0.0058  Score=53.66  Aligned_cols=26  Identities=27%  Similarity=0.473  Sum_probs=23.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||++.++...
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45689999999999999999998865

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.51  E-value=0.029  Score=56.21  Aligned_cols=132  Identities=18%  Similarity=0.223  Sum_probs=67.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc-----cc-ceEEEEeccccccccCHHHHHHHH----------HHHHhhc--
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE-----FE-GECFITNVREESERVGLVHLRERV----------LSEILEE--  252 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----f~-~~~~v~~~~~~~~~~~~~~l~~~l----------l~~l~~~--  252 (420)
                      ...+++|+|++|+|||||++.++......     +. ...++..-........+.......          ...+...  
T Consensus       311 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~i~~~~~i~~v~Q~~~~~~~~tv~~~~~~~~~~~~~~~~~~~~~l~~~~  390 (538)
T 1yqt_A          311 KGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDASKLNSNFYKTELLKPLG  390 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSBCCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHTCHHHHHHTTTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECceEEEEecCCcCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHcC
Confidence            35699999999999999999999754321     11 123332111111112222222211          1111110  


Q ss_pred             --cc---cCCCCCc----hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcC
Q 046970          253 --NL---KIGTLNL----PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECE  317 (420)
Q Consensus       253 --~~---~~~~~~~----~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~  317 (420)
                        ..   ....+.-    .-.+.+.|..++-+|+||.-.+   .   ..+..++..+.. ..|..||++|.+...+... 
T Consensus       391 l~~~~~~~~~~LSGGe~qrv~lAraL~~~p~lLlLDEPt~~LD~~~~~~i~~~l~~l~~-~~g~tvi~vsHd~~~~~~~-  468 (538)
T 1yqt_A          391 IIDLYDREVNELSGGELQRVAIAATLLRDADIYLLDEPSAYLDVEQRLAVSRAIRHLME-KNEKTALVVEHDVLMIDYV-  468 (538)
T ss_dssp             CGGGTTSBGGGCCHHHHHHHHHHHHHTSCCSEEEEECTTTTCCHHHHHHHHHHHHHHHH-HHTCEEEEECSCHHHHHHH-
T ss_pred             ChhhhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEeCCcccCCHHHHHHHHHHHHHHHH-hCCCEEEEEeCCHHHHHHh-
Confidence              00   0111111    3466777888899999997632   2   223333322210 1355688899987766543 


Q ss_pred             CCeEEEe
Q 046970          318 VDSIYEV  324 (420)
Q Consensus       318 ~~~~~~l  324 (420)
                      ++.++.+
T Consensus       469 ~drv~vl  475 (538)
T 1yqt_A          469 SDRLMVF  475 (538)
T ss_dssp             CSEEEEE
T ss_pred             CCEEEEE
Confidence            3455544

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.50  E-value=0.0025  Score=60.11  Aligned_cols=49  Identities=20%  Similarity=0.157  Sum_probs=33.3

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ....++|.+.....+...+...  ....+.|+|++|+|||+||+.+++...
T Consensus        22 ~f~~i~G~~~~~~~l~~~~~~~--~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           22 PFSAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CchhccChHHHHHHHHHHhhCC--CCceEEEECCCCccHHHHHHHHHHhCc
Confidence            3456889887544432222211  223488999999999999999998764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.48  E-value=0.0022  Score=63.68  Aligned_cols=45  Identities=22%  Similarity=0.133  Sum_probs=36.2

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      +.++|.+..++.+...+..+    ..+.|+|++|+|||+||+.+++...
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHHh
Confidence            45889988887776666533    4788999999999999999988663

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.47  E-value=0.0079  Score=54.06  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=23.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+|+|.|++|+|||||++.++.++
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34689999999999999999999875

>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=95.47  E-value=0.0034  Score=56.15  Aligned_cols=26  Identities=19%  Similarity=-0.017  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....|+|.|++|+||||+|+.+++++
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998765

>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=95.47  E-value=0.0072  Score=52.30  Aligned_cols=22  Identities=45%  Similarity=0.505  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .+++|.|++|+||||+++.++.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.47  E-value=0.0079  Score=52.44  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=20.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|+|.|++|+||||+|+.++.++
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            47899999999999999998765

>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=95.45  E-value=0.013  Score=53.89  Aligned_cols=38  Identities=16%  Similarity=0.132  Sum_probs=29.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcccc-ceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFE-GECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~-~~~~v~  227 (420)
                      ....+++|.|.+|+|||||++.++..+..... .+.|+.
T Consensus        33 ~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            34679999999999999999999987654422 344554

>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=95.45  E-value=0.034  Score=53.94  Aligned_cols=29  Identities=31%  Similarity=0.259  Sum_probs=25.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...++.++|++|+||||++..++..++.+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~  124 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKR  124 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            46899999999999999999999877554

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.45  E-value=0.0088  Score=53.77  Aligned_cols=27  Identities=22%  Similarity=0.192  Sum_probs=23.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...++.|.|++|+||||+|+.++..+.
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            356899999999999999999988763

>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=95.44  E-value=0.0059  Score=53.07  Aligned_cols=25  Identities=24%  Similarity=0.472  Sum_probs=22.5

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +|+|.|++|+||||+++.+...+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            6899999999999999999987753

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.41  E-value=0.0074  Score=53.21  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=22.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...|.|.|++|+||||+|+.++..+
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999998865

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.40  E-value=0.03  Score=54.93  Aligned_cols=50  Identities=16%  Similarity=0.268  Sum_probs=34.5

Q ss_pred             cceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          177 RIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       177 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      -+..|...+ .+-....++.|.|.+|+|||||+..++...... -..++|+.
T Consensus       189 G~~~LD~~~-gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          189 GFTELDRMT-SGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             SCHHHHHHH-SSBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CcHHHHhhc-CCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            333444444 233456799999999999999999999876543 23456654

>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=95.39  E-value=0.017  Score=54.12  Aligned_cols=30  Identities=23%  Similarity=0.297  Sum_probs=25.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ....+++|+|++|+|||||++.++..++..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~  156 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNH  156 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            357899999999999999999999876543

>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=95.37  E-value=0.01  Score=51.60  Aligned_cols=27  Identities=22%  Similarity=0.225  Sum_probs=23.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+|.|.|++|+||||+++.++..+.
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            356899999999999999999998765

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.37  E-value=0.016  Score=54.79  Aligned_cols=35  Identities=26%  Similarity=0.404  Sum_probs=27.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ...+++|+|++|+|||||++.++..+... .+.+.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~-~G~V~l  190 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKNE-GTKVLM  190 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHT-TCCEEE
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhcccc-CCEEEE
Confidence            46899999999999999999999876543 333444

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.36  E-value=0.009  Score=51.34  Aligned_cols=26  Identities=27%  Similarity=0.445  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+|+|+|+.|+||||+++.+...+
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999998863

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.36  E-value=0.0077  Score=52.85  Aligned_cols=26  Identities=27%  Similarity=0.064  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...|.|.|++|+||||+++.++..+.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999998763

>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=95.35  E-value=0.028  Score=54.49  Aligned_cols=26  Identities=27%  Similarity=0.348  Sum_probs=23.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+|.|+|++|+||||+|+.++.++
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            46799999999999999999988754

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.35  E-value=0.019  Score=53.52  Aligned_cols=37  Identities=22%  Similarity=0.140  Sum_probs=28.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ...++++|+|.+|+||||++..++..+...-..+.++
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVlli  139 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIA  139 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            3568999999999999999999998776543333333

>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=95.33  E-value=0.0086  Score=52.25  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=20.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|+|.|++|+||||+|+.++.++
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            47899999999999999998764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.33  E-value=0.0032  Score=59.21  Aligned_cols=30  Identities=27%  Similarity=0.302  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      ....+.|+|++|+||||+++.++..+...|
T Consensus        23 ~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A           23 YRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            345688999999999999999998765444

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.30  E-value=0.024  Score=55.41  Aligned_cols=51  Identities=20%  Similarity=0.143  Sum_probs=35.1

Q ss_pred             ccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          176 SRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       176 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .-+..|..++. +-....++.|.|.+|+||||||.+++.....+-..++|+.
T Consensus       182 TG~~~LD~~lg-Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fS  232 (444)
T 3bgw_A          182 SGFTELDRMTY-GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  232 (444)
T ss_dssp             CSCHHHHHHHS-SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEEC
T ss_pred             CCcHHHHhhcC-CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEE
Confidence            33344444442 4445679999999999999999999987655433455554

>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=95.30  E-value=0.05  Score=52.81  Aligned_cols=29  Identities=24%  Similarity=0.281  Sum_probs=25.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+.+|.++|.+|+||||++..++..+..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            46899999999999999999999877654

>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=95.30  E-value=0.017  Score=53.71  Aligned_cols=37  Identities=24%  Similarity=0.331  Sum_probs=29.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.++|+|+|-||+||||.+..++.-+...-..+.-++
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkVllID   83 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRVLQIG   83 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CceEEEEECCCccCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            5789999999999999999999887766544455554

>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=95.30  E-value=0.023  Score=60.48  Aligned_cols=23  Identities=22%  Similarity=-0.013  Sum_probs=20.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~  213 (420)
                      ...+++|+|++|.||||+.+.++
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            46799999999999999999984

>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=95.26  E-value=0.0093  Score=51.35  Aligned_cols=25  Identities=28%  Similarity=0.264  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...|+|.|++|+||||+++.+++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3579999999999999999998876

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.25  E-value=0.15  Score=49.48  Aligned_cols=29  Identities=28%  Similarity=0.326  Sum_probs=25.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..++|.++|.+|+||||++..++..+..+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46899999999999999999999887654

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.25  E-value=0.0098  Score=50.05  Aligned_cols=27  Identities=26%  Similarity=0.358  Sum_probs=23.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ++++|+|.+|+|||||++.+...+...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~   29 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRER   29 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            589999999999999999999876543

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.24  E-value=0.0086  Score=51.31  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+++|+|++|+|||||++.++..+.
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            3689999999999999999998764

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.22  E-value=0.014  Score=59.46  Aligned_cols=27  Identities=26%  Similarity=0.266  Sum_probs=23.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +....++|+|++|.|||||++.+..-+
T Consensus       379 ~~G~~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          379 KPGQKVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             CTTCEEEEECCTTSSTTHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            356799999999999999999987643

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.20  E-value=0.0086  Score=53.78  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...|+|+|++|+||||+++.++..+.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35799999999999999999998763

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.18  E-value=0.0091  Score=52.26  Aligned_cols=24  Identities=25%  Similarity=0.192  Sum_probs=21.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..|.|.|++|+||||+|+.++..+
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.16  E-value=0.0071  Score=53.46  Aligned_cols=26  Identities=31%  Similarity=0.249  Sum_probs=17.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHH-HHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIF-NQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~-~~~  216 (420)
                      ...+++|+|++|+|||||++.++ ...
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            35689999999999999999998 654

>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=95.16  E-value=0.079  Score=53.54  Aligned_cols=28  Identities=32%  Similarity=0.335  Sum_probs=24.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+++.|+|.+|.||||++..+...+...
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~  231 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESL  231 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            4689999999999999999999876554

>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=95.13  E-value=0.021  Score=56.07  Aligned_cols=37  Identities=22%  Similarity=0.362  Sum_probs=29.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ....+++|+|.+|+|||||++.++..+... .+.+++.
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgll~~~-~G~V~l~  327 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQFEQQ-GKSVMLA  327 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEE
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHhhhc-CCeEEEe
Confidence            356899999999999999999999877543 3445554

>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=95.11  E-value=0.0093  Score=53.04  Aligned_cols=27  Identities=30%  Similarity=0.247  Sum_probs=23.1

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|+|++|+|||||.+.++.-+
T Consensus        29 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           29 KEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            346799999999999999999988643

>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=95.09  E-value=0.019  Score=52.84  Aligned_cols=28  Identities=21%  Similarity=0.242  Sum_probs=24.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|+|.+|+||||++..++..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~  131 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISML  131 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999999987753

>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=95.08  E-value=0.014  Score=54.25  Aligned_cols=27  Identities=30%  Similarity=0.254  Sum_probs=24.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+++|.|++|+|||||++.+...+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            467999999999999999999988765

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.07  E-value=0.016  Score=53.97  Aligned_cols=29  Identities=28%  Similarity=0.285  Sum_probs=24.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....+++|.|++|+|||||++.+...+..
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~ll~~  118 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKALLSR  118 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            34679999999999999999999877653

>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=95.06  E-value=0.013  Score=50.59  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      +|+|.|++|+||||+++.++..+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999988753

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.05  E-value=0.013  Score=59.45  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=22.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....++|+|++|.|||||++.+...
T Consensus       368 ~Ge~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          368 PGSLVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             TTCEEEEECSSSSSHHHHHHTTTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999999988764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.04  E-value=0.011  Score=52.62  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=22.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .. .+++|+|++|.|||||.+.++.-+
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            35 799999999999999999998754

>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=95.04  E-value=0.018  Score=52.53  Aligned_cols=28  Identities=25%  Similarity=0.288  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...++.|+|++|+|||||+..++..+..
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~~   56 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIAG   56 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            4579999999999999999999976543

>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=94.99  E-value=0.012  Score=55.71  Aligned_cols=34  Identities=29%  Similarity=0.378  Sum_probs=27.5

Q ss_pred             cccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          183 SLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       183 ~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+|..+-+...++.|+|++|+|||||+..++...
T Consensus       122 ~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          122 KLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             HHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444344457899999999999999999999876

>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=94.99  E-value=0.024  Score=47.83  Aligned_cols=27  Identities=19%  Similarity=0.363  Sum_probs=23.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .++++|.|.+|+|||||+..+...+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            568999999999999999999987654

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.93  E-value=0.0088  Score=52.77  Aligned_cols=26  Identities=27%  Similarity=0.166  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||.+.++.-+
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999988643

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.92  E-value=0.014  Score=51.25  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=21.0

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|.|.|++|+||||+|+.++..+
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            47899999999999999998876

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.91  E-value=0.011  Score=53.44  Aligned_cols=27  Identities=30%  Similarity=0.311  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|+|++|+|||||.+.++.-+
T Consensus        30 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           30 RAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356799999999999999999988643

>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=94.91  E-value=0.014  Score=50.85  Aligned_cols=23  Identities=26%  Similarity=0.198  Sum_probs=20.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|+|.|++|+||||+|+.++..+
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            37899999999999999998875

>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=94.89  E-value=0.016  Score=50.56  Aligned_cols=23  Identities=39%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999976

>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=94.88  E-value=0.016  Score=51.20  Aligned_cols=26  Identities=23%  Similarity=0.128  Sum_probs=22.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...|.|.|++|+||||+|+.++.++.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999998763

>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=94.86  E-value=0.011  Score=52.99  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=23.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|+|++|.|||||.+.++..+..
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~~p   52 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMTSG   52 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            4569999999999999999998875543

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.83  E-value=0.011  Score=60.10  Aligned_cols=26  Identities=31%  Similarity=0.289  Sum_probs=22.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +....++|+|++|.|||||++.+...
T Consensus       365 ~~G~~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          365 EKGETVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcC
Confidence            34679999999999999999988764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.82  E-value=0.01  Score=54.55  Aligned_cols=27  Identities=19%  Similarity=0.294  Sum_probs=20.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+|+|.|..|+||||+|+.+...+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            356899999999999999999988654

>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=94.82  E-value=0.012  Score=53.19  Aligned_cols=27  Identities=26%  Similarity=0.278  Sum_probs=23.3

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|+|++|+|||||++.++..+
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            356799999999999999999988643

>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=94.82  E-value=0.015  Score=52.83  Aligned_cols=61  Identities=15%  Similarity=0.140  Sum_probs=37.0

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      .-.+.+.|..++-+|+||....   .   ..+..++..+.  ..|..||++|.+.........+.++.+
T Consensus       172 Rv~iAraL~~~p~lLlLDEPts~LD~~~~~~l~~~l~~l~--~~g~tviivtHd~~~~~~~~~d~v~~l  238 (267)
T 2zu0_C          172 RNDILQMAVLEPELCILDESDSGLDIDALKVVADGVNSLR--DGKRSFIIVTHYQRILDYIKPDYVHVL  238 (267)
T ss_dssp             HHHHHHHHHHCCSEEEEESTTTTCCHHHHHHHHHHHHTTC--CSSCEEEEECSSGGGGGTSCCSEEEEE
T ss_pred             HHHHHHHHHhCCCEEEEeCCCCCCCHHHHHHHHHHHHHHH--hcCCEEEEEeeCHHHHHhhcCCEEEEE
Confidence            4455666777888999998632   2   23444444443  246779999998776544223444444

>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=94.81  E-value=0.016  Score=51.40  Aligned_cols=25  Identities=20%  Similarity=0.368  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++|.|++|+||||+++.++..+
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            3589999999999999999998876

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.80  E-value=0.016  Score=54.24  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=22.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|+|.|++|+||||||..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999998763

>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=94.80  E-value=0.053  Score=57.60  Aligned_cols=25  Identities=20%  Similarity=0.155  Sum_probs=21.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      +...+++|+|++|.|||||.+.++.
T Consensus       671 ~~g~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          671 DSERVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             TSCCEEEEESCCCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHH
Confidence            3467999999999999999998864

>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=94.79  E-value=0.016  Score=52.98  Aligned_cols=24  Identities=29%  Similarity=0.589  Sum_probs=21.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ...+|+|.|++|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999983

>1eiw_A Hypothetical protein MTH538; CHEY-like fold, flavodoxin-like fold, (A/B)5 doubly wound fold, parallel beta sheet; NMR {Methanothermobacterthermautotrophicus} SCOP: c.23.3.1

Probab=94.74  E-value=0.014  Score=45.13  Aligned_cols=54  Identities=9%  Similarity=0.101  Sum_probs=41.0

Q ss_pred             CCcccEEecCccccccCcchHHHHHHHhhCCCceeeeCCCCCCCcchHHHHHHhhhcceeEEEecccccccCC
Q 046970            9 KGRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKNYASSSG   81 (420)
Q Consensus         9 ~~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w   81 (420)
                      ..+|.+||||+.+|.    .+.|...|.+.|+. |.|              +.|+.|.++|++.+++-+.|.|
T Consensus         2 ~~~~~lFISh~~~d~----~~~L~~~l~~~~f~-~~~--------------~~I~~~~~vIvL~G~~t~~s~w   55 (111)
T 1eiw_A            2 TAEIRLYITEGEVED----YRVFLERLEQSGLE-WRP--------------ATPEDADAVIVLAGLWGTRRDE   55 (111)
T ss_dssp             CCCEEEEECCCCSHH----HHHHHHHHHHHCSC-EEE--------------CCSSSCSEEEEEGGGTTTSHHH
T ss_pred             CceEEEEEecccHhH----HHHHHHHHhCCCCe-eec--------------CccccCCEEEEEeCCCcCCChH
Confidence            357999999999982    44555555555664 333              5678999999999999889999

>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=94.73  E-value=0.015  Score=52.02  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++..+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999999999998643

>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=94.72  E-value=0.031  Score=51.40  Aligned_cols=29  Identities=28%  Similarity=0.256  Sum_probs=25.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..++++|+|.+|+||||++..++..+...
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~  125 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            45789999999999999999999877654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.72  E-value=0.016  Score=53.80  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .++.|+|++|+||||||..++.++
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999999875

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.72  E-value=0.019  Score=50.84  Aligned_cols=27  Identities=26%  Similarity=0.201  Sum_probs=23.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+|+|.|++|+||||+++.++..+
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            346789999999999999999998865

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.72  E-value=0.012  Score=51.19  Aligned_cols=24  Identities=42%  Similarity=0.182  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..+++|.|++|.|||||++.++..
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999875

>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=94.72  E-value=0.014  Score=52.68  Aligned_cols=27  Identities=37%  Similarity=0.411  Sum_probs=23.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|.|++|.|||||.+.++.-.
T Consensus        39 ~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           39 EEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            345799999999999999999998643

>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=94.71  E-value=0.06  Score=53.50  Aligned_cols=40  Identities=13%  Similarity=0.010  Sum_probs=31.2

Q ss_pred             CCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          188 GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       188 ~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      +-....++.|.|.+|+||||||.+++.....+ -..++|+.
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s  278 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM  278 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe
Confidence            34456799999999999999999999877554 33566665

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.70  E-value=0.028  Score=49.28  Aligned_cols=33  Identities=15%  Similarity=-0.166  Sum_probs=25.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      .|.+.|.||+||||+|..++.....+-..+.++
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~   40 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAG   40 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEE
Confidence            477899999999999999998875543334343

>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=94.69  E-value=0.016  Score=52.05  Aligned_cols=25  Identities=20%  Similarity=0.344  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|+|++|.|||||.+.++..
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4569999999999999999999874

>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=94.68  E-value=0.023  Score=53.81  Aligned_cols=29  Identities=31%  Similarity=0.385  Sum_probs=24.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....+|+|+|.+|+|||||+..++..+..
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~~l~~  105 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGMHLIE  105 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            35678999999999999999999887644

>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=94.67  E-value=0.043  Score=48.45  Aligned_cols=28  Identities=21%  Similarity=0.344  Sum_probs=24.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....|+|.|++|+||||+++.++..+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            4578999999999999999999998765

>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=94.66  E-value=0.013  Score=53.37  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||++.++.-+
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45699999999999999999988643

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.66  E-value=0.014  Score=66.51  Aligned_cols=47  Identities=34%  Similarity=0.374  Sum_probs=35.1

Q ss_pred             eecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |..+|. .+-...+.+.|+|++|+|||+||.+++.....+=..+.|+.
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~ 1462 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1462 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            444444 33345789999999999999999999987665545667776

>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=94.64  E-value=0.014  Score=52.07  Aligned_cols=25  Identities=40%  Similarity=0.403  Sum_probs=22.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|+|++|.|||||.+.++.-
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4569999999999999999999864

>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=94.63  E-value=0.012  Score=53.06  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++.-+
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45699999999999999999988643

>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=94.60  E-value=0.014  Score=52.93  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||++.++.-+
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45799999999999999999998643

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.59  E-value=0.034  Score=47.32  Aligned_cols=26  Identities=23%  Similarity=0.020  Sum_probs=22.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .++.|+|+.|+||||++..++.+...
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~   29 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKL   29 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57889999999999999888877643

>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=94.58  E-value=0.038  Score=49.51  Aligned_cols=27  Identities=33%  Similarity=0.377  Sum_probs=24.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...++.+.|.||+|||||+..++..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            367889999999999999999998766

>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=94.58  E-value=0.15  Score=49.55  Aligned_cols=29  Identities=28%  Similarity=0.369  Sum_probs=24.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+|+|+|.+|+||||++..++..+..+
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~~~  126 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQKR  126 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35689999999999999999999876544

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.57  E-value=0.015  Score=52.45  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||++.++..+
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45699999999999999999998754

>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=94.57  E-value=0.044  Score=47.58  Aligned_cols=109  Identities=15%  Similarity=0.020  Sum_probs=53.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc--cCCCCCchHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL--KIGTLNLPEYIKER  268 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~--~~~~~~~~~~l~~~  268 (420)
                      ...+..++|..|.||||.+...+.+...+-..++.+.-.  ...+.+..    .+.+.+.....  ....   ...+.+.
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~--~d~R~ge~----~i~s~~g~~~~a~~~~~---~~~~~~~   97 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPC--IDNRYSEE----DVVSHNGLKVKAVPVSA---SKDIFKH   97 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------------CCEEECSS---GGGGGGG
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEec--cCCcchHH----HHHhhcCCeeEEeecCC---HHHHHHH
Confidence            357889999999999999999998876554334443311  01111222    22233211111  1111   1122222


Q ss_pred             hcCCeEEEEEeCCC--CHHHHHHHhcCCCCCCCCcEEEeecCChh
Q 046970          269 LQQMKVFIVLDDVN--KPEQLIFLVGGLDRFGPRSRIIVTTRDKQ  311 (420)
Q Consensus       269 l~~~~~LlVLDdv~--~~~~l~~l~~~~~~~~~g~~IIiTtR~~~  311 (420)
                      +.++--+|++|.+.  +.++++.+....   ..+..||+|.++..
T Consensus        98 ~~~~~dvViIDEaQF~~~~~V~~l~~l~---~~~~~Vi~~Gl~~D  139 (214)
T 2j9r_A           98 ITEEMDVIAIDEVQFFDGDIVEVVQVLA---NRGYRVIVAGLDQD  139 (214)
T ss_dssp             CCSSCCEEEECCGGGSCTTHHHHHHHHH---HTTCEEEEEECSBC
T ss_pred             HhcCCCEEEEECcccCCHHHHHHHHHHh---hCCCEEEEEecccc
Confidence            33334499999872  234443332211   24678999998643

>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=94.56  E-value=0.012  Score=51.40  Aligned_cols=26  Identities=35%  Similarity=0.460  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++...
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998754

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.53  E-value=0.016  Score=52.70  Aligned_cols=60  Identities=10%  Similarity=0.126  Sum_probs=36.8

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      .-.+.+.|-.++-+|+||+...   .   ..+..++..+.. ..|..||++|.+...+..  .+.++.|
T Consensus       164 Rv~lAraL~~~p~lllLDEPts~LD~~~~~~i~~~l~~~~~-~~g~tviivtHd~~~~~~--~d~v~~l  229 (271)
T 2ixe_A          164 AVALARALIRKPRLLILDNATSALDAGNQLRVQRLLYESPE-WASRTVLLITQQLSLAER--AHHILFL  229 (271)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHCTT-TTTSEEEEECSCHHHHTT--CSEEEEE
T ss_pred             HHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHHHHh-hcCCEEEEEeCCHHHHHh--CCEEEEE
Confidence            4556677788889999998632   2   223333333321 136678999998776543  4555555

>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=94.52  E-value=0.012  Score=57.21  Aligned_cols=28  Identities=21%  Similarity=0.272  Sum_probs=23.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .+-+.++|++|+||||+|+.++..+...
T Consensus        50 ~~~iLl~GppGtGKT~lar~lA~~l~~~   77 (444)
T 1g41_A           50 PKNILMIGPTGVGKTEIARRLAKLANAP   77 (444)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            3458899999999999999999876443

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.51  E-value=0.016  Score=52.50  Aligned_cols=26  Identities=23%  Similarity=0.235  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++.-+
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999988643

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.51  E-value=0.015  Score=54.21  Aligned_cols=26  Identities=15%  Similarity=0.321  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .++|.|+|+.|+|||||+..++.++.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            46899999999999999999998753

>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=94.51  E-value=0.071  Score=46.44  Aligned_cols=28  Identities=21%  Similarity=0.213  Sum_probs=24.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...|.|.|+.|+||||+++.+.+.+...
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~   33 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER   33 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4688999999999999999999987654

>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=94.49  E-value=0.024  Score=52.20  Aligned_cols=26  Identities=19%  Similarity=0.126  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++.|.|+.|+||||||..++..+
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35689999999999999999999875

>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=94.48  E-value=0.02  Score=52.80  Aligned_cols=29  Identities=17%  Similarity=0.429  Sum_probs=24.9

Q ss_pred             CCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          188 GLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       188 ~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .-+...+++|+|++|.|||||++.+...+
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            34456799999999999999999998765

>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=94.47  E-value=0.016  Score=51.91  Aligned_cols=26  Identities=31%  Similarity=0.423  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||++.++.-+
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999988643

>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=94.46  E-value=0.019  Score=51.74  Aligned_cols=36  Identities=19%  Similarity=0.220  Sum_probs=26.9

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +..+|....+....+.|+|++|.|||.+|..+++..
T Consensus        93 l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            444555332334579999999999999999999853

>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=94.46  E-value=0.16  Score=49.47  Aligned_cols=54  Identities=20%  Similarity=0.316  Sum_probs=35.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEEeccccccccCHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFITNVREESERVGLVHLRERVLS  247 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~~~~~~~~~~~~~~l~~~ll~  247 (420)
                      ..+.++|.|.+|+|||+|+..+++.+.... +.++++ .+++.  ...+.++.+.+..
T Consensus       152 kGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~-~iGER--~rEv~e~~~~~~~  206 (482)
T 2ck3_D          152 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA-GVGER--TREGNDLYHEMIE  206 (482)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEE-EESCC--HHHHHHHHHHHHH
T ss_pred             cCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEE-ECCCc--chHHHHHHHHhhh
Confidence            456889999999999999999998764432 334443 33332  2334555555544

>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=94.46  E-value=0.022  Score=52.43  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=21.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .+|.|.|++|+||||+|+.+..+
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            57899999999999999999874

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.45  E-value=0.033  Score=48.42  Aligned_cols=29  Identities=31%  Similarity=0.353  Sum_probs=24.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ....++|+|.+|+|||||+..+.......
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~   57 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNE   57 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            35789999999999999999999876444

>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=94.44  E-value=0.044  Score=57.54  Aligned_cols=26  Identities=27%  Similarity=0.208  Sum_probs=22.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +..++++|+|++|.|||||.+.++.-
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHH
Confidence            35679999999999999999998863

>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=94.43  E-value=0.02  Score=52.85  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .++++|.|+.|+||||||..++..+
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            3588999999999999999999865

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.43  E-value=0.033  Score=48.64  Aligned_cols=28  Identities=18%  Similarity=0.311  Sum_probs=23.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...|+|+|.+|+|||||+..++......
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            5678899999999999999999875433

>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=94.41  E-value=0.018  Score=49.41  Aligned_cols=25  Identities=28%  Similarity=0.121  Sum_probs=22.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+.|.|.|++|+||||||.+++.+.
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4678999999999999999998764

>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=94.35  E-value=0.092  Score=51.49  Aligned_cols=27  Identities=33%  Similarity=0.313  Sum_probs=23.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .+.|.|.+|.|||+++..++..+....
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~   73 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTG   73 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcC
Confidence            889999999999999999998775543

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.33  E-value=0.041  Score=49.60  Aligned_cols=35  Identities=29%  Similarity=0.417  Sum_probs=27.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ++|+|.|-||+||||+|..++..+..+-..++.++
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~~VlliD   36 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVG   36 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCCcEEEEc
Confidence            57788999999999999999998765533445544

>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=94.31  E-value=0.034  Score=51.21  Aligned_cols=36  Identities=22%  Similarity=0.176  Sum_probs=28.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+++++|.+|+||||++..++..+...-..+.++.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~  133 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVG  133 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            679999999999999999999987765433344443

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.30  E-value=0.018  Score=52.56  Aligned_cols=26  Identities=23%  Similarity=0.239  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||.+.++..+
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999998653

>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=94.28  E-value=0.022  Score=48.47  Aligned_cols=25  Identities=20%  Similarity=0.282  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .-.++|+|.+|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578899999999999999998753

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.27  E-value=0.014  Score=59.57  Aligned_cols=48  Identities=23%  Similarity=0.331  Sum_probs=38.1

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...++|.+..++.+...+..+    ..+.|+|++|+||||||+.++......
T Consensus        40 l~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           40 IDQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             HHHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             cceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            356888888777777666633    488999999999999999999876443

>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=94.23  E-value=0.044  Score=50.06  Aligned_cols=36  Identities=25%  Similarity=0.426  Sum_probs=27.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .++|+|.|-||+||||+|..++..+...-..++.++
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~G~rVlliD   37 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVG   37 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEe
Confidence            367888999999999999999988765433344443

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=94.20  E-value=0.069  Score=49.76  Aligned_cols=35  Identities=31%  Similarity=0.292  Sum_probs=26.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ..++...|-||+||||+|..++..+...-..+.-+
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlv   48 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGKKTLVI   48 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEE
Confidence            46777789999999999999998776553334333

>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=94.15  E-value=0.024  Score=48.56  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=20.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -.++|+|.+|+|||||.+.+...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999999874

>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=94.12  E-value=0.049  Score=61.30  Aligned_cols=53  Identities=30%  Similarity=0.314  Sum_probs=37.5

Q ss_pred             cccceeeecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          175 NSRIRHIKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       175 ~~~l~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..-..+|..+|. .+-....++.|.|.+|+||||||.+++......-..++|+.
T Consensus       714 ~TG~~eLD~lLg~GGl~~G~lVlI~G~PG~GKTtLal~lA~~aa~~g~~VlyiS  767 (1706)
T 3cmw_A          714 STGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  767 (1706)
T ss_dssp             CCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ccCcHHHHHHhccCCcCCCceEEEECCCCCCcHHHHHHHHHHHHHcCCCeEEEe
Confidence            333444555554 33445679999999999999999999987765434566665

>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=94.09  E-value=0.53  Score=47.08  Aligned_cols=63  Identities=11%  Similarity=0.203  Sum_probs=39.8

Q ss_pred             eEEEEEeCCCCHH-----H----HHHHhcCCCCCCCCcEEEeecCChh--hhh---hcCCCeEEEeCCCCHHHHHHHHH
Q 046970          273 KVFIVLDDVNKPE-----Q----LIFLVGGLDRFGPRSRIIVTTRDKQ--VFD---ECEVDSIYEVEGLNKDESLELFS  337 (420)
Q Consensus       273 ~~LlVLDdv~~~~-----~----l~~l~~~~~~~~~g~~IIiTtR~~~--~~~---~~~~~~~~~l~~L~~~ea~~L~~  337 (420)
                      .++||+|++.+.-     .    +..+...-.  ..|.++|++|..+.  ...   .......+.+..-+..++..++-
T Consensus       344 ~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GR--a~GIhLIlaTQRPs~d~I~~~Iran~~~RI~lrv~s~~Dsr~ILd  420 (574)
T 2iut_A          344 TIVVVVDEFADMMMIVGKKVEELIARIAQKAR--AAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKIDSRTILD  420 (574)
T ss_dssp             EEEEEESCCTTHHHHTCHHHHHHHHHHHHHCT--TTTEEEEEEESCCCTTTSCHHHHHTCCEEEEECCSCHHHHHHHHS
T ss_pred             cEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHh--hCCeEEEEEecCcccccccHHHHhhhccEEEEEcCCHHHHHHhcC
Confidence            4799999997542     1    333333222  46888888887654  211   11245567788888999988874

>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=94.09  E-value=0.014  Score=56.18  Aligned_cols=49  Identities=16%  Similarity=0.188  Sum_probs=32.7

Q ss_pred             eeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhc------cccceEEEE
Q 046970          179 RHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISS------EFEGECFIT  227 (420)
Q Consensus       179 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~v~  227 (420)
                      ..|..+|..+-....++.|+|++|+|||||+..++-....      .-..++|+.
T Consensus       165 ~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid  219 (400)
T 3lda_A          165 KNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYID  219 (400)
T ss_dssp             HHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEE
T ss_pred             hhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEe
Confidence            3344455434445679999999999999999988743221      123467776

>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=94.03  E-value=0.026  Score=53.33  Aligned_cols=26  Identities=31%  Similarity=0.256  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45799999999999999999998743

>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=94.02  E-value=0.029  Score=53.51  Aligned_cols=29  Identities=31%  Similarity=0.296  Sum_probs=24.6

Q ss_pred             CCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          188 GLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       188 ~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.+...+++|+|++|.|||||++.++...
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            34456799999999999999999999754

>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=93.99  E-value=0.025  Score=52.34  Aligned_cols=26  Identities=23%  Similarity=0.314  Sum_probs=22.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....+++|+|++|.|||||++.++.-
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcC
Confidence            35679999999999999999998764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.98  E-value=0.042  Score=51.58  Aligned_cols=28  Identities=32%  Similarity=0.418  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|+|.+|+|||||.+.+...+..
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g~~~~   81 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGSLLTA   81 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            4679999999999999999999876543

>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=93.98  E-value=0.062  Score=52.59  Aligned_cols=54  Identities=22%  Similarity=0.224  Sum_probs=35.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc-cccceEEEEeccccccccCHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS-EFEGECFITNVREESERVGLVHLRERVLS  247 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~v~~~~~~~~~~~~~~l~~~ll~  247 (420)
                      ..+.++|.|.+|+|||+|+.++++.+.. +-+.++++ .+++.  .....++.+.+..
T Consensus       164 kGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~-~iGER--~rEv~e~~~~~~~  218 (498)
T 1fx0_B          164 RGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFG-GVGER--TREGNDLYMEMKE  218 (498)
T ss_dssp             TTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEE-EESCC--SHHHHHHHHHHHH
T ss_pred             cCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEE-EcccC--cHHHHHHHHhhhc
Confidence            4567899999999999999999998644 33444544 34332  2234555555543

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.96  E-value=0.076  Score=46.75  Aligned_cols=28  Identities=21%  Similarity=0.342  Sum_probs=21.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...|.|.|+.|+||||+++.+++.+...
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            4689999999999999999999987654

>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=93.95  E-value=0.083  Score=46.79  Aligned_cols=36  Identities=17%  Similarity=0.265  Sum_probs=28.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      ...|.|.|+.|+||||+++.++..+... +..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCeeeeec
Confidence            4689999999999999999999987553 44344443

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.94  E-value=0.092  Score=46.06  Aligned_cols=28  Identities=25%  Similarity=0.298  Sum_probs=25.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....|.|.|+.|+||||+++.+.+.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4678999999999999999999998765

>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=93.93  E-value=0.03  Score=52.77  Aligned_cols=26  Identities=31%  Similarity=0.208  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC
Confidence            45699999999999999999998743

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.93  E-value=0.028  Score=50.99  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=20.7

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .++|+|++|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999999754

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=93.91  E-value=0.045  Score=46.38  Aligned_cols=25  Identities=20%  Similarity=0.530  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....|+|+|.+|+|||||...+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998753

>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=93.90  E-value=0.028  Score=53.09  Aligned_cols=26  Identities=38%  Similarity=0.404  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999998643

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.89  E-value=0.035  Score=45.22  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +-|+|.|.+|+|||||+..+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45889999999999999999864

>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=93.85  E-value=0.034  Score=45.98  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ..|+|+|.+|+|||||...+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4688999999999999999976

>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=93.84  E-value=0.031  Score=52.89  Aligned_cols=53  Identities=17%  Similarity=0.271  Sum_probs=33.7

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhh
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDE  315 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~  315 (420)
                      .-.+.+.|..++-+|++|...+   .   ..+..++..+.. ..|..||++|.+......
T Consensus       171 RVaIArAL~~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~-~~g~Tii~vTHdl~~~~~  229 (366)
T 3tui_C          171 RVAIARALASNPKVLLCDQATSALDPATTRSILELLKDINR-RLGLTILLITHEMDVVKR  229 (366)
T ss_dssp             HHHHHHHTTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHH-HSCCEEEEEESCHHHHHH
T ss_pred             HHHHHHHHhcCCCEEEEECCCccCCHHHHHHHHHHHHHHHH-hCCCEEEEEecCHHHHHH
Confidence            5567778888999999998632   2   223333332211 136779999998776554

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.81  E-value=0.035  Score=49.30  Aligned_cols=26  Identities=27%  Similarity=0.304  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...|+|.|..|+||||+++.++..+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35789999999999999999998764

>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=93.77  E-value=0.032  Score=52.74  Aligned_cols=26  Identities=31%  Similarity=0.278  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            45799999999999999999998743

>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=93.76  E-value=0.032  Score=53.08  Aligned_cols=26  Identities=27%  Similarity=0.235  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            45799999999999999999998743

>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=93.75  E-value=0.025  Score=47.77  Aligned_cols=21  Identities=33%  Similarity=0.403  Sum_probs=19.0

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+|+|||||.+.+..
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            478999999999999999876

>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=93.75  E-value=0.043  Score=59.17  Aligned_cols=22  Identities=23%  Similarity=-0.029  Sum_probs=20.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~  213 (420)
                      .++++|+|++|.|||||.+.+.
T Consensus       789 g~i~~ItGpNgsGKSTlLr~iG  810 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQAG  810 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHH
Confidence            5799999999999999999983

>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=93.75  E-value=0.025  Score=49.95  Aligned_cols=26  Identities=31%  Similarity=0.147  Sum_probs=22.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....+++|.|+.|+|||||++.++..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34679999999999999999988765

>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=93.71  E-value=0.044  Score=51.56  Aligned_cols=29  Identities=28%  Similarity=0.300  Sum_probs=24.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....+++|+|.+|+|||||+..++..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~~~   82 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLLIR   82 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            35678999999999999999999876543

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.70  E-value=0.034  Score=52.69  Aligned_cols=26  Identities=27%  Similarity=0.324  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45799999999999999999998743

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.70  E-value=0.11  Score=45.30  Aligned_cols=34  Identities=24%  Similarity=0.381  Sum_probs=26.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFI  226 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v  226 (420)
                      ..|.+-|+.|+||||+++.+++.+... +..+.+.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~~v~~~   38 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   38 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCCcceee
Confidence            578999999999999999999987554 3234443

>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=93.69  E-value=0.073  Score=47.11  Aligned_cols=33  Identities=27%  Similarity=0.577  Sum_probs=25.7

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |+|.|-||+||||+|..++..+...-..++.++
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~VlliD   35 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVD   35 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEEE
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            556999999999999999998866544444554

>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=93.63  E-value=0.039  Score=52.77  Aligned_cols=25  Identities=20%  Similarity=0.466  Sum_probs=22.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|+|.|+.|+||||||..++..+.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5789999999999999999998753

>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=93.62  E-value=0.066  Score=53.37  Aligned_cols=29  Identities=14%  Similarity=0.152  Sum_probs=24.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+|.++|++|.||||+|+.++..+.-.
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~   62 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWI   62 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            35689999999999999999999876433

>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=93.60  E-value=0.034  Score=46.81  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=20.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.+|+|++|.|||||+..++.-+
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            88999999999999999987754

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.58  E-value=0.035  Score=52.42  Aligned_cols=26  Identities=35%  Similarity=0.413  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45699999999999999999998643

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.58  E-value=0.072  Score=50.23  Aligned_cols=28  Identities=29%  Similarity=0.276  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +..+|+|+|.+|+|||||...+......
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~~  100 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLTE  100 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhhh
Confidence            4678999999999999999999976543

>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=93.57  E-value=0.07  Score=51.61  Aligned_cols=29  Identities=28%  Similarity=0.256  Sum_probs=25.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+++|+|.+|+||||++..++..+...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            45789999999999999999999877654

>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=93.55  E-value=0.037  Score=52.62  Aligned_cols=25  Identities=32%  Similarity=0.292  Sum_probs=22.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+++|.|++|+|||||.+.++.-
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcC
Confidence            4579999999999999999999864

>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=93.54  E-value=0.035  Score=51.65  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++++|+|+.|.|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            46799999999999999999998653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.45  E-value=0.072  Score=52.73  Aligned_cols=29  Identities=21%  Similarity=0.272  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..++|+|+|.+|+||||++..++..+..+
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~  128 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRK  128 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            46799999999999999999999876554

>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=93.44  E-value=0.047  Score=51.83  Aligned_cols=26  Identities=19%  Similarity=0.282  Sum_probs=23.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...++|+|.+|.|||||++.++..+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999988654

>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=93.44  E-value=0.068  Score=60.21  Aligned_cols=51  Identities=31%  Similarity=0.311  Sum_probs=37.7

Q ss_pred             cceeeecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          177 RIRHIKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       177 ~l~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      -+..|..+|. .+-+..+++.|+|.+|+||||||.+++......-..++|++
T Consensus       367 Gi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis  418 (1706)
T 3cmw_A          367 GSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  418 (1706)
T ss_dssp             SCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEE
Confidence            3444555554 33445789999999999999999999987665555677776

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.44  E-value=0.042  Score=55.14  Aligned_cols=28  Identities=29%  Similarity=0.312  Sum_probs=24.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|+|++|+|||||++.++..+..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            3578999999999999999999998754

>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=93.38  E-value=0.039  Score=45.00  Aligned_cols=22  Identities=23%  Similarity=0.517  Sum_probs=19.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|++.|.+|+|||||+..+...
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            4789999999999999999864

>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=93.38  E-value=0.041  Score=45.14  Aligned_cols=23  Identities=17%  Similarity=0.280  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||+..+...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999999874

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.35  E-value=0.044  Score=48.30  Aligned_cols=24  Identities=29%  Similarity=0.260  Sum_probs=21.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      -.++|.|++|+||||+|+.++..+
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            357999999999999999998875

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.35  E-value=0.049  Score=45.54  Aligned_cols=24  Identities=29%  Similarity=0.270  Sum_probs=21.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .+-+.|.|.+|+||||||.++..+
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            467889999999999999999874

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=93.34  E-value=0.11  Score=49.03  Aligned_cols=27  Identities=30%  Similarity=0.523  Sum_probs=24.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+++.+.|-||+||||+|..++..+.
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~~la   43 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAVQLA   43 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            468999999999999999999998776

>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=93.33  E-value=0.082  Score=45.27  Aligned_cols=35  Identities=23%  Similarity=0.252  Sum_probs=26.4

Q ss_pred             eEEEEe-ccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIW-GMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~-G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ++|+|+ +-||+||||+|..++..+..+-..++.++
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD   37 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGYNIAVVD   37 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEE
Confidence            567777 67999999999999998766534455554

>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=93.32  E-value=0.04  Score=52.39  Aligned_cols=26  Identities=31%  Similarity=0.229  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            45699999999999999999998743

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.32  E-value=0.039  Score=46.44  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            356889999999999999999863

>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=93.21  E-value=0.45  Score=48.34  Aligned_cols=26  Identities=35%  Similarity=0.354  Sum_probs=22.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+.+.|.|.+|.||||++..+...+.
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l~  189 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAALI  189 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999998887654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.14  E-value=0.087  Score=60.17  Aligned_cols=57  Identities=28%  Similarity=0.287  Sum_probs=40.9

Q ss_pred             cccccccceeeecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          171 SVGVNSRIRHIKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+...-...|..+|. .+-+...++.|+|++|+||||||.+++......-..++|++
T Consensus       361 ~~~I~TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis  418 (2050)
T 3cmu_A          361 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  418 (2050)
T ss_dssp             CCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CceeeCCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3344444555666665 34445789999999999999999999988765544667776

>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=93.12  E-value=0.23  Score=55.31  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=22.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....++|+|+.|.|||||++.+...
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~~  467 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLRY  467 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTTS
T ss_pred             CCcEEEEEecCCCcHHHHHHHhccc
Confidence            4679999999999999999988764

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.10  E-value=0.043  Score=47.75  Aligned_cols=24  Identities=21%  Similarity=0.308  Sum_probs=21.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+|+|.|+.|+||||+++.+...+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            368999999999999999998865

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.09  E-value=0.16  Score=43.63  Aligned_cols=34  Identities=15%  Similarity=0.164  Sum_probs=26.7

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .|+|=|.-|+||||.++.+++.+..+-..+.+..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tr   35 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKR   35 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            3678899999999999999998876644444443

>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=93.08  E-value=0.047  Score=46.04  Aligned_cols=22  Identities=23%  Similarity=0.517  Sum_probs=19.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||||+..+...
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            5779999999999999999864

>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=93.07  E-value=0.049  Score=44.55  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .-|+|+|.+|+|||||...+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999999864

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.07  E-value=0.052  Score=46.82  Aligned_cols=25  Identities=20%  Similarity=0.129  Sum_probs=23.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|.|.|+.|+||||+++.++.++.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999999874

>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=93.05  E-value=0.12  Score=48.26  Aligned_cols=37  Identities=24%  Similarity=0.359  Sum_probs=28.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+++.+.|-||+||||+|..++..+...-..++.++
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid   51 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLS   51 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEE
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEE
Confidence            4578889999999999999999987765533444443

>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=93.04  E-value=0.05  Score=44.45  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||||...+...
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            5789999999999999998864

>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=92.96  E-value=0.092  Score=45.41  Aligned_cols=29  Identities=21%  Similarity=0.519  Sum_probs=24.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcccc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFE  221 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~  221 (420)
                      +.|+|-|.-|+||||+++.+++.+...++
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~~   31 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDYD   31 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCCC
Confidence            46889999999999999999998865544

>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=92.95  E-value=0.052  Score=44.44  Aligned_cols=22  Identities=23%  Similarity=0.487  Sum_probs=19.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||||...+...
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            4789999999999999999874

>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=92.93  E-value=0.051  Score=44.68  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>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=92.93  E-value=0.047  Score=45.56  Aligned_cols=23  Identities=26%  Similarity=0.268  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..|+|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46789999999999999999864

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.91  E-value=0.062  Score=45.41  Aligned_cols=24  Identities=21%  Similarity=0.138  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|+|.+|+|||||...+...
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            457889999999999999998864

>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=92.91  E-value=0.056  Score=44.18  Aligned_cols=21  Identities=24%  Similarity=0.216  Sum_probs=19.1

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||...+...
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            689999999999999999864

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=92.88  E-value=0.051  Score=45.26  Aligned_cols=23  Identities=17%  Similarity=0.320  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999999874

>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=92.87  E-value=0.037  Score=54.87  Aligned_cols=28  Identities=4%  Similarity=-0.060  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+|.+.|++|+||||+|+.++.++..
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3468999999999999999999998853

>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=92.86  E-value=0.15  Score=47.99  Aligned_cols=29  Identities=28%  Similarity=0.392  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...++...|-||+||||+|..++..+...
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA~~   53 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLAEK   53 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHHHS
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHHC
Confidence            45677778999999999999999876554

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=92.86  E-value=0.051  Score=45.69  Aligned_cols=24  Identities=17%  Similarity=0.105  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||+..+...
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999999874

>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=92.85  E-value=0.067  Score=44.20  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=19.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      --|+|+|.+|+|||||...+..
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCccHHHHHHHHhc
Confidence            4588999999999999999875

>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=92.84  E-value=0.099  Score=51.42  Aligned_cols=29  Identities=14%  Similarity=0.090  Sum_probs=24.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      ..+|.++|++|.||||+++.++..+...|
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~   67 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIG   67 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            45788999999999999999998765433

>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=92.83  E-value=0.055  Score=44.37  Aligned_cols=22  Identities=14%  Similarity=0.286  Sum_probs=19.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||||...+...
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            4789999999999999999864

>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=92.83  E-value=0.055  Score=44.43  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35789999999999999999874

>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=92.82  E-value=0.052  Score=44.64  Aligned_cols=21  Identities=38%  Similarity=0.545  Sum_probs=18.7

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+|+|||||...+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999999863

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=92.81  E-value=0.054  Score=45.72  Aligned_cols=23  Identities=26%  Similarity=0.270  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||+..+...
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999988864

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.77  E-value=0.055  Score=50.97  Aligned_cols=28  Identities=36%  Similarity=0.519  Sum_probs=24.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+++|.|.+|+|||||.+.++.....
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            4679999999999999999999987644

>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=92.75  E-value=0.11  Score=50.30  Aligned_cols=29  Identities=28%  Similarity=0.268  Sum_probs=25.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+++|+|+.|.|||||.+.+...+...
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            45689999999999999999999876543

>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=92.74  E-value=0.12  Score=49.17  Aligned_cols=38  Identities=18%  Similarity=0.179  Sum_probs=28.6

Q ss_pred             CCceEEEEec-cCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWG-MGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G-~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...++|+|+| -||+||||+|..++..+...-..++.++
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD  179 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLN  179 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEE
Confidence            3567888875 8999999999999988766533455554

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=92.72  E-value=0.08  Score=43.93  Aligned_cols=25  Identities=20%  Similarity=0.402  Sum_probs=21.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...-|+|+|.+|+|||||...+...
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999999875

>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=92.70  E-value=0.058  Score=44.72  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            345789999999999999999864

>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=92.68  E-value=0.2  Score=48.48  Aligned_cols=89  Identities=11%  Similarity=0.051  Sum_probs=48.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcccc---ceEEEEeccccccccCHHHHHHHHHHHHhhccc----cCCCCCc---
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFE---GECFITNVREESERVGLVHLRERVLSEILEENL----KIGTLNL---  261 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~---~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~----~~~~~~~---  261 (420)
                      .+.++|.|.+|+|||+|+.++++....+.+   ..+.+..+++.  ...+.++.+.+...=.....    ...+...   
T Consensus       151 GQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR--~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r  228 (465)
T 3vr4_D          151 GQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGIT--FEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIER  228 (465)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEEC--HHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHH
T ss_pred             CCEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCC--cHHHHHHHHHHhhcCCccceEEEEECCCCCHHHH
Confidence            456789999999999999999887654222   23333333322  23344555554332101111    1111111   


Q ss_pred             ------hHHHHHHhc---CCeEEEEEeCCC
Q 046970          262 ------PEYIKERLQ---QMKVFIVLDDVN  282 (420)
Q Consensus       262 ------~~~l~~~l~---~~~~LlVLDdv~  282 (420)
                            .-.+.++++   ++.+||++||+.
T Consensus       229 ~~a~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          229 IATPRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence                  123455554   579999999983

>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=92.68  E-value=0.059  Score=44.84  Aligned_cols=24  Identities=33%  Similarity=0.415  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999998874

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.67  E-value=0.07  Score=44.26  Aligned_cols=25  Identities=36%  Similarity=0.316  Sum_probs=21.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....|+|+|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457889999999999999999763

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.63  E-value=0.07  Score=46.16  Aligned_cols=26  Identities=19%  Similarity=0.069  Sum_probs=22.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....|+|+|.+|+|||||+..+....
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578899999999999999998753

>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=92.63  E-value=0.051  Score=44.53  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=18.5

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+|+|||||...+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998864

>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=92.62  E-value=0.061  Score=44.09  Aligned_cols=23  Identities=13%  Similarity=0.215  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999999863

>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=92.62  E-value=0.058  Score=44.28  Aligned_cols=23  Identities=17%  Similarity=0.294  Sum_probs=20.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35789999999999999999863

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.62  E-value=0.057  Score=44.37  Aligned_cols=21  Identities=29%  Similarity=0.670  Sum_probs=19.1

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+|+|||||...+..
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            478999999999999999986

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=92.61  E-value=0.06  Score=45.80  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=19.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      --|+|+|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999999885

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=92.57  E-value=0.062  Score=45.42  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhC
Confidence            45789999999999999998874

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=92.55  E-value=0.059  Score=45.70  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..|+|+|.+|+|||||...+...
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            36789999999999999999873

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=92.50  E-value=0.068  Score=44.87  Aligned_cols=25  Identities=20%  Similarity=0.267  Sum_probs=21.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...-|+|+|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999988754

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=92.47  E-value=0.063  Score=45.35  Aligned_cols=27  Identities=26%  Similarity=0.254  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .--|+|+|.+|+|||||.+.+......
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~~~   40 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKVPE   40 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhccc
Confidence            345789999999999999766655433

>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=92.47  E-value=0.04  Score=47.42  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=21.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ....++|+|.+|+|||||.+.+..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999998764

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=92.47  E-value=0.065  Score=44.40  Aligned_cols=24  Identities=21%  Similarity=0.187  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999999874

>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=92.45  E-value=0.022  Score=54.92  Aligned_cols=24  Identities=25%  Similarity=0.382  Sum_probs=21.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ...+++|+|.+|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            456899999999999999999987

>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=92.44  E-value=0.032  Score=50.27  Aligned_cols=27  Identities=22%  Similarity=0.277  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ....|+|.|..|+||||+++.+++.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999998887653

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=92.44  E-value=0.067  Score=44.01  Aligned_cols=24  Identities=29%  Similarity=0.228  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999999763

>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=92.39  E-value=0.074  Score=59.22  Aligned_cols=25  Identities=20%  Similarity=0.235  Sum_probs=22.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ....|+|+|..|.|||||++.+..-
T Consensus      1104 ~Ge~vaIVG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1104 PGQTLALVGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             TTCEEEEECSTTSSTTSHHHHHTTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcC
Confidence            4578999999999999999988764

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=92.37  E-value=0.067  Score=44.97  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            446789999999999999999873

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=92.35  E-value=0.092  Score=58.27  Aligned_cols=132  Identities=17%  Similarity=0.188  Sum_probs=0.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHH------------------------
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERV------------------------  245 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~l------------------------  245 (420)
                      +....++|+|+.|.|||||++.+...+... .+.+.+++.  .-...+...+.+.+                        
T Consensus       414 ~~G~~~~ivG~sGsGKSTl~~ll~g~~~~~-~G~i~i~g~--~i~~~~~~~~r~~i~~v~Q~~~l~~~ti~eNi~~g~~~  490 (1284)
T 3g5u_A          414 KSGQTVALVGNSGCGKSTTVQLMQRLYDPL-DGMVSIDGQ--DIRTINVRYLREIIGVVSQEPVLFATTIAENIRYGRED  490 (1284)
T ss_dssp             CTTCEEEEECCSSSSHHHHHHHTTTSSCCS-EEEEEETTE--EGGGSCHHHHHHHEEEECSSCCCCSSCHHHHHHHHCSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCC-CeEEEECCE--EHHhCCHHHHHhheEEEcCCCccCCccHHHHHhcCCCC


Q ss_pred             ------------------HHHHhhccc--------cCCCCCc-hHHHHHHhcCCeEEEEEeCC---CCHHHHHHHhcCCC
Q 046970          246 ------------------LSEILEENL--------KIGTLNL-PEYIKERLQQMKVFIVLDDV---NKPEQLIFLVGGLD  295 (420)
Q Consensus       246 ------------------l~~l~~~~~--------~~~~~~~-~~~l~~~l~~~~~LlVLDdv---~~~~~l~~l~~~~~  295 (420)
                                        +..+.....        .....+. .-.+.+.+-.++-+|+||+.   -+.+.-..+...+.
T Consensus       491 ~~~~~~~~~~~~~~~~~~i~~l~~g~~t~~~~~g~~LSgGq~QriaiARal~~~p~iliLDEpts~LD~~~~~~i~~~l~  570 (1284)
T 3g5u_A          491 VTMDEIEKAVKEANAYDFIMKLPHQFDTLVGERGAQLSGGQKQRIAIARALVRNPKILLLDEATSALDTESEAVVQAALD  570 (1284)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHSTTGGGCCCSSSSCSSCHHHHHHHHHHHHHHHCCSEEEEESTTCSSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHhCcHHHHHhccccccccccCCCCccCHHHHHHHHHHHHHhcCCCEEEEECCCCCCCHHHHHHHHHHHH


Q ss_pred             CCCCCcEEEeecCChhhhhhcCCCeEEEeCC
Q 046970          296 RFGPRSRIIVTTRDKQVFDECEVDSIYEVEG  326 (420)
Q Consensus       296 ~~~~g~~IIiTtR~~~~~~~~~~~~~~~l~~  326 (420)
                      ....|..+|+.|++......  .+.++.++.
T Consensus       571 ~~~~~~t~i~itH~l~~i~~--~d~i~vl~~  599 (1284)
T 3g5u_A          571 KAREGRTTIVIAHRLSTVRN--ADVIAGFDG  599 (1284)
T ss_dssp             HHHTTSEEEEECSCHHHHTT--CSEEEECSS
T ss_pred             HHcCCCEEEEEecCHHHHHc--CCEEEEEEC

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.33  E-value=0.06  Score=44.69  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998853

>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=92.32  E-value=0.09  Score=53.36  Aligned_cols=27  Identities=30%  Similarity=0.258  Sum_probs=24.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...+|.|.|++|+||||+|+.+.+.+.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            457899999999999999999999874

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=92.30  E-value=0.07  Score=44.59  Aligned_cols=24  Identities=25%  Similarity=0.456  Sum_probs=20.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            446789999999999999999864

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=92.29  E-value=0.07  Score=44.72  Aligned_cols=22  Identities=18%  Similarity=0.419  Sum_probs=19.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||||...+...
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5789999999999999999864

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=92.28  E-value=0.07  Score=45.12  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            346889999999999999999874

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=92.22  E-value=0.073  Score=44.48  Aligned_cols=23  Identities=22%  Similarity=0.205  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+.+.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999998863

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=92.17  E-value=0.074  Score=44.41  Aligned_cols=24  Identities=25%  Similarity=0.457  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            346789999999999999999864

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=92.17  E-value=0.16  Score=44.73  Aligned_cols=37  Identities=22%  Similarity=0.190  Sum_probs=27.3

Q ss_pred             CceEEEEe-ccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          191 DFRIVGIW-GMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~-G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      ..++|+|+ +-||+||||+|..++..+... -..++.++
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   41 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVD   41 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEE
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEE
Confidence            35677777 559999999999999988765 33444444

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.16  E-value=0.066  Score=44.98  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=19.5

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||||...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998863

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=92.15  E-value=0.072  Score=44.14  Aligned_cols=23  Identities=17%  Similarity=0.234  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999999863

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=92.13  E-value=0.072  Score=44.61  Aligned_cols=24  Identities=17%  Similarity=0.266  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999999864

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=92.13  E-value=0.076  Score=44.23  Aligned_cols=23  Identities=22%  Similarity=0.157  Sum_probs=19.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35779999999999999998864

>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=92.09  E-value=0.092  Score=52.95  Aligned_cols=28  Identities=18%  Similarity=0.094  Sum_probs=24.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...+|.|.|++|+||||+|+.+..++..
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~~  422 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLNQ  422 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhcc
Confidence            3578999999999999999999988753

>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=92.09  E-value=0.11  Score=51.92  Aligned_cols=37  Identities=32%  Similarity=0.269  Sum_probs=26.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHH-HHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIF-NQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~-~~~~~~f~~~~~v~  227 (420)
                      ...+++|.|++|+|||||++.++ .-+...-.+.+++.
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~   75 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   75 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            46799999999999999999953 32222124567775

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.08  E-value=0.076  Score=45.10  Aligned_cols=24  Identities=21%  Similarity=0.447  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999999874

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=92.08  E-value=0.056  Score=46.13  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=19.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~  213 (420)
                      .--|+|+|.+|+|||||...+.
T Consensus        23 ~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           23 IFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHTC
T ss_pred             EEEEEEECCCCCCHHHHHHHHH
Confidence            4568899999999999999885

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=92.07  E-value=0.076  Score=44.17  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=92.07  E-value=0.074  Score=44.34  Aligned_cols=24  Identities=21%  Similarity=0.380  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            356889999999999999999853

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.06  E-value=0.078  Score=44.83  Aligned_cols=23  Identities=26%  Similarity=0.241  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            35789999999999999999875

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=92.06  E-value=0.078  Score=44.06  Aligned_cols=24  Identities=25%  Similarity=0.193  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            346789999999999999999864

>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=92.04  E-value=0.09  Score=42.89  Aligned_cols=25  Identities=32%  Similarity=0.364  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+.+|+|+.|.|||||..+++--+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999999887543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.03  E-value=0.079  Score=43.96  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=20.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .--|+|+|.+|+|||||...+..
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999999875

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.00  E-value=0.083  Score=44.51  Aligned_cols=24  Identities=29%  Similarity=0.495  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|+|.+|+|||||...+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            457889999999999999999864

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.98  E-value=0.079  Score=44.88  Aligned_cols=24  Identities=13%  Similarity=0.166  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999999875

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=91.96  E-value=0.066  Score=52.47  Aligned_cols=26  Identities=23%  Similarity=0.188  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|+.|+|||||++.++...
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            35689999999999999999998854

>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=91.94  E-value=0.077  Score=48.95  Aligned_cols=24  Identities=21%  Similarity=0.195  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+++|.|++|+|||||.+.+. ..
T Consensus       165 G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          165 GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            3589999999999999999998 53

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=91.92  E-value=0.064  Score=49.44  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.4

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+|+|||||.+.++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            358999999999999999764

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=91.91  E-value=0.081  Score=45.10  Aligned_cols=24  Identities=25%  Similarity=0.457  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999998864

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=91.90  E-value=0.078  Score=45.53  Aligned_cols=24  Identities=21%  Similarity=0.320  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||+..+...
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            346789999999999999998864

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=91.89  E-value=0.12  Score=44.32  Aligned_cols=26  Identities=15%  Similarity=0.114  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+|+|+|++|+||+|+|..+.+.+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHc
Confidence            46799999999999999999887654

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=91.89  E-value=0.064  Score=45.85  Aligned_cols=22  Identities=23%  Similarity=0.305  Sum_probs=19.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .-|+|+|.+|+|||||...+..
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999999874

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=91.87  E-value=0.079  Score=45.63  Aligned_cols=24  Identities=17%  Similarity=0.105  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||+..+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999999874

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=91.86  E-value=0.084  Score=44.52  Aligned_cols=23  Identities=30%  Similarity=0.336  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999999864

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.85  E-value=0.065  Score=50.82  Aligned_cols=37  Identities=27%  Similarity=0.267  Sum_probs=28.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEe
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITN  228 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~  228 (420)
                      ....++|+|+.|.|||||++.+...+.. -.+.+.+.+
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~~-~~g~I~ie~  210 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIPF-DQRLITIED  210 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSCT-TSCEEEEES
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCCC-CceEEEECC
Confidence            3468999999999999999999886543 245566653

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=91.84  E-value=0.16  Score=45.41  Aligned_cols=37  Identities=22%  Similarity=0.235  Sum_probs=27.5

Q ss_pred             CceEEEEe-ccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIW-GMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~-G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..++|+|+ +-||+||||+|..++..+...-..++.++
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g~~VlliD   42 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARLGKRVLLVD   42 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHCCCCEEEEE
Confidence            35678887 67999999999999998765533444444

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=91.82  E-value=0.081  Score=52.98  Aligned_cols=26  Identities=35%  Similarity=0.475  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||++.++..+
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999998643

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=91.82  E-value=0.085  Score=44.65  Aligned_cols=23  Identities=26%  Similarity=0.268  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            45789999999999999999874

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=91.79  E-value=0.082  Score=45.15  Aligned_cols=24  Identities=33%  Similarity=0.490  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            446889999999999999999874

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=91.78  E-value=0.087  Score=44.39  Aligned_cols=24  Identities=21%  Similarity=0.236  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            346889999999999999999874

>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=91.78  E-value=0.17  Score=44.98  Aligned_cols=35  Identities=34%  Similarity=0.487  Sum_probs=25.3

Q ss_pred             eEEEEe-ccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIW-GMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~-G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ++|+|+ +-||+||||+|..++..+..+-..++.++
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD   38 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVID   38 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCcEEEEE
Confidence            466665 56899999999999998765433444444

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=91.78  E-value=0.081  Score=45.98  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      --|+|+|.+|+|||||...+..
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4588999999999999999873

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=91.77  E-value=0.086  Score=45.45  Aligned_cols=24  Identities=25%  Similarity=0.217  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346789999999999999999874

>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=91.77  E-value=0.77  Score=40.20  Aligned_cols=107  Identities=15%  Similarity=0.012  Sum_probs=52.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcC
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQ  271 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~  271 (420)
                      ..+..++|.-|.||||-+...+.+...+-..++.+.-.  ...+.+ ..+...+-  +............   +.+.. +
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~--~D~Ryg-~~i~sr~G--~~~~a~~i~~~~d---i~~~~-~   89 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYA--KDTRYS-SSFCTHDR--NTMEALPACLLRD---VAQEA-L   89 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEET--TCCCC--------------CEEEEESSGGG---GHHHH-T
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeec--CCccch-HHHHhhcC--CeeEEEecCCHHH---HHHHh-c
Confidence            56889999999999998888887765543333333311  112223 33333331  1111111221111   22222 3


Q ss_pred             CeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCC
Q 046970          272 MKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRD  309 (420)
Q Consensus       272 ~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~  309 (420)
                      +--+|++|.+.-...+.++...+.  ..|..||+|.++
T Consensus        90 ~~dvViIDEaQF~~~v~el~~~l~--~~gi~VI~~GL~  125 (234)
T 2orv_A           90 GVAVIGIDEGQFFPDIVEFCEAMA--NAGKTVIVAALD  125 (234)
T ss_dssp             TCSEEEESSGGGCTTHHHHHHHHH--HTTCEEEEECCS
T ss_pred             cCCEEEEEchhhhhhHHHHHHHHH--hCCCEEEEEecc
Confidence            334999998721111333333322  156789999998

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=91.77  E-value=0.083  Score=44.74  Aligned_cols=23  Identities=22%  Similarity=0.370  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35789999999999999999874

>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=91.77  E-value=0.083  Score=49.83  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=21.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+++|+|++|+|||||.+.+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            589999999999999999987644

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=91.77  E-value=0.11  Score=44.43  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            456889999999999999999874

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=91.70  E-value=0.09  Score=44.43  Aligned_cols=23  Identities=22%  Similarity=0.190  Sum_probs=20.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            45789999999999999999863

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=91.70  E-value=0.1  Score=45.78  Aligned_cols=26  Identities=15%  Similarity=0.109  Sum_probs=23.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+|.|.|+.|+||||+|+.++.++.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998763

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=91.66  E-value=0.35  Score=57.09  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+.+.++|++|+|||+||+.+....
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~ 1291 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNS 1291 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcC
Confidence            3678899999999999998877653

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.66  E-value=0.091  Score=44.39  Aligned_cols=24  Identities=17%  Similarity=0.241  Sum_probs=21.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            446889999999999999999874

>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=91.66  E-value=0.077  Score=51.25  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=21.0

Q ss_pred             CceE--EEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRI--VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~v--v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...+  ++|+|.+|+|||||.+.++..
T Consensus        39 ~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           39 QGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             -CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            3446  999999999999999999863

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=91.63  E-value=0.1  Score=44.72  Aligned_cols=24  Identities=21%  Similarity=0.164  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            346789999999999999998863

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=91.63  E-value=0.086  Score=51.32  Aligned_cols=38  Identities=13%  Similarity=0.212  Sum_probs=28.3

Q ss_pred             CCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          189 LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       189 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      -.....++|.|.+|+|||||++.++...... .+.+.+.
T Consensus       154 i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~~-~G~i~~~  191 (438)
T 2dpy_A          154 VGRGQRMGLFAGSGVGKSVLLGMMARYTRAD-VIVVGLI  191 (438)
T ss_dssp             CBTTCEEEEEECTTSSHHHHHHHHHHHSCCS-EEEEEEE
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHhcccCCC-eEEEEEe
Confidence            3456799999999999999999999876432 2344443

>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=91.62  E-value=0.092  Score=44.22  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            346889999999999999998863

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.62  E-value=0.088  Score=44.61  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            346789999999999999999873

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=91.59  E-value=0.097  Score=48.20  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=21.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            458999999999999999999864

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=91.55  E-value=0.094  Score=45.76  Aligned_cols=22  Identities=18%  Similarity=0.293  Sum_probs=19.0

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3678999999999999998763

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=91.55  E-value=0.094  Score=44.66  Aligned_cols=24  Identities=17%  Similarity=0.258  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            456889999999999999999863

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=91.55  E-value=0.25  Score=46.06  Aligned_cols=36  Identities=28%  Similarity=0.353  Sum_probs=27.0

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ..+++...|-||+||||+|..++..+...-..+..+
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllv   53 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLI   53 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEE
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEE
Confidence            356777889999999999999998876553334443

>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=91.54  E-value=0.062  Score=49.61  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=20.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..+++|.|++|+|||||.+.+...
T Consensus       173 G~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          173 DKTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CCEEEEECCCCCCHHHHHHHhccc
Confidence            358999999999999999988643

>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=91.53  E-value=0.57  Score=46.30  Aligned_cols=25  Identities=16%  Similarity=0.185  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+.|.|..|.|||++++.+...+
T Consensus       167 ~pHlLIaG~TGSGKSt~L~~li~sL  191 (512)
T 2ius_A          167 MPHLLVAGTTGSGASVGVNAMILSM  191 (512)
T ss_dssp             SCSEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999987654

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=91.52  E-value=0.096  Score=44.13  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46789999999999999999874

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=91.51  E-value=0.12  Score=45.03  Aligned_cols=27  Identities=22%  Similarity=0.403  Sum_probs=24.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ...|.+-|+.|+||||+++.+++.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            468999999999999999999998765

>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=91.47  E-value=0.21  Score=47.41  Aligned_cols=35  Identities=20%  Similarity=0.200  Sum_probs=27.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +++.+.|-||+||||+|..++..+...-..+..++
T Consensus         3 ~i~~~~gkGG~GKTt~a~~la~~la~~g~~vllvd   37 (374)
T 3igf_A            3 LILTFLGKSGVARTKIAIAAAKLLASQGKRVLLAG   37 (374)
T ss_dssp             EEEEEECSBHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHHCCCCeEEEe
Confidence            57888999999999999999987765544455555

>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=91.43  E-value=0.34  Score=47.14  Aligned_cols=89  Identities=15%  Similarity=0.049  Sum_probs=49.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc---cceEEEEeccccccccCHHHHHHHHHHHHhhccc----cCCCCCc--
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF---EGECFITNVREESERVGLVHLRERVLSEILEENL----KIGTLNL--  261 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f---~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~----~~~~~~~--  261 (420)
                      ..+.++|.|.+|+|||+|+..+++....+.   +.++.+..+++.  ...+.++.+.+...-.....    ...+...  
T Consensus       151 rGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER--~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~  228 (469)
T 2c61_A          151 RGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGIT--NEEAQYFMSDFEKTGALERAVVFLNLADDPAVE  228 (469)
T ss_dssp             TTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEEC--HHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCC--cHHHHHHHHHHHhccCccceEEEEECCCCCHHH
Confidence            356778999999999999999998754322   123333333322  22345555555432111111    1111111  


Q ss_pred             -------hHHHHHHhc---CCeEEEEEeCC
Q 046970          262 -------PEYIKERLQ---QMKVFIVLDDV  281 (420)
Q Consensus       262 -------~~~l~~~l~---~~~~LlVLDdv  281 (420)
                             .-.+.++++   ++.+||++||+
T Consensus       229 r~~~~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          229 RIVTPRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence                   123344444   58999999996

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=91.40  E-value=0.035  Score=56.42  Aligned_cols=48  Identities=19%  Similarity=0.072  Sum_probs=32.5

Q ss_pred             CCcccccccceeeecccccCCC---------CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLP---------DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~---------~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.++|.+...+.+...|..+..         ....+.|+|++|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            5578887755555444432210         01158899999999999999998754

>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=91.38  E-value=0.27  Score=48.25  Aligned_cols=88  Identities=17%  Similarity=0.125  Sum_probs=46.7

Q ss_pred             CceEEEEeccCcchHHHHHH-HHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc----cCCCCCc----
Q 046970          191 DFRIVGIWGMGGIGKTTFAG-AIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL----KIGTLNL----  261 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~-~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~----~~~~~~~----  261 (420)
                      ..+.++|.|.+|+|||+||. .+++...  -+..+.+..+++.  ...+.++.+.+...=.....    ...+...    
T Consensus       174 rGQR~~I~g~~g~GKT~Lal~~I~~~~~--~dv~~V~~~IGeR--~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~  249 (515)
T 2r9v_A          174 RGQRELIIGDRQTGKTAIAIDTIINQKG--QGVYCIYVAIGQK--KSAIARIIDKLRQYGAMEYTTVVVASASDPASLQY  249 (515)
T ss_dssp             TTCBEEEEEETTSSHHHHHHHHHHTTTT--TTEEEEEEEESCC--HHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHH
T ss_pred             cCCEEEEEcCCCCCccHHHHHHHHHhhc--CCcEEEEEEcCCC--cHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHH
Confidence            35678999999999999965 5555542  3434344334332  22344455554432111111    1111111    


Q ss_pred             -----hHHHHHHh--cCCeEEEEEeCCC
Q 046970          262 -----PEYIKERL--QQMKVFIVLDDVN  282 (420)
Q Consensus       262 -----~~~l~~~l--~~~~~LlVLDdv~  282 (420)
                           .-.+.+++  .++.+|+++||+.
T Consensus       250 ~a~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          250 IAPYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHcCCcEEEEeccHH
Confidence                 11233444  3579999999983

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=91.35  E-value=0.096  Score=44.67  Aligned_cols=23  Identities=26%  Similarity=0.260  Sum_probs=20.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      --|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999998864

>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=91.28  E-value=0.1  Score=51.30  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=22.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+++|+|++|+|||||.+.++.-.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCC
Confidence            799999999999999999998754

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=91.24  E-value=0.1  Score=44.67  Aligned_cols=24  Identities=17%  Similarity=0.245  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999999864

>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=91.21  E-value=0.21  Score=50.54  Aligned_cols=37  Identities=19%  Similarity=0.205  Sum_probs=28.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+++.+.|.||+||||+|..++..+...-..+..++
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlvd   43 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4578889999999999999999987765533444443

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=91.18  E-value=0.086  Score=52.75  Aligned_cols=26  Identities=50%  Similarity=0.788  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|+|||||++.++...
T Consensus       293 ~Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          293 EGEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45699999999999999999998754

>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=91.14  E-value=0.19  Score=43.67  Aligned_cols=34  Identities=15%  Similarity=0.038  Sum_probs=24.7

Q ss_pred             eEEEEecc-CcchHHHHHHHHHHHhhccccceEEE
Q 046970          193 RIVGIWGM-GGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       193 ~vv~I~G~-gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      +++.|.|. ||+||||++..++..+..+-..+..+
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~~G~rVll~   36 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGY   36 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence            46777775 89999999999998776553333333

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.14  E-value=0.28  Score=48.03  Aligned_cols=88  Identities=18%  Similarity=0.118  Sum_probs=46.4

Q ss_pred             CceEEEEeccCcchHHHHHH-HHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccc----cCCCCCc----
Q 046970          191 DFRIVGIWGMGGIGKTTFAG-AIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENL----KIGTLNL----  261 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~-~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~----~~~~~~~----  261 (420)
                      ..+.++|.|.+|+|||+||. .+++..  +-+..+.+..+++.  ...+.++.+.+...-.....    ...+...    
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~~~--~~dv~~V~~~iGeR--~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~  236 (502)
T 2qe7_A          161 RGQRELIIGDRQTGKTTIAIDTIINQK--GQDVICIYVAIGQK--QSTVAGVVETLRQHDALDYTIVVTASASEPAPLLY  236 (502)
T ss_dssp             TTCBCEEEECSSSCHHHHHHHHHHGGG--SCSEEEEEEEESCC--HHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHH
T ss_pred             cCCEEEEECCCCCCchHHHHHHHHHhh--cCCcEEEEEECCCc--chHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHH
Confidence            45678999999999999965 555544  23434344434332  22344444444331100100    1111111    


Q ss_pred             -----hHHHHHHhc--CCeEEEEEeCCC
Q 046970          262 -----PEYIKERLQ--QMKVFIVLDDVN  282 (420)
Q Consensus       262 -----~~~l~~~l~--~~~~LlVLDdv~  282 (420)
                           .-.+.++++  ++.+|+++||+.
T Consensus       237 ~a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          237 LAPYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             HHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence                 112344443  579999999983

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=91.13  E-value=0.072  Score=44.48  Aligned_cols=23  Identities=30%  Similarity=0.237  Sum_probs=19.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ..-|+|+|.+|+|||||...+..
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            45688999999999999988764

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.08  E-value=0.11  Score=44.31  Aligned_cols=24  Identities=21%  Similarity=0.188  Sum_probs=19.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999998853

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=91.08  E-value=0.11  Score=44.53  Aligned_cols=24  Identities=17%  Similarity=0.296  Sum_probs=20.7

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356889999999999999999863

---

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	420
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	5e-32
d1fyva_	161	c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (H	6e-12
d1fyxa_	149	c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (H	1e-11
d1v5wa_	258	c.37.1.11 (A:) Meiotic recombination protein DMC1/	0.003

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  120 bits (302), Expect = 5e-32
 Identities = 39/241 (16%), Positives = 83/241 (34%), Gaps = 23/241 (9%)

Query: 157 KKLKDKLLSRDFTGSVGVNSRIRH----IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAI 212
           + L  KLL  +    +    R  H    IK L  +   D   + + G  G GK+  A   
Sbjct: 5   QMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQA 64

Query: 213 FNQ----ISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLN-------L 261
            ++    I   ++   ++ +     +    +     ++ +  ++ L   ++         
Sbjct: 65  LSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLK 124

Query: 262 PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVD-S 320
                  + +     V DDV + E + +          R R +VTTRD ++ +       
Sbjct: 125 RMICNALIDRPNTLFVFDDVVQEETIRWA------QELRLRCLVTTRDVEISNAASQTCE 178

Query: 321 IYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSV 380
             EV  L  DE  +    +        +    +  + ++ ++GNP  L +       K+ 
Sbjct: 179 FIEVTSLEIDECYDFLEAYGMPM-PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF 237

Query: 381 K 381
           +
Sbjct: 238 E 238

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]} Length = 161

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.3 bits (148), Expect = 6e-12
 Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 2/89 (2%)

Query: 11 RYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISI 69
          ++  F+S+ G D+     + L   L ++ ++I + E     G  I   ++  IE S  SI
Sbjct: 12 QFHAFISYSGHDSF-WVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSI 70

Query: 70 VIFSKNYASSSGAWMNFFLSCSSSDVRNQ 98
           + S N+  S       + +  +      
Sbjct: 71 FVLSPNFVQSEWCHYELYFAHHNLFHEGS 99

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.1 bits (145), Expect = 1e-11
 Identities = 16/82 (19%), Positives = 33/82 (40%), Gaps = 4/82 (4%)

Query: 12 YDVFLSFRGEDTRDNFTSHLFAAL--RQKRIKIFIDE-EANRGDEISLALLNAIEGSKIS 68
          YD F+S+   D      + +   L       K+ + + +   G  I   ++++IE S  +
Sbjct: 6  YDAFVSYSERD-AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKT 64

Query: 69 IVIFSKNYASSSGAWMNFFLSC 90
          + + S+N+  S         S 
Sbjct: 65 VFVLSENFVKSEWCKYELDFSH 86

>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 = 37.0 bits (84), Expect = 0.003
 Identities = 14/86 (16%), Positives = 24/86 (27%), Gaps = 7/86 (8%)

Query: 169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITN 228
           TGS   +        LL  G+    I   +G    GKT  +  +         G      
Sbjct: 21  TGSQEFDK-------LLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGK 73

Query: 229 VREESERVGLVHLRERVLSEILEENL 254
           +            R R +++    + 
Sbjct: 74  IIFIDTENTFRPDRLRDIADRFNVDH 99

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	420
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d1fyva_	161	Toll-like receptor 1, TLR1 {Human (Homo sapiens) [	99.67
d1fyxa_	149	Toll-like receptor 2, TLR2 {Human (Homo sapiens) [	99.6
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.41
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.89
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.88
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.85
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.84
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.82
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.82
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.8
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.79
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.78
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.75
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.56
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.53
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.52
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.48
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.48
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.48
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.46
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.43
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.41
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.35
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.32
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.6
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.44
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.41
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.34
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.33
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.3
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.26
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.25
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.21
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.2
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.14
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.13
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.11
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.08
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.06
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.03
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.02
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.02
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.0
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.99
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.96
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.94
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.92
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.9
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.9
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.9
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.89
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.89
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.86
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.85
d1okkd2	207	GTPase domain of the signal recognition particle r	96.81
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.81
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.8
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.8
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.79
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.79
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.78
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.76
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.73
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.71
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.67
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.64
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.63
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.56
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.56
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.55
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.45
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.44
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.43
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.32
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.31
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.3
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.28
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.27
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.26
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.13
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.1
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.07
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.03
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.02
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.02
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.99
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.98
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.96
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.93
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.89
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.84
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.82
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.8
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.8
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.79
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.76
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.71
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.69
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.63
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.62
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.58
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.48
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.48
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.46
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.41
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.38
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.27
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.26
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.22
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.17
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.16
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.15
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.09
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.09
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.09
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.09
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.04
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.94
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.9
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.89
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.82
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.82
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.82
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.79
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.75
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.72
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.67
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.64
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.6
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.57
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.56
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.39
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.3
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.24
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.11
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.06
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.97
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.95
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.94
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.91
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.9
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.83
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.79
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.73
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.7
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.63
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.62
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.61
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.61
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.6
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.6
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.58
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.55
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.52
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.5
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.5
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.49
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.49
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.48
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.48
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.46
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.44
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.43
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.38
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.36
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.34
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.32
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.27
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.24
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.23
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.22
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.15
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.13
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.13
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.09
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.06
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.0
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.98
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.97
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.93
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.92
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.9
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.76
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.75
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	92.74
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.73
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.71
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.69
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.65
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.62
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.6
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.54
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.52
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.44
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.44
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.43
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.38
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.38
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.34
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.32
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.26
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.17
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.12
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.05
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.04
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.0
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.92
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.89
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	91.82
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.8
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.67
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	91.62
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	91.59
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.52
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.37
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	91.35
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.16
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.11
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.11
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.04
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.86
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.63
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	90.53
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	90.25
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	89.83
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	89.52
d1tuea_	205	Replication protein E1 helicase domain {Human papi	89.43
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	88.56
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.37
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	88.0
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.93
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	87.15
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.14
d1wu7a1	97	Histidyl-tRNA synthetase (HisRS), C-terminal domai	86.94
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	86.93
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	86.24
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	86.13
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	85.89
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	85.12
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	83.22
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	82.16
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	81.83
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	81.82
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	81.76
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	80.02

>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=100.00  E-value=3e-38  Score=291.99  Aligned_cols=237  Identities=17%  Similarity=0.192  Sum_probs=181.3

Q ss_pred             CCCCcccccccceeeeccccc-CCCCceEEEEeccCcchHHHHHHHHHHH----hhccccceEEEEeccccccccCHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL-GLPDFRIVGIWGMGGIGKTTFAGAIFNQ----ISSEFEGECFITNVREESERVGLVHL  241 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLa~~~~~~----~~~~f~~~~~v~~~~~~~~~~~~~~l  241 (420)
                      ..+.++||+.++++|.++|.. .+.+.++|+|+||||+||||||++++++    ...+|++++|+.    .+.......+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~----vs~~~~~~~l   93 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK----DSGTAPKSTF   93 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE----CCCCSTTHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEE----ecCCCCHHHH
Confidence            445688999999999998854 4456889999999999999999999986    455689999998    3333343444


Q ss_pred             HHHH---HHHHhhccc-cCC-CCCc------hHHHHHHhcCCeEEEEEeCCCCHHHHHHHhcCCCCCCCCcEEEeecCCh
Q 046970          242 RERV---LSEILEENL-KIG-TLNL------PEYIKERLQQMKVFIVLDDVNKPEQLIFLVGGLDRFGPRSRIIVTTRDK  310 (420)
Q Consensus       242 ~~~l---l~~l~~~~~-~~~-~~~~------~~~l~~~l~~~~~LlVLDdv~~~~~l~~l~~~~~~~~~g~~IIiTtR~~  310 (420)
                      ...+   +..+..... ... ....      ...+.+.+.++++|+||||||+..+++.+.      ..+++||||||+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~  167 (277)
T d2a5yb3          94 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDV  167 (277)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBG
T ss_pred             HHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehH
Confidence            4333   333322221 111 1111      234667788999999999999999988764      3578999999999


Q ss_pred             hhhhhcCCC-eEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHHHHHHHhcCCChhHHHhHhhh
Q 046970          311 QVFDECEVD-SIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALKVLGSFFYRKSVKPEKQCCFN  389 (420)
Q Consensus       311 ~~~~~~~~~-~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~~~~~~L~~~~~~~~~~~~~~  389 (420)
                      .++..+... +.|+|++|+.+||++||+++++....++ ..++++++|+++|+|+||||+++|+.|+.++.+.|.+...+
T Consensus       168 ~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~-~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~  246 (277)
T d2a5yb3         168 EISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNK  246 (277)
T ss_dssp             GGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--C-HHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHH
T ss_pred             HHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCch-hhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHH
Confidence            998876544 7899999999999999999998765443 45788999999999999999999999999999999887554


Q ss_pred             cccccC-----ccCCcccCcchhHHHHHHH
Q 046970          390 RGCRLL-----VAEPRYIFLPLSFMFLVTL  414 (420)
Q Consensus       390 ~~~~~l-----~~~~~~~~l~~~~~~~~~~  414 (420)
                      +....+     .-..+|-.||.+++.||.|
T Consensus       247 L~~~~~~~v~~il~~sY~~L~~~lk~c~~~  276 (277)
T d2a5yb3         247 LESRGLVGVECITPYSYKSLAMALQRCVEV  276 (277)
T ss_dssp             HHHHCSSTTCCCSSSSSSSHHHHHHHHHHT
T ss_pred             HhcCcHHHHHHHHHHHHhcccHHHHHHHHh
Confidence            422111     1256899999999999986

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=2.6e-17  Score=137.76  Aligned_cols=88  Identities=23%  Similarity=0.378  Sum_probs=79.5

Q ss_pred             CCCCCCCCcccEEecCccccccCcch-HHHHHHHhhCCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccC
Q 046970            3 SSSLATKGRYDVFLSFRGEDTRDNFT-SHLFAALRQKRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSS   80 (420)
Q Consensus         3 ~s~~~~~~~~dvfis~~~~d~~~~~~-~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~   80 (420)
                      .+.....++|||||||+++|  ..|+ +.|...|+++|+++|+|+ ++.+|+.+.++|.+||++|+.+|+|+|++|..|.
T Consensus         4 l~~~~~~~~yDvFisys~~D--~~~v~~~L~~~Le~~g~~v~~d~~d~~~G~~~~~~i~~~i~~s~~~i~vlS~~~~~s~   81 (161)
T d1fyva_           4 LEELQRNLQFHAFISYSGHD--SFWVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSIFVLSPNFVQSE   81 (161)
T ss_dssp             STTSSSCCCEEEEEECCGGG--HHHHHHTHHHHHHTTTCCEECTTTTCCTTSCHHHHHHHHHHHEEEEEEEESHHHHHHT
T ss_pred             hhHcCCCCeeEEEEecChhH--HHHHHHHHHHHHHhCCCcceEeccccccccccHHHHHHHHHhCCEEEEEecCccccCh
Confidence            34456788999999999999  4567 689999999999999999 9999999999999999999999999999999999


Q ss_pred             C------------------eeEeeeeccCc
Q 046970           81 G------------------AWMNFFLSCSS   92 (420)
Q Consensus        81 w------------------~v~pvfy~v~p   92 (420)
                      |                  +++||+++-.|
T Consensus        82 w~~~E~~~a~~~~~~~~~~~lIpV~l~~~~  111 (161)
T d1fyva_          82 WCHYELYFAHHNLFHEGSNSLILILLEPIP  111 (161)
T ss_dssp             SHHHHHHTTSCCCSCSSCSSEEEEESSCCC
T ss_pred             HHHHHHHHHHHHHHHcCCCceeEEEEecCc
Confidence            9                  79999988443

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=1.9e-16  Score=130.68  Aligned_cols=85  Identities=20%  Similarity=0.324  Sum_probs=76.0

Q ss_pred             CCCCcccEEecCccccccCcch-HHHHHHHhh--CCCceeeeC-CCCCCCcchHHHHHHhhhcceeEEEecccccccCC-
Q 046970            7 ATKGRYDVFLSFRGEDTRDNFT-SHLFAALRQ--KRIKIFIDE-EANRGDEISLALLNAIEGSKISIVIFSKNYASSSG-   81 (420)
Q Consensus         7 ~~~~~~dvfis~~~~d~~~~~~-~~L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~ai~~s~~~i~v~S~~y~~s~w-   81 (420)
                      +.+..|||||||+++|  ..|| ++|...|++  .|+++|+|+ ++.+|+.+..+|.++|+.|+++|+|+|++|..|.| 
T Consensus         1 ~~~~~YDvFiSys~~D--~~~V~~~l~~~LE~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~S~~~i~vlS~~~l~s~wc   78 (149)
T d1fyxa_           1 SRNICYDAFVSYSERD--AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWC   78 (149)
T ss_dssp             CCSCCEEEEEECCGGG--HHHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTH
T ss_pred             CCCCEEEEEEECchhh--HHHHHHHHHHHHHhcCCCceEEEecccccccchHHHHHHHHHHhCCEEEEEEcCccccccch
Confidence            4678999999999999  4466 579999976  499999999 99999999999999999999999999999999999 


Q ss_pred             -----------------eeEeeeeccCcc
Q 046970           82 -----------------AWMNFFLSCSSS   93 (420)
Q Consensus        82 -----------------~v~pvfy~v~ps   93 (420)
                                       .++||+++-.|.
T Consensus        79 ~~E~~~a~~~~~~~~~~~iIpV~l~~~~~  107 (149)
T d1fyxa_          79 KYELDFSHFRLFDENNDAAILILLEPIEK  107 (149)
T ss_dssp             HHHSCCSCCTTCGGGTTCCEEEESSCCCT
T ss_pred             HHHHHHHHHHHHHcCCceEEEEEeccCch
Confidence                             889999885443

>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=99.41  E-value=2.5e-13  Score=123.26  Aligned_cols=194  Identities=16%  Similarity=0.189  Sum_probs=111.6

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccc-cccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREES-ERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~-~~~~~~~l~~~l  245 (420)
                      ..+.|+||+.++++|.+.      ..+.+.|+|++|+|||+|+++++++....+   .|+....... .......+...+
T Consensus        10 ~~~~f~GR~~el~~l~~~------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~---~~i~~~~~~~~~~~~~~~~~~~~   80 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL------RAPITLVLGLRRTGKSSIIKIGINELNLPY---IYLDLRKFEERNYISYKDFLLEL   80 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT------CSSEEEEEESTTSSHHHHHHHHHHHHTCCE---EEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCe---EEEEeccccccccccHHHHHHHH
Confidence            568899999999998763      236889999999999999999988765432   3443211111 122233333333


Q ss_pred             HHHHhhcc------------------------c--cCCCCCc-hHHHHHH--hcCCeEEEEEeCCCCHH---------HH
Q 046970          246 LSEILEEN------------------------L--KIGTLNL-PEYIKER--LQQMKVFIVLDDVNKPE---------QL  287 (420)
Q Consensus       246 l~~l~~~~------------------------~--~~~~~~~-~~~l~~~--l~~~~~LlVLDdv~~~~---------~l  287 (420)
                      ........                        .  ....... ...+...  ..++++++|+|++....         .+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l  160 (283)
T d2fnaa2          81 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPAL  160 (283)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHH
Confidence            32221100                        0  0001111 2333332  34678999999874321         12


Q ss_pred             HHHhcCCCCCCCCcEEEeecCChhhhhhc------------CCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHH
Q 046970          288 IFLVGGLDRFGPRSRIIVTTRDKQVFDEC------------EVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSK  355 (420)
Q Consensus       288 ~~l~~~~~~~~~g~~IIiTtR~~~~~~~~------------~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~  355 (420)
                      ..+...    ......+++++........            .....+.|++|+.+++.+++.+.........+.    ..
T Consensus       161 ~~~~~~----~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----~~  232 (283)
T d2fnaa2         161 AYAYDN----LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YE  232 (283)
T ss_dssp             HHHHHH----CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HH
T ss_pred             HHHHHh----hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHH----HH
Confidence            222211    1333444444433221110            123678999999999999998765322222222    46


Q ss_pred             HHHHHhcCChHHHHHHHHHhcC
Q 046970          356 RVVDYANGNPLALKVLGSFFYR  377 (420)
Q Consensus       356 ~i~~~~~G~PLal~~~~~~L~~  377 (420)
                      ++++.++|+|..|..++..+..
T Consensus       233 ~i~~~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         233 VVYEKIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             HHHHHHCSCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHh
Confidence            8999999999999999876643

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.89  E-value=6.3e-09  Score=93.15  Aligned_cols=171  Identities=14%  Similarity=0.155  Sum_probs=97.1

Q ss_pred             CCCCcccccccceeeeccccc----CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL----GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLR  242 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~  242 (420)
                      .+..++||+.++++|.++|..    .....+.+.|+|++|+|||++|+.+++.+...........+   ...........
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~---~~~~~~~~~~~   90 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN---GFIYRNFTAII   90 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE---TTTCCSHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEec---chhhhhhhhhh
Confidence            446799999999999998853    23346789999999999999999999998765443333221   22233444555


Q ss_pred             HHHHHHHhhccccCCCC-Cc-hHHHHHHhc--CCeEEEEEeCCCCHHH-----HHHHhcCCCCC-CCCcEEEeecCChhh
Q 046970          243 ERVLSEILEENLKIGTL-NL-PEYIKERLQ--QMKVFIVLDDVNKPEQ-----LIFLVGGLDRF-GPRSRIIVTTRDKQV  312 (420)
Q Consensus       243 ~~ll~~l~~~~~~~~~~-~~-~~~l~~~l~--~~~~LlVLDdv~~~~~-----l~~l~~~~~~~-~~g~~IIiTtR~~~~  312 (420)
                      ..+.............. .. ...+.+.+.  ....++++|++++...     ...+....... .....+|.++.....
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  170 (276)
T d1fnna2          91 GEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAV  170 (276)
T ss_dssp             HHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHH
T ss_pred             hhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhh
Confidence            55554433322211111 11 333333332  3466777777644321     22222211111 122334455544332


Q ss_pred             hhhc-------CCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          313 FDEC-------EVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       313 ~~~~-------~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      ....       .....+.+.+++.++..+++.+++
T Consensus       171 ~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         171 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhhcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            2211       123567899999999999988764

>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=98.88  E-value=4e-09  Score=93.81  Aligned_cols=149  Identities=14%  Similarity=0.147  Sum_probs=94.9

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc------ccceEEEEeccccc----cccCH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE------FEGECFITNVREES----ERVGL  238 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~v~~~~~~~----~~~~~  238 (420)
                      +..+||+.+++++...|....  ..-+.|+|++|+|||+|+..+++++...      ....+|..+....-    ....+
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~   95 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF   95 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CcccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhH
Confidence            458999999999999997443  3456799999999999999999986432      23455554333211    11222


Q ss_pred             HHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH----------HHHHHHh-cCCCCCCCCcEEEeec
Q 046970          239 VHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP----------EQLIFLV-GGLDRFGPRSRIIVTT  307 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~----------~~l~~l~-~~~~~~~~g~~IIiTt  307 (420)
                      ...++.++                   .+.-..++++|++|++...          .++..++ +.+.  ...-++|.||
T Consensus        96 e~r~~~i~-------------------~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgat  154 (268)
T d1r6bx2          96 EKRFKALL-------------------KQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGST  154 (268)
T ss_dssp             HHHHHHHH-------------------HHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEE
T ss_pred             HHHHHHHH-------------------HHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeC
Confidence            22222222                   2222446799999997433          2344444 4443  3456788888


Q ss_pred             CChhhhhhcC-------CCeEEEeCCCCHHHHHHHHHhcc
Q 046970          308 RDKQVFDECE-------VDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       308 R~~~~~~~~~-------~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      ...+......       .-+.+.|++++.+++.+++....
T Consensus       155 T~eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         155 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            7665433221       23688999999999999997644

>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=98.85  E-value=7.4e-09  Score=90.34  Aligned_cols=182  Identities=15%  Similarity=0.188  Sum_probs=108.2

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ...++||-+..++.|..++..+.  ...+.++|++|+||||+|+.+++.+...+ ...++..+.   +...+...+...+
T Consensus        13 ~~~d~ig~~~~~~~L~~~~~~~~--~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~---~~~~~~~~i~~~~   87 (224)
T d1sxjb2          13 VLSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA---SDDRGIDVVRNQI   87 (224)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT---TSCCSHHHHHTHH
T ss_pred             CHHHhcCCHHHHHHHHHHHHcCC--CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccc---cccCCceehhhHH
Confidence            45679999999999999987543  34577999999999999999998865432 222222222   2222222222222


Q ss_pred             HHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH--HHHHHhcCCCCCCCCcEEEeecCChh-hhh-hcCCCeE
Q 046970          246 LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE--QLIFLVGGLDRFGPRSRIIVTTRDKQ-VFD-ECEVDSI  321 (420)
Q Consensus       246 l~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~--~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~-~~~~~~~  321 (420)
                      .. ........            ...+.-++|+|+++...  ....++..+......+++++++.+.. +.. .......
T Consensus        88 ~~-~~~~~~~~------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~  154 (224)
T d1sxjb2          88 KH-FAQKKLHL------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  154 (224)
T ss_dssp             HH-HHHBCCCC------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HH-HHHhhccC------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHH
Confidence            11 11111100            02355688999985432  22223222222245566666665432 222 1234578


Q ss_pred             EEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHH
Q 046970          322 YEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLAL  368 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal  368 (420)
                      +++++++.++....+.+.+-......+  .+....|++.|+|.+.-+
T Consensus       155 i~~~~~~~~~i~~~l~~i~~~e~~~i~--~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         155 LRYSKLSDEDVLKRLLQIIKLEDVKYT--NDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCBC--HHHHHHHHHHHTTCHHHH
T ss_pred             hhhcccchhhhHHHHHHHHHhcccCCC--HHHHHHHHHHcCCcHHHH
Confidence            999999999999999877643322221  245789999999987643

>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=98.84  E-value=2.2e-08  Score=90.05  Aligned_cols=170  Identities=15%  Similarity=0.134  Sum_probs=92.7

Q ss_pred             CCCCcccccccceeeeccccc----C---CCCceEEEEeccCcchHHHHHHHHHHHhhccc------cceEEEEeccccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL----G---LPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF------EGECFITNVREES  233 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~----~---~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~v~~~~~~~  233 (420)
                      .++.++||+.++++|.+.+..    +   ++...++.|+|++|+|||++++.+++.+....      ....++.    ..
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~----~~   89 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----AF   89 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----GG
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeec----cc
Confidence            557899999999999886621    1   11234567789999999999999999764421      1223333    23


Q ss_pred             cccCHHHHHHHHHHHHhhccccCCCCCc--hHHHHHHh--cCCeEEEEEeCCCCH--------HHHHHH---hc---CCC
Q 046970          234 ERVGLVHLRERVLSEILEENLKIGTLNL--PEYIKERL--QQMKVFIVLDDVNKP--------EQLIFL---VG---GLD  295 (420)
Q Consensus       234 ~~~~~~~l~~~ll~~l~~~~~~~~~~~~--~~~l~~~l--~~~~~LlVLDdv~~~--------~~l~~l---~~---~~~  295 (420)
                      ...............+............  ...+.+..  .+...++++|.++..        +....+   ..   ...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~  169 (287)
T d1w5sa2          90 NAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRD  169 (287)
T ss_dssp             GCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTT
T ss_pred             cccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhh
Confidence            3334444444444443332221111111  33333333  346788888877422        111111   11   111


Q ss_pred             CCCCCcEEEeecCChhh--------hhhcCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          296 RFGPRSRIIVTTRDKQV--------FDECEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       296 ~~~~g~~IIiTtR~~~~--------~~~~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      .......|++++.....        .........+.+++++.++..+++..++
T Consensus       170 ~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         170 GVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             SCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             cccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            11122234444433211        0011235778999999999999998765

>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=98.82  E-value=1.4e-08  Score=88.67  Aligned_cols=178  Identities=16%  Similarity=0.200  Sum_probs=107.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ...++||.+..++.|..++..+.  .+.+.++|++|+||||+|+.+++.+... +...+...+   .+...+........
T Consensus        12 ~~~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~---~~~~~~~~~~~~~~   86 (227)
T d1sxjc2          12 TLDEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELN---ASDDRGIDVVRNQI   86 (227)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEEC---TTSCCSHHHHHTHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEec---ccccCCeeeeecch
Confidence            45679999999999999987543  3347799999999999999999976432 222222221   11112222111111


Q ss_pred             HHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhh-hh-hcCCCeE
Q 046970          246 LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQV-FD-ECEVDSI  321 (420)
Q Consensus       246 l~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~-~~-~~~~~~~  321 (420)
                      ........              ...++..++|+|+++..  .....++..+......+.++++|.+..- .. .......
T Consensus        87 ~~~~~~~~--------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~  152 (227)
T d1sxjc2          87 KDFASTRQ--------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTR  152 (227)
T ss_dssp             HHHHHBCC--------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             hhcccccc--------------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhh
Confidence            11111000              01234568899998543  3334444444434567777777765432 21 1234578


Q ss_pred             EEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCCh
Q 046970          322 YEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNP  365 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~P  365 (420)
                      +++.+++.++...++.+.+-.....-+  .+..+.|++.++|-.
T Consensus       153 i~~~~~~~~~i~~~l~~I~~~e~i~i~--~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         153 FRFQPLPQEAIERRIANVLVHEKLKLS--PNAEKALIELSNGDM  194 (227)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCCBC--HHHHHHHHHHHTTCH
T ss_pred             hccccccccccccccccccccccccCC--HHHHHHHHHHcCCcH
Confidence            899999999999999887644332222  245788999999975

>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=98.82  E-value=2e-08  Score=88.07  Aligned_cols=192  Identities=13%  Similarity=0.186  Sum_probs=110.5

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc---ccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE---FEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ...+++|.+..++.|..++...  ..+.+.++|++|+||||+|+.+++++...   ......+.    .+...+......
T Consensus        10 ~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~   83 (237)
T d1sxjd2          10 NLDEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN----ASDERGISIVRE   83 (237)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC----SSSCCCHHHHTT
T ss_pred             CHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhhee----ccccccchHHHH
Confidence            5577999999999999998744  33458899999999999999999876332   11222222    122222222222


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhhhh-cCCC
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDE-CEVD  319 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~-~~~~  319 (420)
                      .+ ........   .......+......+.-++|+|+++..  .....+..........+.+|+|+.+. .+... ....
T Consensus        84 ~~-~~~~~~~~---~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~  159 (237)
T d1sxjd2          84 KV-KNFARLTV---SKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  159 (237)
T ss_dssp             HH-HHHHHSCC---CCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             HH-HHHhhhhh---hhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchh
Confidence            21 12111111   111123334444455567999998643  22223322222223556666665543 22211 1123


Q ss_pred             eEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHH
Q 046970          320 SIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKV  370 (420)
Q Consensus       320 ~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~  370 (420)
                      ..+.+++++.++...++...+......-.  .+..+.|++.++|-+. |+..
T Consensus       160 ~~i~f~~~~~~~~~~~L~~i~~~e~i~i~--~~~l~~ia~~s~gd~R~ai~~  209 (237)
T d1sxjd2         160 SKFRFKALDASNAIDRLRFISEQENVKCD--DGVLERILDISAGDLRRGITL  209 (237)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCCCC--HHHHHHHHHHTSSCHHHHHHH
T ss_pred             hhhccccccccccchhhhhhhhhhcCcCC--HHHHHHHHHHcCCCHHHHHHH
Confidence            67899999999999999887754332222  2557889999988653 3443

>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=98.80  E-value=2.4e-08  Score=87.96  Aligned_cols=193  Identities=16%  Similarity=0.157  Sum_probs=111.1

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVL  246 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll  246 (420)
                      ...+++|.+..++.|..++..+. -...+.|+|++|+||||+|+.+++.+.......         ............+.
T Consensus        10 ~~~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~---------~~~~~~~~~~~~i~   79 (239)
T d1njfa_          10 TFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT---------ATPCGVCDNCREIE   79 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC---------SSCCSCSHHHHHHH
T ss_pred             CHHHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCccccc---------cCccccchHHHHHH
Confidence            44679999999999988887542 245678999999999999999998764331100         00001111111111


Q ss_pred             HHHhhccccCCCCC--chHHHHHHh--------cCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChhh-h
Q 046970          247 SEILEENLKIGTLN--LPEYIKERL--------QQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQV-F  313 (420)
Q Consensus       247 ~~l~~~~~~~~~~~--~~~~l~~~l--------~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~~-~  313 (420)
                      ..-...-......+  ..+.+++.+        .++..++|+|+++..  +....|+..+.....++++|++|.+..- .
T Consensus        80 ~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~  159 (239)
T d1njfa_          80 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  159 (239)
T ss_dssp             HTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             cCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccC
Confidence            11000000000000  022222222        234568999999654  3334455544444567777777765433 2


Q ss_pred             hh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChH-HHHHH
Q 046970          314 DE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPL-ALKVL  371 (420)
Q Consensus       314 ~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PL-al~~~  371 (420)
                      .. ......+.+.+++.++..+.+...+-.....-+  ++.+..|++.++|.+. |+..+
T Consensus       160 ~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~--~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         160 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE--PRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC--HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCC--HHHHHHHHHHcCCCHHHHHHHH
Confidence            21 234578899999999999988777643222121  2457789999999996 55544

>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=98.79  E-value=8.2e-09  Score=90.47  Aligned_cols=180  Identities=17%  Similarity=0.217  Sum_probs=105.2

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEEeccccccccCHHHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFITNVREESERVGLVHLRERV  245 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~l~~~l  245 (420)
                      ...+++|-+..++.|..++..+  ..+.+.|+|++|+||||+|+.+++.+... +.....-.+..   ...+...+...+
T Consensus        22 ~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s---~~~~~~~~~~~~   96 (231)
T d1iqpa2          22 RLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNAS---DERGINVIREKV   96 (231)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETT---CHHHHHTTHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecC---cccchhHHHHHH
Confidence            5578999999999999999754  34568899999999999999999876432 22222222111   111111111111


Q ss_pred             HHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCCh-hhhhh-cCCCeE
Q 046970          246 LSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDK-QVFDE-CEVDSI  321 (420)
Q Consensus       246 l~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~-~~~~~-~~~~~~  321 (420)
                       .......             .....++.++++|+++..  .....++..+........+|.||... .+... ......
T Consensus        97 -~~~~~~~-------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~  162 (231)
T d1iqpa2          97 -KEFARTK-------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  162 (231)
T ss_dssp             -HHHHHSC-------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             -HHHHhhh-------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcccc
Confidence             1110000             011346778999998532  33333333332223445555555443 22221 123467


Q ss_pred             EEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          322 YEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       322 ~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      +.+.+.+.++....+.+.+......-+  .+..+.|++.++|....
T Consensus       163 i~~~~~~~~~~~~~l~~~~~~e~i~i~--~~~l~~I~~~~~gdiR~  206 (231)
T d1iqpa2         163 FRFRPLRDEDIAKRLRYIAENEGLELT--EEGLQAILYIAEGDMRR  206 (231)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCEEC--HHHHHHHHHHHTTCHHH
T ss_pred             ccccccchhhHHHHHHHHHHHhCCCCC--HHHHHHHHHHcCCCHHH
Confidence            899999999999999887754332211  24568899999997653

>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=98.78  E-value=6.2e-09  Score=92.39  Aligned_cols=194  Identities=15%  Similarity=0.172  Sum_probs=99.9

Q ss_pred             CCCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc------ccceEEEEec---------c-
Q 046970          167 DFTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE------FEGECFITNV---------R-  230 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~v~~~---------~-  230 (420)
                      ..++++|.+...+.|..++.... ....+.|+|++|+||||+|+.+++.+...      .+...+....         . 
T Consensus         9 ~~~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (252)
T d1sxje2           9 SLNALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSS   87 (252)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEEC
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccC
Confidence            45679999988888888876443 23457799999999999999999875221      1111111000         0 


Q ss_pred             -------ccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCc
Q 046970          231 -------EESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRS  301 (420)
Q Consensus       231 -------~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~  301 (420)
                             ......................    .... ...-......+.-++|+|+++..  .....+...+......+
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~-~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~  162 (252)
T d1sxje2          88 PYHLEITPSDMGNNDRIVIQELLKEVAQM----EQVD-FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNI  162 (252)
T ss_dssp             SSEEEECCC----CCHHHHHHHHHHHTTT----TC-------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTE
T ss_pred             CccceeeecccccCCcceeeehhhhhhhh----hhhh-hhhcccccCCCceEEEeccccccccccchhhhcccccccccc
Confidence                   0000000011111111111100    0000 00011112334568999998764  22333333333335667


Q ss_pred             EEEeecCChhh-hhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH
Q 046970          302 RIIVTTRDKQV-FDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       302 ~IIiTtR~~~~-~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                      ++|+||.+... ... ......+++.+++.++..+++...+-...... ..++..+.|++.++|.+..
T Consensus       163 ~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~-~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         163 RLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQL-ETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             EEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEE-CCSHHHHHHHHHHTTCHHH
T ss_pred             cceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCC-CcHHHHHHHHHHcCCcHHH
Confidence            77777765432 111 12236789999999999999876552211111 1124567889999998754

>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=98.75  E-value=1.5e-08  Score=85.21  Aligned_cols=145  Identities=12%  Similarity=0.096  Sum_probs=87.6

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc------ccceEEEEecccccccc----CH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE------FEGECFITNVREESERV----GL  238 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~v~~~~~~~~~~----~~  238 (420)
                      +..+||+.+++++...|....  ..-+.++|.+|+|||+++..++.++...      -...+|..+....-...    .+
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~   99 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEF   99 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHH
Confidence            458999999999999997542  2356799999999999999999986432      23455554333211111    11


Q ss_pred             HHHHHHHHHHHhhccccCCCCCchHHHHHHhc-CCeEEEEEeCCCCHH---------H-HHHHhcCCCCCCCCcEEEeec
Q 046970          239 VHLRERVLSEILEENLKIGTLNLPEYIKERLQ-QMKVFIVLDDVNKPE---------Q-LIFLVGGLDRFGPRSRIIVTT  307 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~-~~~~LlVLDdv~~~~---------~-l~~l~~~~~~~~~g~~IIiTt  307 (420)
                      ...++.+                   +.+... ..+++|++|++...-         + .+-|.+.+.  ...-++|.||
T Consensus       100 E~rl~~i-------------------l~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~Igat  158 (195)
T d1jbka_         100 EERLKGV-------------------LNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGAT  158 (195)
T ss_dssp             HHHHHHH-------------------HHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEE
T ss_pred             HHHHHHH-------------------HHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEecC
Confidence            1112222                   222222 357999999984331         1 122333332  2445677777


Q ss_pred             CChhhhhhc-------CCCeEEEeCCCCHHHHHHHH
Q 046970          308 RDKQVFDEC-------EVDSIYEVEGLNKDESLELF  336 (420)
Q Consensus       308 R~~~~~~~~-------~~~~~~~l~~L~~~ea~~L~  336 (420)
                      ..++.....       ..-+.+.|++.+.+++.+++
T Consensus       159 T~eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         159 TLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             CHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             CHHHHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            655433221       23478899999999987654

>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=98.56  E-value=4e-07  Score=78.28  Aligned_cols=148  Identities=13%  Similarity=0.162  Sum_probs=85.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcC
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQ  271 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~  271 (420)
                      ...+.|+|++|+|||.|+.++++........++++.          ...+...+...+....        ...+.+.++ 
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~--------~~~~~~~~~-   96 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS----------ADDFAQAMVEHLKKGT--------INEFRNMYK-   96 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE----------HHHHHHHHHHHHHHTC--------HHHHHHHHH-
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec----------hHHHHHHHHHHHHccc--------hhhHHHHHh-
Confidence            345789999999999999999998877766667765          2233333333322211        122333333 


Q ss_pred             CeEEEEEeCCCCH---HHHHH-HhcCCCC-CCCCcEEEeecCChhh---------hhhcCCCeEEEeCCCCHHHHHHHHH
Q 046970          272 MKVFIVLDDVNKP---EQLIF-LVGGLDR-FGPRSRIIVTTRDKQV---------FDECEVDSIYEVEGLNKDESLELFS  337 (420)
Q Consensus       272 ~~~LlVLDdv~~~---~~l~~-l~~~~~~-~~~g~~IIiTtR~~~~---------~~~~~~~~~~~l~~L~~~ea~~L~~  337 (420)
                      .--+|++||++..   ..++. +...++. ...|.+||+||+....         ........+++++ ++.++-.+++.
T Consensus        97 ~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~  175 (213)
T d1l8qa2          97 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIK  175 (213)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHH
T ss_pred             hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHH
Confidence            2458899999533   22222 2211111 1367789999985422         2223356778886 57777888888


Q ss_pred             hcccCCCCCchhHHHHHHHHHHHh
Q 046970          338 NFAFRQKICPKDFLVLSKRVVDYA  361 (420)
Q Consensus       338 ~~a~~~~~~~~~~~~~~~~i~~~~  361 (420)
                      +.+-.....-+  ++.+.-|++.+
T Consensus       176 ~~a~~rgl~l~--~~v~~yl~~~~  197 (213)
T d1l8qa2         176 EKLKEFNLELR--KEVIDYLLENT  197 (213)
T ss_dssp             HHHHHTTCCCC--HHHHHHHHHHC
T ss_pred             HHHHHcCCCCC--HHHHHHHHHhc
Confidence            77743332222  14455566655

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.53  E-value=1e-06  Score=75.34  Aligned_cols=92  Identities=10%  Similarity=0.033  Sum_probs=63.9

Q ss_pred             CCeEEEEEeCCCCH--HHHHHHhcCCCCCCCCcEEEeecCChh-hhhh-cCCCeEEEeCCCCHHHHHHHHHhcccCCCCC
Q 046970          271 QMKVFIVLDDVNKP--EQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDE-CEVDSIYEVEGLNKDESLELFSNFAFRQKIC  346 (420)
Q Consensus       271 ~~~~LlVLDdv~~~--~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~  346 (420)
                      +++-++|+|+++..  +....++..+.....++.+|+||++.. +.+. ......+.+.+++.++....+....   .. 
T Consensus       107 ~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~---~~-  182 (207)
T d1a5ta2         107 GGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV---TM-  182 (207)
T ss_dssp             SSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC---CC-
T ss_pred             CccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCCCHHHHHHHHHHcC---CC-
Confidence            35679999999643  445566666655567888887777654 3332 2345789999999999999997654   11 


Q ss_pred             chhHHHHHHHHHHHhcCChHHHH
Q 046970          347 PKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       347 ~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      +   .+.+..+++.++|.|...-
T Consensus       183 ~---~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         183 S---QDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             C---HHHHHHHHHHTTTCHHHHH
T ss_pred             C---HHHHHHHHHHcCCCHHHHH
Confidence            2   2457788899999986543

>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=98.52  E-value=6.8e-08  Score=85.54  Aligned_cols=190  Identities=15%  Similarity=0.149  Sum_probs=98.4

Q ss_pred             CCCCcccccccceeeeccccc---------------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccc
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---------------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVRE  231 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---------------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~  231 (420)
                      ...+++|.+..+++|.+++..               +....+.+.++|++|+||||+|+.+++.+...   .+++. ...
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~---~~~~~-~~~   87 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD---ILEQN-ASD   87 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE---EEEEC-TTS
T ss_pred             CHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh---hhccc-ccc
Confidence            346678887777777776632               12235689999999999999999999876432   22332 211


Q ss_pred             cccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH-----HHHHHHhcCCCCCCCCcEEEee
Q 046970          232 ESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP-----EQLIFLVGGLDRFGPRSRIIVT  306 (420)
Q Consensus       232 ~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~-----~~l~~l~~~~~~~~~g~~IIiT  306 (420)
                      .   .+... ................... ..........+..++++|+++..     ..+..+.....  .....+++|
T Consensus        88 ~---~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~i  160 (253)
T d1sxja2          88 V---RSKTL-LNAGVKNALDNMSVVGYFK-HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLILI  160 (253)
T ss_dssp             C---CCHHH-HHHTGGGGTTBCCSTTTTT-C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEEE
T ss_pred             c---hhhHH-HHHHHHHHhhcchhhhhhh-hhhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--ccccccccc
Confidence            1   11111 1111111111110000000 11111223456788999987422     11222222111  122234443


Q ss_pred             cC--Chhhh-hhcCCCeEEEeCCCCHHHHHHHHHhcccCCC-CCchhHHHHHHHHHHHhcCCh-HHHHH
Q 046970          307 TR--DKQVF-DECEVDSIYEVEGLNKDESLELFSNFAFRQK-ICPKDFLVLSKRVVDYANGNP-LALKV  370 (420)
Q Consensus       307 tR--~~~~~-~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~-~~~~~~~~~~~~i~~~~~G~P-Lal~~  370 (420)
                      +.  ..... ........+++.+++.++....+....-... ..++   +....|++.++|-. .||..
T Consensus       161 ~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~---~~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         161 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHHHH
T ss_pred             cccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCH---HHHHHHHHhCCCcHHHHHHH
Confidence            32  22222 2223457899999999999998887653222 1121   34678999999976 44433

>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=98.48  E-value=7.8e-08  Score=90.14  Aligned_cols=149  Identities=16%  Similarity=0.149  Sum_probs=85.6

Q ss_pred             CCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc------ccceEEEEecccccc----ccCH
Q 046970          169 TGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE------FEGECFITNVREESE----RVGL  238 (420)
Q Consensus       169 ~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~v~~~~~~~~----~~~~  238 (420)
                      +.++||+.+++++...|.....  .-+.|+|.+|+|||+|+..+++++...      ....+|..++...-.    ....
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k--~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~   99 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEF   99 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCC--CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhH
Confidence            5689999999999998874322  234678999999999999999876332      234666654433211    1112


Q ss_pred             HHHHHHHHHHHhhccccCCCCCchHHHHHHhcC-CeEEEEEeCCCCHH---------HH-HHHhcCCCCCCCCcEEEeec
Q 046970          239 VHLRERVLSEILEENLKIGTLNLPEYIKERLQQ-MKVFIVLDDVNKPE---------QL-IFLVGGLDRFGPRSRIIVTT  307 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~-~~~LlVLDdv~~~~---------~l-~~l~~~~~~~~~g~~IIiTt  307 (420)
                      ..-+..+                   +.+.... .+++|++|++...-         +. .-|.+.+.  ...-++|.+|
T Consensus       100 e~r~~~i-------------------~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~t  158 (387)
T d1qvra2         100 EERLKAV-------------------IQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGAT  158 (387)
T ss_dssp             HHHHHHH-------------------HHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEE
T ss_pred             HHHHHHH-------------------HHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeec
Confidence            2222222                   2222222 47999999985441         11 22223332  1345677766


Q ss_pred             CChhhhhh------cCCCeEEEeCCCCHHHHHHHHHhcc
Q 046970          308 RDKQVFDE------CEVDSIYEVEGLNKDESLELFSNFA  340 (420)
Q Consensus       308 R~~~~~~~------~~~~~~~~l~~L~~~ea~~L~~~~a  340 (420)
                      ........      ...-+.+.|++.+.+++.+++....
T Consensus       159 T~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         159 TLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             CHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            54433211      1133678999999999999987554

>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=98.48  E-value=7.9e-07  Score=78.86  Aligned_cols=177  Identities=20%  Similarity=0.262  Sum_probs=96.2

Q ss_pred             Ccccccccceeeecccc-----------cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCH
Q 046970          170 GSVGVNSRIRHIKSLLH-----------LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGL  238 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~-----------~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~  238 (420)
                      .++|.+...++|.+.+.           .+....+-+.++|++|+|||+||+++++.....    ++........... .
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~----~~~i~~~~l~~~~-~   79 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKL-A   79 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE----EEEECHHHHTTSC-T
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe----EEEEEchhhcccc-c
Confidence            35566655555554321           022235678999999999999999999975443    2222111100000 0


Q ss_pred             HHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH-------------HHHHH---hcCCCCCCCCcE
Q 046970          239 VHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE-------------QLIFL---VGGLDRFGPRSR  302 (420)
Q Consensus       239 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~-------------~l~~l---~~~~~~~~~g~~  302 (420)
                      ..-. ..+               ...+...-..++++|++||++...             ....+   .... ....+.-
T Consensus        80 g~~~-~~l---------------~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~-~~~~~vl  142 (258)
T d1e32a2          80 GESE-SNL---------------RKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL-KQRAHVI  142 (258)
T ss_dssp             THHH-HHH---------------HHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTC-CCSSCEE
T ss_pred             ccHH-HHH---------------HHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccc-cccCCcc
Confidence            0000 000               111222234678999999985420             11122   2221 1234445


Q ss_pred             EEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHH-HHHH
Q 046970          303 IIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLA-LKVL  371 (420)
Q Consensus       303 IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLa-l~~~  371 (420)
                      ||.||..+.....     ......++++..+.++-.++|..+..+..... +  .....|++.+.|+--| |+.+
T Consensus       143 vi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~-~--~~~~~la~~t~G~s~adl~~l  214 (258)
T d1e32a2         143 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLAD-D--VDLEQVANETHGHVGADLAAL  214 (258)
T ss_dssp             EEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCT-T--CCHHHHHHHCTTCCHHHHHHH
T ss_pred             EEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCccccc-c--cchhhhhhcccCCCHHHHHHH
Confidence            6668876644221     13678999999999999999988763322111 1  1145788888886433 4444

>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=98.48  E-value=2.1e-07  Score=82.02  Aligned_cols=149  Identities=14%  Similarity=0.145  Sum_probs=81.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHH-Hhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKE-RLQ  270 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~-~l~  270 (420)
                      .+-+.++|++|+|||+||+.+++.....|   +.+. ..         .    +++...++..     .....+.+ .-.
T Consensus        42 ~~giLl~GppGtGKT~la~aia~~~~~~~---~~i~-~~---------~----l~~~~~g~~~-----~~l~~~f~~a~~   99 (247)
T d1ixza_          42 PKGVLLVGPPGVGKTHLARAVAGEARVPF---ITAS-GS---------D----FVEMFVGVGA-----ARVRDLFETAKR   99 (247)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHTTCCE---EEEE-HH---------H----HHHSCTTHHH-----HHHHHHHHHHTT
T ss_pred             CceEEEecCCCCChhHHHHHHHHHcCCCE---EEEE-hH---------H----hhhccccHHH-----HHHHHHHHHHHH
Confidence            56789999999999999999998764321   1222 11         1    1110000000     00111222 224


Q ss_pred             CCeEEEEEeCCCCHH----------------HHHHHhcCCCCC--CCCcEEEeecCChhhhhh-----cCCCeEEEeCCC
Q 046970          271 QMKVFIVLDDVNKPE----------------QLIFLVGGLDRF--GPRSRIIVTTRDKQVFDE-----CEVDSIYEVEGL  327 (420)
Q Consensus       271 ~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~--~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L  327 (420)
                      ..+++|++||++..-                .+..|+..+..+  ..+.-||.||..+..+..     ......+++++.
T Consensus       100 ~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P  179 (247)
T d1ixza_         100 HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAP  179 (247)
T ss_dssp             SSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSC
T ss_pred             cCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCc
Confidence            578999999984210                122333222111  223334447765443222     235678999999


Q ss_pred             CHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCChH
Q 046970          328 NKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       328 ~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      +.++..++++.+...... ....    ...+++.+.|..-
T Consensus       180 ~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s~  215 (247)
T d1ixza_         180 DVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFVG  215 (247)
T ss_dssp             CHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCCH
Confidence            999999999887743322 2222    3566777777533

>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=98.46  E-value=4.3e-07  Score=80.91  Aligned_cols=174  Identities=16%  Similarity=0.175  Sum_probs=99.9

Q ss_pred             CCCCcccccccceeeeccccc-----------CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEecccccc-
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL-----------GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESE-  234 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~-  234 (420)
                      ...+++|.+...++|.+.+..           +....+.|.++|++|+|||+||+.+++....+    ++......... 
T Consensus         5 ~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~----~~~~~~~~l~~~   80 (265)
T d1r7ra3           5 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPELLTM   80 (265)
T ss_dssp             SCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCE----EEEECHHHHHTS
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCc----EEEEEHHHhhhc
Confidence            345688888888888765521           22345678999999999999999999987443    22221110000 


Q ss_pred             cc-CHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHH----------------HHHHHhcCCCCC
Q 046970          235 RV-GLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPE----------------QLIFLVGGLDRF  297 (420)
Q Consensus       235 ~~-~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~----------------~l~~l~~~~~~~  297 (420)
                      .. ......                   ...+...-...+++|++||++..-                .+..++..+...
T Consensus        81 ~~~~~~~~l-------------------~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~  141 (265)
T d1r7ra3          81 WFGESEANV-------------------REIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM  141 (265)
T ss_dssp             CTTTHHHHH-------------------HHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC--
T ss_pred             cccchHHHH-------------------HHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCc
Confidence            00 000001                   112222334678999999985220                124455444322


Q ss_pred             --CCCcEEEeecCChhhhhh-----cCCCeEEEeCCCCHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCChHH
Q 046970          298 --GPRSRIIVTTRDKQVFDE-----CEVDSIYEVEGLNKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGNPLA  367 (420)
Q Consensus       298 --~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~PLa  367 (420)
                        ..+.-||.||.....++.     ......++++..+.++-.++|..+...... .+.+    ...+++.+.|...+
T Consensus       142 ~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~g~s~~  215 (265)
T d1r7ra3         142 STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  215 (265)
T ss_dssp             ----CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCC----CHHHHHHHCSSCCH
T ss_pred             CCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhh----HHHHHhcCCCCCHH
Confidence              234456777776543221     235678999999999999999876632111 1111    35677788876543

>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=98.43  E-value=3.6e-07  Score=80.86  Aligned_cols=149  Identities=17%  Similarity=0.080  Sum_probs=83.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccc--cCHHHHHHHHHHHHhhccccCCCCCchHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESER--VGLVHLRERVLSEILEENLKIGTLNLPEYIKER  268 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~--~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  268 (420)
                      ..+.+.++|++|+|||+||+.+++.....    ++..+.......  ......+                   ...+...
T Consensus        44 ~~~~iLL~GppGtGKT~la~~iA~~~~~~----~~~i~~~~l~~~~~g~~~~~l-------------------~~~f~~A  100 (256)
T d1lv7a_          44 IPKGVLMVGPPGTGKTLLAKAIAGEAKVP----FFTISGSDFVEMFVGVGASRV-------------------RDMFEQA  100 (256)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHTCC----EEEECSCSSTTSCCCCCHHHH-------------------HHHHHHH
T ss_pred             CCCeEEeeCCCCCCccHHHHHHHHHcCCC----EEEEEhHHhhhcchhHHHHHH-------------------HHHHHHH
Confidence            35678899999999999999999876432    222211111100  0000111                   1222223


Q ss_pred             hcCCeEEEEEeCCCCH-------------H---HHHHHhcCCCC--CCCCcEEEeecCChhhhhh-----cCCCeEEEeC
Q 046970          269 LQQMKVFIVLDDVNKP-------------E---QLIFLVGGLDR--FGPRSRIIVTTRDKQVFDE-----CEVDSIYEVE  325 (420)
Q Consensus       269 l~~~~~LlVLDdv~~~-------------~---~l~~l~~~~~~--~~~g~~IIiTtR~~~~~~~-----~~~~~~~~l~  325 (420)
                      -+..+++|++||++..             .   .+..++..+..  ...+.-||.||.++..++.     ....+.++++
T Consensus       101 ~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~  180 (256)
T d1lv7a_         101 KKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVG  180 (256)
T ss_dssp             HTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECC
T ss_pred             HHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCCCCCEEEECC
Confidence            3467899999998421             0   12233322211  1234455667776544321     2356889999


Q ss_pred             CCCHHHHHHHHHhcccCCCC-CchhHHHHHHHHHHHhcCChH
Q 046970          326 GLNKDESLELFSNFAFRQKI-CPKDFLVLSKRVVDYANGNPL  366 (420)
Q Consensus       326 ~L~~~ea~~L~~~~a~~~~~-~~~~~~~~~~~i~~~~~G~PL  366 (420)
                      +.+.++-.+++..+.-+... ...+    ...+++.+.|..-
T Consensus       181 ~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~  218 (256)
T d1lv7a_         181 LPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSG  218 (256)
T ss_dssp             CCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCCH
Confidence            99999999999877643322 2222    3567777777643

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.41  E-value=2.3e-06  Score=75.08  Aligned_cols=29  Identities=24%  Similarity=0.139  Sum_probs=24.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..+-|.++|++|+|||+||+.+++.....
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~~~~   67 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEESNFP   67 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhccccc
Confidence            45678999999999999999999876443

>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=98.35  E-value=2.1e-06  Score=75.03  Aligned_cols=173  Identities=14%  Similarity=0.098  Sum_probs=95.6

Q ss_pred             CCCCcccccccceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ..+++||-+..+++|..++..   .....+-+.++|++|+||||+|+.+++.....|   ..+.    .+........  
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~---~~~~----~~~~~~~~~~--   77 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---RVTS----GPAIEKPGDL--   77 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCE---EEEE----TTTCCSHHHH--
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCe---Eecc----CCccccchhh--
Confidence            346789999888888777642   223356788999999999999999998764332   2222    1111111000  


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCH--HHHHHHhcCC--------C----------CCCCCcEE
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKP--EQLIFLVGGL--------D----------RFGPRSRI  303 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~--~~l~~l~~~~--------~----------~~~~g~~I  303 (420)
                                        ...+...+ +.+.++++|+++..  ..-+.+....        .          ...+...+
T Consensus        78 ------------------~~~~~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (239)
T d1ixsb2          78 ------------------AAILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  138 (239)
T ss_dssp             ------------------HHHHHTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEE
T ss_pred             ------------------HHHHHhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEE
Confidence                              11111122 23345667877432  1111111100        0          00122334


Q ss_pred             Ee-ecCChhh--hhhcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          304 IV-TTRDKQV--FDECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       304 Ii-TtR~~~~--~~~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      +. |++....  .........+.+...+.++..+++...+........  .+....|++.++|.+....
T Consensus       139 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~--~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         139 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRIT--EEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             EEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCBC--HHHHHHHHHHTTSSHHHHH
T ss_pred             EeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCccc--hHHHHHHHHHcCCCHHHHH
Confidence            43 4443221  122234678899999999999888776643332221  3567899999999876554

>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=98.32  E-value=6.4e-07  Score=78.33  Aligned_cols=172  Identities=13%  Similarity=0.126  Sum_probs=96.5

Q ss_pred             CCCCcccccccceeeeccccc---CCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHH
Q 046970          167 DFTGSVGVNSRIRHIKSLLHL---GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRE  243 (420)
Q Consensus       167 ~~~~~vGR~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~  243 (420)
                      ..+++||-+..+++|..++..   .....+.+.++|++|+||||+|+.+++.+...+   ..+..    +.......+. 
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~---~~~~~----~~~~~~~~~~-   78 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI---HVTSG----PVLVKQGDMA-   78 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCE---EEEET----TTCCSHHHHH-
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCc---ccccC----cccccHHHHH-
Confidence            346789999988888887752   122345688999999999999999998865432   12221    1111111111 


Q ss_pred             HHHHHHhhccccCCCCCchHHHHHHhcCCeEEEEEeCCCCHHH-----HHHHhcC---------------CCCCCCCcEE
Q 046970          244 RVLSEILEENLKIGTLNLPEYIKERLQQMKVFIVLDDVNKPEQ-----LIFLVGG---------------LDRFGPRSRI  303 (420)
Q Consensus       244 ~ll~~l~~~~~~~~~~~~~~~l~~~l~~~~~LlVLDdv~~~~~-----l~~l~~~---------------~~~~~~g~~I  303 (420)
                      .++..                     .+++..+++|.++....     +......               .....+...+
T Consensus        79 ~~~~~---------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          79 AILTS---------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             HHHHH---------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             HHHHh---------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEE
Confidence            11111                     22344556666533210     1111110               0001223445


Q ss_pred             EeecCCh-hhhh--hcCCCeEEEeCCCCHHHHHHHHHhcccCCCCCchhHHHHHHHHHHHhcCChHHHH
Q 046970          304 IVTTRDK-QVFD--ECEVDSIYEVEGLNKDESLELFSNFAFRQKICPKDFLVLSKRVVDYANGNPLALK  369 (420)
Q Consensus       304 IiTtR~~-~~~~--~~~~~~~~~l~~L~~~ea~~L~~~~a~~~~~~~~~~~~~~~~i~~~~~G~PLal~  369 (420)
                      |.+|.+. ....  .......+.++..+.++...++...+........  ++....+++.++|.+..+.
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~l~~i~~~s~gd~R~ai  204 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIE--DAAAEMIAKRSRGTPRIAI  204 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBC--HHHHHHHHHTSTTCHHHHH
T ss_pred             EEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhh--HHHHHHHHHhCCCCHHHHH
Confidence            5555443 3211  2234567899999999999999877754332222  2457888999999877664

>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=97.60  E-value=0.0003  Score=57.39  Aligned_cols=25  Identities=32%  Similarity=0.500  Sum_probs=22.2

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhcc
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      |+|+|++|+|||||++.++..+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            7899999999999999999877543

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.44  E-value=0.0001  Score=61.88  Aligned_cols=129  Identities=11%  Similarity=0.057  Sum_probs=72.8

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhcc---ccceEEEEeccccccccCHHHHHHHHHHHHhhccc
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE---FEGECFITNVREESERVGLVHLRERVLSEILEENL  254 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~  254 (420)
                      ++.+.+++..+  ....+.++|.+|+|||++|..+.+.+...   .+...++..   ....-++..+. .+...+.... 
T Consensus         3 ~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~---~~~~I~Id~IR-~i~~~~~~~~-   75 (198)
T d2gnoa2           3 LETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDP---EGENIGIDDIR-TIKDFLNYSP-   75 (198)
T ss_dssp             HHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECC---SSSCBCHHHHH-HHHHHHTSCC-
T ss_pred             HHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeC---CcCCCCHHHHH-HHHHHHhhCc-
Confidence            34445555533  46789999999999999999999866432   223444431   11112333332 2322222111 


Q ss_pred             cCCCCCchHHHHHHhcCCeEEEEEeCCCC--HHHHHHHhcCCCCCCCCcEEEeecCChh-hhhhc-CCCeEEEeCCC
Q 046970          255 KIGTLNLPEYIKERLQQMKVFIVLDDVNK--PEQLIFLVGGLDRFGPRSRIIVTTRDKQ-VFDEC-EVDSIYEVEGL  327 (420)
Q Consensus       255 ~~~~~~~~~~l~~~l~~~~~LlVLDdv~~--~~~l~~l~~~~~~~~~g~~IIiTtR~~~-~~~~~-~~~~~~~l~~L  327 (420)
                                    ..+++-++|+|+++.  .+....|+..+....+++.+|++|.+.. +.+.. .....+.+.+.
T Consensus        76 --------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p  138 (198)
T d2gnoa2          76 --------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP  138 (198)
T ss_dssp             --------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             --------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCc
Confidence                          124556999999964  3455666666655567777776666543 33322 23466677644

>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=97.41  E-value=5.9e-05  Score=61.76  Aligned_cols=37  Identities=14%  Similarity=0.063  Sum_probs=29.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~  227 (420)
                      ...+|.|+|++|+||||+|+.++.++...| +...++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~   42 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL   42 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhhh
Confidence            457899999999999999999999886544 4444443

>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=97.34  E-value=0.00085  Score=56.39  Aligned_cols=31  Identities=26%  Similarity=0.349  Sum_probs=26.2

Q ss_pred             CCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          189 LPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       189 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+.++.++|+.|+||||.+..++.+++.+
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~   36 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQ   36 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4457899999999999999999999877644

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.33  E-value=5.2e-05  Score=62.45  Aligned_cols=25  Identities=20%  Similarity=0.282  Sum_probs=23.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ++.|+|.|++|+||||||+.+++++
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999875

>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=97.30  E-value=9e-05  Score=61.65  Aligned_cols=37  Identities=22%  Similarity=0.082  Sum_probs=29.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ...+|.|+|++|+||||||+.++.++...+....++.
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~   54 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   54 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchh
Confidence            3568889999999999999999998876665555543

>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=97.26  E-value=0.00011  Score=59.55  Aligned_cols=29  Identities=17%  Similarity=0.283  Sum_probs=25.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .++++|+|.+|+|||||++++.+.+..+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g   30 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARG   30 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCC
Confidence            36899999999999999999999876553

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.25  E-value=5.4e-05  Score=60.95  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=21.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.|.|+|++|+||||+|+.++.++
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            457888999999999999999986

>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=97.21  E-value=0.00018  Score=61.84  Aligned_cols=54  Identities=9%  Similarity=0.020  Sum_probs=35.2

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      .-.+.+.|..++-+|+||.-..   .   .++..++..+.. ..|..||++|.+...+..+
T Consensus       144 RvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~-~~g~tii~vTHd~~~a~~~  203 (239)
T d1v43a3         144 RVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQ-KLKVTTIYVTHDQVEAMTM  203 (239)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHH-HHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHHHHH-hcCCeEEEEeCCHHHHHHh
Confidence            6678888999999999997632   1   223333322210 1367799999998776554

>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=97.20  E-value=0.0001  Score=60.55  Aligned_cols=27  Identities=33%  Similarity=0.342  Sum_probs=23.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      +.|.|+|++|+|||||+++++..+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            468999999999999999999987554

>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=97.14  E-value=0.00014  Score=62.87  Aligned_cols=26  Identities=31%  Similarity=0.423  Sum_probs=22.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|+|..|.|||||++.+..-+
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            45699999999999999999988743

>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=97.13  E-value=0.00011  Score=59.74  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=21.8

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ++|.|.|++|+||||+|+.++..+
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            578999999999999999998765

>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=0.00012  Score=58.20  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ++|.|+|++|+||||||+++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999988664

>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=97.08  E-value=0.00026  Score=58.70  Aligned_cols=38  Identities=24%  Similarity=0.351  Sum_probs=29.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .+.-+|+|.|.+|+||||||+.+...+.........+.
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~   57 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFH   57 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhccccccceecc
Confidence            34668999999999999999999988776554444443

>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=97.06  E-value=0.00016  Score=58.61  Aligned_cols=27  Identities=30%  Similarity=0.510  Sum_probs=24.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++.|.|++|+||||+|+.++.++
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            457899999999999999999999876

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.03  E-value=0.00014  Score=59.02  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|.|.|++|+||||+|+.++.++
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            46799999999999999999876

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.02  E-value=0.00014  Score=59.26  Aligned_cols=26  Identities=15%  Similarity=0.252  Sum_probs=23.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .++|.|.|++|+||||+|+.+++++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999999764

>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=97.02  E-value=0.00025  Score=61.78  Aligned_cols=26  Identities=31%  Similarity=0.335  Sum_probs=22.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|+|++|+|||||++.+..-+
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45699999999999999999987643

>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=97.00  E-value=0.0017  Score=54.57  Aligned_cols=42  Identities=19%  Similarity=0.225  Sum_probs=31.6

Q ss_pred             ccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          186 HLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       186 ~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.....+.++.++|+.|+||||.+..++.++..+-..+..+.
T Consensus         5 ~~~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit   46 (213)
T d1vmaa2           5 NVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAA   46 (213)
T ss_dssp             CCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEe
Confidence            334456789999999999999998888887765544455554

>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=96.99  E-value=0.00027  Score=58.01  Aligned_cols=28  Identities=25%  Similarity=0.411  Sum_probs=25.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      ++|+|.|++|+||||+++.++.++....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~   29 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEG   29 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            6899999999999999999999886554

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.96  E-value=0.00018  Score=58.38  Aligned_cols=25  Identities=20%  Similarity=0.345  Sum_probs=20.7

Q ss_pred             EEEeccCcchHHHHHHHHHHHhhcc
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      |.+.|++|+||||+++.++.++.-.
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~   28 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVG   28 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4455999999999999999987443

>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=96.94  E-value=0.00041  Score=59.77  Aligned_cols=53  Identities=11%  Similarity=0.098  Sum_probs=34.5

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC------HHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK------PEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~------~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      .-.+...+..++-+|+||+...      ..++..++..+.  ..|..||+||.+.......
T Consensus       141 rv~iA~al~~~p~illLDEPt~gLD~~~~~~i~~~i~~~~--~~g~tii~~tH~l~~~~~~  199 (238)
T d1vpla_         141 KLLIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQAS--QEGLTILVSSHNMLEVEFL  199 (238)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHH--HTTCEEEEEECCHHHHTTT
T ss_pred             HHHHHHHHhcCCCEEEecCCCCCCCHHHHHHHHHHHHHHH--hcCCEEEEEeCCHHHHHHh
Confidence            4466777888899999997622      223333433332  2467799999988766543

>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=96.92  E-value=0.00058  Score=58.65  Aligned_cols=54  Identities=13%  Similarity=0.091  Sum_probs=34.6

Q ss_pred             hHHHHHHhcCCeEEEEEeCCC------CHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVN------KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~------~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      .-.+.+.|..++-+|++|+..      ...++..++..+.. ..|..||++|.+...+...
T Consensus       148 RvaiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~-~~g~tvi~vTHd~~~~~~~  207 (242)
T d1oxxk2         148 RVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQS-RLGVTLLVVSHDPADIFAI  207 (242)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHH-HHCCEEEEEESCHHHHHHH
T ss_pred             HHHHHhHHhhcccceeecCCccCCCHHHHHHHHHHHHHHHh-ccCCEEEEEECCHHHHHHh
Confidence            566778888999999999762      22334343333211 1366799999987665443

>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=96.90  E-value=0.00036  Score=56.47  Aligned_cols=34  Identities=18%  Similarity=0.034  Sum_probs=27.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ++++|+|..|+|||||+.++...++.+-..+.-+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vi   35 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTV   35 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            6899999999999999999999887653333333

>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=96.90  E-value=0.00026  Score=62.06  Aligned_cols=29  Identities=28%  Similarity=0.363  Sum_probs=24.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .++.|.++|++|+||||||+.++..+...
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            45678999999999999999999987544

>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=96.90  E-value=0.00081  Score=60.28  Aligned_cols=49  Identities=14%  Similarity=0.057  Sum_probs=33.1

Q ss_pred             cccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          171 SVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       171 ~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .+||......+.+.|.... ...++.++|+||+|||.||+.++..+..++
T Consensus       103 v~~~~~~~~~~~~~~~~~~-~~g~~l~~G~pG~GKT~la~ala~~~~~~~  151 (321)
T d1w44a_         103 TGELVGCSPVVAEFGGHRY-ASGMVIVTGKGNSGKTPLVHALGEALGGKD  151 (321)
T ss_dssp             CTTCCSBCCEEEEETTEEE-ESEEEEEECSSSSCHHHHHHHHHHHHHTTS
T ss_pred             hccccccchHHHHHhhccc-CCceEEEECCCCccHHHHHHHHHHHhcCCC
Confidence            3456655555655553111 124566799999999999999999876443

>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=96.89  E-value=0.00052  Score=59.59  Aligned_cols=26  Identities=27%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....++|+|++|.|||||++.+..-+
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhccc
Confidence            45799999999999999999987643

>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=96.89  E-value=0.0025  Score=53.32  Aligned_cols=37  Identities=22%  Similarity=0.182  Sum_probs=28.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.+++.++|++|+||||.+..++.+++.+-..+..+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit   45 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA   45 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4578999999999999999999987766544444443

>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=0.00033  Score=58.29  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=24.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.+.+|.|.|++|+||||+|+.+++.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            356899999999999999999998865

>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=96.85  E-value=0.0003  Score=57.07  Aligned_cols=26  Identities=31%  Similarity=0.282  Sum_probs=22.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..-.|.|.|++|+||||+|+.+++++
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34468899999999999999999875

>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=96.81  E-value=0.0034  Score=52.45  Aligned_cols=37  Identities=24%  Similarity=0.229  Sum_probs=28.7

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+++.++|+.|+||||.+..++.++..+-..+..+.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit   41 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCA   41 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4679999999999999999999887765434455543

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.81  E-value=0.00027  Score=57.11  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=20.4

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|.||+|+||||+++.++.++
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6778999999999999999987

>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=96.80  E-value=0.00076  Score=58.10  Aligned_cols=26  Identities=38%  Similarity=0.427  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||.+.+..-+
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45799999999999999999998643

>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=96.80  E-value=0.0002  Score=58.23  Aligned_cols=26  Identities=35%  Similarity=0.303  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++|.|.|++|+||||+|+.++.++
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999987654

>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=96.79  E-value=0.00055  Score=56.25  Aligned_cols=34  Identities=21%  Similarity=0.284  Sum_probs=27.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      +++.|.|++|+||||+++.++.++..+.-....+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~   35 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKII   35 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence            6889999999999999999999886553333333

>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=96.79  E-value=0.0037  Score=52.37  Aligned_cols=38  Identities=18%  Similarity=0.112  Sum_probs=25.0

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+.++.++|+.|+||||.+..++.+++.+-..+..+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit   47 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVG   47 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEE
Confidence            35789999999999999999888887655433444444

>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=96.78  E-value=0.00025  Score=57.75  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=21.2

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .|.|.|++|+||||+|+.+++++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            466889999999999999998873

>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=96.76  E-value=0.00059  Score=57.22  Aligned_cols=28  Identities=14%  Similarity=0.154  Sum_probs=24.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      +.+|.++|.+|+||||||++++..+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3578999999999999999999876544

>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=96.73  E-value=0.00027  Score=61.54  Aligned_cols=24  Identities=33%  Similarity=0.356  Sum_probs=21.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ....++|+|..|.|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            456999999999999999998775

>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=96.71  E-value=0.00048  Score=57.39  Aligned_cols=27  Identities=19%  Similarity=0.281  Sum_probs=24.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +..++|.|.|++|+||||+|+.+++++
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999998865

>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=96.67  E-value=0.0022  Score=56.42  Aligned_cols=27  Identities=26%  Similarity=0.374  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ....+++|+|++|+|||||++.++..+
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            356799999999999999999998754

>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=96.64  E-value=0.0012  Score=57.45  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|.|||||++.++..+
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            45799999999999999999998754

>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=96.63  E-value=0.0026  Score=55.55  Aligned_cols=93  Identities=20%  Similarity=0.153  Sum_probs=55.7

Q ss_pred             eecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhcccc----
Q 046970          181 IKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLK----  255 (420)
Q Consensus       181 l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~----  255 (420)
                      |...|. .+-+..+++-|+|++|+||||||.+++......-..++|++.-.    ..+...     +..++.....    
T Consensus        48 lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~----~~~~e~-----a~~~GvD~d~il~~  118 (269)
T d1mo6a1          48 LDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEH----ALDPDY-----AKKLGVDTDSLLVS  118 (269)
T ss_dssp             HHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSC----CCCHHH-----HHHHTCCGGGCEEE
T ss_pred             HHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCc----cCCHHH-----HHHhCCCHHHeEEe
Confidence            334453 44456789999999999999999999887666556678887222    222222     2333222221    


Q ss_pred             -CCCCCc-hHHHHHHhc-CCeEEEEEeCCC
Q 046970          256 -IGTLNL-PEYIKERLQ-QMKVFIVLDDVN  282 (420)
Q Consensus       256 -~~~~~~-~~~l~~~l~-~~~~LlVLDdv~  282 (420)
                       ....+. .+.+..... ++..|+|+|.+.
T Consensus       119 ~~~~~E~~~~~~~~l~~~~~~~liIiDSi~  148 (269)
T d1mo6a1         119 QPDTGEQALEIADMLIRSGALDIVVIDSVA  148 (269)
T ss_dssp             CCSSHHHHHHHHHHHHHTTCEEEEEEECST
T ss_pred             cCCCHHHHHHHHHHHHhcCCCCEEEEeccc
Confidence             122222 333444444 357899999883

>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=96.56  E-value=0.00054  Score=58.95  Aligned_cols=47  Identities=17%  Similarity=0.197  Sum_probs=37.6

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |.+.|..+-+...++.|+|.+|+|||+||.+++.....+...++|+.
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            34445444455789999999999999999999998877777788876

>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=96.56  E-value=0.0017  Score=58.27  Aligned_cols=27  Identities=22%  Similarity=0.295  Sum_probs=23.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ..++.++|++|+|||.||+.+++.+..
T Consensus        53 ~~~~lf~Gp~G~GKt~lak~la~~l~~   79 (315)
T d1qvra3          53 IGSFLFLGPTGVGKTELAKTLAATLFD   79 (315)
T ss_dssp             SEEEEEBSCSSSSHHHHHHHHHHHHHS
T ss_pred             ceEEEEECCCcchHHHHHHHHHHHhcC
Confidence            347889999999999999999998743

>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=96.55  E-value=0.00048  Score=56.28  Aligned_cols=26  Identities=31%  Similarity=0.455  Sum_probs=22.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +...+|.++|++|+||||+|+.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            35679999999999999999987653

>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=96.45  E-value=0.001  Score=56.02  Aligned_cols=38  Identities=16%  Similarity=0.116  Sum_probs=28.7

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccc-cceEEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEF-EGECFIT  227 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~v~  227 (420)
                      +...+|-++|++|.||||||+++..++...+ ....+++
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ld   60 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   60 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEc
Confidence            3567999999999999999999998774433 2344443

>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=96.44  E-value=0.0018  Score=56.51  Aligned_cols=47  Identities=34%  Similarity=0.374  Sum_probs=35.9

Q ss_pred             eecccc-cCCCCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          181 IKSLLH-LGLPDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       181 l~~~L~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      |..+|. .+-+..+++-|+|++|+||||||.+++......-..++|++
T Consensus        42 lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid   89 (263)
T d1u94a1          42 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   89 (263)
T ss_dssp             HHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc
Confidence            333443 33345689999999999999999999988766656678887

>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=96.43  E-value=0.00074  Score=57.12  Aligned_cols=25  Identities=28%  Similarity=0.399  Sum_probs=23.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .++|+|.|++|+||||+|+.+++++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3599999999999999999999986

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.32  E-value=0.00078  Score=55.88  Aligned_cols=27  Identities=37%  Similarity=0.485  Sum_probs=23.1

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .|+|+|++|+|||||++.++......|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            477999999999999999998765544

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.31  E-value=0.00081  Score=55.55  Aligned_cols=29  Identities=31%  Similarity=0.508  Sum_probs=24.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcccc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFE  221 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~  221 (420)
                      +.|.|+|++|+|||||++.++.+....|.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCccee
Confidence            45789999999999999999988665554

>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=96.30  E-value=0.0011  Score=54.89  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=22.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+|.|.|++|+||||+|+.+++.+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999999865

>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=0.0012  Score=55.51  Aligned_cols=27  Identities=19%  Similarity=0.324  Sum_probs=23.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +-+|+|.|..|+||||||+.+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            458999999999999999999987654

>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=96.27  E-value=0.00086  Score=60.22  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=23.0

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .+.+.++|++|+|||.||+.+++....
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~~~~   75 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKLANA   75 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             CceEEEECCCCCCHHHHHHHHhhcccc
Confidence            456779999999999999999987643

>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=96.26  E-value=0.0029  Score=55.17  Aligned_cols=83  Identities=23%  Similarity=0.150  Sum_probs=50.8

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhcccc-----CCCCCc-hH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLK-----IGTLNL-PE  263 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~-----~~~~~~-~~  263 (420)
                      +..+++-|+|++|+|||+||.+++......=..++|++.-    ...+.     .++..++-....     ..+.+. .+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE----~~~~~-----~~a~~~Gvd~d~i~~~~~~~~E~~~~  125 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAE----HALDP-----VYARALGVNTDELLVSQPDNGEQALE  125 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESS----CCCCH-----HHHHHTTCCGGGCEEECCSSHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECC----ccCCH-----HHHHHhCCCchhEEEEcCCCHHHHHH
Confidence            4578999999999999999999998765544567888722    22222     233333322221     122222 44


Q ss_pred             HHHHHhcC-CeEEEEEeCC
Q 046970          264 YIKERLQQ-MKVFIVLDDV  281 (420)
Q Consensus       264 ~l~~~l~~-~~~LlVLDdv  281 (420)
                      .+...+.. ..-|+|+|-+
T Consensus       126 ~~~~l~~~~~~~liIiDSi  144 (268)
T d1xp8a1         126 IMELLVRSGAIDVVVVDSV  144 (268)
T ss_dssp             HHHHHHTTTCCSEEEEECT
T ss_pred             HHHHHHhcCCCcEEEEecc
Confidence            44444443 4669999987

>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=96.13  E-value=0.0013  Score=53.71  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=20.1

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|.|++|+||||+|+.++.++
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            6799999999999999998875

>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=96.10  E-value=0.0024  Score=55.80  Aligned_cols=35  Identities=29%  Similarity=0.417  Sum_probs=28.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.|+|+|-||+||||+|..++..+...-..+.-++
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID   36 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVG   36 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            68899999999999999999998866544455554

>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=96.07  E-value=0.0013  Score=54.20  Aligned_cols=23  Identities=30%  Similarity=0.156  Sum_probs=20.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|.|.|++|+||||+|+.+++++
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            46799999999999999998876

>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=96.03  E-value=0.0016  Score=54.98  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=21.2

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +|+|-|++|+||||+|+.++.++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999986

>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=96.02  E-value=0.0016  Score=53.93  Aligned_cols=26  Identities=27%  Similarity=0.291  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..++|.|.|++|+||||+|+.+++++
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998864

>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=96.02  E-value=0.0014  Score=54.12  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=19.7

Q ss_pred             EEEEeccCcchHHHHHHHHHHHh
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .|.|.|++|+||||+|+.++.++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            34577999999999999999865

>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=95.99  E-value=0.0016  Score=53.26  Aligned_cols=29  Identities=14%  Similarity=0.452  Sum_probs=24.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhcccc
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFE  221 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~  221 (420)
                      +.|.|+|++|+|||||++++..+....|.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~   32 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRFA   32 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCee
Confidence            57899999999999999999887655554

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.98  E-value=0.0017  Score=53.12  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|.|++|+||||+|+.+++.+
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999999876

>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=95.96  E-value=0.0017  Score=53.11  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=20.1

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|.|++|+||||+|+.++.++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6689999999999999999876

>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=95.93  E-value=0.0072  Score=52.58  Aligned_cols=54  Identities=20%  Similarity=0.287  Sum_probs=34.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc-cccceEEEEeccccccccCHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS-EFEGECFITNVREESERVGLVHLRERVLS  247 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~v~~~~~~~~~~~~~~l~~~ll~  247 (420)
                      ..+-++|.|.+|+|||+|+..+++.... +-+.++++ .+++.  .....++.+.+..
T Consensus        67 kGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~-~iGer--~~ev~~~~~~~~~  121 (276)
T d2jdid3          67 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA-GVGER--TREGNDLYHEMIE  121 (276)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEE-EESCC--HHHHHHHHHHHHH
T ss_pred             CCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEE-EeccC--hHHHHHHHHHHHh
Confidence            3467999999999999999999987543 32334444 33322  2334455555544

>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=95.89  E-value=0.002  Score=52.73  Aligned_cols=25  Identities=28%  Similarity=0.474  Sum_probs=22.1

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ++|.|+|++|+|||||++.+..+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5889999999999999999887653

>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=95.84  E-value=0.0026  Score=57.28  Aligned_cols=31  Identities=29%  Similarity=0.264  Sum_probs=26.2

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      ....+|+|+|.||+|||||...+...+...-
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g   82 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREG   82 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHHhcC
Confidence            3578999999999999999999988765543

>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=95.82  E-value=0.0046  Score=54.46  Aligned_cols=37  Identities=19%  Similarity=0.205  Sum_probs=28.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ..+++.++|-||+||||+|..++..+..+-..+..++
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            4678999999999999999999988766533444443

>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=95.80  E-value=0.0038  Score=53.55  Aligned_cols=35  Identities=29%  Similarity=0.369  Sum_probs=28.2

Q ss_pred             cccccCCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          183 SLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       183 ~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|..+-+..+++.|+|.+|+||||||.+++....
T Consensus        27 ~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          27 KLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            44444445678999999999999999999998654

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.80  E-value=0.0027  Score=52.28  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=21.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +.++| |.|++|+||||+|+.++.++
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            35666 68999999999999999875

>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=95.79  E-value=0.0044  Score=54.22  Aligned_cols=37  Identities=27%  Similarity=0.368  Sum_probs=28.3

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ++.++|.++|-||+||||+|..++..+...-..+..+
T Consensus        18 ~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllv   54 (279)
T d1ihua2          18 NEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLT   54 (279)
T ss_dssp             TSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            4678999999999999999999888765543333333

>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=95.76  E-value=0.0033  Score=56.45  Aligned_cols=29  Identities=31%  Similarity=0.385  Sum_probs=24.9

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      ....+|+|+|+||+|||||..++...+..
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~~~   77 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLLTA   77 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHHhh
Confidence            35689999999999999999999986543

>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=95.71  E-value=0.0025  Score=52.00  Aligned_cols=24  Identities=33%  Similarity=0.469  Sum_probs=20.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+++ |.|++|+||||+|+.++.++
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHHHh
Confidence            3444 77999999999999999875

>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=95.69  E-value=0.0017  Score=54.34  Aligned_cols=35  Identities=23%  Similarity=0.248  Sum_probs=27.2

Q ss_pred             cccccCCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          183 SLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       183 ~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+|..+-...+++.|.|++|+|||+||.+++....
T Consensus        14 ~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          14 KLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             HHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            34443334568999999999999999999997653

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=95.63  E-value=0.012  Score=53.52  Aligned_cols=26  Identities=35%  Similarity=0.354  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+++.|+|++|.||||++..+...+.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~  188 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALI  188 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHH
Confidence            36899999999999999887765543

>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=95.62  E-value=0.0028  Score=51.63  Aligned_cols=22  Identities=27%  Similarity=0.243  Sum_probs=19.7

Q ss_pred             EEEeccCcchHHHHHHHHHHHh
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.|.|++|+||||+|+.++.++
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999998865

>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=95.58  E-value=0.0016  Score=59.60  Aligned_cols=32  Identities=28%  Similarity=0.289  Sum_probs=27.2

Q ss_pred             CCCCceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          188 GLPDFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       188 ~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      +.+..+.+.++|++|+|||++|..+++.+...
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            44566799999999999999999999987543

>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=95.48  E-value=0.0047  Score=52.65  Aligned_cols=27  Identities=33%  Similarity=0.516  Sum_probs=22.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      ||+|.|+.|.|||||...+.+......
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~~~   28 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLEDNY   28 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhCC
Confidence            789999999999999999987654443

>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=95.48  E-value=0.0058  Score=53.85  Aligned_cols=36  Identities=25%  Similarity=0.426  Sum_probs=27.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .+.|+|+|-||+||||+|..++..+...-..+.-++
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID   37 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVG   37 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEe
Confidence            367789999999999999999987766533455554

>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=95.46  E-value=0.0036  Score=53.73  Aligned_cols=36  Identities=22%  Similarity=0.294  Sum_probs=29.0

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |..+|..+-+..+++.|+|.+|+|||+||.+++...
T Consensus        26 LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          26 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            334555555667899999999999999999999764

>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=95.41  E-value=0.004  Score=52.68  Aligned_cols=50  Identities=30%  Similarity=0.289  Sum_probs=33.4

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHh-hccccceEEEE
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI-SSEFEGECFIT  227 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~-~~~f~~~~~v~  227 (420)
                      +..|.+.|..+-+...++.|+|.+|+|||+||.+++... ...-..+.|+.
T Consensus        12 i~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s   62 (242)
T d1tf7a1          12 IEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   62 (242)
T ss_dssp             CTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             cHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccc
Confidence            334555555444567899999999999999999877643 33223445544

>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=95.38  E-value=0.0032  Score=51.85  Aligned_cols=22  Identities=41%  Similarity=0.424  Sum_probs=19.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~  213 (420)
                      +-+|+|+|+.|+||||+|..+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999998774

>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=95.27  E-value=0.0066  Score=53.93  Aligned_cols=30  Identities=27%  Similarity=0.137  Sum_probs=26.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .+-+|+|.|.+|+||||+|+.+...+...+
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~~~  108 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSRWP  108 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTTST
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhhhc
Confidence            467999999999999999999998876544

>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=95.26  E-value=0.0025  Score=53.09  Aligned_cols=27  Identities=33%  Similarity=0.437  Sum_probs=23.4

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +...+++|+|++|+|||||.+.++..+
T Consensus        25 ~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          25 EKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhccc
Confidence            345799999999999999999998754

>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=95.22  E-value=0.0088  Score=50.51  Aligned_cols=35  Identities=23%  Similarity=0.320  Sum_probs=28.7

Q ss_pred             eEEEEe-ccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIW-GMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~-G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ++|+|+ |-||+||||+|..++..+..+-..++.++
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD   37 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVD   37 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEe
Confidence            677777 88999999999999998877655666665

>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=95.17  E-value=0.0042  Score=55.67  Aligned_cols=26  Identities=19%  Similarity=0.212  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..++.++|++|+|||.||+.++..+.
T Consensus        52 ~~~~lf~Gp~GvGKT~lak~la~~l~   77 (315)
T d1r6bx3          52 VGSFLFAGPTGVGKTEVTVQLSKALG   77 (315)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCcchhHHHHHHHHhhcc
Confidence            45788999999999999999998763

>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=95.16  E-value=0.0052  Score=53.89  Aligned_cols=29  Identities=21%  Similarity=0.313  Sum_probs=22.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ...+|+|.|.+|.||||+++.+.+.++..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            45699999999999999999998877543

>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=95.15  E-value=0.0021  Score=54.96  Aligned_cols=36  Identities=19%  Similarity=0.253  Sum_probs=27.8

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |..+|..+-+..+++.|+|.+|+||||||.+++...
T Consensus        23 LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          23 LDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             HHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             HHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            334554444567899999999999999999998653

>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=95.09  E-value=0.0096  Score=49.77  Aligned_cols=35  Identities=11%  Similarity=0.157  Sum_probs=27.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      ...|+|-|+.|+||||+++.+.+.+..+-..+..+
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            35788999999999999999999886653334444

>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=95.09  E-value=0.0022  Score=55.41  Aligned_cols=46  Identities=22%  Similarity=0.097  Sum_probs=33.9

Q ss_pred             CcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH
Q 046970          170 GSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       170 ~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .|||....++++.+.+..-......|.|+|..|+|||++|+.+...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            3677777777777666542223345789999999999999999764

>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=95.09  E-value=0.005  Score=54.03  Aligned_cols=30  Identities=20%  Similarity=0.232  Sum_probs=25.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      .+-+|+|.|..|+|||||+..+...+...+
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~   55 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKY   55 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHh
Confidence            356899999999999999999988775543

>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=95.09  E-value=0.0055  Score=52.05  Aligned_cols=26  Identities=27%  Similarity=0.256  Sum_probs=22.6

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .+..+++|.|++|+|||||.+.++.-
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcC
Confidence            35679999999999999999998763

>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=95.04  E-value=0.0061  Score=50.87  Aligned_cols=26  Identities=15%  Similarity=0.199  Sum_probs=22.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..++.|+|++|+|||||.+.+..+..
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            35788999999999999999988753

>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=94.94  E-value=0.0053  Score=52.10  Aligned_cols=60  Identities=20%  Similarity=0.227  Sum_probs=37.9

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhcCCCeEEEe
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDECEVDSIYEV  324 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~~~~~~~~l  324 (420)
                      .-.+.+.|..+|-+|++|....   .   .++-.++..+.. ..|..||++|.+..++. + +++++.|
T Consensus       153 RvaIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~-~~g~tii~vTHd~~~a~-~-~drv~~m  218 (230)
T d1l2ta_         153 RVAIARALANNPPIILADQPTGALDSKTGEKIMQLLKKLNE-EDGKTVVVVTHDINVAR-F-GERIIYL  218 (230)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHH-TTCCEEEEECSCHHHHT-T-SSEEEEE
T ss_pred             HHHHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHHHH-hhCCEEEEECCCHHHHH-h-CCEEEEE
Confidence            5667778889999999998632   1   223333322211 24777999999988764 3 5555544

>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=94.90  E-value=0.0063  Score=51.95  Aligned_cols=54  Identities=11%  Similarity=0.033  Sum_probs=34.1

Q ss_pred             hHHHHHHhcCCeEEEEEeCCCC---H---HHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVNK---P---EQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~~---~---~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      .-.+.+.|..+|-+|++|.-..   .   ..+..++..+.. ..|..||++|.+...+...
T Consensus       147 Rv~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~-~~g~tvi~vTHd~~~~~~~  206 (240)
T d1g2912         147 RVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQR-QLGVTTIYVTHDQVEAMTM  206 (240)
T ss_dssp             HHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHHH-HHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHHHHh-ccCCEEEEEcCCHHHHHHh
Confidence            5667888899999999997622   1   223333322210 1367799999997765543

>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=94.89  E-value=0.0069  Score=51.25  Aligned_cols=26  Identities=31%  Similarity=0.208  Sum_probs=22.9

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|.|++|+|||||.+.++.-.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            45799999999999999999998743

>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=94.82  E-value=0.0059  Score=51.99  Aligned_cols=36  Identities=25%  Similarity=0.284  Sum_probs=27.7

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      |.++|..+-....++.|.|.+|+|||++|.+++...
T Consensus        23 LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          23 LDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             HHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            334444333456899999999999999999999764

>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=94.82  E-value=0.013  Score=48.63  Aligned_cols=26  Identities=23%  Similarity=0.454  Sum_probs=23.2

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      .|+|-|+-|+||||+++.+.+.+..+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            57899999999999999999988654

>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=94.82  E-value=0.0056  Score=52.26  Aligned_cols=54  Identities=15%  Similarity=0.225  Sum_probs=33.9

Q ss_pred             hHHHHHHhcCCeEEEEEeCCC------CHHHHHHHhcCCCCCCCCcEEEeecCChhhhhhc
Q 046970          262 PEYIKERLQQMKVFIVLDDVN------KPEQLIFLVGGLDRFGPRSRIIVTTRDKQVFDEC  316 (420)
Q Consensus       262 ~~~l~~~l~~~~~LlVLDdv~------~~~~l~~l~~~~~~~~~g~~IIiTtR~~~~~~~~  316 (420)
                      .-.+.+.|..+|-+|++|.-.      ...++..++..+.. ..|..||++|.+...+..+
T Consensus       148 RvaiAraL~~~P~lLllDEPt~~LD~~~~~~i~~~l~~l~~-~~g~tvi~vTHdl~~~~~~  207 (240)
T d3dhwc1         148 RVAIARALASNPKVLLCDEATSALDPATTRSILELLKDINR-RLGLTILLITHEMDVVKRI  207 (240)
T ss_dssp             HHHHHHHHHTCCSEEEEESGGGSSCHHHHHHHHHHHHHHHH-HHCCEEEEEBSCHHHHHHH
T ss_pred             HHHHhhhhccCCCeEEeccccccCCHHHhhHHHHHHHHHHh-ccCCEEEEEcCCHHHHHHh
Confidence            456777788899999999751      12223333332211 1367799999998776554

>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=94.79  E-value=0.0072  Score=47.53  Aligned_cols=21  Identities=24%  Similarity=0.216  Sum_probs=18.8

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |.|+|.+|+|||||...+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999998764

>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=94.75  E-value=0.1  Score=43.97  Aligned_cols=24  Identities=25%  Similarity=0.146  Sum_probs=21.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      +.+++.|+|++..||||+.+.++-
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHH
Confidence            347899999999999999999885

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.72  E-value=0.0053  Score=50.62  Aligned_cols=26  Identities=31%  Similarity=0.119  Sum_probs=22.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+-+|+|-|.-|+||||+++.+.+.+
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            45689999999999999999887654

>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=94.67  E-value=0.0067  Score=52.50  Aligned_cols=26  Identities=31%  Similarity=0.335  Sum_probs=22.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+++|+|++|.|||||++.++.-.
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            56799999999999999999997643

>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=94.64  E-value=0.0067  Score=53.11  Aligned_cols=37  Identities=16%  Similarity=-0.027  Sum_probs=28.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEEE
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFIT  227 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v~  227 (420)
                      ..+.++|.|.+|+|||+|+..+++....+ -..++++.
T Consensus        42 rGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~   79 (289)
T d1xpua3          42 RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVL   79 (289)
T ss_dssp             TTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEE
T ss_pred             CCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEE
Confidence            45788999999999999999999876443 34444444

>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=94.60  E-value=0.016  Score=48.90  Aligned_cols=35  Identities=29%  Similarity=0.385  Sum_probs=28.3

Q ss_pred             eEEEEe-ccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIW-GMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~-G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      ++|+|+ +-||+||||+|..++..+...-..+..++
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD   38 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVD   38 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEe
Confidence            688888 66999999999999998776655566665

>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=94.57  E-value=0.008  Score=51.47  Aligned_cols=26  Identities=23%  Similarity=0.204  Sum_probs=22.8

Q ss_pred             CCceEEEEeccCcchHHHHHHHHHHH
Q 046970          190 PDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       190 ~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +....++|+|++|.|||||++.+..-
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            35679999999999999999998864

>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=94.56  E-value=0.0082  Score=51.09  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+++|.|++|+|||||.+.++.-+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            478899999999999999999754

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.39  E-value=0.011  Score=50.24  Aligned_cols=28  Identities=25%  Similarity=0.286  Sum_probs=24.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      +++.|+|-|+-|+||||+++.+.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3678999999999999999999987643

>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=94.30  E-value=0.01  Score=46.94  Aligned_cols=21  Identities=33%  Similarity=0.387  Sum_probs=19.1

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||...+...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999999874

>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=94.24  E-value=0.034  Score=46.07  Aligned_cols=35  Identities=23%  Similarity=0.343  Sum_probs=27.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhcc-ccceEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSE-FEGECFI  226 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~v  226 (420)
                      .+.|+|-|+.|+||||+++.+.+.+... +..+.+.
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~   37 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   37 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEe
Confidence            3578899999999999999999987554 4444444

>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=94.11  E-value=0.012  Score=46.84  Aligned_cols=20  Identities=20%  Similarity=0.413  Sum_probs=18.3

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+++|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            66899999999999999886

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=94.06  E-value=0.0042  Score=56.06  Aligned_cols=46  Identities=24%  Similarity=0.216  Sum_probs=31.1

Q ss_pred             CCCcccccccceeeecccccCCCCceEEEEeccCcchHHHHHHHHHHH
Q 046970          168 FTGSVGVNSRIRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       168 ~~~~vGR~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...++|.+.....|.-.+-.  .+..-+.|.|.+|+||||||+.++.-
T Consensus         6 f~~I~Gq~~~kral~laa~~--~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVD--PGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHC--GGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHhc--cCCCeEEEECCCCccHHHHHHHHHHh
Confidence            35688988654433322211  12235789999999999999999864

>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=93.97  E-value=0.036  Score=47.98  Aligned_cols=27  Identities=22%  Similarity=0.222  Sum_probs=23.4

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ...++.|.|.+|+|||+++.+++..+.
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la~~~a   60 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQALQWG   60 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHhhh
Confidence            356899999999999999999997653

>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=93.95  E-value=0.014  Score=48.66  Aligned_cols=20  Identities=45%  Similarity=0.474  Sum_probs=18.2

Q ss_pred             EEEEeccCcchHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~  213 (420)
                      +|+|+|+.|+||||.|+.+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998663

>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=93.94  E-value=0.013  Score=47.03  Aligned_cols=21  Identities=24%  Similarity=0.292  Sum_probs=18.7

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            668999999999999998764

>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=93.91  E-value=0.014  Score=46.42  Aligned_cols=21  Identities=19%  Similarity=0.257  Sum_probs=19.0

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999999863

>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=93.90  E-value=0.014  Score=46.55  Aligned_cols=21  Identities=24%  Similarity=0.281  Sum_probs=18.8

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998863

>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=93.83  E-value=0.017  Score=48.35  Aligned_cols=29  Identities=21%  Similarity=0.382  Sum_probs=25.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhcc
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSE  219 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~  219 (420)
                      ..+.|+|-|+-|+||||+++.+.+.+..+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            35689999999999999999999987654

>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=93.79  E-value=0.012  Score=49.87  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=21.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ...+++|.|++|.|||||.+.++.
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            457999999999999999999886

>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=93.73  E-value=0.018  Score=47.22  Aligned_cols=24  Identities=21%  Similarity=0.531  Sum_probs=21.3

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ..+.|+|+|.+|+|||||...+.+
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            456799999999999999999975

>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=93.70  E-value=0.015  Score=48.38  Aligned_cols=20  Identities=50%  Similarity=0.556  Sum_probs=18.1

Q ss_pred             eEEEEeccCcchHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAI  212 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~  212 (420)
                      -+|+|+|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999866

>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=93.63  E-value=0.016  Score=46.17  Aligned_cols=20  Identities=30%  Similarity=0.415  Sum_probs=18.4

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||+|+..+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999999886

>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=93.62  E-value=0.016  Score=46.24  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+++|.+|+|||||...+.+.
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999998763

>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=93.61  E-value=0.028  Score=46.62  Aligned_cols=35  Identities=14%  Similarity=0.049  Sum_probs=28.2

Q ss_pred             eEEEEeccC-cchHHHHHHHHHHHhhccccceEEEE
Q 046970          193 RIVGIWGMG-GIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       193 ~vv~I~G~g-GiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      +.+.|+|-| |+||||++..++..+.++-..+..+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            467899998 99999999999998877644455554

>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=93.61  E-value=0.016  Score=46.43  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=19.0

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |.|+|.+|+|||||...+.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999999863

>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=93.60  E-value=0.017  Score=47.65  Aligned_cols=23  Identities=22%  Similarity=0.182  Sum_probs=20.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999864

>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=93.60  E-value=0.016  Score=45.97  Aligned_cols=21  Identities=19%  Similarity=0.340  Sum_probs=18.8

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998863

>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=93.58  E-value=0.017  Score=46.01  Aligned_cols=21  Identities=29%  Similarity=0.566  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|+.++.+.
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999874

>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=93.55  E-value=0.067  Score=49.17  Aligned_cols=90  Identities=16%  Similarity=0.098  Sum_probs=54.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCc-hHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNL-PEYIKERL  269 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~l  269 (420)
                      ....|.|.|+.|.||||....+.+.+...-..++-+.+.-+..-. +.           ............ ...++..|
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~-~~-----------~q~~v~~~~~~~~~~~l~~~l  224 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDID-GI-----------GQTQVNPRVDMTFARGLRAIL  224 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCS-SS-----------EEEECBGGGTBCHHHHHHHHG
T ss_pred             hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccC-CC-----------CeeeecCCcCCCHHHHHHHHH
Confidence            357899999999999999999998764432333333322111000 00           000000111112 67788888


Q ss_pred             cCCeEEEEEeCCCCHHHHHHHhc
Q 046970          270 QQMKVFIVLDDVNKPEQLIFLVG  292 (420)
Q Consensus       270 ~~~~~LlVLDdv~~~~~l~~l~~  292 (420)
                      +..+=+|++.++.+.+.....+.
T Consensus       225 R~dPDvi~igEiRd~~ta~~a~~  247 (401)
T d1p9ra_         225 RQDPDVVMVGEIRDLETAQIAVQ  247 (401)
T ss_dssp             GGCCSEEEESCCCSHHHHHHHHH
T ss_pred             hhcCCEEEecCcCChHHHHHHHH
Confidence            88888999999988877655443

>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=93.52  E-value=0.018  Score=46.05  Aligned_cols=21  Identities=29%  Similarity=0.379  Sum_probs=19.3

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .|+|.|.+|+|||||..++..
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            589999999999999999874

>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=93.50  E-value=0.0089  Score=50.77  Aligned_cols=26  Identities=23%  Similarity=0.291  Sum_probs=22.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+.|+|-|+-|+||||+++.+++.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            47899999999999999999887653

>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=93.50  E-value=0.018  Score=46.01  Aligned_cols=21  Identities=24%  Similarity=0.637  Sum_probs=18.8

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+++|.+|+|||+|...+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568899999999999999874

>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=93.49  E-value=0.018  Score=46.04  Aligned_cols=21  Identities=14%  Similarity=0.319  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||+..+.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999863

>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=93.49  E-value=0.018  Score=45.88  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=18.7

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||...+.+.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668899999999999999863

>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=93.48  E-value=0.014  Score=47.00  Aligned_cols=21  Identities=24%  Similarity=0.335  Sum_probs=18.3

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+|+|||||..++..
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            466999999999999988764

>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=93.48  E-value=0.015  Score=46.53  Aligned_cols=20  Identities=30%  Similarity=0.743  Sum_probs=18.0

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||||...+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            56889999999999999876

>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=93.46  E-value=0.018  Score=48.46  Aligned_cols=25  Identities=32%  Similarity=0.436  Sum_probs=22.6

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..++..|+|.-|.|||||.+++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5789999999999999999998875

>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=93.44  E-value=0.016  Score=45.94  Aligned_cols=20  Identities=25%  Similarity=0.330  Sum_probs=18.1

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||||...+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            66999999999999999865

>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=93.43  E-value=0.018  Score=46.10  Aligned_cols=20  Identities=40%  Similarity=0.537  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||||...+.+
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            67999999999999999876

>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=93.38  E-value=0.019  Score=44.93  Aligned_cols=21  Identities=29%  Similarity=0.390  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||...+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998764

>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=93.36  E-value=0.018  Score=46.18  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=19.2

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999998863

>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=93.34  E-value=0.019  Score=45.99  Aligned_cols=21  Identities=24%  Similarity=0.495  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|...+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998864

>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=93.32  E-value=0.023  Score=45.72  Aligned_cols=24  Identities=29%  Similarity=0.188  Sum_probs=21.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .+-|.|.|.+|+||||||.++..+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            467889999999999999998874

>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=93.27  E-value=0.021  Score=47.22  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=20.3

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      +.|+|+|.+|+|||||..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999998863

>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=93.24  E-value=0.02  Score=45.52  Aligned_cols=21  Identities=19%  Similarity=0.382  Sum_probs=18.8

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+++|.+|+|||||...+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998863

>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=93.23  E-value=0.025  Score=48.04  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=21.0

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ++|+|+|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999998765

>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=93.22  E-value=0.021  Score=45.45  Aligned_cols=21  Identities=24%  Similarity=0.544  Sum_probs=18.8

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|...+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999998864

>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=93.15  E-value=0.021  Score=45.80  Aligned_cols=20  Identities=20%  Similarity=0.348  Sum_probs=18.4

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+++|.+|+|||||+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999999875

>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=93.13  E-value=0.021  Score=45.41  Aligned_cols=23  Identities=22%  Similarity=0.437  Sum_probs=19.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .-|+|.|.+|+|||||...+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34778999999999999998763

>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=93.13  E-value=0.018  Score=45.95  Aligned_cols=20  Identities=30%  Similarity=0.431  Sum_probs=18.0

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||+|+..+.+
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            67899999999999998875

>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=93.09  E-value=0.021  Score=45.90  Aligned_cols=22  Identities=27%  Similarity=0.179  Sum_probs=18.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568899999999999998864

>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=93.06  E-value=0.022  Score=45.28  Aligned_cols=21  Identities=24%  Similarity=0.575  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||...+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678899999999999998874

>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=93.00  E-value=0.022  Score=46.23  Aligned_cols=20  Identities=35%  Similarity=0.416  Sum_probs=18.0

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |.|+|.+|+|||||+..+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999998875

>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=93.00  E-value=0.025  Score=45.28  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=18.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      --|+|+|.+|+|||||...+..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3467999999999999988855

>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=92.98  E-value=0.024  Score=45.21  Aligned_cols=21  Identities=14%  Similarity=0.333  Sum_probs=18.6

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998864

>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=92.97  E-value=0.024  Score=45.52  Aligned_cols=20  Identities=25%  Similarity=0.439  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||||+..+.+
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999999876

>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=92.93  E-value=0.028  Score=45.22  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999864

>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=92.92  E-value=0.025  Score=45.35  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=21.3

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ...|+|.|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999863

>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=92.90  E-value=0.025  Score=45.13  Aligned_cols=21  Identities=29%  Similarity=0.341  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|+.++.+.
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998763

>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=92.76  E-value=0.026  Score=45.50  Aligned_cols=24  Identities=33%  Similarity=0.275  Sum_probs=20.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|.|.|.+|+||||||.++..+
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            456889999999999999998764

>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=92.75  E-value=0.022  Score=45.89  Aligned_cols=20  Identities=30%  Similarity=0.529  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||||...+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            88999999999999999874

>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=92.74  E-value=0.031  Score=44.68  Aligned_cols=24  Identities=33%  Similarity=0.217  Sum_probs=21.2

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..-|.|.|.+|+||||||.++..+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            457889999999999999998875

>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=92.73  E-value=0.027  Score=45.59  Aligned_cols=20  Identities=40%  Similarity=0.574  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+++|.+|+|||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999999886

>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=92.71  E-value=0.024  Score=45.27  Aligned_cols=21  Identities=33%  Similarity=0.219  Sum_probs=18.4

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|.|+|.+|+|||||..++..
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            466999999999999998875

>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=92.69  E-value=0.028  Score=44.52  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=18.2

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |++.|.+|+|||||..++...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            568899999999999988763

>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=92.65  E-value=0.027  Score=48.74  Aligned_cols=25  Identities=28%  Similarity=0.391  Sum_probs=22.2

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      .+..|+|.+|+|||||+.+++..+.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5888999999999999999987654

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.62  E-value=0.03  Score=45.41  Aligned_cols=21  Identities=24%  Similarity=0.279  Sum_probs=18.1

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |.++|.+|+|||+|..++...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            568999999999999987653

>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=92.60  E-value=0.027  Score=46.10  Aligned_cols=21  Identities=19%  Similarity=0.332  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||||+..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            679999999999999998863

>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=92.54  E-value=0.028  Score=45.60  Aligned_cols=21  Identities=29%  Similarity=0.365  Sum_probs=18.9

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |.|+|.+|+|||+|...+.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            779999999999999998863

>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=92.52  E-value=0.048  Score=42.90  Aligned_cols=26  Identities=31%  Similarity=0.347  Sum_probs=23.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..-+|.+.|.=|+||||+++.+++.+
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            34589999999999999999999865

>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=92.44  E-value=0.027  Score=46.02  Aligned_cols=18  Identities=33%  Similarity=0.584  Sum_probs=16.8

Q ss_pred             EEEeccCcchHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAI  212 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~  212 (420)
                      |.|.|.+|+|||||..++
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            568999999999999998

>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=92.44  E-value=0.029  Score=44.88  Aligned_cols=20  Identities=35%  Similarity=0.523  Sum_probs=18.0

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |.++|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998875

>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=92.43  E-value=0.03  Score=45.22  Aligned_cols=21  Identities=19%  Similarity=0.240  Sum_probs=18.8

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+++|.+|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999999874

>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=92.38  E-value=0.032  Score=44.42  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.8

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+|+|||||+..+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            467999999999999999876

>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=92.38  E-value=0.028  Score=45.25  Aligned_cols=21  Identities=19%  Similarity=0.249  Sum_probs=19.3

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .|+|+|.+|+|||||...+.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999985

>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=92.34  E-value=0.032  Score=44.60  Aligned_cols=20  Identities=30%  Similarity=0.579  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||||+..+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            77999999999999998876

>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=92.32  E-value=0.04  Score=44.50  Aligned_cols=22  Identities=23%  Similarity=0.250  Sum_probs=19.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|.|+|.+|+|||+|..++...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999998874

>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=92.26  E-value=0.034  Score=44.68  Aligned_cols=20  Identities=25%  Similarity=0.421  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+++|.+|+|||||...+.+
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999999876

>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=92.17  E-value=0.032  Score=43.84  Aligned_cols=20  Identities=30%  Similarity=0.346  Sum_probs=18.4

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |+|+|.+|+|||||..++..
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999999985

>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=92.12  E-value=0.024  Score=45.84  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=18.7

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.+++|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998864

>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=92.05  E-value=0.037  Score=44.09  Aligned_cols=21  Identities=29%  Similarity=0.618  Sum_probs=18.6

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |.++|.+|+|||+|+..+.+.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999999874

>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=92.04  E-value=0.035  Score=45.23  Aligned_cols=21  Identities=24%  Similarity=0.295  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+++|.+|+|||+|...+.+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998864

>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=92.00  E-value=0.036  Score=51.73  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=21.4

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +-|.++|++|+|||.||+.++..+
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999999865

>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=91.92  E-value=0.036  Score=45.04  Aligned_cols=21  Identities=29%  Similarity=0.363  Sum_probs=18.5

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |.|.|.+|+|||+|..++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            568999999999999998664

>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=91.89  E-value=0.024  Score=44.58  Aligned_cols=21  Identities=29%  Similarity=0.501  Sum_probs=19.3

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|.|.+|+|||||...+...
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            789999999999999999864

>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=91.82  E-value=0.031  Score=47.05  Aligned_cols=32  Identities=22%  Similarity=0.317  Sum_probs=23.0

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHH
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      +++|.++|.     .+...+.|.+|+|||||...+..
T Consensus        88 l~~L~~~l~-----~~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          88 LADIIPHFQ-----DKTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             CTTTGGGGT-----TSEEEEEESHHHHHHHHHHHHCC
T ss_pred             HHHHHHhhc-----cceEEEECCCCccHHHHHHhhcc
Confidence            344555553     23556889999999999998754

>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=91.80  E-value=0.043  Score=44.10  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|++.|.+|+|||||...+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4678999999999999998874

>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=91.67  E-value=0.042  Score=49.88  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=21.4

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHh
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ...+...|+.|+|||.||+.++...
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            3457788999999999999998764

>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=91.62  E-value=0.21  Score=41.64  Aligned_cols=22  Identities=32%  Similarity=0.237  Sum_probs=19.9

Q ss_pred             eEEEEeccCcchHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      +++.|+|++..||||+.+.++-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHH
Confidence            4788999999999999999875

>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=91.59  E-value=0.078  Score=45.86  Aligned_cols=36  Identities=17%  Similarity=-0.001  Sum_probs=25.8

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccccceEEEE
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFIT  227 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~  227 (420)
                      .+-++|.|.+|+|||+|+.........+...+++..
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~~  102 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILNQQGQNVICVYVA  102 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEE
T ss_pred             CceEeeccCCCCChHHHHHHHHhhhcccCceeeeee
Confidence            456889999999999999987665444444444443

>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=91.52  E-value=0.021  Score=45.66  Aligned_cols=21  Identities=38%  Similarity=0.547  Sum_probs=17.2

Q ss_pred             EEEeccCcchHHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~~  215 (420)
                      |+|+|.+|+|||+|..++.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999987653

>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=91.37  E-value=0.031  Score=45.08  Aligned_cols=21  Identities=33%  Similarity=0.355  Sum_probs=17.8

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+++|.+|+|||||..++..
T Consensus        19 KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          19 RILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            355999999999999988754

>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=91.35  E-value=0.097  Score=46.46  Aligned_cols=87  Identities=23%  Similarity=0.237  Sum_probs=52.5

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhhccccceEEEEeccccccccCHHHHHHHHHHHHhhccccCCCCCchHHHHHHhcCC
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQISSEFEGECFITNVREESERVGLVHLRERVLSEILEENLKIGTLNLPEYIKERLQQM  272 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~l~~~  272 (420)
                      +.+.|.|..|.||||+.+.++..+... ...+-+.+..+..-....         .. .......+....+.++..|+..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~-~rivtiEd~~El~l~~~~---------~~-~~~~~~~~~~~~~ll~~~lR~~  235 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKE-ERIISIEDTEEIVFKHHK---------NY-TQLFFGGNITSADCLKSCLRMR  235 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTT-CCEEEEESSCCCCCSSCS---------SE-EEEECBTTBCHHHHHHHHTTSC
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccc-cceeeccchhhhhccccc---------cc-ceeccccchhHHHHHHHHhccC
Confidence            347899999999999999998766443 234444433332110000         00 0000111222267788888988


Q ss_pred             eEEEEEeCCCCHHHHHHH
Q 046970          273 KVFIVLDDVNKPEQLIFL  290 (420)
Q Consensus       273 ~~LlVLDdv~~~~~l~~l  290 (420)
                      +=.+|+..+.+.+.+..+
T Consensus       236 pd~iivgEiR~~ea~~~l  253 (323)
T d1g6oa_         236 PDRIILGELRSSEAYDFY  253 (323)
T ss_dssp             CSEEEESCCCSTHHHHHH
T ss_pred             CCcccCCccCchhHHHHH
Confidence            889999999877766533

>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=91.16  E-value=0.034  Score=44.46  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=19.2

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ..+ |.|+|.+|+|||||..++.+
T Consensus        12 ~~k-IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          12 EMR-ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTTC
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhc
Confidence            355 55889999999999998865

>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=91.11  E-value=0.038  Score=44.30  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=20.5

Q ss_pred             CceEEEEeccCcchHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      ...-|+|+|.+++|||||..++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            456789999999999999988753

>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=91.11  E-value=0.05  Score=43.84  Aligned_cols=22  Identities=41%  Similarity=0.570  Sum_probs=19.4

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|+|.|.+|+|||||..++...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999998863

>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=91.04  E-value=0.05  Score=45.53  Aligned_cols=21  Identities=24%  Similarity=0.273  Sum_probs=18.4

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|.|.|.+|+|||||..++..
T Consensus         8 KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            467999999999999999864

>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=90.86  E-value=0.033  Score=44.54  Aligned_cols=20  Identities=25%  Similarity=0.270  Sum_probs=8.1

Q ss_pred             EEEeccCcchHHHHHHHHHH
Q 046970          195 VGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       195 v~I~G~gGiGKTtLa~~~~~  214 (420)
                      |.|+|.+|+|||||...+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999998875

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=90.53  E-value=0.93  Score=38.63  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .-.++|+|+|.+|||||+..+..+
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             ceEEEEEecCccchhhhhhhhhcc
Confidence            345889999999999999998763

>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=90.25  E-value=0.065  Score=44.84  Aligned_cols=32  Identities=31%  Similarity=0.520  Sum_probs=24.1

Q ss_pred             ceeeecccccCCCCceEEEEeccCcchHHHHHHHHHH
Q 046970          178 IRHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       178 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      +++|..+|.     .+..++.|.+|+|||||...+..
T Consensus        86 ~~~L~~~l~-----~kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHhc-----CCeEEEECCCCCCHHHHHHhhcc
Confidence            445555553     24778999999999999998854

>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=89.83  E-value=0.41  Score=41.31  Aligned_cols=26  Identities=23%  Similarity=-0.006  Sum_probs=21.8

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHHh
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      ..+-++|.|.+|+|||+|+..+....
T Consensus        67 ~GQr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          67 RGQRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhH
Confidence            35678899999999999999888653

>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=89.52  E-value=0.047  Score=46.90  Aligned_cols=24  Identities=25%  Similarity=0.501  Sum_probs=20.6

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      .-.|+|+|.+|+|||||...+..+
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCC
Confidence            345779999999999999999864

>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=89.43  E-value=0.07  Score=43.61  Aligned_cols=38  Identities=26%  Similarity=0.392  Sum_probs=29.3

Q ss_pred             eeeecccccCCCCceEEEEeccCcchHHHHHHHHHHHhh
Q 046970          179 RHIKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       179 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..+..+|. +.+....+.|+|+++.|||++|..+.+-+.
T Consensus        41 ~~l~~~l~-~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          41 GALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHc-CCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            34455553 445678999999999999999999988763

>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=88.56  E-value=0.11  Score=44.96  Aligned_cols=25  Identities=32%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             CceEEEEeccCcchHHHHHHHHHHH
Q 046970          191 DFRIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       191 ~~~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ..|-|+|+|-.|.|||||+.++...
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHh
Confidence            4678999999999999999998753

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=88.37  E-value=0.15  Score=45.28  Aligned_cols=29  Identities=24%  Similarity=0.213  Sum_probs=24.1

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhccc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISSEF  220 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~f  220 (420)
                      +-.|.|-|.=|+||||+++.+.+.+..+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~   34 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGS   34 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccCC
Confidence            34677889999999999999999876553

>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=88.00  E-value=0.066  Score=43.35  Aligned_cols=24  Identities=25%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      .+.+|+|++|+|||||..++.--+
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            467799999999999999987654

>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=87.15  E-value=0.15  Score=43.78  Aligned_cols=36  Identities=19%  Similarity=0.220  Sum_probs=28.8

Q ss_pred             eecccccCCCCceEEEEeccCcchHHHHHHHHHHHh
Q 046970          181 IKSLLHLGLPDFRIVGIWGMGGIGKTTFAGAIFNQI  216 (420)
Q Consensus       181 l~~~L~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~  216 (420)
                      +..+|....+....+.++|+|+.|||+++..+.+-+
T Consensus        93 l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            445565454567789999999999999999988865

>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=87.14  E-value=0.17  Score=43.38  Aligned_cols=23  Identities=39%  Similarity=0.612  Sum_probs=20.5

Q ss_pred             ceEEEEeccCcchHHHHHHHHHH
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      .|-|+|.|..|.|||||+.++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            36799999999999999999864

>d1wu7a1 c.51.1.1 (A:330-426) Histidyl-tRNA synthetase (HisRS), C-terminal domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Anticodon-binding domain of Class II aaRS
domain: Histidyl-tRNA synthetase (HisRS), C-terminal domain
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=86.94  E-value=0.46  Score=33.56  Aligned_cols=62  Identities=16%  Similarity=0.187  Sum_probs=47.2

Q ss_pred             CcccEEecCccccccCcchHHHHHHHhhCCCceeeeCCCCCCCcchHHHHHHhhhcceeEEEeccc
Q 046970           10 GRYDVFLSFRGEDTRDNFTSHLFAALRQKRIKIFIDEEANRGDEISLALLNAIEGSKISIVIFSKN   75 (420)
Q Consensus        10 ~~~dvfis~~~~d~~~~~~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~s~~~i~v~S~~   75 (420)
                      .+.+|||..-|++.. .++..|+..|+++|++|.+|.   .+..+...+..|-..---.++++.++
T Consensus         2 ~~~~V~i~~~g~~~~-~~~~~l~~~Lr~~gi~v~~d~---~~~~l~kq~~~A~~~~~~~~iiiG~~   63 (97)
T d1wu7a1           2 EKKSVYICRVGKINS-SIMNEYSRKLRERGMNVTVEI---MERGLSAQLKYASAIGADFAVIFGER   63 (97)
T ss_dssp             SSCEEEEEEESSCCH-HHHHHHHHHHHTTTCEEEECC---SCCCHHHHHHHHHHTTCSEEEEEEHH
T ss_pred             CCceEEEEEeCHHHH-HHHHHHHHHHHHCCCEEEEEC---CCCcHHHHHHHHHhcCCCeEEecCCc
Confidence            357899998888765 488899999999999999986   24567777888766555556666643

>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=86.93  E-value=0.18  Score=44.76  Aligned_cols=33  Identities=27%  Similarity=0.248  Sum_probs=25.8

Q ss_pred             EEEEeccCcchHHHHHHHHHHHhhccccceEEE
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQISSEFEGECFI  226 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~v  226 (420)
                      .|.|-|.=|+||||+++.+.+.+..+-..+.++
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~   39 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRILLI   39 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCceEEE
Confidence            478899999999999999998776543444444

>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=86.13  E-value=0.21  Score=41.71  Aligned_cols=23  Identities=35%  Similarity=0.371  Sum_probs=20.6

Q ss_pred             eEEEEeccCcchHHHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      ++|+|.|-++.|||||+..+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            56999999999999999998764

>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=85.89  E-value=0.19  Score=43.56  Aligned_cols=18  Identities=22%  Similarity=0.145  Sum_probs=14.6

Q ss_pred             EEEEeccCcchHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGA  211 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~  211 (420)
                      .+.|.|.+|.||||.+.+
T Consensus        16 ~~lI~g~aGTGKTt~l~~   33 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITN   33 (306)
T ss_dssp             EEEECCCTTSCHHHHHHH
T ss_pred             CEEEEeeCCccHHHHHHH
Confidence            467899999999986544

>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=85.12  E-value=0.2  Score=39.94  Aligned_cols=21  Identities=33%  Similarity=0.482  Sum_probs=19.1

Q ss_pred             EEEEeccCcchHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFN  214 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~  214 (420)
                      -|+|+|.++.|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999999874

>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=83.22  E-value=0.29  Score=42.76  Aligned_cols=18  Identities=28%  Similarity=0.172  Sum_probs=14.7

Q ss_pred             EEEEeccCcchHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGA  211 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~  211 (420)
                      .+.|.|.+|.||||.+.+
T Consensus        26 ~~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             CEEEEECTTSCHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHH
Confidence            366889999999987655

>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=82.16  E-value=0.46  Score=35.05  Aligned_cols=27  Identities=4%  Similarity=-0.074  Sum_probs=22.9

Q ss_pred             ceEEEEeccCcchHHHHHHHHHHHhhc
Q 046970          192 FRIVGIWGMGGIGKTTFAGAIFNQISS  218 (420)
Q Consensus       192 ~~vv~I~G~gGiGKTtLa~~~~~~~~~  218 (420)
                      .-+|.+.|..|.||+|||+++..++.+
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            357889999999999999999887643

>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=81.83  E-value=0.25  Score=42.88  Aligned_cols=21  Identities=38%  Similarity=0.545  Sum_probs=18.2

Q ss_pred             eEEEEeccCcchHHHHHHHHH
Q 046970          193 RIVGIWGMGGIGKTTFAGAIF  213 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~  213 (420)
                      ++.+|+|+.|+|||++..++.
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHH
Confidence            477899999999999987764

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=81.82  E-value=0.35  Score=41.63  Aligned_cols=22  Identities=32%  Similarity=0.526  Sum_probs=19.6

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -|||+|.|.+|||||-..+...
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999988863

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=81.76  E-value=0.24  Score=43.85  Aligned_cols=25  Identities=36%  Similarity=0.205  Sum_probs=19.7

Q ss_pred             eEEEEeccCcchHHHHHHHHHHHhh
Q 046970          193 RIVGIWGMGGIGKTTFAGAIFNQIS  217 (420)
Q Consensus       193 ~vv~I~G~gGiGKTtLa~~~~~~~~  217 (420)
                      ..|.|=|.=|+||||+++.+.+...
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC---
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHhC
Confidence            4588999999999999999976553

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=80.02  E-value=0.42  Score=41.52  Aligned_cols=22  Identities=45%  Similarity=0.628  Sum_probs=19.9

Q ss_pred             EEEEeccCcchHHHHHHHHHHH
Q 046970          194 IVGIWGMGGIGKTTFAGAIFNQ  215 (420)
Q Consensus       194 vv~I~G~gGiGKTtLa~~~~~~  215 (420)
                      -++|+|.|.+|||||-.++...
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999999863