Citrus Sinensis ID: 048597

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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----
Protein Sequence
MAAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKKEREANKEVYEEVSEDPAVELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVFAFEVQL
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHcHHHHHccccccccccccccccccHHHHHHHHHHHHHcccccccEEEEEccccccHHHHHHHHccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccEEEEEcccccccccccccccccccccccEEEEEcccHHHHHHccccEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHccccccEEEEccccccccccccccccccHHHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccEEEEEEccccHHcHHHHcccccccccccEEEEEEccHHHHHHcccccEEEccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHcHHccccccccc
Coil and Loop (DISEMBL)
maaeqqprtrrTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKKEREANKEVYEevsedpavelpveRTVIRQELLLDRVWRFVtdqernrgiiglygtggvgktTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHinlnklgvplqylhlgskivfttnsrvVCGQMeatmlnasplrDEEAWRLFEEAVGRyvldshpdipELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVFAFEVQL
Flexible Loop (DISEMBL)
maaeqqprtrrtvrvklwfkrvdnkvtevaklkqegdlqidrlCLGGFSIKLKKEREANKevyeevsedpavelpvertvIRQELLLdrvwrfvtdqernrgiiglygtggvgktTLLKQRANLKKIQAdigkkiglstkswqenSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATmlnasplrDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVFAFEVQL
Low Complexity Region (SEG)
MAAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKKEREANKEVYEEVSEDPAVELPVERTVIRQELLLDRVWRFVTDQERNRgiiglygtggvgkttllkQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVFAFEVQL
Disordered region (IsUnstruct)
***********TVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLK*****************AVELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVFAFEV**
Disordered Region (DISOPRED)
MAAEQ*******VRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFS********************************RQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRY*****AF*V**
Disordered Region (DISEMBL)
**********RTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKKE***************AVELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVFAFEVQL
Disordered Region (DISPRO)
MA**QQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKKEREANKEVYEEVSEDPAVELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGV*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKKEREANKEVYEEVSEDPAVELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVFAFEVQL
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	294	2.2.26 [Sep-21-2011]
Q8L3R3	885	Disease resistance protei	yes	no	0.914	0.303	0.378	1e-50
O23317	719	Probable disease resistan	no	no	0.809	0.331	0.406	5e-49
P60838	894	Probable disease resistan	no	no	0.935	0.307	0.365	1e-48
O64973	889	Disease resistance protei	no	no	0.921	0.304	0.370	3e-48
O82484	892	Putative disease resistan	no	no	0.925	0.304	0.355	8e-46
P60839	884	Probable disease resistan	no	no	0.942	0.313	0.348	1e-45
Q9LMP6	851	Probable disease resistan	no	no	0.931	0.321	0.363	3e-43
Q940K0	889	Probable disease resistan	no	no	0.945	0.312	0.347	4e-42
O64789	925	Probable disease resistan	no	no	0.952	0.302	0.345	4e-41
Q9C8T9	898	Putative disease resistan	no	no	0.911	0.298	0.326	6e-41

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

 Score =  200 bits (508), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 119/314 (37%), Positives = 171/314 (54%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------------LKKE 55
           RR  +V++W  R+     +   L    + +I RLCL GF  K              L +E
Sbjct: 67  RRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLRE 126

Query: 56  RE--ANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++ V++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E    I+GLYG 
Sbjct: 127 VEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVWIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K+W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE + L  +GVP      G K+ FTT+S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+CC LPLAL  +G  M  
Sbjct: 305 DNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSF 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HA +++
Sbjct: 365 KRTIQEWRHATEVL 378

Disease resistance (R) protein.
Arabidopsis thaliana (taxid: 3702)

>sp|O23317|DRL24_ARATH Probable disease resistance protein At4g14610 OS=Arabidopsis thaliana GN=At4g14610 PE=3 SV=1

 Score =  194 bits (494), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 115/283 (40%), Positives = 161/283 (56%), Gaps = 45/283 (15%)

Query: 38  LQIDRLCLGGF---------------SIKLKK-EREANKEVYEEVSEDPAV----ELPVE 77
           ++I+RLC  GF               S+ LK+ E  +++ V++ V+E+  V    E+P++
Sbjct: 68  VEIERLCFCGFCSKSFGKSYHYGKMVSVMLKEVENLSSRGVFDVVTEENLVAQVEEMPIQ 127

Query: 78  RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQ----------------- 120
            TV+ QE +L+RVW   T  +    I+GLYG GGVGKTTLL Q                 
Sbjct: 128 STVVGQETMLERVWN--TLMKDGFKIMGLYGMGGVGKTTLLTQINKKFSETDGGFDIVMW 185

Query: 121 -----RANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHIN 175
                 + + +IQ DI K++GL+ + W + +   +A+DI  +L R +FVLLLDDIWE +N
Sbjct: 186 VVVSKTSEIYRIQEDIAKRLGLTGEEWDKKNENKRAVDIHNVLRRHKFVLLLDDIWEKVN 245

Query: 176 LNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA-TMLNASPLRDEEAWRLFEEAVGRYVLD 234
           L  +GVP      GS + FTT SR VCG+M     +  S L  E+AW LF+  VG   L 
Sbjct: 246 LELVGVPYPSRENGSIVAFTTRSRDVCGRMGVDDPMQVSCLEPEDAWDLFQNKVGENTLK 305

Query: 235 SHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAI 277
           SHPDIPELAK +AE+C  LPLAL  +G  M   S+++EW HAI
Sbjct: 306 SHPDIPELAKQVAEKCRGLPLALNVIGETMACKSTVQEWRHAI 348

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  194 bits (492), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 117/320 (36%), Positives = 165/320 (51%), Gaps = 45/320 (14%)

Query: 8   RTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKK------------- 54
           R  R  +V+ W   V     +  +L    D ++ RLCL GF  K  K             
Sbjct: 65  RRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLML 124

Query: 55  ---EREANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLY 107
              E  +++  ++ V+    +    E+P++ T++ QE +L+RVW  +T  E    I+GLY
Sbjct: 125 KEIESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLT--EDGDEIVGLY 182

Query: 108 GTGGVGKTTLLKQRAN----------------------LKKIQADIGKKIGLSTKSWQEN 145
           G GGVGKTTLL +  N                      + +IQ DIGK++ L  + W   
Sbjct: 183 GMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNV 242

Query: 146 SFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQM 205
           +   +ALDI  +L +++FVLLLDDIWE +NL  LGVP      G K+VFTT SR VCG+M
Sbjct: 243 NENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRM 302

Query: 206 EA-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM 264
                +  S L   EAW LF+  VG   L  HPDIPELA+ +A +CC LPLAL  +G  M
Sbjct: 303 RVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETM 362

Query: 265 RSISSIEEWEHAIKIILRYG 284
                ++EW +AI ++  Y 
Sbjct: 363 ACKRMVQEWRNAIDVLSSYA 382

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  192 bits (488), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 117/316 (37%), Positives = 170/316 (53%), Gaps = 45/316 (14%)

Query: 8   RTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFS--------------IKLK 53
           R +R  +V++W   V     +   L +  ++++ RLCL GF               I + 
Sbjct: 65  RQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMML 124

Query: 54  KEREA--NKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLY 107
           KE E+  ++  ++ VSE        E+P + T++ QE++L++ W  +   E   GI+GLY
Sbjct: 125 KEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRL--MEDGSGILGLY 182

Query: 108 GTGGVGKTTLLKQRAN----------------------LKKIQADIGKKIGLSTKSWQEN 145
           G GGVGKTTLL +  N                      ++KIQ DI +K+GL    W E 
Sbjct: 183 GMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEK 242

Query: 146 SFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQM 205
           +    A+DI  +L R++FVLLLDDIWE +NL  +GVP      G K+ FTT SR VCG+M
Sbjct: 243 NDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRM 302

Query: 206 EA-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM 264
                +  S L+ EE+W LF+  VG+  L SHPDIP LA+ +A +C  LPLAL  +G AM
Sbjct: 303 GVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAM 362

Query: 265 RSISSIEEWEHAIKII 280
               ++ EW HAI ++
Sbjct: 363 ACKRTVHEWCHAIDVL 378

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  184 bits (466), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 112/315 (35%), Positives = 160/315 (50%), Gaps = 43/315 (13%)

Query: 11  RTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGG---------------FSIKLKKE 55
           R  +V++W KRV+    +   L    +++I RLC                    + +K+ 
Sbjct: 67  RLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVFLMIKEV 126

Query: 56  REANKEVYEEVSEDPAVEL---PVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGV 112
              N   + E+   PA +L   P++ T++ +E +  R W  + D     G +GLYG GGV
Sbjct: 127 ENLNSNGFFEIVAAPAPKLEMRPIQPTIMGRETIFQRAWNRLMDD--GVGTMGLYGMGGV 184

Query: 113 GKTTLLKQRAN----------------------LKKIQADIGKKIGLSTKSWQENSFEDK 150
           GKTTLL Q  N                      + KIQ DIG+K+G   K W +     K
Sbjct: 185 GKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQK 244

Query: 151 ALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA-TM 209
           A+DI   LS+KRFVLLLDDIW+ ++L K+G+P Q      K+VFTT S  VC +M     
Sbjct: 245 AVDILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDP 304

Query: 210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISS 269
           +    L   +AW LF+E VG+  L SHPDI ELAK +A +C  LPLAL  +G  M    +
Sbjct: 305 MEVQCLSTNDAWELFQEKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRA 364

Query: 270 IEEWEHAIKIILRYG 284
           ++EW HA+ ++  Y 
Sbjct: 365 VQEWHHAVDVLTSYA 379

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  183 bits (465), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 113/324 (34%), Positives = 166/324 (51%), Gaps = 47/324 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLC---LGGFSIKLKK------------ 54
           +R  ++K+W KRV    ++   L     +++ RLC   +G  +++L              
Sbjct: 66  QRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFLMLNI 125

Query: 55  -EREANKEVYEEVSEDPAV-----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYG 108
            E   +K ++EEV+  PA      E P++ T++ QE +L++ W  + D      I+GLYG
Sbjct: 126 VEDLKSKGIFEEVAH-PATRAVGEERPLQPTIVGQETILEKAWDHLMDD--GTKIMGLYG 182

Query: 109 TGGVGKTTLLKQRAN----------------------LKKIQADIGKKIGLSTKSWQENS 146
            GGVGKTTLL Q  N                      + KIQ +IG+KIG     W + S
Sbjct: 183 MGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKS 242

Query: 147 FEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQME 206
              KA+DI   LS+KRFVLLLDDIW+ + L ++G+P      G KI FTT  + VC  M 
Sbjct: 243 ENQKAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMG 302

Query: 207 A-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMR 265
               +    L  ++AW LF++ VG   L SHPDIPE+A+ +A+ CC LPLAL  +G  M 
Sbjct: 303 VHDPMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMA 362

Query: 266 SISSIEEWEHAIKIILRYGRGVFA 289
              + +EW+ A+ +   Y     A
Sbjct: 363 CKKTTQEWDRAVDVSTTYAANFGA 386

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  175 bits (444), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 116/319 (36%), Positives = 168/319 (52%), Gaps = 45/319 (14%)

Query: 4   EQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK------------ 51
           E+    +R  +V+ W  RV +  ++V  L +   +Q +RLCL G+  K            
Sbjct: 60  EEDKGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINV 119

Query: 52  LKKEREAN----KEVYEEVSED---PAVELPVERTVIRQELLLDRVWRFVTDQERNRGII 104
           LKK +       K V+E V+E    P VE    +T +  + ++ R W  +   ER    +
Sbjct: 120 LKKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQTTVGLDAMVGRAWNSLMKDERR--TL 177

Query: 105 GLYGTGGVGKTTLLKQRANL----------------------KKIQADIGKKIGLSTKSW 142
           GLYG GGVGKTTLL    N                       + IQ  I  ++GL  + W
Sbjct: 178 GLYGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGLH-RGW 236

Query: 143 QENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVC 202
           ++ + ++KA  I  IL+ K+FVLLLDD+W  ++L K+GVP      GSKIVFTT S+ VC
Sbjct: 237 KQVTEKEKASYICNILNVKKFVLLLDDLWSEVDLEKIGVPPLTRENGSKIVFTTRSKDVC 296

Query: 203 GQMEAT-MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG 261
             ME    +    L  +EAW LF++ VG   L SH DIP LA+ +AE+CC LPLAL  +G
Sbjct: 297 RDMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIG 356

Query: 262 RAMRSISSIEEWEHAIKII 280
           +AM S  +++EW+H I ++
Sbjct: 357 KAMASRETVQEWQHVIHVL 375

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  171 bits (434), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 112/322 (34%), Positives = 166/322 (51%), Gaps = 44/322 (13%)

Query: 1   MAAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------- 51
           +A ++    RR   V++W  RV++   E   L     +++ +LCL G   K         
Sbjct: 55  VARDEARHQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYG 114

Query: 52  ------LKKEREANKE-VYEEVSEDPA---VELPVERTVIRQELLLDRVWRFVTDQERNR 101
                 L++ ++ N E  ++EVS+ P    VE    +  I QE +L++ W  +   E   
Sbjct: 115 KKVFLLLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQPTIGQEDMLEKAWNRL--MEDGV 172

Query: 102 GIIGLYGTGGVGKTTLLKQRAN----------------------LKKIQADIGKKIGLST 139
           GI+GL+G GGVGKTTL K+  N                      + K+Q DI +K+ L  
Sbjct: 173 GIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCD 232

Query: 140 KSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSR 199
             W+  +  DKA DI  +L  KRFVL+LDDIWE ++L  +G+P        K+ FTT SR
Sbjct: 233 DLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSR 292

Query: 200 VVCGQM-EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK 258
            VCG+M +   +  + L  E+AW LF+  VG   L S P I ELA+ +A++C  LPLAL 
Sbjct: 293 EVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALN 352

Query: 259 TVGRAMRSISSIEEWEHAIKII 280
            +G  M S + ++EWEHAI + 
Sbjct: 353 VIGETMSSKTMVQEWEHAIHVF 374

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  168 bits (426), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 112/324 (34%), Positives = 165/324 (50%), Gaps = 44/324 (13%)

Query: 1   MAAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK-LKKEREAN 59
           +A E+    +R   V++W  RV++   E   L     +++ +LCL G   K +    +  
Sbjct: 57  VAREESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYG 116

Query: 60  KEVY---------------EEVSEDPA---VELPVERTVIRQELLLDRVWRFVTDQERNR 101
           K+V+               +EVS+ P    VE    +  I QE +L++ W  +   E   
Sbjct: 117 KKVFLLLEEVKILKSEGNFDEVSQPPPRSEVEERPTQPTIGQEEMLEKAWNRL--MEDGV 174

Query: 102 GIIGLYGTGGVGKTTLLK----------------------QRANLKKIQADIGKKIGLST 139
           GI+GL+G GGVGKTTL K                      Q A L K+Q DI +K+ L  
Sbjct: 175 GIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCD 234

Query: 140 KSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSR 199
             W+  +  DKA DI  +L  KRFVL+LDDIWE ++L  +G+P        K+ FTT SR
Sbjct: 235 DLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSR 294

Query: 200 VVCGQM-EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK 258
            VCG+M +   +  + L  E+AW LF+  VG   L S P I  LA+ +A++C  LPLAL 
Sbjct: 295 EVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALN 354

Query: 259 TVGRAMRSISSIEEWEHAIKIILR 282
            +G  M S + ++EWE+AI ++ R
Sbjct: 355 VIGETMASKTMVQEWEYAIDVLTR 378

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  167 bits (424), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 102/312 (32%), Positives = 157/312 (50%), Gaps = 44/312 (14%)

Query: 15  VKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFS---------------IKLKKEREAN 59
           +K+W  RV+   + V  L    + ++ RLCL GF                +KL++  +  
Sbjct: 69  IKVWLNRVETIESRVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVEKLE 128

Query: 60  KEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKT 115
           + V+E +S+  +     E  ++ T++ QE +LD  W  +   E   GI+GLYG GGVGKT
Sbjct: 129 RRVFEVISDQASTSEVEEQQLQPTIVGQETMLDNAWNHL--MEDGVGIMGLYGMGGVGKT 186

Query: 116 TLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSFEDKALD 153
           TLL Q                        N++ I  +I +K+ +S + W       K + 
Sbjct: 187 TLLTQINNKFSKYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVY 246

Query: 154 IAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM-LNA 212
           +   L + RFVL LDDIWE +NL ++GVP   +    K+VFTT S  VC  M     +  
Sbjct: 247 LYNFLRKMRFVLFLDDIWEKVNLVEIGVPFPTIKNKCKVVFTTRSLDVCTSMGVEKPMEV 306

Query: 213 SPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEE 272
             L D +A+ LF++ VG+  L S P+I EL++ +A++CC LPLAL  V   M    +++E
Sbjct: 307 QCLADNDAYDLFQKKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQE 366

Query: 273 WEHAIKIILRYG 284
           W HAI ++  Y 
Sbjct: 367 WRHAIYVLNSYA 378

Potential disease resistance protein.

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	294
408683737	580	NBS-LRR disease resistance protein NBS39	0.918	0.465	0.415	9e-52
255553103	910	Disease resistance protein RPS5, putativ	0.945	0.305	0.396	2e-51
22497401	883	RFL1 [Arabidopsis lyrata]	0.914	0.304	0.382	6e-49
15221250	885	disease resistance protein RFL1 [Arabido	0.914	0.303	0.378	6e-49
22497282	885	RFL1 [Arabidopsis thaliana] gi|22497309|	0.914	0.303	0.378	8e-49
297844080	883	hypothetical protein ARALYDRAFT_888542 [	0.914	0.304	0.385	9e-49
22497304	885	RFL1 [Arabidopsis thaliana]	0.914	0.303	0.378	1e-48
22497285	885	RFL1 [Arabidopsis thaliana]	0.914	0.303	0.378	1e-48
22497291	885	RFL1 [Arabidopsis thaliana] gi|22497301|	0.914	0.303	0.378	1e-48
22497298	885	RFL1 [Arabidopsis thaliana]	0.914	0.303	0.378	1e-48

>gi|408683737|gb|AFM77964.2| NBS-LRR disease resistance protein NBS39 [Dimocarpus longan]

 Score =  209 bits (533), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 140/337 (41%), Positives = 184/337 (54%), Gaps = 67/337 (19%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGF-SIKLKKEREANKEVYEEVS- 67
           +R  +V+ W  RV+ + TEV KL ++   +I++LCLGG+ S  +K   +  K++ +++  
Sbjct: 2   KRLHQVQGWLSRVEAEETEVDKLIKDSAQEIEKLCLGGYCSWNIKSSYKYGKKIAQKLQV 61

Query: 68  -------------------EDP---------------AVELPVERTVIRQELLLDRVWRF 93
                              EDP                 E P E TV   E   D VWR+
Sbjct: 62  VSKLKEEGCFPTVAEIWSREDPMDEPITGERILPQIVVDERPCEPTV-GLETTFDAVWRY 120

Query: 94  VTDQERNRGIIGLYGTGGVGKTTLLKQRAN----------------------LKKIQADI 131
           +   E+  G+IGLYG GGVGKTTLL Q  N                      L+KIQ +I
Sbjct: 121 LG--EKQVGVIGLYGMGGVGKTTLLTQINNKFVDVSNDFDIVMWVVVSKDLQLEKIQENI 178

Query: 132 GKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGV-----PLQYL 186
           G+KIGLS +SW+  S E+KA+DI  IL RKRFVLLLDDIWE ++L K+GV     P    
Sbjct: 179 GRKIGLSDESWRSKSLEEKAMDIFKILRRKRFVLLLDDIWERVDLVKVGVPPLSSPPLSS 238

Query: 187 HLGSKIVFTTNSRVVCGQMEAT-MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKT 245
              SK+VFTT    VCG MEA   L    L DEEAW+LF   VG   LD+HP+IPELA+T
Sbjct: 239 SFTSKVVFTTRFVEVCGHMEAHRKLKVECLADEEAWKLFRSKVGGDALDNHPEIPELAQT 298

Query: 246 MAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILR 282
            A+EC  LPLAL T+GRAM    +  EW +AI+++ R
Sbjct: 299 AAKECGGLPLALITIGRAMACKKTPAEWRYAIEVLRR 335

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553103|ref|XP_002517594.1| Disease resistance protein RPS5, putative [Ricinus communis] gi|223543226|gb|EEF44758.1| Disease resistance protein RPS5, putative [Ricinus communis]

 Score =  208 bits (530), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 128/323 (39%), Positives = 181/323 (56%), Gaps = 45/323 (13%)

Query: 1   MAAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGF-SIKLKKEREAN 59
           M AE+ P   R+  +  W  RV+    EV  L   G  +  RLCLGG  S+ +    +  
Sbjct: 58  MTAEEGPGMSRSKLIDGWLLRVEALTKEVELLIARGPREKARLCLGGCCSMNISASYKFG 117

Query: 60  K---EVYEEVSE----------------DPAVELPVERTVIRQELLLDRVWRFVTDQERN 100
           K   +V  EV E                +P VE P E T +  + +LD VW ++ D+E  
Sbjct: 118 KRVDKVLNEVKELTGQRDIQEVAYKRPVEPVVERPSELT-LGFKTMLDNVWSYL-DEEEP 175

Query: 101 RGIIGLYGTGGVGKTTLLKQRAN----------------------LKKIQADIGKKIGLS 138
             IIG+YG GGVGKTTLL    N                      L+++Q DIGK++G  
Sbjct: 176 VCIIGVYGMGGVGKTTLLTHINNKFLDSSKKVDVVIWITVSKDFTLERVQEDIGKRMGFF 235

Query: 139 TKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNS 198
            + W+E SF++KA+DI   + +K+FVLLLDD+WE ++L K+GVPL     GSK+VFTT S
Sbjct: 236 NEQWKEKSFQEKAVDILNGMRKKKFVLLLDDMWERVDLVKMGVPLPSRQKGSKVVFTTRS 295

Query: 199 RVVCGQMEA-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLAL 257
           + VCGQM+A  ++   PL  E AW LF+E +G   L  HP+IP LA  +A++C  LPLAL
Sbjct: 296 KEVCGQMDAEKIIYLKPLAWEIAWELFQEKIGEETLHIHPEIPRLAHDIAKKCQGLPLAL 355

Query: 258 KTVGRAMRSISSIEEWEHAIKII 280
            T+ RAM S  +++EW HA++++
Sbjct: 356 ITIARAMASRRTLQEWNHAVEVL 378

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497401|gb|AAL65637.1| RFL1 [Arabidopsis lyrata]

 Score =  200 bits (509), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 120/314 (38%), Positives = 169/314 (53%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIKLKK--------------- 54
           RR  +V++W  R+     +   L    + +I RLCL GF  K  K               
Sbjct: 67  RRLAQVQVWLTRILTIENQFNDLLSTCNAEIQRLCLCGFCSKNMKMSYLYGKRVIVLLRE 126

Query: 55  -EREANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++  ++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E   GI+GLYG 
Sbjct: 127 VEGLSSQGEFDVVTEATPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVGIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQRSIGEKLGLVGKKWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE +NLN +GVP      G K+ FTT S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVNLNVIGVPYPSGENGCKVAFTTRSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+C  LPLAL  +G  M  
Sbjct: 305 DDPMEVSCLDTRNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCRGLPLALNVLGETMSC 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HAI+++
Sbjct: 365 KRTIQEWCHAIEVL 378

Source: Arabidopsis lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15221250|ref|NP_172685.1| disease resistance protein RFL1 [Arabidopsis thaliana] gi|46396936|sp|Q8L3R3.2|RFL1_ARATH RecName: Full=Disease resistance protein RFL1; AltName: Full=RPS5-like protein 1; AltName: Full=pNd13/pNd14 gi|10086513|gb|AAG12573.1|AC022522_6 NBS/LRR disease resistance protein [Arabidopsis thaliana] gi|3309619|gb|AAC26125.1| NBS/LRR disease resistance protein [Arabidopsis thaliana] gi|332190728|gb|AEE28849.1| disease resistance protein RFL1 [Arabidopsis thaliana]

 Score =  200 bits (508), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 119/314 (37%), Positives = 171/314 (54%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------------LKKE 55
           RR  +V++W  R+     +   L    + +I RLCL GF  K              L +E
Sbjct: 67  RRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLRE 126

Query: 56  RE--ANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++ V++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E    I+GLYG 
Sbjct: 127 VEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVWIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K+W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE + L  +GVP      G K+ FTT+S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+CC LPLAL  +G  M  
Sbjct: 305 DNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSF 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HA +++
Sbjct: 365 KRTIQEWRHATEVL 378

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497282|gb|AAL65604.1| RFL1 [Arabidopsis thaliana] gi|22497309|gb|AAL65621.1| RFL1 [Arabidopsis thaliana]

 Score =  199 bits (507), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 119/314 (37%), Positives = 170/314 (54%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------------LKKE 55
           RR  +V++W  R+     +   L    + +I RLCL GF  K              L +E
Sbjct: 67  RRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLRE 126

Query: 56  RE--ANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++ V++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E    I+GLYG 
Sbjct: 127 VEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVWIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K+W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE + L  +GVP      G K+ FTT S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYSSGENGCKVAFTTRSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+CC LPLAL  +G  M  
Sbjct: 305 DNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSF 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HA +++
Sbjct: 365 KRTIQEWRHATEVL 378

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297844080|ref|XP_002889921.1| hypothetical protein ARALYDRAFT_888542 [Arabidopsis lyrata subsp. lyrata] gi|297335763|gb|EFH66180.1| hypothetical protein ARALYDRAFT_888542 [Arabidopsis lyrata subsp. lyrata]

 Score =  199 bits (507), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 121/314 (38%), Positives = 168/314 (53%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGF-SIKLKKEREANKEV------ 62
           RR  +V++W  R+     +   L    + +I RLCL GF S  +K      K V      
Sbjct: 67  RRLAQVQVWLTRILTIENQFNDLLSTCNAEIQRLCLCGFFSKNMKMSYLYGKRVIVLLRE 126

Query: 63  ---------YEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
                    ++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E   GI+GLYG 
Sbjct: 127 VEGLSSQGEFDVVTEATPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVGIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQRSIGEKLGLVGKKWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE +NLN +GVP      G K+ FTT S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVNLNVIGVPYPSGENGCKVAFTTRSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+C  LPLAL  +G  M  
Sbjct: 305 DDPMEVSCLDTRNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCRGLPLALNVLGETMSC 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HAI+++
Sbjct: 365 KRTIQEWCHAIEVL 378

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497304|gb|AAL65618.1| RFL1 [Arabidopsis thaliana]

 Score =  199 bits (507), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 119/314 (37%), Positives = 170/314 (54%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------------LKKE 55
           RR  +V++W  R+     +   L    + +I RLCL GF  K              L +E
Sbjct: 67  RRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLRE 126

Query: 56  RE--ANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++ V++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E    I+GLYG 
Sbjct: 127 VEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVWIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K+W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE + L  +GVP      G K+ FTT S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTRSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+CC LPLAL  +G  M  
Sbjct: 305 DNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSF 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HA +++
Sbjct: 365 KRTIQEWRHATEVL 378

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497285|gb|AAL65606.1| RFL1 [Arabidopsis thaliana]

 Score =  199 bits (507), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 119/314 (37%), Positives = 170/314 (54%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------------LKKE 55
           RR  +V++W  R+     +   L    + +I RLCL GF  K              L +E
Sbjct: 67  RRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLRE 126

Query: 56  RE--ANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++ V++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E    I+GLYG 
Sbjct: 127 VEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVWIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K+W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE + L  +GVP      G K+ FTT S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTRSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+CC LPLAL  +G  M  
Sbjct: 305 DNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSF 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HA +++
Sbjct: 365 KRTIQEWRHATEVL 378

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497291|gb|AAL65610.1| RFL1 [Arabidopsis thaliana] gi|22497301|gb|AAL65616.1| RFL1 [Arabidopsis thaliana]

 Score =  199 bits (507), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 119/314 (37%), Positives = 170/314 (54%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------------LKKE 55
           RR  +V++W  R+     +   L    + +I RLCL GF  K              L +E
Sbjct: 67  RRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLRE 126

Query: 56  RE--ANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++ V++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E    I+GLYG 
Sbjct: 127 VEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVWIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K+W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE + L  +GVP      G K+ FTT S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTRSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+CC LPLAL  +G  M  
Sbjct: 305 DNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSF 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HA +++
Sbjct: 365 KRTIQEWRHATEVL 378

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22497298|gb|AAL65614.1| RFL1 [Arabidopsis thaliana]

 Score =  199 bits (506), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 119/314 (37%), Positives = 170/314 (54%), Gaps = 45/314 (14%)

Query: 10  RRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGFSIK--------------LKKE 55
           RR  +V++W  R+     +   L    + +I RLCL GF  K              L +E
Sbjct: 67  RRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLRE 126

Query: 56  RE--ANKEVYEEVSEDPAV----ELPVERTVIRQELLLDRVWRFVTDQERNRGIIGLYGT 109
            E  +++ V++ V+E   +    ELP++ T++ Q+ +LD+VW  +   E    I+GLYG 
Sbjct: 127 VEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCL--MEDKVWIVGLYGM 184

Query: 110 GGVGKTTLLKQ----------------------RANLKKIQADIGKKIGLSTKSWQENSF 147
           GGVGKTTLL Q                       A + KIQ  IG+K+GL  K+W E + 
Sbjct: 185 GGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNK 244

Query: 148 EDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA 207
             +ALDI  +L RK+FVLLLDDIWE + L  +GVP      G K+ FTT S+ VCG+M  
Sbjct: 245 NQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTRSKEVCGRMGV 304

Query: 208 -TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS 266
              +  S L    AW L ++ VG   L SHPDIP+LA+ ++E+CC LPLAL  +G  M  
Sbjct: 305 DNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSF 364

Query: 267 ISSIEEWEHAIKII 280
             +I+EW HA +++
Sbjct: 365 KRTIQEWRHATEVL 378

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	294
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.547	0.181	0.456	5.6e-43
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.547	0.180	0.456	9.4e-43
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.544	0.180	0.428	3.2e-39
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.520	0.179	0.458	2.2e-38
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.540	0.178	0.462	6.5e-37
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.544	0.179	0.453	3.6e-36
TAIR|locus:2093192	375	AT3G15700 [Arabidopsis thalian	0.887	0.696	0.357	2.7e-34
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.530	0.173	0.433	4e-33
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.554	0.168	0.426	5.3e-33
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.534	0.176	0.392	1.1e-32

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

 Score = 380 (138.8 bits), Expect = 5.6e-43, Sum P(3) = 5.6e-43
 Identities = 74/162 (45%), Positives = 103/162 (63%)

Query:   120 QRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKL 179
             + A + KIQ  IG+K+GL  K+W E +   +ALDI  +L RK+FVLLLDDIWE + L  +
Sbjct:   217 KNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWEKVELKVI 276

Query:   180 GVPLQYLHLGSKIVFTTNSRVVCGQMEA-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPD 238
             GVP      G K+ FTT+S+ VCG+M     +  S L    AW L ++ VG   L SHPD
Sbjct:   277 GVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPD 336

Query:   239 IPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKII 280
             IP+LA+ ++E+CC LPLAL  +G  M    +I+EW HA +++
Sbjct:   337 IPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL 378

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

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

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 9.4e-43, Sum P(3) = 9.4e-43
 Identities = 74/162 (45%), Positives = 100/162 (61%)

Query:   123 NLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVP 182
             ++ +IQ DIGK++ L  + W   +   +ALDI  +L +++FVLLLDDIWE +NL  LGVP
Sbjct:   220 DIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVP 279

Query:   183 LQYLHLGSKIVFTTNSRVVCGQMEAT-MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPE 241
                   G K+VFTT SR VCG+M     +  S L   EAW LF+  VG   L  HPDIPE
Sbjct:   280 YPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPE 339

Query:   242 LAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRY 283
             LA+ +A +CC LPLAL  +G  M     ++EW +AI ++  Y
Sbjct:   340 LARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSY 381

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 356 (130.4 bits), Expect = 3.2e-39, Sum P(3) = 3.2e-39
 Identities = 69/161 (42%), Positives = 96/161 (59%)

Query:   124 LKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPL 183
             + KIQ +IG+KIG     W + S   KA+DI   LS+KRFVLLLDDIW+ + L ++G+P 
Sbjct:   220 IHKIQKEIGEKIGFIGVEWNQKSENQKAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPN 279

Query:   184 QYLHLGSKIVFTTNSRVVCGQMEA-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPEL 242
                  G KI FTT  + VC  M     +    L  ++AW LF++ VG   L SHPDIPE+
Sbjct:   280 PTSENGCKIAFTTRCQSVCASMGVHDPMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEI 339

Query:   243 AKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRY 283
             A+ +A+ CC LPLAL  +G  M    + +EW+ A+ +   Y
Sbjct:   340 ARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDVSTTY 380

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 351 (128.6 bits), Expect = 2.2e-38, Sum P(3) = 2.2e-38
 Identities = 71/155 (45%), Positives = 101/155 (65%)

Query:   127 IQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYL 186
             IQ  I  ++GL  + W++ + ++KA  I  IL+ K+FVLLLDD+W  ++L K+GVP    
Sbjct:   222 IQEQILGRLGLH-RGWKQVTEKEKASYICNILNVKKFVLLLDDLWSEVDLEKIGVPPLTR 280

Query:   187 HLGSKIVFTTNSRVVCGQMEAT-MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKT 245
               GSKIVFTT S+ VC  ME    +    L  +EAW LF++ VG   L SH DIP LA+ 
Sbjct:   281 ENGSKIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARK 340

Query:   246 MAEECCCLPLALKTVGRAMRSISSIEEWEHAIKII 280
             +AE+CC LPLAL  +G+AM S  +++EW+H I ++
Sbjct:   341 VAEKCCGLPLALSVIGKAMASRETVQEWQHVIHVL 375

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 373 (136.4 bits), Expect = 6.5e-37, Sum P(2) = 6.5e-37
 Identities = 74/160 (46%), Positives = 101/160 (63%)

Query:   122 ANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGV 181
             + ++KIQ DI +K+GL    W E +    A+DI  +L R++FVLLLDDIWE +NL  +GV
Sbjct:   219 STVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGV 278

Query:   182 PLQYLHLGSKIVFTTNSRVVCGQMEAT-MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIP 240
             P      G K+ FTT SR VCG+M     +  S L+ EE+W LF+  VG+  L SHPDIP
Sbjct:   279 PYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIP 338

Query:   241 ELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKII 280
              LA+ +A +C  LPLAL  +G AM    ++ EW HAI ++
Sbjct:   339 GLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVL 378

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

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

 Score = 370 (135.3 bits), Expect = 3.6e-36, Sum P(2) = 3.6e-36
 Identities = 73/161 (45%), Positives = 99/161 (61%)

Query:   124 LKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPL 183
             + KIQ DIG+K+G   K W +     KA+DI   LS+KRFVLLLDDIW+ ++L K+G+P 
Sbjct:   218 IHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTKIGIPS 277

Query:   184 QYLHLGSKIVFTTNSRVVCGQMEA-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPEL 242
             Q      K+VFTT S  VC +M     +    L   +AW LF+E VG+  L SHPDI EL
Sbjct:   278 QTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHPDILEL 337

Query:   243 AKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRY 283
             AK +A +C  LPLAL  +G  M    +++EW HA+ ++  Y
Sbjct:   338 AKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSY 378

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2093192 AT3G15700 [Arabidopsis thaliana (taxid:3702)]

 Score = 341 (125.1 bits), Expect = 2.7e-34, Sum P(2) = 2.7e-34
 Identities = 95/266 (35%), Positives = 139/266 (52%)

Query:    20 KRVDNKVTEVAKLKQEG--DLQIDRLCLGGFSIKLKK-EREANKEVYEEVSEDPAVELPV 76
             K++  K+ EV ++K  G  D+ ++   +G  S+ +   +R+      E VS      + V
Sbjct:    98 KKLCKKLKEVQEIKSRGTFDVVVENSGIGSGSMMISNVDRDDQTVGLEAVSGLVWRCMTV 157

Query:    77 ERTVIRQELLLDRVWRF-VTDQERNRXXXXXXXXXXXXXXXXXXQRANLKKIQADIGKKI 135
             + T I     ++ V +  V  Q  NR                  +  NL+KIQ  I +KI
Sbjct:   158 DNTGIIGLYGVEGVGKTTVLTQVNNRLLQHKLNGFDFVIWVFVSKNVNLEKIQDTIREKI 217

Query:   136 GLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFT 195
             G   +SW   + E+KA  I  ILS++RF L LDD+WE ++L K GVP       SKIVFT
Sbjct:   218 GFLDRSWMSKTEEEKAGKIFEILSKRRFALFLDDVWEKVDLVKAGVPPPDGLNRSKIVFT 277

Query:   196 TNSRVVCGQMEA-TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP 254
             T S  VC +M A T +    L  E AW LF+   G  ++ SHPDI ++A+ +A +C  LP
Sbjct:   278 TCSDEVCQEMGAQTKIKMEKLPWERAWDLFKMNAGEEIVKSHPDITKVAQEVAAKCDGLP 337

Query:   255 LALKTVGRAMRSISSIEEWEHAIKII 280
             LAL T+GRAM S  + +EW  A+ I+
Sbjct:   338 LALVTIGRAMASKKTPQEWRDALYIL 363

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 338 (124.0 bits), Expect = 4.0e-33, Sum P(2) = 4.0e-33
 Identities = 68/157 (43%), Positives = 96/157 (61%)

Query:   124 LKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPL 183
             + K+Q DI +K+ L    W+  +  DKA DI  +L  KRFVL+LDDIWE ++L  +G+P 
Sbjct:   217 ISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPY 276

Query:   184 QYLHLGSKIVFTTNSRVVCGQM-EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPEL 242
                    K+ FTT SR VCG+M +   +  + L  E+AW LF+  VG   L S P I EL
Sbjct:   277 PSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVEL 336

Query:   243 AKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKI 279
             A+ +A++C  LPLAL  +G  M S + ++EWEHAI +
Sbjct:   337 AREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHV 373

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 337 (123.7 bits), Expect = 5.3e-33, Sum P(2) = 5.3e-33
 Identities = 70/164 (42%), Positives = 97/164 (59%)

Query:   120 QRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKL 179
             Q A L K+Q DI +K+ L    W+  +  DKA DI  +L  KRFVL+LDDIWE ++L  +
Sbjct:   214 QGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAI 273

Query:   180 GVPLQYLHLGSKIVFTTNSRVVCGQM-EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPD 238
             G+P        K+ FTT  + VCGQM +   +    L  E+AW LF+  VG   L S P 
Sbjct:   274 GIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPV 333

Query:   239 IPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILR 282
             I  LA+ +A++C  LPLAL  +G  M S + ++EWEHAI ++ R
Sbjct:   334 IVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTR 377

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 323 (118.8 bits), Expect = 1.1e-32, Sum P(2) = 1.1e-32
 Identities = 62/158 (39%), Positives = 98/158 (62%)

Query:   124 LKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPL 183
             +++IQ +I +K+    + W++ + + KA +I  +L  KRFVLLLDDIW  ++L ++GVP 
Sbjct:   219 IQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPF 278

Query:   184 QYLHLGSKIVFTTNSRVVCGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPEL 242
                  G KIVFTT  + +CG+M     +    L  ++AW LF + VG   L SHP+IP +
Sbjct:   279 PSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTV 338

Query:   243 AKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKII 280
             A+T+A++C  LPLAL  +G  M    +++EW  AI ++
Sbjct:   339 ARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVL 376

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	RFL1	RFL1 (RPS5-like 1); ATP binding / protein binding; RFL1 has high sequence similarity to the adjacent disease resistance (R) gene RPS5. ; Disease resistance (R) protein (885 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	AT1G12190	F-box family protein; F-box family protein; FUNCTIONS IN- molecular_function unknown; INVOLVED [...] (375 aa)							•		0.925
	ORF77.2	unknown protein; hypothetical protein (77 aa)							•		0.887
	ORF77.1	unknown protein; hypothetical protein (77 aa)							•		0.887
	AT1G08105	transposable element gene; hAT-like transposase family (hobo/Ac/Tam3), has a 1.0e-298 P-value b [...] (1002 aa)							•		0.718
	HCF109	HCF109 (HIGH CHLOROPHYLL FLUORESCENT 109); translation release factor/ translation release fact [...] (456 aa)							•		0.534
	AtRAN4	AtRAN4 (Ras-related nuclear protein 4); GTP binding / GTPase/ protein binding; A member of RAN [...] (222 aa)							•		0.434

---

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	294
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	3e-46

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

 Score =  156 bits (397), Expect = 3e-46
 Identities = 74/219 (33%), Positives = 115/219 (52%), Gaps = 23/219 (10%)

Query: 83  QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQ---------------------R 121
           +E +++ +   + +   N G++G+ G GGVGKTTL KQ                      
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 122 ANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGV 181
               ++Q DI +++GL    W E +  + A+ I   L RKRF+L+LDD+WE  + +K+GV
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 182 PLQYLHLGSKIVFTTNSRVVCGQMEAT--MLNASPLRDEEAWRLFEEAVGRYVLDSHPDI 239
           P      GS+++ TT S  V G+M  T        L  EE+W LF   V    L   P++
Sbjct: 121 PFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPEL 180

Query: 240 PELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIK 278
            E+AK + E+C  LPLALK +G  +   S+++EWEH ++
Sbjct: 181 EEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLE 219

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	294
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.97
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.44
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.43
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.29
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.14
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.06
PRK06893	229	DNA replication initiation factor; Validated	99.05
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.05
PRK13342	413	recombination factor protein RarA; Reviewed	99.04
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.01
PRK04841	903	transcriptional regulator MalT; Provisional	98.98
PF05729	166	NACHT: NACHT domain	98.97
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.89
PF13173	128	AAA_14: AAA domain	98.88
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.85
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.83
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.8
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.79
PRK12402	337	replication factor C small subunit 2; Reviewed	98.79
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.78
COG3899	849	Predicted ATPase [General function prediction only	98.78
PLN03025	319	replication factor C subunit; Provisional	98.76
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.75
PRK13341	725	recombination factor protein RarA/unknown domain f	98.73
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.73
PRK09087	226	hypothetical protein; Validated	98.72
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.72
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.71
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.69
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.68
PRK08084	235	DNA replication initiation factor; Provisional	98.67
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.67
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.67
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.65
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.65
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.65
PRK04195	482	replication factor C large subunit; Provisional	98.64
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.62
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.62
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.62
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.62
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.61
PTZ00202	550	tuzin; Provisional	98.61
PRK08727	233	hypothetical protein; Validated	98.61
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.6
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.6
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.6
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.6
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.59
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.59
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.56
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.54
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.54
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.52
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.52
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.52
PRK05642	234	DNA replication initiation factor; Validated	98.51
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.5
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.49
PRK06620	214	hypothetical protein; Validated	98.48
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.46
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.45
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.44
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.43
KOG2028	554	consensus ATPase related to the helicase subunit o	98.42
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.41
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.4
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.4
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.39
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.38
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.36
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.36
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.34
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.33
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.33
PHA02544	316	44 clamp loader, small subunit; Provisional	98.31
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.3
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.29
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.27
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.26
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.26
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.24
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.24
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.24
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.23
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.22
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.22
PF14516	331	AAA_35: AAA-like domain	98.21
CHL00095	821	clpC Clp protease ATP binding subunit	98.2
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.19
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.19
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.19
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.19
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.17
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.16
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.16
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.13
PRK10865	857	protein disaggregation chaperone; Provisional	98.12
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.11
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.11
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.1
CHL00181	287	cbbX CbbX; Provisional	98.1
PF00004	132	AAA: ATPase family associated with various cellula	98.07
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.06
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.06
CHL00176	638	ftsH cell division protein; Validated	98.04
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.0
PRK12422	445	chromosomal replication initiation protein; Provis	97.98
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.97
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.95
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.94
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.93
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.91
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.9
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.87
PRK10536	262	hypothetical protein; Provisional	97.85
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.84
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.84
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.83
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.82
COG3903	414	Predicted ATPase [General function prediction only	97.81
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.79
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.78
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.77
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.76
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.75
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.73
PHA00729	226	NTP-binding motif containing protein	97.73
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.71
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.71
CHL00195	489	ycf46 Ycf46; Provisional	97.69
smart00382	148	AAA ATPases associated with a variety of cellular	97.69
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.69
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.66
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.66
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.65
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.64
PRK08118	167	topology modulation protein; Reviewed	97.61
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.61
PRK10865	857	protein disaggregation chaperone; Provisional	97.61
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.6
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.59
PRK07261	171	topology modulation protein; Provisional	97.59
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.58
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.57
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.57
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.55
PRK08116	268	hypothetical protein; Validated	97.54
cd01128	249	rho_factor Transcription termination factor rho is	97.54
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	97.53
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.53
PRK08181	269	transposase; Validated	97.53
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.52
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.52
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.51
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.51
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.49
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.47
CHL00095	821	clpC Clp protease ATP binding subunit	97.47
PRK06696	223	uridine kinase; Validated	97.44
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.43
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.42
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.42
PRK06526	254	transposase; Provisional	97.41
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.41
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	97.41
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.4
PRK06762	166	hypothetical protein; Provisional	97.39
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.38
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.38
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	97.37
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.35
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	97.35
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.34
TIGR00767	415	rho transcription termination factor Rho. Members	97.34
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.34
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.33
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.33
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.33
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.32
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.3
PRK07667	193	uridine kinase; Provisional	97.3
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.29
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.29
PRK09183	259	transposase/IS protein; Provisional	97.27
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	97.25
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.24
PRK15455	644	PrkA family serine protein kinase; Provisional	97.24
cd03246	173	ABCC_Protease_Secretion This family represents the	97.23
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.21
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.2
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.2
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.2
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.2
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.18
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.18
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.17
PRK12377	248	putative replication protein; Provisional	97.16
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.16
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.16
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.15
COG0488	530	Uup ATPase components of ABC transporters with dup	97.15
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.15
PRK12608	380	transcription termination factor Rho; Provisional	97.15
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.14
PRK04132	846	replication factor C small subunit; Provisional	97.14
PRK08939	306	primosomal protein DnaI; Reviewed	97.13
PRK07952	244	DNA replication protein DnaC; Validated	97.13
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.12
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	97.12
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	97.11
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.1
PRK09376	416	rho transcription termination factor Rho; Provisio	97.09
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.09
PRK06547	172	hypothetical protein; Provisional	97.08
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.08
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.08
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.08
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.06
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	97.06
COG3910	233	Predicted ATPase [General function prediction only	97.06
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.06
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.06
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.05
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.05
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.04
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	97.04
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	97.04
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.03
PRK04296	190	thymidine kinase; Provisional	97.03
PRK00409	782	recombination and DNA strand exchange inhibitor pr	97.03
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.03
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.02
PRK06835	329	DNA replication protein DnaC; Validated	97.02
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.02
COG4181	228	Predicted ABC-type transport system involved in ly	97.01
PRK05480	209	uridine/cytidine kinase; Provisional	97.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.0
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.99
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.99
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.97
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.97
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.96
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	96.95
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.95
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	96.95
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	96.95
PRK13531	498	regulatory ATPase RavA; Provisional	96.93
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.93
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	96.92
KOG0927	614	consensus Predicted transporter (ABC superfamily)	96.92
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	96.92
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.92
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.92
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.92
PRK13536	340	nodulation factor exporter subunit NodI; Provision	96.92
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.92
PRK08233	182	hypothetical protein; Provisional	96.92
PTZ00301	210	uridine kinase; Provisional	96.91
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.9
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.9
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.89
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.89
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	96.88
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.87
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	96.86
PRK13537	306	nodulation ABC transporter NodI; Provisional	96.86
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	96.86
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	96.86
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.85
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.85
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.84
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	96.83
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	96.82
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	96.82
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	96.8
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.78
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.77
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.77
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.77
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	96.75
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.75
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.74
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	96.74
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	96.74
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.73
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.73
COG0488	530	Uup ATPase components of ABC transporters with dup	96.72
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.72
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.71
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.71
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	96.69
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.69
PRK06921	266	hypothetical protein; Provisional	96.69
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.69
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.68
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.68
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.67
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	96.66
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	96.66
PRK10867	433	signal recognition particle protein; Provisional	96.66
COG1127	263	Ttg2A ABC-type transport system involved in resist	96.66
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	96.65
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.65
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.65
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.64
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.64
PRK14738	206	gmk guanylate kinase; Provisional	96.64
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	96.63
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	96.62
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	96.62
COG4586	325	ABC-type uncharacterized transport system, ATPase	96.61
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.6
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.6
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	96.6
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.59
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.58
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.58
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.56
TIGR00959	428	ffh signal recognition particle protein. This mode	96.54
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	96.54
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.54
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.54
PF02463	220	SMC_N: RecF/RecN/SMC N terminal domain; InterPro:	96.53
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.53
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.53
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.53
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.52
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	96.51
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	96.5
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.5
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.5
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.5
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.5
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.5
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	96.49
PRK14737	186	gmk guanylate kinase; Provisional	96.49
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.49
PLN02318	656	phosphoribulokinase/uridine kinase	96.48
COG0410	237	LivF ABC-type branched-chain amino acid transport	96.48
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.47
PRK04040	188	adenylate kinase; Provisional	96.47
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.47
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.46
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	96.46
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	96.46
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.45
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.45
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	96.44
PRK03839	180	putative kinase; Provisional	96.44
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	96.44
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.43
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.43
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.42
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.42
PRK15064	530	ABC transporter ATP-binding protein; Provisional	96.41
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.41
PRK00300	205	gmk guanylate kinase; Provisional	96.41
COG4152	300	ABC-type uncharacterized transport system, ATPase	96.41
COG4133	209	CcmA ABC-type transport system involved in cytochr	96.41
PRK05439	311	pantothenate kinase; Provisional	96.4
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	96.4
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.4
PRK13409	590	putative ATPase RIL; Provisional	96.39
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.38
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	96.38
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	96.38
PRK00131	175	aroK shikimate kinase; Reviewed	96.37
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.37
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.37
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.36
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.36
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.35
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.35
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	96.34
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.34
COG1137	243	YhbG ABC-type (unclassified) transport system, ATP	96.34
PRK06217	183	hypothetical protein; Validated	96.33
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.33
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.32
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.32
PRK05541	176	adenylylsulfate kinase; Provisional	96.32
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.31
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.31
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.3
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.3
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.3
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	96.3
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.29
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.29
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.29
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	96.29
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	96.29
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	96.29
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.28
PRK00625	173	shikimate kinase; Provisional	96.25
PRK06067	234	flagellar accessory protein FlaH; Validated	96.25
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.25
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.25
PRK03846	198	adenylylsulfate kinase; Provisional	96.24
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.23
PRK15453	290	phosphoribulokinase; Provisional	96.23
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.23
PRK10522	547	multidrug transporter membrane component/ATP-bindi	96.22
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.22
KOG0927	614	consensus Predicted transporter (ABC superfamily)	96.22
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.21
PRK08149	428	ATP synthase SpaL; Validated	96.21
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.2
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	96.2
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.2
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.2
PRK00889	175	adenylylsulfate kinase; Provisional	96.2
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.19
PLN03073	718	ABC transporter F family; Provisional	96.19
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	96.19
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.17
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.17
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.16
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.16
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	96.15
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.14
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.14
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	96.13
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.13
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.13
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.13
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	96.12
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	96.11
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.11
COG4525	259	TauB ABC-type taurine transport system, ATPase com	96.11
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	96.11
PRK14974	336	cell division protein FtsY; Provisional	96.11
COG0714	329	MoxR-like ATPases [General function prediction onl	96.1
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.1
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.1
PRK14530	215	adenylate kinase; Provisional	96.1
KOG0062	582	consensus ATPase component of ABC transporters wit	96.09
COG1123	539	ATPase components of various ABC-type transport sy	96.09
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.08
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.08
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.07
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.07
PRK09354	349	recA recombinase A; Provisional	96.07
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.06
PRK09825	176	idnK D-gluconate kinase; Provisional	96.06
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.06
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.05
PTZ00088	229	adenylate kinase 1; Provisional	96.04
PRK13949	169	shikimate kinase; Provisional	96.04
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.04
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.03
PRK05057	172	aroK shikimate kinase I; Reviewed	96.03
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	96.02
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.02
PRK14527	191	adenylate kinase; Provisional	96.01
PRK04182	180	cytidylate kinase; Provisional	96.01
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.01
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.01
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.0
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.0
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.0
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.0
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.99
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.99
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	95.99
PRK13947	171	shikimate kinase; Provisional	95.99
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	95.99
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.98
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.98
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	95.97
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.97
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	95.96
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.96
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.95
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.95
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.94
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	95.93
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.93
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	95.93
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	95.92
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	95.92
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.91
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	95.91
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.91
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.9
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	95.9
PF07726	131	AAA_3: ATPase family associated with various cellu	95.89
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.89
PRK04328	249	hypothetical protein; Provisional	95.88
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.88
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.88
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.88
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	95.88
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.87
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	95.87
PF13245	76	AAA_19: Part of AAA domain	95.87

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=9.2e-44  Score=346.36  Aligned_cols=285  Identities=35%  Similarity=0.604  Sum_probs=233.4

Q ss_pred             ccccCCCCCCcHHHHHHHHHHHHHHHHHHHhhhchhhhhhh----------------cccCCCchhH-------------
Q 048597            2 AAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDR----------------LCLGGFSIKL-------------   52 (294)
Q Consensus         2 dae~~~~~~~~~~v~~Wl~~l~~~~~d~ed~ld~~~~~~~~----------------~~~~~~~~~~-------------   52 (294)
                      ||+.++  .....+..|...+++++|++||.++.|..+...                .|+.++|++.             
T Consensus        46 d~~a~~--~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~  123 (889)
T KOG4658|consen   46 DLDAKR--DDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSK  123 (889)
T ss_pred             HHHhhc--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHH
Confidence            566677  667899999999999999999999998765322                2333444441             


Q ss_pred             -HHHHH-h-hccccccccc-CCC----CCCCCcCce-eehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh--
Q 048597           53 -KKERE-A-NKEVYEEVSE-DPA----VELPVERTV-IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR--  121 (294)
Q Consensus        53 -~~~i~-l-~~~~~~~~~~-~~~----~~~~~~~~~-vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v--  121 (294)
                       +++++ + .++.|..+.. ..+    ...|..+.. ||.+..++.+.+.|..+  +..+++|+||||+||||||+++  
T Consensus       124 ~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~VG~e~~~~kl~~~L~~d--~~~iv~i~GMGGvGKTTL~~qi~N  201 (889)
T KOG4658|consen  124 VLREVESLGSKGVFEVVGESLDPREKVETRPIQSESDVGLETMLEKLWNRLMED--DVGIVGIYGMGGVGKTTLARQIFN  201 (889)
T ss_pred             HHHHHHHhccccceecccccccchhhcccCCCCccccccHHHHHHHHHHHhccC--CCCEEEEECCCcccHHHHHHHHhc
Confidence             44444 3 3444544432 111    222333333 99999999999999988  4499999999999999999999  


Q ss_pred             --------------------hChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCccchhhhcC
Q 048597          122 --------------------ANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGV  181 (294)
Q Consensus       122 --------------------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~l~~  181 (294)
                                          |+...++..|+..++.............++..|.+.|++|||+|||||||+..+|+.+..
T Consensus       202 ~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~  281 (889)
T KOG4658|consen  202 KFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGV  281 (889)
T ss_pred             ccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCC
Confidence                                555568888888887755544555567899999999999999999999999999999999


Q ss_pred             CcCCCCCCcEEEEecCChHHhhc-cCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          182 PLQYLHLGSKIVFTTNSRVVCGQ-MEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       182 ~l~~~~~gs~iivTtr~~~v~~~-~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      ++|...+||+|++|||+..||.. |++.. +++++|+.++||.||++.++.......+.+.++|++|+++|+|+|||+++
T Consensus       282 ~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~v  361 (889)
T KOG4658|consen  282 PFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNV  361 (889)
T ss_pred             CCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHH
Confidence            99999999999999999999998 88766 99999999999999999998876666677999999999999999999999


Q ss_pred             HHHHHcCCCCHHHHHHHHHHHHhc-CCCCCcc
Q 048597          260 VGRAMRSISSIEEWEHAIKIILRY-GRGVFAF  290 (294)
Q Consensus       260 i~~~L~~~~~~~~w~~~l~~l~~~-~~~~~~~  290 (294)
                      +|++|+.|.+.++|+++++.+.++ ..++++.
T Consensus       362 iG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~  393 (889)
T KOG4658|consen  362 LGGLLACKKTVQEWRRALNVLKSSLAADFSGM  393 (889)
T ss_pred             HHHHhcCCCcHHHHHHHHccccccccCCCCch
Confidence            999999999999999999999998 4444443

>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=5.8e-35  Score=255.64  Aligned_cols=206  Identities=33%  Similarity=0.560  Sum_probs=161.9

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh---------------------hChhHHHHHHHHHhCCCCCC
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR---------------------ANLKKIQADIGKKIGLSTKS  141 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v---------------------~~~~~i~~~i~~~~~~~~~~  141 (294)
                      |+.++++|.+.|.....+.++|+|+||||+||||||..+                     ++...+...+...++.....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            788999999999996568999999999999999999998                     33345778888888765443


Q ss_pred             c-ccCChHHHHHHHHHHhccCCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHhhccCC-ce-eecCCCCHH
Q 048597          142 W-QENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA-TM-LNASPLRDE  218 (294)
Q Consensus       142 ~-~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~-~~-~~l~~L~~~  218 (294)
                      . ...+.......+.+.|.++++||||||||+...|+.+...++....|++||+|||+..++..+.. .. |++++|+.+
T Consensus        81 ~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~  160 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEE  160 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HH
T ss_pred             cccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3 45677889999999999999999999999999999998888877789999999999999877765 33 999999999


Q ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCC
Q 048597          219 EAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRYGRGVF  288 (294)
Q Consensus       219 ~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l~~~~~~~~  288 (294)
                      +|++||++.++.......+.+.+.+++|+++|+|+|||++++|++|+.+.+..+|+++++++.....+..
T Consensus       161 ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~  230 (287)
T PF00931_consen  161 EALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESR  230 (287)
T ss_dssp             HHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSS
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999998765423345556789999999999999999999999776678999999999988765443

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PLN03210 Resistant to P

Probab=99.97  E-value=5.7e-30  Score=260.27  Aligned_cols=203  Identities=16%  Similarity=0.244  Sum_probs=160.1

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC-----C--Cc-------
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST-----K--SW-------  142 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~-----~--~~-------  142 (294)
                      ...+||++..++++..+|..+..+.++|+||||||+||||||+.+|+..  ...+...+.+..     .  ..       
T Consensus       183 ~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l--~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        183 FEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL--SRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             cccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH--hhcCCeEEEeeccccccchhhcccccccc
Confidence            3568999999999999987666689999999999999999999996532  111111000000     0  00       


Q ss_pred             ------------------ccCChHHHHHHHHHHhccCCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHhhc
Q 048597          143 ------------------QENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQ  204 (294)
Q Consensus       143 ------------------~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~  204 (294)
                                        ...... ....+++.+.++|+||||||||+...|+.+.......+.||+||||||+..++..
T Consensus       261 ~~~~~~l~~~~l~~il~~~~~~~~-~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~  339 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKDIKIY-HLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRA  339 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCCcccC-CHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHh
Confidence                              000000 0135677889999999999999999999887665556789999999999999987


Q ss_pred             cCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHHHhc
Q 048597          205 MEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRY  283 (294)
Q Consensus       205 ~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l~~~  283 (294)
                      +++.. |+++.|++++||+||+++|+... ..++++.+++++|+++|+|+|||++++|++|+. ++..+|+.++++|+..
T Consensus       340 ~~~~~~~~v~~l~~~ea~~LF~~~Af~~~-~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l~~L~~~  417 (1153)
T PLN03210        340 HGIDHIYEVCLPSNELALEMFCRSAFKKN-SPPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDMLPRLRNG  417 (1153)
T ss_pred             cCCCeEEEecCCCHHHHHHHHHHHhcCCC-CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHHHHHHhC
Confidence            77767 99999999999999999998765 344568899999999999999999999999998 5789999999999874


Q ss_pred             C
Q 048597          284 G  284 (294)
Q Consensus       284 ~  284 (294)
                      .
T Consensus       418 ~  418 (1153)
T PLN03210        418 L  418 (1153)
T ss_pred             c
Confidence            3

syringae 6; Provisional

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

Probab=99.44  E-value=4.4e-11  Score=103.61  Aligned_cols=179  Identities=18%  Similarity=0.142  Sum_probs=109.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC------------------hhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHh---
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN------------------LKKIQADIGKKIGLSTKSWQENSFEDKALDIAGIL---  158 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~------------------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l---  158 (294)
                      ....+.|+|++|+|||||++.+++                  ..++...+...++.+..   ..+.......+...+   
T Consensus        42 ~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~---~~~~~~~~~~l~~~l~~~  118 (269)
T TIGR03015        42 REGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETE---GRDKAALLRELEDFLIEQ  118 (269)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCC---CCCHHHHHHHHHHHHHHH
Confidence            356899999999999999998832                  22444556666655422   122223333343322   


Q ss_pred             --ccCCeEEEEccccCc--cchhhhcCCc--C-CCCCCcEEEEecCChHHhhc-------c--CCce-eecCCCCHHHHH
Q 048597          159 --SRKRFVLLLDDIWEH--INLNKLGVPL--Q-YLHLGSKIVFTTNSRVVCGQ-------M--EATM-LNASPLRDEEAW  221 (294)
Q Consensus       159 --~~kr~LlvlDdv~~~--~~~~~l~~~l--~-~~~~gs~iivTtr~~~v~~~-------~--~~~~-~~l~~L~~~~~~  221 (294)
                        .++++++|+||++..  ..++.+....  . .......|++|.........       .  .... +++.+|+.++..
T Consensus       119 ~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~  198 (269)
T TIGR03015       119 FAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREETR  198 (269)
T ss_pred             HhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHHHH
Confidence              678899999999873  3455443211  1 11222345566543321100       1  1122 789999999999


Q ss_pred             HHHHHHhCCCCCCCC-CCHHHHHHHHHHhCCCChHHHHHHHHHHc------CC--CCHHHHHHHHHHHH
Q 048597          222 RLFEEAVGRYVLDSH-PDIPELAKTMAEECCCLPLALKTVGRAMR------SI--SSIEEWEHAIKIIL  281 (294)
Q Consensus       222 ~Lf~~~~~~~~~~~~-~~~~~~~~~I~~~c~GlPlai~~i~~~L~------~~--~~~~~w~~~l~~l~  281 (294)
                      +++...+........ .--.+..+.|++.|+|.|..|..++..+-      ++  -+.+.++.++..+.
T Consensus       199 ~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~~  267 (269)
T TIGR03015       199 EYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEID  267 (269)
T ss_pred             HHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhh
Confidence            999877643221111 22346789999999999999999988761      11  45677777766654

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.

>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=99.43  E-value=1e-12  Score=110.94  Aligned_cols=176  Identities=19%  Similarity=0.215  Sum_probs=93.2

Q ss_pred             eeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC------------------hhHHHHHH----------
Q 048597           80 VIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN------------------LKKIQADI----------  131 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~------------------~~~i~~~i----------  131 (294)
                      |+||+.++++|.+++..+  ....+.|+|+.|+|||+|++.+.+                  .......+          
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            689999999999999876  568999999999999999999811                  01111111          


Q ss_pred             HHHhC--CCCCCc------ccCChHHHHHHHHHHh--ccCCeEEEEccccCcc-ch---h----hhcCCcCC--CCCCcE
Q 048597          132 GKKIG--LSTKSW------QENSFEDKALDIAGIL--SRKRFVLLLDDIWEHI-NL---N----KLGVPLQY--LHLGSK  191 (294)
Q Consensus       132 ~~~~~--~~~~~~------~~~~~~~~~~~l~~~l--~~kr~LlvlDdv~~~~-~~---~----~l~~~l~~--~~~gs~  191 (294)
                      ...++  ......      ...........+.+.+  .+++++||+||+.... ..   .    .+...+..  ......
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  158 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS  158 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce
Confidence            11111  111000      0111222333333333  3456999999997644 11   1    12222211  122334


Q ss_pred             EEEecCChHHhhc--------cCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          192 IVFTTNSRVVCGQ--------MEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       192 iivTtr~~~v~~~--------~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      +|+++.+......        .+... +.+++|+.+++++++...+... ... +.-.+..++|+..+||+|..|..
T Consensus       159 ~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  159 IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC--------HHHHHHHHHHHTT-HHHHHH
T ss_pred             EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            5555555444322        12222 9999999999999999876433 112 22235569999999999998864

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

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.29  E-value=5.3e-10  Score=102.28  Aligned_cols=205  Identities=17%  Similarity=0.137  Sum_probs=121.5

Q ss_pred             CcCceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHhhCh---------------------hHHHHHHH
Q 048597           76 VERTVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQRANL---------------------KKIQADIG  132 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v~~~---------------------~~i~~~i~  132 (294)
                      .++.++||++++++|...+...  ......+.|+|++|+|||++++.+.+.                     ..+...+.
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            4567899999999999998553  234566889999999999999998432                     23445555


Q ss_pred             HHhCCCCCCcccCChHHHHHHHHHHhc--cCCeEEEEccccCcc------chhhhcCCcCCCCCCcE--EEEecCChHH-
Q 048597          133 KKIGLSTKSWQENSFEDKALDIAGILS--RKRFVLLLDDIWEHI------NLNKLGVPLQYLHLGSK--IVFTTNSRVV-  201 (294)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~~------~~~~l~~~l~~~~~gs~--iivTtr~~~v-  201 (294)
                      .++..........+...+...+.+.+.  ++..+||||+++...      .+..+...+.. ..+++  +|.++....+ 
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~~  186 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTFL  186 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcchh
Confidence            655431111122345666667777664  456899999997632      22222222211 12333  5555554332 


Q ss_pred             -------hhccCCceeecCCCCHHHHHHHHHHHhCC---CCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH--c---C
Q 048597          202 -------CGQMEATMLNASPLRDEEAWRLFEEAVGR---YVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM--R---S  266 (294)
Q Consensus       202 -------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~---~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L--~---~  266 (294)
                             ........+.+.+++.++..+++..++..   .......-+..+++......|..+.|+..+-...  .   +
T Consensus       187 ~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        187 YILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence                   22222333899999999999999887632   1111222223333333333566778877765422  1   1


Q ss_pred             C--CCHHHHHHHHHHHH
Q 048597          267 I--SSIEEWEHAIKIIL  281 (294)
Q Consensus       267 ~--~~~~~w~~~l~~l~  281 (294)
                      +  -+.++.+.+++.+.
T Consensus       267 ~~~I~~~~v~~a~~~~~  283 (394)
T PRK00411        267 SRKVTEEDVRKAYEKSE  283 (394)
T ss_pred             CCCcCHHHHHHHHHHHH
Confidence            1  35677877777663

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.14  E-value=1e-09  Score=96.93  Aligned_cols=190  Identities=20%  Similarity=0.192  Sum_probs=107.2

Q ss_pred             CceeehhHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..|+|+++.++.|..++...   ......+.++|++|+|||+||+.+.+....      .+..... ........+...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~------~~~~~~~-~~~~~~~~l~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGV------NLKITSG-PALEKPGDLAAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCC------CEEEecc-chhcCchhHHHHH
Confidence            35899999999999888642   224567889999999999999987442210      0000000 0011122222222


Q ss_pred             HHHhccCCeEEEEccccCc--cchhhhcCCcC-------------------CCCCCcEEEEecCChHHh----hccCCce
Q 048597          155 AGILSRKRFVLLLDDIWEH--INLNKLGVPLQ-------------------YLHLGSKIVFTTNSRVVC----GQMEATM  209 (294)
Q Consensus       155 ~~~l~~kr~LlvlDdv~~~--~~~~~l~~~l~-------------------~~~~gs~iivTtr~~~v~----~~~~~~~  209 (294)
                      .. + +...++++||+...  ...+.+...+.                   .....+-|..||+...+.    ..+ ...
T Consensus        77 ~~-~-~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~-~~~  153 (305)
T TIGR00635        77 TN-L-EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRF-GII  153 (305)
T ss_pred             Hh-c-ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhc-ceE
Confidence            22 1 34567888888652  11111111110                   001133444556553332    222 122


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHc------C-C-CCHHHHHHHHHHH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMR------S-I-SSIEEWEHAIKII  280 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~------~-~-~~~~~w~~~l~~l  280 (294)
                      +++.+++.++..+++.+.+.......+   .+....|++.|+|.|-.+..++..+.      . . -+.+..+.+++.+
T Consensus       154 ~~l~~l~~~e~~~il~~~~~~~~~~~~---~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~l  229 (305)
T TIGR00635       154 LRLEFYTVEELAEIVSRSAGLLNVEIE---PEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEML  229 (305)
T ss_pred             EEeCCCCHHHHHHHHHHHHHHhCCCcC---HHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHh
Confidence            889999999999999988764332222   35678899999999977665554331      1 1 3455556665554

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.06  E-value=3.5e-08  Score=89.30  Aligned_cols=204  Identities=14%  Similarity=0.104  Sum_probs=117.3

Q ss_pred             cCceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHhhCh-------------------------hHHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQRANL-------------------------KKIQA  129 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v~~~-------------------------~~i~~  129 (294)
                      +..++||+.++++|..+|...  ......+.|+|++|+|||++++.+++.                         ..+..
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            457899999999999998752  224568999999999999999988431                         23445


Q ss_pred             HHHHHh---CCCCCCcccCChHHHHHHHHHHhc--cCCeEEEEccccCcc-c----hhhhcCCc-CCCC--CCcEEEEec
Q 048597          130 DIGKKI---GLSTKSWQENSFEDKALDIAGILS--RKRFVLLLDDIWEHI-N----LNKLGVPL-QYLH--LGSKIVFTT  196 (294)
Q Consensus       130 ~i~~~~---~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~~-~----~~~l~~~l-~~~~--~gs~iivTt  196 (294)
                      .+..++   +.... ....+..+....+.+.+.  +++++||||+++... .    +..+.... ....  ....+|.++
T Consensus        94 ~i~~~l~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~  172 (365)
T TIGR02928        94 ELANQLRGSGEEVP-TTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGIS  172 (365)
T ss_pred             HHHHHHhhcCCCCC-CCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEE
Confidence            555555   22111 112234455556666663  567899999998641 1    12221110 1111  222344444


Q ss_pred             CChHH--------hhccCCceeecCCCCHHHHHHHHHHHhCC--CCCCCCCCHHHHHHHHHHhCCCChHHHHHHH-HHH-
Q 048597          197 NSRVV--------CGQMEATMLNASPLRDEEAWRLFEEAVGR--YVLDSHPDIPELAKTMAEECCCLPLALKTVG-RAM-  264 (294)
Q Consensus       197 r~~~v--------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~--~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~-~~L-  264 (294)
                      .....        ...+....+++.|++.++..+++..++..  ......++..+....++..+.|.|-.+..+. ... 
T Consensus       173 n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~  252 (365)
T TIGR02928       173 NDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGE  252 (365)
T ss_pred             CCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            43322        12222223899999999999999987631  1111233344455667777788885443322 111 


Q ss_pred             ---c-C--CCCHHHHHHHHHHHH
Q 048597          265 ---R-S--ISSIEEWEHAIKIIL  281 (294)
Q Consensus       265 ---~-~--~~~~~~w~~~l~~l~  281 (294)
                         . +  .-+.++.+.+.+.+.
T Consensus       253 ~a~~~~~~~it~~~v~~a~~~~~  275 (365)
T TIGR02928       253 IAEREGAERVTEDHVEKAQEKIE  275 (365)
T ss_pred             HHHHcCCCCCCHHHHHHHHHHHH
Confidence               1 1  145566666665553

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=99.05  E-value=2.4e-09  Score=90.56  Aligned_cols=152  Identities=13%  Similarity=0.097  Sum_probs=89.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCc---cch
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEH---INL  176 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~---~~~  176 (294)
                      ..+.+.|+|++|+|||+|++.+.+...-..  .....++..     ........+.+.+. +.-+|+|||+|..   ..|
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~--~~~~y~~~~-----~~~~~~~~~~~~~~-~~dlLilDDi~~~~~~~~~  109 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQ--RTAIYIPLS-----KSQYFSPAVLENLE-QQDLVCLDDLQAVIGNEEW  109 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcC--CCeEEeeHH-----HhhhhhHHHHhhcc-cCCEEEEeChhhhcCChHH
Confidence            346789999999999999999865421110  000001000     00111112222232 3358999999873   445


Q ss_pred             hh-hcCCcCCC-CCCcEEE-EecCC---------hHHhhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHH
Q 048597          177 NK-LGVPLQYL-HLGSKIV-FTTNS---------RVVCGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELA  243 (294)
Q Consensus       177 ~~-l~~~l~~~-~~gs~ii-vTtr~---------~~v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~  243 (294)
                      .. +...+... ..|..++ +|++.         +.+...+.... ++++++++++.++++++.+.......+   .++.
T Consensus       110 ~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l~---~~v~  186 (229)
T PRK06893        110 ELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIELS---DEVA  186 (229)
T ss_pred             HHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCCC---HHHH
Confidence            52 22222221 2355554 44543         35556666555 999999999999999998865442232   3677


Q ss_pred             HHHHHhCCCChHHHHHHHH
Q 048597          244 KTMAEECCCLPLALKTVGR  262 (294)
Q Consensus       244 ~~I~~~c~GlPlai~~i~~  262 (294)
                      .-|++.+.|-.-.+..+-.
T Consensus       187 ~~L~~~~~~d~r~l~~~l~  205 (229)
T PRK06893        187 NFLLKRLDRDMHTLFDALD  205 (229)
T ss_pred             HHHHHhccCCHHHHHHHHH
Confidence            8899999887765555443

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.05  E-value=6.9e-09  Score=92.60  Aligned_cols=173  Identities=20%  Similarity=0.139  Sum_probs=100.4

Q ss_pred             CceeehhHHHHHHHHHHhc---CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTD---QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..|+|+++.++.+..++..   .......+.++|++|+||||||+.+.+....      .+...... .......+.. +
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~------~~~~~~~~-~~~~~~~l~~-~   96 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGV------NIRITSGP-ALEKPGDLAA-I   96 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCC------CeEEEecc-cccChHHHHH-H
Confidence            5689999999998887764   2335678899999999999999987543221      01000000 0111122222 2


Q ss_pred             HHHhccCCeEEEEccccCcc--chhhhcCCc---------CC---------C-CCCcEEEEecCChHHh----hccCCce
Q 048597          155 AGILSRKRFVLLLDDIWEHI--NLNKLGVPL---------QY---------L-HLGSKIVFTTNSRVVC----GQMEATM  209 (294)
Q Consensus       155 ~~~l~~kr~LlvlDdv~~~~--~~~~l~~~l---------~~---------~-~~gs~iivTtr~~~v~----~~~~~~~  209 (294)
                      ...+ +...+|++||++...  ..+.+...+         ..         . ...+-|..|++...+.    ..+ ...
T Consensus        97 l~~l-~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf-~~~  174 (328)
T PRK00080         97 LTNL-EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRF-GIV  174 (328)
T ss_pred             HHhc-ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhc-Cee
Confidence            2222 345688899886521  111111100         00         0 1123344555543332    222 122


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRA  263 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~  263 (294)
                      +++.+++.++..+++.+.+.......++   +....|++.|+|.|-.+..+...
T Consensus       175 ~~l~~~~~~e~~~il~~~~~~~~~~~~~---~~~~~ia~~~~G~pR~a~~~l~~  225 (328)
T PRK00080        175 QRLEFYTVEELEKIVKRSARILGVEIDE---EGALEIARRSRGTPRIANRLLRR  225 (328)
T ss_pred             eecCCCCHHHHHHHHHHHHHHcCCCcCH---HHHHHHHHHcCCCchHHHHHHHH
Confidence            8999999999999999887654433322   56799999999999766655543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.04  E-value=2e-09  Score=99.01  Aligned_cols=176  Identities=19%  Similarity=0.168  Sum_probs=101.3

Q ss_pred             CceeehhHHHHH---HHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDR---VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~---l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..+||.+..+..   +..++...  ....+.++|++|+||||||+.+.+....     ....+........+........
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~~~~-----~~~~l~a~~~~~~~ir~ii~~~   84 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGATDA-----PFEALSAVTSGVKDLREVIEEA   84 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEecccccHHHHHHHHHHH
Confidence            457888877655   77777665  5667889999999999999988542210     0000111100111122222222


Q ss_pred             HHHh-ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEE--ecCChHHh---hcc-CCceeecCCCCHHHHHHHHH
Q 048597          155 AGIL-SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVF--TTNSRVVC---GQM-EATMLNASPLRDEEAWRLFE  225 (294)
Q Consensus       155 ~~~l-~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iiv--Ttr~~~v~---~~~-~~~~~~l~~L~~~~~~~Lf~  225 (294)
                      .... .+++.+|++|+++..  ...+.+...+.   .|..+++  ||.+....   ... .+..+.+.+++.++...++.
T Consensus        85 ~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~  161 (413)
T PRK13342         85 RQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLK  161 (413)
T ss_pred             HHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHH
Confidence            2222 457889999999863  34444443332   2444444  33333211   111 12239999999999999998


Q ss_pred             HHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH
Q 048597          226 EAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRA  263 (294)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~  263 (294)
                      +.+.........--.+....|++.|+|.|..+..+...
T Consensus       162 ~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        162 RALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             HHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            86643211100222456788999999999877655444

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

Probab=99.01  E-value=1.3e-09  Score=96.03  Aligned_cols=158  Identities=21%  Similarity=0.201  Sum_probs=90.8

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHH-HHhccCCeEEEEc
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIA-GILSRKRFVLLLD  168 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~kr~LlvlD  168 (294)
                      |-.++..+  .+....+|||+|+||||||+.+........   ..  ++.......+.....+.-+ ....+++.+|++|
T Consensus        39 lrr~v~~~--~l~SmIl~GPPG~GKTTlA~liA~~~~~~f---~~--~sAv~~gvkdlr~i~e~a~~~~~~gr~tiLflD  111 (436)
T COG2256          39 LRRAVEAG--HLHSMILWGPPGTGKTTLARLIAGTTNAAF---EA--LSAVTSGVKDLREIIEEARKNRLLGRRTILFLD  111 (436)
T ss_pred             HHHHHhcC--CCceeEEECCCCCCHHHHHHHHHHhhCCce---EE--eccccccHHHHHHHHHHHHHHHhcCCceEEEEe
Confidence            33444455  788899999999999999988743211110   00  1100001122222233332 2235889999999


Q ss_pred             cccC--ccchhhhcCCcCCCCCCcEEEE--ecCChHH----hhccCCceeecCCCCHHHHHHHHHHHhCCCC--CC-CCC
Q 048597          169 DIWE--HINLNKLGVPLQYLHLGSKIVF--TTNSRVV----CGQMEATMLNASPLRDEEAWRLFEEAVGRYV--LD-SHP  237 (294)
Q Consensus       169 dv~~--~~~~~~l~~~l~~~~~gs~iiv--Ttr~~~v----~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~--~~-~~~  237 (294)
                      +|+.  ..+-+.+   ||...+|.-|+|  ||.|...    +-...+..+.+++|+.++...++.+.+....  .. ...
T Consensus       112 EIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~  188 (436)
T COG2256         112 EIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQII  188 (436)
T ss_pred             hhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccc
Confidence            9986  2333333   456667877765  4444432    2233344499999999999999998552221  11 111


Q ss_pred             CH-HHHHHHHHHhCCCChHHH
Q 048597          238 DI-PELAKTMAEECCCLPLAL  257 (294)
Q Consensus       238 ~~-~~~~~~I~~~c~GlPlai  257 (294)
                      .+ .+.-..++..++|---++
T Consensus       189 ~i~~~a~~~l~~~s~GD~R~a  209 (436)
T COG2256         189 VLDEEALDYLVRLSNGDARRA  209 (436)
T ss_pred             cCCHHHHHHHHHhcCchHHHH
Confidence            12 345677888888865443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.98  E-value=1.3e-08  Score=102.61  Aligned_cols=180  Identities=16%  Similarity=0.188  Sum_probs=107.9

Q ss_pred             CcCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh----------------ChhHHHHHHHHHhCCCC
Q 048597           76 VERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA----------------NLKKIQADIGKKIGLST  139 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~----------------~~~~i~~~i~~~~~~~~  139 (294)
                      ..+.+|-|..-.+    .|... ...+++.|+||+|.||||++....                +...+...+...+....
T Consensus        12 ~~~~~~~R~rl~~----~l~~~-~~~~~~~v~apaG~GKTtl~~~~~~~~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~~   86 (903)
T PRK04841         12 RLHNTVVRERLLA----KLSGA-NNYRLVLVTSPAGYGKTTLISQWAAGKNNLGWYSLDESDNQPERFASYLIAALQQAT   86 (903)
T ss_pred             CccccCcchHHHH----HHhcc-cCCCeEEEECCCCCCHHHHHHHHHHhCCCeEEEecCcccCCHHHHHHHHHHHHHHhc
Confidence            3456677775444    44332 257899999999999999999971                11233445555553111


Q ss_pred             CC-----------cccCChHHHHHHHHHHhc--cCCeEEEEccccCcc--chh-hhcCCcCCCCCCcEEEEecCChHHhh
Q 048597          140 KS-----------WQENSFEDKALDIAGILS--RKRFVLLLDDIWEHI--NLN-KLGVPLQYLHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       140 ~~-----------~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~~--~~~-~l~~~l~~~~~gs~iivTtr~~~v~~  203 (294)
                      ..           ....+.......+...+.  +.+++|||||++...  ... .+...+.....+.++|+|||......
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~  166 (903)
T PRK04841         87 NGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLG  166 (903)
T ss_pred             CcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCc
Confidence            00           000122233333444442  678999999997632  222 22222223334568889999843211


Q ss_pred             c--cC-Cce-eecC----CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcC
Q 048597          204 Q--ME-ATM-LNAS----PLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS  266 (294)
Q Consensus       204 ~--~~-~~~-~~l~----~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~  266 (294)
                      .  .. ... ..+.    +|+.+++.++|....+..-      -.+....|.+.|+|.|+++..++..+..
T Consensus       167 ~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~------~~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        167 IANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI------EAAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             hHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC------CHHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence            1  11 111 4454    9999999999987655321      1245688999999999999998877654

>PF05729 NACHT: NACHT domain

Probab=98.97  E-value=4.4e-09  Score=83.91  Aligned_cols=70  Identities=24%  Similarity=0.341  Sum_probs=47.6

Q ss_pred             ccCCeEEEEccccCccc---------hhhhc-CCcCC-CCCCcEEEEecCChHH---hhccCCce-eecCCCCHHHHHHH
Q 048597          159 SRKRFVLLLDDIWEHIN---------LNKLG-VPLQY-LHLGSKIVFTTNSRVV---CGQMEATM-LNASPLRDEEAWRL  223 (294)
Q Consensus       159 ~~kr~LlvlDdv~~~~~---------~~~l~-~~l~~-~~~gs~iivTtr~~~v---~~~~~~~~-~~l~~L~~~~~~~L  223 (294)
                      ..++++||+|++++...         +..+. ..++. ...++++++|+|....   ........ +++.+|++++..++
T Consensus        79 ~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  158 (166)
T PF05729_consen   79 KNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQY  158 (166)
T ss_pred             cCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHH
Confidence            57899999999976321         22222 11222 2457899999998766   33333334 99999999999999


Q ss_pred             HHHHh
Q 048597          224 FEEAV  228 (294)
Q Consensus       224 f~~~~  228 (294)
                      +.+.+
T Consensus       159 ~~~~f  163 (166)
T PF05729_consen  159 LRKYF  163 (166)
T ss_pred             HHHHh
Confidence            87754

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.89  E-value=2.2e-08  Score=84.42  Aligned_cols=168  Identities=17%  Similarity=0.182  Sum_probs=95.9

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCC
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKR  162 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr  162 (294)
                      .+..++.+..++...  ....+.|+|++|+|||+||+.+.+...-..  ...+.++..     +.......+...+.+ .
T Consensus        22 ~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKT~la~~~~~~~~~~~--~~~~~i~~~-----~~~~~~~~~~~~~~~-~   91 (226)
T TIGR03420        22 NAELLAALRQLAAGK--GDRFLYLWGESGSGKSHLLQAACAAAEERG--KSAIYLPLA-----ELAQADPEVLEGLEQ-A   91 (226)
T ss_pred             cHHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHHHHhcC--CcEEEEeHH-----HHHHhHHHHHhhccc-C
Confidence            445677777765543  567899999999999999998864321000  000001000     000111122233333 3


Q ss_pred             eEEEEccccCcc---chh-hhcCCcCC-CCCCcEEEEecCChH---------HhhccCCce-eecCCCCHHHHHHHHHHH
Q 048597          163 FVLLLDDIWEHI---NLN-KLGVPLQY-LHLGSKIVFTTNSRV---------VCGQMEATM-LNASPLRDEEAWRLFEEA  227 (294)
Q Consensus       163 ~LlvlDdv~~~~---~~~-~l~~~l~~-~~~gs~iivTtr~~~---------v~~~~~~~~-~~l~~L~~~~~~~Lf~~~  227 (294)
                      -+|||||++...   .|. .+...+.. ...+..+|+|++...         ....+.... +++.++++++...++...
T Consensus        92 ~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~  171 (226)
T TIGR03420        92 DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSR  171 (226)
T ss_pred             CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHH
Confidence            489999997632   232 33322221 122347888887532         222333233 999999999999998875


Q ss_pred             hCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH
Q 048597          228 VGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRA  263 (294)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~  263 (294)
                      +.......+   .+....+++.+.|.|..+..+...
T Consensus       172 ~~~~~~~~~---~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       172 AARRGLQLP---DEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HHHcCCCCC---HHHHHHHHHhccCCHHHHHHHHHH
Confidence            533222222   355678888899999888776543

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.

>PF13173 AAA_14: AAA domain

Probab=98.88  E-value=2.7e-09  Score=81.91  Aligned_cols=116  Identities=23%  Similarity=0.167  Sum_probs=71.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC--ChHHHHHHHHHHhccCCeEEEEccccCccchhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN--SFEDKALDIAGILSRKRFVLLLDDIWEHINLNK  178 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~--~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~  178 (294)
                      .+++.|.|+.|+|||||++++.......   ...+.+........  ...+....+.+....+..+++||++....+|..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~---~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~~~~~~   78 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPP---ENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYLPDWED   78 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhccc---ccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhhccHHH
Confidence            4789999999999999998875322200   01111111110000  000123334444445788999999999888888


Q ss_pred             hcCCcCCCCCCcEEEEecCChHHhhc------cCCce-eecCCCCHHH
Q 048597          179 LGVPLQYLHLGSKIVFTTNSRVVCGQ------MEATM-LNASPLRDEE  219 (294)
Q Consensus       179 l~~~l~~~~~gs~iivTtr~~~v~~~------~~~~~-~~l~~L~~~~  219 (294)
                      ....+.+.....+|++|+.+......      .+... +++.||+-.|
T Consensus        79 ~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   79 ALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             HHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            77776665556799999987765422      12223 8999998765

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.85  E-value=1.1e-07  Score=85.95  Aligned_cols=177  Identities=18%  Similarity=0.138  Sum_probs=104.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHhCCCCCCc-
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKIGLSTKSW-  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~~~~~~~~-  142 (294)
                      ..++|.+..++.+.+.+..+. -...+.++|+.|+||||+|+.+.....              .-..+........... 
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~   94 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEID   94 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEec
Confidence            568999999999999887652 345679999999999999998832110              1111111111000000 


Q ss_pred             --ccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-HhhccC--Ccee
Q 048597          143 --QENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQME--ATML  210 (294)
Q Consensus       143 --~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~~--~~~~  210 (294)
                        .....++ ...+.+.+     .+++-++|+|+++..  ..++.+...+.......++|++|.+.. +.....  +..+
T Consensus        95 ~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~  173 (363)
T PRK14961         95 AASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQF  173 (363)
T ss_pred             ccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEE
Confidence              0112222 22333332     245569999999873  346666555554444566777665432 322111  2339


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      ++.+++.++....+.+.+.......   -.+....|++.++|.|-.+..
T Consensus       174 ~~~~l~~~el~~~L~~~~~~~g~~i---~~~al~~ia~~s~G~~R~al~  219 (363)
T PRK14961        174 KLKIISEEKIFNFLKYILIKESIDT---DEYALKLIAYHAHGSMRDALN  219 (363)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHH
Confidence            9999999999988887664432111   125568899999998864433

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.83  E-value=8.2e-08  Score=92.00  Aligned_cols=178  Identities=15%  Similarity=0.120  Sum_probs=107.2

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~---~~  140 (294)
                      ..+||.+..++.|.+++..+. -...+.++|+.|+||||+++.+....              .....|...-...   .+
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEID   94 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMD   94 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEec
Confidence            467999999999999988762 24566799999999999998772111              1111111110000   00


Q ss_pred             CcccCChHHHHHHHHHH----hccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhhc--cCCceee
Q 048597          141 SWQENSFEDKALDIAGI----LSRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQ--MEATMLN  211 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~--~~~~~~~  211 (294)
                      .......++....+...    ..++.-++|||+++..  ..++.+...+.......++|++|++.. +...  -.+..++
T Consensus        95 Aas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~  174 (830)
T PRK07003         95 AASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFN  174 (830)
T ss_pred             ccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEe
Confidence            00112233333322221    1345568999999873  457777666655444667777776643 2211  1233499


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHH
Q 048597          212 ASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKT  259 (294)
Q Consensus       212 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~  259 (294)
                      +.+++.++..+.+.+.+..+.....   .+..+.|++.|+|.. -++..
T Consensus       175 Fk~Ls~eeIv~~L~~Il~~EgI~id---~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        175 LKQMPAGHIVSHLERILGEERIAFE---PQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             cCCcCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            9999999999999887755442222   355688999998855 34444

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.80  E-value=1e-07  Score=92.90  Aligned_cols=177  Identities=16%  Similarity=0.116  Sum_probs=106.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCce-EEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHhC---CCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRG-IIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKIG---LST  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~~---~~~  139 (294)
                      ..+||.+..+..|.+++..+  ++. .+.++|+.|+||||+|+.+.....              .-..+.....   +..
T Consensus        16 ddIIGQe~Iv~~LknaI~~~--rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEi   93 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQ--RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEV   93 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhC--CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEe
Confidence            46899999999999998876  444 568999999999999998832110              0011111100   000


Q ss_pred             CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhh--ccCCce
Q 048597          140 KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCG--QMEATM  209 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~--~~~~~~  209 (294)
                      ........+.. +.+.+.+     .+++-++|||+++.  ....+.+...+.......++|++|.+ ..+..  ...+..
T Consensus        94 dAas~~kVDdI-ReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~  172 (944)
T PRK14949         94 DAASRTKVDDT-RELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQ  172 (944)
T ss_pred             ccccccCHHHH-HHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheE
Confidence            00001122222 2222222     46677999999976  45666666555443345566655544 33321  122344


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      |++.+|+.++....+.+.+.......   -.+..+.|++.++|.|--+..+
T Consensus       173 f~fkpLs~eEI~~~L~~il~~EgI~~---edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        173 FNLKSLTQDEIGTQLNHILTQEQLPF---EAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             EeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            99999999999999888764432112   2356688999999988655444

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=1.2e-07  Score=89.59  Aligned_cols=177  Identities=15%  Similarity=0.136  Sum_probs=107.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH-------------------HHHHHHH-----
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK-------------------IQADIGK-----  133 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-------------------i~~~i~~-----  133 (294)
                      ..+||.+..+..|.+++..+. -...+.++|+.|+||||+|+.+.....                   .-..|..     
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpD   94 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVD   94 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCc
Confidence            468999999999999998762 235678999999999999988821110                   0111110     


Q ss_pred             HhCCCCCCcccCChHHHHHHHHHH----hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecC-ChHHhhcc-
Q 048597          134 KIGLSTKSWQENSFEDKALDIAGI----LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTN-SRVVCGQM-  205 (294)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr-~~~v~~~~-  205 (294)
                      .+.+...  .....++..+.+...    ..++.-++|||+++.  ...++.+...+..-...+.+|++|. ...+...+ 
T Consensus        95 viEIdAa--s~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIr  172 (700)
T PRK12323         95 YIEMDAA--SNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVL  172 (700)
T ss_pred             ceEeccc--ccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHH
Confidence            0001000  112233333333222    145667999999986  3566667666654444455555554 44442221 


Q ss_pred             -CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          206 -EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       206 -~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                       .+..+++.+++.++..+.+.+.+..+.....   .+..+.|++.++|.|..+..+
T Consensus       173 SRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d---~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        173 SRCLQFNLKQMPPGHIVSHLDAILGEEGIAHE---VNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HHHHhcccCCCChHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHH
Confidence             2333999999999999988877654332221   245588999999999655544

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.79  E-value=1.9e-07  Score=83.45  Aligned_cols=176  Identities=16%  Similarity=0.072  Sum_probs=98.1

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH----------HH-HHHH----HHhCCCCCCc
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK----------IQ-ADIG----KKIGLSTKSW  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~----------i~-~~i~----~~~~~~~~~~  142 (294)
                      ..++|++..++.+..++..+  ..+.+.++|++|+||||+|+.+.+...          +. ..+.    ..+.. ....
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~-~~~~   91 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP--NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVE-DPRF   91 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhc-Ccch
Confidence            46789999999999988776  455788999999999999988732110          00 0000    00000 0000


Q ss_pred             ---------ccCChHHHHHHH-HHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhhc
Q 048597          143 ---------QENSFEDKALDI-AGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQ  204 (294)
Q Consensus       143 ---------~~~~~~~~~~~l-~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~  204 (294)
                               ...........+ ....     ...+-+|++||+...  .....+...+......+++|+|+.+.. +...
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~  171 (337)
T PRK12402         92 AHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPP  171 (337)
T ss_pred             hhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchh
Confidence                     000001111111 1111     134558999999753  223334333332333467777775432 2111


Q ss_pred             cC--CceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          205 ME--ATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       205 ~~--~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      ..  +..+.+.+++.++...++.+.+.......+   .+....+++.++|.+-.+..
T Consensus       172 L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~~---~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        172 IRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYD---DDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hcCCceEEEecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHH
Confidence            11  222889999999999888887644332222   35668888888887655544

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=1.9e-07  Score=85.85  Aligned_cols=177  Identities=15%  Similarity=0.079  Sum_probs=105.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCc-eEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCCCCCc
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNR-GIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLSTKSW  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~~~~~  142 (294)
                      ..++|.+..+..|..++..+  .. ..+.++|+.|+||||+|+.+....              ..-..|...........
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~--ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviEI   95 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSG--KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLEI   95 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcC--CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccceee
Confidence            45799999999999998876  44 468999999999999999982211              01112221111000000


Q ss_pred             ---ccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhh--ccCCce
Q 048597          143 ---QENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCG--QMEATM  209 (294)
Q Consensus       143 ---~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~--~~~~~~  209 (294)
                         .....+.. ..+.+.+     .++.-++|+|+++.  ...++.+...+........+|++|.. ..+..  ...+..
T Consensus        96 daas~~gVd~I-ReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~  174 (484)
T PRK14956         96 DAASNRGIENI-RELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQD  174 (484)
T ss_pred             chhhcccHHHH-HHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhhe
Confidence               11112222 2222222     35667999999986  45677776665443334454544443 33322  122334


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      |.+.+++.++..+.+.+.+...+..-.   .+....|++.++|.+--+..+
T Consensus       175 ~~f~~ls~~~i~~~L~~i~~~Egi~~e---~eAL~~Ia~~S~Gd~RdAL~l  222 (484)
T PRK14956        175 FIFKKVPLSVLQDYSEKLCKIENVQYD---QEGLFWIAKKGDGSVRDMLSF  222 (484)
T ss_pred             eeecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCChHHHHHHH
Confidence            999999999998888887654432221   356688999999998544433

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.78  E-value=5.8e-08  Score=96.30  Aligned_cols=183  Identities=14%  Similarity=0.173  Sum_probs=106.6

Q ss_pred             eeehhHHHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHh---------------hC----------hhHHHHH---
Q 048597           80 VIRQELLLDRVWRFVTDQ-ERNRGIIGLYGTGGVGKTTLLKQR---------------AN----------LKKIQAD---  130 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~-~~~~~vi~I~G~~GiGKTtLa~~v---------------~~----------~~~i~~~---  130 (294)
                      ++||+.+++.|...+..- .....++.+.|.+|+|||+|++.|               |+          ..+..++   
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~   81 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMG   81 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHH
Confidence            689999999999998763 335679999999999999999999               00          1111111   


Q ss_pred             ----------------HHHHhCCC---------------CCCcc-----cCChH-----HHHHHHHHHh-ccCCeEEEEc
Q 048597          131 ----------------IGKKIGLS---------------TKSWQ-----ENSFE-----DKALDIAGIL-SRKRFVLLLD  168 (294)
Q Consensus       131 ----------------i~~~~~~~---------------~~~~~-----~~~~~-----~~~~~l~~~l-~~kr~LlvlD  168 (294)
                                      +...++..               +....     .....     .....|..+. +.++.++|+|
T Consensus        82 ~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~le  161 (849)
T COG3899          82 QLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVLE  161 (849)
T ss_pred             HHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEEe
Confidence                            11122111               00000     00001     1122223333 4569999999


Q ss_pred             cccC-c-cchhhhcCCcCCCCC----CcEEE--EecCCh--HHhhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCC
Q 048597          169 DIWE-H-INLNKLGVPLQYLHL----GSKIV--FTTNSR--VVCGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHP  237 (294)
Q Consensus       169 dv~~-~-~~~~~l~~~l~~~~~----gs~ii--vTtr~~--~v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~  237 (294)
                      |++- . ..++-+.........    -..+.  .|.+..  .+...-.... +.|.||+..+...+.........    .
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~----~  237 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK----L  237 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc----c
Confidence            9943 2 222222111111110    01222  222222  1222222223 99999999999999998887633    2


Q ss_pred             CHHHHHHHHHHhCCCChHHHHHHHHHHcC
Q 048597          238 DIPELAKTMAEECCCLPLALKTVGRAMRS  266 (294)
Q Consensus       238 ~~~~~~~~I~~~c~GlPlai~~i~~~L~~  266 (294)
                      ...+....|+++..|+||.+..+-..|..
T Consensus       238 ~~~p~~~~i~~kt~GnPfFi~e~lk~l~~  266 (849)
T COG3899         238 LPAPLLELIFEKTKGNPFFIEEFLKALYE  266 (849)
T ss_pred             ccchHHHHHHHHhcCCCccHHHHHHHHHh
Confidence            23356799999999999999998887766

>PLN03025 replication factor C subunit; Provisional

Probab=98.76  E-value=7e-08  Score=85.77  Aligned_cols=173  Identities=14%  Similarity=0.101  Sum_probs=98.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHH-HHHhCCCCCCcccCChHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADI-GKKIGLSTKSWQENSFEDKALDIAG  156 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i-~~~~~~~~~~~~~~~~~~~~~~l~~  156 (294)
                      ..++|.++.++.|..++..+  ..+.+.++|++|+||||+|+.+.....-. .+ ...+.+...  .....+.....+..
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~eln~s--d~~~~~~vr~~i~~   87 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG--NMPNLILSGPPGTGKTTSILALAHELLGP-NYKEAVLELNAS--DDRGIDVVRNKIKM   87 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhcc-cCccceeeeccc--ccccHHHHHHHHHH
Confidence            45789988888888877765  45567899999999999998874321000 00 000111111  11122223333322


Q ss_pred             Hh-------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCceeecCCCCHHHHHHHH
Q 048597          157 IL-------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATMLNASPLRDEEAWRLF  224 (294)
Q Consensus       157 ~l-------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~~~l~~L~~~~~~~Lf  224 (294)
                      +.       .++.-+++||+++..  .....+...+......+++++++.... +....  .+..+++.++++++....+
T Consensus        88 ~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~~~L  167 (319)
T PLN03025         88 FAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRL  167 (319)
T ss_pred             HHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHHHHH
Confidence            21       145679999999863  233333333322233466777665421 11111  1223999999999999998


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          225 EEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      ...+.......+   .+....|++.|+|-.-.+.
T Consensus       168 ~~i~~~egi~i~---~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        168 MKVVEAEKVPYV---PEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             HHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHH
Confidence            887754432222   3556888888888764443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.75  E-value=3.2e-07  Score=87.04  Aligned_cols=178  Identities=15%  Similarity=0.092  Sum_probs=106.1

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLST---K  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~~---~  140 (294)
                      ..++|.+.....|.+++..+. -...+.++|+.|+||||+|+.+....              ..-+.+...-....   .
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEID   93 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEID   93 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEec
Confidence            468999999999999998762 24688999999999999998872111              11111111000000   0


Q ss_pred             CcccCChHHHHHHHHHH----hccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hh-h-ccCCceee
Q 048597          141 SWQENSFEDKALDIAGI----LSRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VC-G-QMEATMLN  211 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~-~-~~~~~~~~  211 (294)
                      .......++..+.+...    ..++.-++++|+++..  ...+.+...+.....+.++|++|.+.. +. . ...+..++
T Consensus        94 AAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~fe  173 (702)
T PRK14960         94 AASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFT  173 (702)
T ss_pred             ccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheee
Confidence            00112233332222111    2356779999999863  455556555544444567777776532 21 1 12233399


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          212 ASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       212 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      +.+++.++....+.+.+........   .+....|++.++|.+-.+..
T Consensus       174 FkpLs~eEI~k~L~~Il~kEgI~id---~eAL~~IA~~S~GdLRdALn  218 (702)
T PRK14960        174 LRPLAVDEITKHLGAILEKEQIAAD---QDAIWQIAESAQGSLRDALS  218 (702)
T ss_pred             ccCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHH
Confidence            9999999999988887754432222   24567899999997755443

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

Probab=98.73  E-value=1.3e-07  Score=91.90  Aligned_cols=171  Identities=20%  Similarity=0.229  Sum_probs=94.5

Q ss_pred             CceeehhHHHH---HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLD---RVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~---~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..++|.+..+.   .+...+..+  ....+.++|++|+||||||+.+.+....  .+   ..+........+.......+
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~~~~~--~f---~~lna~~~~i~dir~~i~~a  100 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIANHTRA--HF---SSLNAVLAGVKDLRAEVDRA  100 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHhcC--cc---eeehhhhhhhHHHHHHHHHH
Confidence            45789887764   455556555  5677899999999999999999643211  00   00100000011112222222


Q ss_pred             HHHh--ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEe--cCChH--Hhhc-c-CCceeecCCCCHHHHHHHH
Q 048597          155 AGIL--SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFT--TNSRV--VCGQ-M-EATMLNASPLRDEEAWRLF  224 (294)
Q Consensus       155 ~~~l--~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivT--tr~~~--v~~~-~-~~~~~~l~~L~~~~~~~Lf  224 (294)
                      ...+  .+++.+|+|||++.  ...++.+...+   ..|+.++++  |.+..  +... . .+..+.+.+|+.++...++
T Consensus       101 ~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL  177 (725)
T PRK13341        101 KERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLL  177 (725)
T ss_pred             HHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHH
Confidence            2222  24677999999975  34455554333   235555543  33321  1111 1 1223999999999999999


Q ss_pred             HHHhCCCC----CCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          225 EEAVGRYV----LDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       225 ~~~~~~~~----~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      .+.+....    .....--.+....|++.|.|..-.+.
T Consensus       178 ~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~ll  215 (725)
T PRK13341        178 KRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLL  215 (725)
T ss_pred             HHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHH
Confidence            87664100    00111123566888899988654333

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.73  E-value=1.3e-07  Score=83.94  Aligned_cols=175  Identities=13%  Similarity=0.105  Sum_probs=100.0

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|++..++.+..++..+  ..+.+.++|++|+||||+++.+.+...-...-...+.+...  ...........+.+.
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~--~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~--~~~~~~~~~~~i~~~   92 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK--NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNAS--DERGIDVIRNKIKEF   92 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccc--cccchHHHHHHHHHH
Confidence            45789999999999998765  45568999999999999998874321000000000001000  111112222233332


Q ss_pred             hc------cCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCceeecCCCCHHHHHHHHHH
Q 048597          158 LS------RKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATMLNASPLRDEEAWRLFEE  226 (294)
Q Consensus       158 l~------~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~~~l~~L~~~~~~~Lf~~  226 (294)
                      ..      ..+-++++|++...  .....+...+......+.+|+++.... +....  .+..+++.+++.++....+..
T Consensus        93 ~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~  172 (319)
T PRK00440         93 ARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRY  172 (319)
T ss_pred             HhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHH
Confidence            21      33568999998652  233344433333333466777664321 11111  112388999999999888888


Q ss_pred             HhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          227 AVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      .+.......+   .+....+++.++|.+-.+..
T Consensus       173 ~~~~~~~~i~---~~al~~l~~~~~gd~r~~~~  202 (319)
T PRK00440        173 IAENEGIEIT---DDALEAIYYVSEGDMRKAIN  202 (319)
T ss_pred             HHHHcCCCCC---HHHHHHHHHHcCCCHHHHHH
Confidence            7754332222   35678889999998765443

>PRK09087 hypothetical protein; Validated

Probab=98.72  E-value=3.1e-07  Score=77.40  Aligned_cols=160  Identities=14%  Similarity=0.083  Sum_probs=93.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCcc-chhhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHI-NLNKL  179 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-~~~~l  179 (294)
                      .+.+.|+|++|+|||+|++.+.....       ...+        +.......+...+..  -+|++||+.... .-+.+
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i--------~~~~~~~~~~~~~~~--~~l~iDDi~~~~~~~~~l  106 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-------ALLI--------HPNEIGSDAANAAAE--GPVLIEDIDAGGFDETGL  106 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-------CEEe--------cHHHcchHHHHhhhc--CeEEEECCCCCCCCHHHH
Confidence            46799999999999999986643210       0011        111111112222222  378889996421 11122


Q ss_pred             cCCcCC-CCCCcEEEEecCCh---------HHhhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHH
Q 048597          180 GVPLQY-LHLGSKIVFTTNSR---------VVCGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAE  248 (294)
Q Consensus       180 ~~~l~~-~~~gs~iivTtr~~---------~v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~  248 (294)
                      ...+.. ...|..+|+|++..         +....+.... ++++++++++-.+++++.+.......+   +++..-|++
T Consensus       107 f~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~---~ev~~~La~  183 (226)
T PRK09087        107 FHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADRQLYVD---PHVVYYLVS  183 (226)
T ss_pred             HHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHH
Confidence            222211 12356788888742         2334444445 999999999999999998855432232   367788999


Q ss_pred             hCCCChHHHHHHHHHH-------cCCCCHHHHHHHHHHH
Q 048597          249 ECCCLPLALKTVGRAM-------RSISSIEEWEHAIKII  280 (294)
Q Consensus       249 ~c~GlPlai~~i~~~L-------~~~~~~~~w~~~l~~l  280 (294)
                      .+.|..-++..+-..|       ..+-+..-.+.+++.+
T Consensus       184 ~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~~  222 (226)
T PRK09087        184 RMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLNEM  222 (226)
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHhh
Confidence            8888877766433222       2225667777776654

>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=98.72  E-value=2.2e-07  Score=76.86  Aligned_cols=177  Identities=18%  Similarity=0.168  Sum_probs=96.5

Q ss_pred             CceeehhHHHHHHHHHHhc---CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTD---QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      .+|||.++.++.+.-++..   .......+.+|||+|+||||||+.+.+.....      +..... .......+++..+
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~------~~~~sg-~~i~k~~dl~~il   96 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN------FKITSG-PAIEKAGDLAAIL   96 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--------EEEEEC-CC--SCHHHHHHH
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC------eEeccc-hhhhhHHHHHHHH
Confidence            5689999888877655543   23467889999999999999998874433221      111001 0112233444433


Q ss_pred             HHHhccCCeEEEEccccCc--cchhhhcCCcC--------CCC-----------CCcEEEEecCChHHhhccCCce---e
Q 048597          155 AGILSRKRFVLLLDDIWEH--INLNKLGVPLQ--------YLH-----------LGSKIVFTTNSRVVCGQMEATM---L  210 (294)
Q Consensus       155 ~~~l~~kr~LlvlDdv~~~--~~~~~l~~~l~--------~~~-----------~gs~iivTtr~~~v~~~~~~~~---~  210 (294)
                      .+ + +++-+|++|+++.-  ..-+.+..+..        ...           +=+-|=.|||...+.......-   .
T Consensus        97 ~~-l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~  174 (233)
T PF05496_consen   97 TN-L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVL  174 (233)
T ss_dssp             HT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEE
T ss_pred             Hh-c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceec
Confidence            33 3 35668889999862  11111111110        011           1123447888766644444332   5


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcC
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS  266 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~  266 (294)
                      +++..+.++-..++.+.+..-+..   --.+.+.+|++.|.|-|--+.-+-..++.
T Consensus       175 ~l~~Y~~~el~~Iv~r~a~~l~i~---i~~~~~~~Ia~rsrGtPRiAnrll~rvrD  227 (233)
T PF05496_consen  175 RLEFYSEEELAKIVKRSARILNIE---IDEDAAEEIARRSRGTPRIANRLLRRVRD  227 (233)
T ss_dssp             E----THHHHHHHHHHCCHCTT-E---E-HHHHHHHHHCTTTSHHHHHHHHHHHCC
T ss_pred             chhcCCHHHHHHHHHHHHHHhCCC---cCHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            799999999999999877543322   22467899999999999877766665543

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.71  E-value=2.6e-07  Score=86.36  Aligned_cols=178  Identities=19%  Similarity=0.137  Sum_probs=106.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH------------------HHHHHHHHhCCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK------------------IQADIGKKIGLST  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~------------------i~~~i~~~~~~~~  139 (294)
                      ..++|.+..+..|...+..+. -...+.++|+.|+||||+|+.+.....                  .-..|........
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv   99 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDI   99 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcE
Confidence            457999999998888777651 346889999999999999998832110                  0011111000000


Q ss_pred             ---CCcccCChHHHHHHHHHH----hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEE-ecCChHHhhcc--CC
Q 048597          140 ---KSWQENSFEDKALDIAGI----LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVF-TTNSRVVCGQM--EA  207 (294)
Q Consensus       140 ---~~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iiv-Ttr~~~v~~~~--~~  207 (294)
                         ........+++...+...    +.+++.++|+|+++.  ...++.+...+......+.+|+ ||+...+....  .+
T Consensus       100 ~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc  179 (507)
T PRK06645        100 IEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRC  179 (507)
T ss_pred             EEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcc
Confidence               000112233333322221    235677999999986  4557777666654444555554 44444443322  22


Q ss_pred             ceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          208 TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       208 ~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      ..+++.+++.++....+.+.+........   .+....|++.++|.+--+..
T Consensus       180 ~~~ef~~ls~~el~~~L~~i~~~egi~ie---~eAL~~Ia~~s~GslR~al~  228 (507)
T PRK06645        180 QRYDLRRLSFEEIFKLLEYITKQENLKTD---IEALRIIAYKSEGSARDAVS  228 (507)
T ss_pred             eEEEccCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHH
Confidence            33999999999999999988855432222   24557799999997754433

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.69  E-value=4.1e-07  Score=87.48  Aligned_cols=180  Identities=15%  Similarity=0.061  Sum_probs=107.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHH-----------------------HHH---
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQ-----------------------ADI---  131 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~-----------------------~~i---  131 (294)
                      +.++|++..+..+...+...  ....+.|+|++|+||||||+.+++.....                       ..+   
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~--~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~  231 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP--FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNP  231 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHH
Confidence            46899999999888877654  45679999999999999999874322100                       000   


Q ss_pred             ----------------HHHhCCCC----------------CCcccCChHHHHHHHHHHhccCCeEEEEccccCc--cchh
Q 048597          132 ----------------GKKIGLST----------------KSWQENSFEDKALDIAGILSRKRFVLLLDDIWEH--INLN  177 (294)
Q Consensus       132 ----------------~~~~~~~~----------------~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~--~~~~  177 (294)
                                      +...+...                +.... -....+..+.+.+..++++++-|+.|..  ..|.
T Consensus       232 llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~-Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~  310 (615)
T TIGR02903       232 LLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGE-LDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPK  310 (615)
T ss_pred             hcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEecccc-CCHHHHHHHHHHHhhCeEEeecceeccCCcccch
Confidence                            00001000                00000 1123456677777788888876666542  4566


Q ss_pred             hhcCCcCCCCCCcEEEE--ecCChHH-hhcc--CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCC
Q 048597          178 KLGVPLQYLHLGSKIVF--TTNSRVV-CGQM--EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCC  252 (294)
Q Consensus       178 ~l~~~l~~~~~gs~iiv--Ttr~~~v-~~~~--~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~G  252 (294)
                      .+...+........+++  ||++... ....  .+..+.+.+++.++.+.++.+.+.......+   .++...|.+.+..
T Consensus       311 ~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls---~eal~~L~~ys~~  387 (615)
T TIGR02903       311 YIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLA---AGVEELIARYTIE  387 (615)
T ss_pred             hhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHCCCc
Confidence            66666555544444444  4553321 1111  1223889999999999999987754321121   3555677777766


Q ss_pred             ChHHHHHHHHH
Q 048597          253 LPLALKTVGRA  263 (294)
Q Consensus       253 lPlai~~i~~~  263 (294)
                      -+-++..++.+
T Consensus       388 gRraln~L~~~  398 (615)
T TIGR02903       388 GRKAVNILADV  398 (615)
T ss_pred             HHHHHHHHHHH
Confidence            67777766544

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.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.68  E-value=1.4e-06  Score=78.14  Aligned_cols=178  Identities=10%  Similarity=0.070  Sum_probs=105.0

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-----hCh---------------hHHHHHHHHHhC
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-----ANL---------------KKIQADIGKKIG  136 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-----~~~---------------~~i~~~i~~~~~  136 (294)
                      -..++|.+.....+...+..+. -...+.|+|+.|+||||+|..+     +..               ......+...-.
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~~~~h  100 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIAQGAH  100 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHHcCCC
Confidence            4568999999999999988762 3457999999999999999887     210               011111111100


Q ss_pred             -----C--CCCCc-----ccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec-
Q 048597          137 -----L--STKSW-----QENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT-  196 (294)
Q Consensus       137 -----~--~~~~~-----~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt-  196 (294)
                           +  +....     .....++. ..+.+++     .+++.++|+|+++.  ....+.+...+........+|+.| 
T Consensus       101 Pdl~~l~~~~~~~~~~~~~~I~vd~i-R~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~  179 (351)
T PRK09112        101 PNLLHITRPFDEKTGKFKTAITVDEI-RRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISH  179 (351)
T ss_pred             CCEEEeecccccccccccccCCHHHH-HHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEEC
Confidence                 0  00000     11123332 3444444     35677999999976  334444544443332334444444 


Q ss_pred             CChHHhhcc--CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          197 NSRVVCGQM--EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       197 r~~~v~~~~--~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      +...+....  .+..+++.+++.++...++.+.....    . --.+....+++.++|.|..+..+.
T Consensus       180 ~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~----~-~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        180 SSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQ----G-SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             ChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhccc----C-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            433332111  22349999999999999998743211    1 113456789999999998776554

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.67  E-value=4.1e-07  Score=77.27  Aligned_cols=173  Identities=12%  Similarity=0.048  Sum_probs=94.7

Q ss_pred             cCceeehhH-HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHH
Q 048597           77 ERTVIRQEL-LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIA  155 (294)
Q Consensus        77 ~~~~vGr~~-~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~  155 (294)
                      ++.++|... .+..+..+....  ....+.|+|+.|+|||+|++.+.+...-..  ......+...     .......+.
T Consensus        22 d~f~~~~n~~a~~~l~~~~~~~--~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~--~~v~y~~~~~-----~~~~~~~~~   92 (235)
T PRK08084         22 ASFYPGDNDSLLAALQNALRQE--HSGYIYLWSREGAGRSHLLHAACAELSQRG--RAVGYVPLDK-----RAWFVPEVL   92 (235)
T ss_pred             cccccCccHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEEHHH-----HhhhhHHHH
Confidence            444556332 344444443333  446899999999999999998765322000  0000000000     000111222


Q ss_pred             HHhccCCeEEEEccccCc---cchhhh-cCCcCC-CCCC-cEEEEecCCh---------HHhhccCCce-eecCCCCHHH
Q 048597          156 GILSRKRFVLLLDDIWEH---INLNKL-GVPLQY-LHLG-SKIVFTTNSR---------VVCGQMEATM-LNASPLRDEE  219 (294)
Q Consensus       156 ~~l~~kr~LlvlDdv~~~---~~~~~l-~~~l~~-~~~g-s~iivTtr~~---------~v~~~~~~~~-~~l~~L~~~~  219 (294)
                      +.+.. --++++||+...   ..|+.. ...+.. ...| .++|+||+..         +....+.... ++++++++++
T Consensus        93 ~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~  171 (235)
T PRK08084         93 EGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEE  171 (235)
T ss_pred             HHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHH
Confidence            22221 248899999752   344432 122211 1123 3788888754         2344455555 9999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHH
Q 048597          220 AWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGR  262 (294)
Q Consensus       220 ~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~  262 (294)
                      -.+++.+++.......+   .++..-|++.|.|..-.+..+-.
T Consensus       172 ~~~~l~~~a~~~~~~l~---~~v~~~L~~~~~~d~r~l~~~l~  211 (235)
T PRK08084        172 KLQALQLRARLRGFELP---EDVGRFLLKRLDREMRTLFMTLD  211 (235)
T ss_pred             HHHHHHHHHHHcCCCCC---HHHHHHHHHhhcCCHHHHHHHHH
Confidence            99999886644332222   46778899998876655554443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.67  E-value=6.8e-07  Score=81.26  Aligned_cols=174  Identities=10%  Similarity=0.031  Sum_probs=102.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCC--------CceEEEEEcCCCChHHHHHHHhh-----Chh--------HHHHHHHHHhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQER--------NRGIIGLYGTGGVGKTTLLKQRA-----NLK--------KIQADIGKKIG  136 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~--------~~~vi~I~G~~GiGKTtLa~~v~-----~~~--------~i~~~i~~~~~  136 (294)
                      +.++|.+..++.|.+++..+..        -...+.++||.|+||||+|..+.     ...        ..-..+.....
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            3578999999999999987521        24678999999999999998872     110        11111111110


Q ss_pred             C----CCCCcccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCCh-HHhhc
Q 048597          137 L----STKSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSR-VVCGQ  204 (294)
Q Consensus       137 ~----~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~-~v~~~  204 (294)
                      .    ..........++.. .+.+.+     .+++-++++|++...  ...+.+...+.....+..+|++|.+. .+...
T Consensus        85 pD~~~i~~~~~~i~i~~iR-~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpT  163 (394)
T PRK07940         85 PDVRVVAPEGLSIGVDEVR-ELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPT  163 (394)
T ss_pred             CCEEEeccccccCCHHHHH-HHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHH
Confidence            0    00000112233322 333333     345568999999763  34444544554444456666666553 33222


Q ss_pred             c--CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          205 M--EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       205 ~--~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      +  .+..+.+.+++.++..+.+.+....     +   .+.+..+++.++|.|..+..+
T Consensus       164 IrSRc~~i~f~~~~~~~i~~~L~~~~~~-----~---~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        164 IRSRCRHVALRTPSVEAVAEVLVRRDGV-----D---PETARRAARASQGHIGRARRL  213 (394)
T ss_pred             HHhhCeEEECCCCCHHHHHHHHHHhcCC-----C---HHHHHHHHHHcCCCHHHHHHH
Confidence            1  2334999999999998888753321     1   245678999999999755443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=4.3e-07  Score=85.10  Aligned_cols=176  Identities=17%  Similarity=0.101  Sum_probs=104.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHH-------------HHHHHHhCCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQ-------------ADIGKKIGLST---KS  141 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~-------------~~i~~~~~~~~---~~  141 (294)
                      ..++|.+..++.|..++..+. -...+.++|++|+||||+|+.+.....-.             ..+........   ..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~~   92 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEIDA   92 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEecc
Confidence            457999999999998888762 33567999999999999999883321100             00000000000   00


Q ss_pred             cccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCC-hHHhhcc--CCceee
Q 048597          142 WQENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQM--EATMLN  211 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~~--~~~~~~  211 (294)
                      ......+.. ..+.+.+     .+++-++|+|+++..  ..++.+...+......+.+|++|.. ..+...+  .+..++
T Consensus        93 ~~~~~vd~i-R~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~  171 (504)
T PRK14963         93 ASNNSVEDV-RDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFR  171 (504)
T ss_pred             cccCCHHHH-HHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEE
Confidence            011222222 2233332     356679999999753  4566666555444344555555543 3332222  223399


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          212 ASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       212 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      +.+++.++....+.+.+...+...+   .+....|++.++|.+--+.
T Consensus       172 f~~ls~~el~~~L~~i~~~egi~i~---~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        172 FRRLTEEEIAGKLRRLLEAEGREAE---PEALQLVARLADGAMRDAE  215 (504)
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHH
Confidence            9999999999999987754432222   3556889999999886553

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.65  E-value=5.9e-07  Score=85.92  Aligned_cols=178  Identities=16%  Similarity=0.094  Sum_probs=104.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~---~~  140 (294)
                      ..+||.+..+..|.+.+..+. -...+.++|+.|+||||+|+.+....              ..-..|...-...   ..
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ieid   94 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEID   94 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceeec
Confidence            468999999999999888762 23457899999999999999882211              1111111100000   00


Q ss_pred             CcccCChHHHHHHHHHH-----hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhhc--cCCcee
Q 048597          141 SWQENSFEDKALDIAGI-----LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQ--MEATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~-----l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~--~~~~~~  210 (294)
                      .......++.. .+.+.     ..+++-++|||+++.  ....+.+...+.......++|++|.+ ..+...  ..+..|
T Consensus        95 aas~~~VddiR-~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~  173 (647)
T PRK07994         95 AASRTKVEDTR-ELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQF  173 (647)
T ss_pred             ccccCCHHHHH-HHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEe
Confidence            00011223222 22222     246677999999976  34566665555443334555555544 333211  123449


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      ++.+|+.++....+.+.+.......   -......|++.++|.+-.+..+
T Consensus       174 ~f~~Ls~~ei~~~L~~il~~e~i~~---e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        174 HLKALDVEQIRQQLEHILQAEQIPF---EPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            9999999999998887764332111   1245578999999988644443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.65  E-value=8.1e-07  Score=80.45  Aligned_cols=165  Identities=16%  Similarity=0.100  Sum_probs=94.5

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----HH-HHHHHHhCCCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ-ADIGKKIGLSTK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~-~~i~~~~~~~~~  140 (294)
                      ..+.|++..++++.+.+...           -...+-+.++|++|+|||+||+.+.+...     +. ..+....     
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~-----  196 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKY-----  196 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHh-----
Confidence            45789999999998887532           02356699999999999999999844221     10 0010000     


Q ss_pred             CcccCChHHHHHHHHHHh-ccCCeEEEEccccCcc----------------chhhhcCCcC--CCCCCcEEEEecCChHH
Q 048597          141 SWQENSFEDKALDIAGIL-SRKRFVLLLDDIWEHI----------------NLNKLGVPLQ--YLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~----------------~~~~l~~~l~--~~~~gs~iivTtr~~~v  201 (294)
                        .. ........+.+.. ...+.+|+|||++...                .+..+...+.  ....+..||.||.....
T Consensus       197 --~g-~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~  273 (364)
T TIGR01242       197 --IG-EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDI  273 (364)
T ss_pred             --hh-HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhh
Confidence              00 0111222222222 3456899999987521                1112211111  11235678888875432


Q ss_pred             -----hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          202 -----CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       202 -----~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                           ........ +++...+.++..++|..++.........+    ...+++.+.|..
T Consensus       274 ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       274 LDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence                 21122334 89999999999999998775433222222    366778887765

Many proteins may score above the trusted cutoff because an internal

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.65  E-value=7.9e-07  Score=82.69  Aligned_cols=182  Identities=15%  Similarity=0.134  Sum_probs=102.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHhCCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKIGLST---K  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~~~~~---~  140 (294)
                      ..++|.+.....|...+..+. -.+.+.++||+|+||||+|+.+.....              ....+...-....   .
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~   92 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELD   92 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEe
Confidence            468999988888888777651 235689999999999999998832211              0111110000000   0


Q ss_pred             CcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhhcc--CCcee
Q 048597          141 SWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQM--EATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~~--~~~~~  210 (294)
                      .......+.. ..+.+..     .+++-++++|+++.  ....+.+...+........+|++|.+ ..+....  .+..+
T Consensus        93 aa~~~gid~i-R~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv  171 (472)
T PRK14962         93 AASNRGIDEI-RKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVI  171 (472)
T ss_pred             CcccCCHHHH-HHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEE
Confidence            0011222222 2333332     34567999999975  33445554444333333444444443 3332222  12239


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCC-ChHHHHHHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCC-LPLALKTVGRAM  264 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~G-lPlai~~i~~~L  264 (294)
                      ++.+++.++....+.+.+......-+   .+....|++.++| ++.++..+-.+.
T Consensus       172 ~f~~l~~~el~~~L~~i~~~egi~i~---~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        172 EFRNISDELIIKRLQEVAEAEGIEID---REALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             EECCccHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999999998888887744332222   3556788887765 567777766543

>PRK04195 replication factor C large subunit; Provisional

Probab=98.64  E-value=6.1e-07  Score=84.18  Aligned_cols=175  Identities=17%  Similarity=0.152  Sum_probs=101.7

Q ss_pred             CceeehhHHHHHHHHHHhcCC--CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQE--RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIA  155 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~  155 (294)
                      ..++|.+..++.+..|+..-.  ...+.+.|+|++|+||||+|+.+.+....     ..+.+...  ...........+.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~~-----~~ielnas--d~r~~~~i~~~i~   86 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGW-----EVIELNAS--DQRTADVIERVAG   86 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcCC-----CEEEEccc--ccccHHHHHHHHH
Confidence            458999999999999987531  23689999999999999999888442210     00000000  0111111111111


Q ss_pred             HH-----hc-cCCeEEEEccccCcc------chhhhcCCcCCCCCCcEEEEecCChH-Hh--hcc-CCceeecCCCCHHH
Q 048597          156 GI-----LS-RKRFVLLLDDIWEHI------NLNKLGVPLQYLHLGSKIVFTTNSRV-VC--GQM-EATMLNASPLRDEE  219 (294)
Q Consensus       156 ~~-----l~-~kr~LlvlDdv~~~~------~~~~l~~~l~~~~~gs~iivTtr~~~-v~--~~~-~~~~~~l~~L~~~~  219 (294)
                      ..     +. .++.+||||+++...      .+..+...+..  .+..+|+++.+.. ..  ..- .+..+++.+++.++
T Consensus        87 ~~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~  164 (482)
T PRK04195         87 EAATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRS  164 (482)
T ss_pred             HhhccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhHhccceEEEecCCCHHH
Confidence            11     12 267899999997632      23444333332  2345666664322 11  111 12238999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH
Q 048597          220 AWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM  264 (294)
Q Consensus       220 ~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L  264 (294)
                      ....+.+.+.......+   .+....|++.|+|-.-.+......+
T Consensus       165 i~~~L~~i~~~egi~i~---~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        165 IVPVLKRICRKEGIECD---DEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             HHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            98888877754432232   3567889999998776655443333

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.62  E-value=5.6e-07  Score=79.78  Aligned_cols=172  Identities=15%  Similarity=0.103  Sum_probs=104.1

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---HHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---KIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..++|.+..++.+..++..+. -.+.+.++|+.|+||||+|+.+....   .....-.....+..........++..+ +
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~-~   81 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRN-I   81 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHH-H
Confidence            357899999999999987652 34678999999999999998873210   000000000000000001223333332 2


Q ss_pred             HHHh-----ccCCeEEEEcccc--CccchhhhcCCcCCCCCCcEEEEecCChHHh-h--ccCCceeecCCCCHHHHHHHH
Q 048597          155 AGIL-----SRKRFVLLLDDIW--EHINLNKLGVPLQYLHLGSKIVFTTNSRVVC-G--QMEATMLNASPLRDEEAWRLF  224 (294)
Q Consensus       155 ~~~l-----~~kr~LlvlDdv~--~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~-~--~~~~~~~~l~~L~~~~~~~Lf  224 (294)
                      .+.+     .+++-++|+|+++  +...++.+...+.....++.+|++|.+.+.. .  ...+..+++.++++++....+
T Consensus        82 ~~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l  161 (313)
T PRK05564         82 IEEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFI  161 (313)
T ss_pred             HHHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHH
Confidence            2322     3455577777764  4567888888887766788888888665421 1  112334999999999998877


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          225 EEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      .+.....    +   .+.+..++..|+|.|.-+.
T Consensus       162 ~~~~~~~----~---~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        162 SYKYNDI----K---EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             HHHhcCC----C---HHHHHHHHHHcCCCHHHHH
Confidence            6654311    1   2335778889999886554

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.62  E-value=6.1e-07  Score=85.79  Aligned_cols=180  Identities=12%  Similarity=0.075  Sum_probs=104.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~---~~  140 (294)
                      ..++|.+..+..|.+++..+. -...+.++|+.|+||||+|+.+....              ..-..+...-...   ..
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEid   94 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEID   94 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEEe
Confidence            468999999999999988761 24578999999999999998872210              0111111100000   00


Q ss_pred             CcccCChHHHHHHHHHH----hccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hh-hc-cCCceee
Q 048597          141 SWQENSFEDKALDIAGI----LSRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VC-GQ-MEATMLN  211 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~-~~-~~~~~~~  211 (294)
                      .......+.+...+...    ..+++-++|||++...  .....+...+......+++|++|.+.. +. .. ..+..++
T Consensus        95 aAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~  174 (709)
T PRK08691         95 AASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFV  174 (709)
T ss_pred             ccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhh
Confidence            00112233222222211    2356679999999763  234445444433333456666664432 21 11 1122388


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          212 ASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       212 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      +.+++.++....+.+.+........   .+....|++.++|.+.-+..+-
T Consensus       175 f~~Ls~eeI~~~L~~Il~kEgi~id---~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        175 LRNMTAQQVADHLAHVLDSEKIAYE---PPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCCcC---HHHHHHHHHHhCCCHHHHHHHH
Confidence            9999999999999887755442222   2456889999999885555443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.62  E-value=2e-06  Score=83.51  Aligned_cols=188  Identities=18%  Similarity=0.152  Sum_probs=103.4

Q ss_pred             cCceeehhHHHHHHHHHHhc---CCCCceEEEEEcCCCChHHHHHHHhhCh--------------------------hHH
Q 048597           77 ERTVIRQELLLDRVWRFVTD---QERNRGIIGLYGTGGVGKTTLLKQRANL--------------------------KKI  127 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~--------------------------~~i  127 (294)
                      +..+.||++++++|...|..   +.....++.|+|++|+|||++++.|...                          ..+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            45688999999999999875   2233457889999999999999998321                          123


Q ss_pred             HHHHHHHhCCCCCCcccCChHHHHHHHHHHhc---cCCeEEEEccccCcc--chhhhcCCcC-CCCCCcEEEE--ecCC-
Q 048597          128 QADIGKKIGLSTKSWQENSFEDKALDIAGILS---RKRFVLLLDDIWEHI--NLNKLGVPLQ-YLHLGSKIVF--TTNS-  198 (294)
Q Consensus       128 ~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~kr~LlvlDdv~~~~--~~~~l~~~l~-~~~~gs~iiv--Ttr~-  198 (294)
                      ...|..++..... ............+...+.   ....+||||+++...  .-+.|...|. ....+++|++  .+.. 
T Consensus       834 YqvI~qqL~g~~P-~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        834 YQVLYKQLFNKKP-PNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHcCCCC-CccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCch
Confidence            3334444421111 111222334444544442   223589999997521  1111111110 1123455543  3322 


Q ss_pred             -------hHHhhccCCceeecCCCCHHHHHHHHHHHhCCC-CCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHc
Q 048597          199 -------RVVCGQMEATMLNASPLRDEEAWRLFEEAVGRY-VLDSHPDIPELAKTMAEECCCLPLALKTVGRAMR  265 (294)
Q Consensus       199 -------~~v~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~-~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~  265 (294)
                             ..+...++...+...|++.++..+++..++... ..-.+.-+.-+++.++...|-.-.|+.++-....
T Consensus       913 DLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgE  987 (1164)
T PTZ00112        913 DLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFE  987 (1164)
T ss_pred             hcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHh
Confidence                   122233333337789999999999999988532 1112222334445455445556667666655543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.62  E-value=9.8e-07  Score=74.52  Aligned_cols=173  Identities=13%  Similarity=0.068  Sum_probs=92.0

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      +.+.|........+..+.........+.|+|+.|+|||+||+.+.+...-       -+...   ...+.......+ ..
T Consensus        19 ~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~-------~~~~~---~~i~~~~~~~~~-~~   87 (227)
T PRK08903         19 NFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASY-------GGRNA---RYLDAASPLLAF-DF   87 (227)
T ss_pred             ccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHh-------CCCcE---EEEehHHhHHHH-hh
Confidence            33345544433333333222224568899999999999999988653210       01000   001111111111 12


Q ss_pred             hccCCeEEEEccccCccch--hhhcCCcCC-CCCCc-EEEEecCChHHhh--------ccCCce-eecCCCCHHHHHHHH
Q 048597          158 LSRKRFVLLLDDIWEHINL--NKLGVPLQY-LHLGS-KIVFTTNSRVVCG--------QMEATM-LNASPLRDEEAWRLF  224 (294)
Q Consensus       158 l~~kr~LlvlDdv~~~~~~--~~l~~~l~~-~~~gs-~iivTtr~~~v~~--------~~~~~~-~~l~~L~~~~~~~Lf  224 (294)
                      . ...-++++||+.....+  ..+...+.. ...+. .+++|++......        .+.... +++.++++++-..++
T Consensus        88 ~-~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l  166 (227)
T PRK08903         88 D-PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAAL  166 (227)
T ss_pred             c-ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHH
Confidence            2 23457899999753222  223222221 12233 3666666433211        222223 999999998877777


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHc
Q 048597          225 EEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMR  265 (294)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~  265 (294)
                      .+.+.......+   .+....+++.+.|.+..+..+...|.
T Consensus       167 ~~~~~~~~v~l~---~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        167 KAAAAERGLQLA---DEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             HHHHHHcCCCCC---HHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            665433222222   35678888899999998877766553

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=2.2e-06  Score=77.25  Aligned_cols=176  Identities=13%  Similarity=0.071  Sum_probs=106.0

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-----hChh-------------------HHHHHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-----ANLK-------------------KIQADIG  132 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-----~~~~-------------------~i~~~i~  132 (294)
                      -..++|.+.....|.+.+..+. -...+.++|+.|+||+|+|..+     +...                   ..-+.|.
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~i~   96 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARRIA   96 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHHHH
Confidence            3578999999999999888761 3446999999999999999877     1110                   0111111


Q ss_pred             HHhC-----CCC--CCc-----ccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEE
Q 048597          133 KKIG-----LST--KSW-----QENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIV  193 (294)
Q Consensus       133 ~~~~-----~~~--~~~-----~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~ii  193 (294)
                      ..-.     +..  ...     .....++ ...+.+++     .+++.++++|+++.  ......+...+.....++.+|
T Consensus        97 ~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~I  175 (365)
T PRK07471         97 AGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFL  175 (365)
T ss_pred             ccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEE
Confidence            0000     000  000     1112233 33444444     25667999999976  344555555554444456677


Q ss_pred             EecCChH-Hhh--ccCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          194 FTTNSRV-VCG--QMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       194 vTtr~~~-v~~--~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      ++|.+.. +..  ...+..+.+.+++.++..+++.+.....     +  ......+++.++|.|+.+..+.
T Consensus       176 L~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~-----~--~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        176 LVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL-----P--DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             EEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC-----C--HHHHHHHHHHcCCCHHHHHHHh
Confidence            7776553 321  2223349999999999999998764221     1  1122678999999998665543

>PTZ00202 tuzin; Provisional

Probab=98.61  E-value=6.3e-07  Score=80.91  Aligned_cols=148  Identities=16%  Similarity=0.142  Sum_probs=93.4

Q ss_pred             CCcCceeehhHHHHHHHHHHhcCC-CCceEEEEEcCCCChHHHHHHHh-------------hChhHHHHHHHHHhCCCCC
Q 048597           75 PVERTVIRQELLLDRVWRFVTDQE-RNRGIIGLYGTGGVGKTTLLKQR-------------ANLKKIQADIGKKIGLSTK  140 (294)
Q Consensus        75 ~~~~~~vGr~~~~~~l~~~L~~~~-~~~~vi~I~G~~GiGKTtLa~~v-------------~~~~~i~~~i~~~~~~~~~  140 (294)
                      +..+.|+||+.+...+...|...+ ...+++.|+|++|+|||||++.+             .+..+++..|+..++++..
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNprg~eElLr~LL~ALGV~p~  338 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVRGTEDTLRSVVKALGVPNV  338 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCCCHHHHHHHHHHHcCCCCc
Confidence            445789999999999999997532 24569999999999999998887             3456788999999987432


Q ss_pred             CcccCChHHHHHHHHHHh-----c-cCCeEEEEccccCccchhhh---cCCcCCCCCCcEEEEecCChHHhhccCCce--
Q 048597          141 SWQENSFEDKALDIAGIL-----S-RKRFVLLLDDIWEHINLNKL---GVPLQYLHLGSKIVFTTNSRVVCGQMEATM--  209 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~-~kr~LlvlDdv~~~~~~~~l---~~~l~~~~~gs~iivTtr~~~v~~~~~~~~--  209 (294)
                          ....++...|.+.+     . +++.+||+- +.+..++..+   ...|.....-|.|++---.+...-....-+  
T Consensus       339 ----~~k~dLLrqIqeaLl~~~~e~GrtPVLII~-lreg~~l~rvyne~v~la~drr~ch~v~evpleslt~~~~~lprl  413 (550)
T PTZ00202        339 ----EACGDLLDFISEACRRAKKMNGETPLLVLK-LREGSSLQRVYNEVVALACDRRLCHVVIEVPLESLTIANTLLPRL  413 (550)
T ss_pred             ----ccHHHHHHHHHHHHHHHHHhCCCCEEEEEE-ecCCCcHHHHHHHHHHHHccchhheeeeeehHhhcchhcccCccc
Confidence                22234444444443     2 566666653 2222222221   112233344567776655444322211111  


Q ss_pred             --eecCCCCHHHHHHHHHHH
Q 048597          210 --LNASPLRDEEAWRLFEEA  227 (294)
Q Consensus       210 --~~l~~L~~~~~~~Lf~~~  227 (294)
                        |-+.+++.++|...-.+.
T Consensus       414 df~~vp~fsr~qaf~y~~h~  433 (550)
T PTZ00202        414 DFYLVPNFSRSQAFAYTQHA  433 (550)
T ss_pred             eeEecCCCCHHHHHHHHhhc
Confidence              888999999988776554

>PRK08727 hypothetical protein; Validated

Probab=98.61  E-value=1.2e-06  Score=74.35  Aligned_cols=165  Identities=15%  Similarity=0.085  Sum_probs=91.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      +.++|-......+.....+.  ....+.|+|++|+|||+|++.+.+...  +.-.....+        +..+....+.+.
T Consensus        20 ~f~~~~~n~~~~~~~~~~~~--~~~~l~l~G~~G~GKThL~~a~~~~~~--~~~~~~~y~--------~~~~~~~~~~~~   87 (233)
T PRK08727         20 SYIAAPDGLLAQLQALAAGQ--SSDWLYLSGPAGTGKTHLALALCAAAE--QAGRSSAYL--------PLQAAAGRLRDA   87 (233)
T ss_pred             hccCCcHHHHHHHHHHHhcc--CCCeEEEECCCCCCHHHHHHHHHHHHH--HcCCcEEEE--------eHHHhhhhHHHH
Confidence            33444444444443333322  345699999999999999998865321  110000111        111122222222


Q ss_pred             hc--cCCeEEEEccccCc---cchhh-hcCCcCC-CCCCcEEEEecCChH---------HhhccCCce-eecCCCCHHHH
Q 048597          158 LS--RKRFVLLLDDIWEH---INLNK-LGVPLQY-LHLGSKIVFTTNSRV---------VCGQMEATM-LNASPLRDEEA  220 (294)
Q Consensus       158 l~--~kr~LlvlDdv~~~---~~~~~-l~~~l~~-~~~gs~iivTtr~~~---------v~~~~~~~~-~~l~~L~~~~~  220 (294)
                      +.  .+.-+|||||+...   ..|.. +...+.. ...|..+|+|++...         ....+.... +++.+++.++.
T Consensus        88 ~~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~  167 (233)
T PRK08727         88 LEALEGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVAR  167 (233)
T ss_pred             HHHHhcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHH
Confidence            21  23458999999753   23332 2222211 123567999987532         233333343 99999999999


Q ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHH
Q 048597          221 WRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLAL  257 (294)
Q Consensus       221 ~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai  257 (294)
                      ..++.+++.......+   .++...|++.|+|-.-.+
T Consensus       168 ~~iL~~~a~~~~l~l~---~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        168 AAVLRERAQRRGLALD---EAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHHHHHHHcCCCCC---HHHHHHHHHhCCCCHHHH
Confidence            9999987754332222   366788999998766555

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=2e-06  Score=82.09  Aligned_cols=178  Identities=15%  Similarity=0.127  Sum_probs=104.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-----hChh--------------HHHHHHHHHhCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-----ANLK--------------KIQADIGKKIGLS  138 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-----~~~~--------------~i~~~i~~~~~~~  138 (294)
                      ..+||.+..+..|.+++..+. -...+.++|+.|+||||+|+.+     +...              ..-..|...-...
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D   94 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVD   94 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCc
Confidence            467999999999999888762 3357799999999999999888     1100              0111111100000


Q ss_pred             ---CCCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHh-h-cc
Q 048597          139 ---TKSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVC-G-QM  205 (294)
Q Consensus       139 ---~~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~-~-~~  205 (294)
                         .........++..+.+ +.+     .++.-+++||+++.  ...++.+...+......+++|++|.+ ..+. . ..
T Consensus        95 ~~eldaas~~~Vd~iReli-~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlS  173 (618)
T PRK14951         95 YTELDAASNRGVDEVQQLL-EQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLS  173 (618)
T ss_pred             eeecCcccccCHHHHHHHH-HHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHH
Confidence               0000112233332222 222     24556899999986  45566666666544344556655543 3332 1 12


Q ss_pred             CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          206 EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       206 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      .+..+++++++.++....+.+.+...+....   .+....|++.++|.+-.+..+
T Consensus       174 Rc~~~~f~~Ls~eei~~~L~~i~~~egi~ie---~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        174 RCLQFNLRPMAPETVLEHLTQVLAAENVPAE---PQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hceeeecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            2334999999999999988887754432222   245688889999977555443

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=1.3e-06  Score=82.25  Aligned_cols=174  Identities=16%  Similarity=0.093  Sum_probs=100.0

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~---~~  140 (294)
                      ..++|.+..+..|...+..+. -...+.++|+.|+||||+|+.+....              ..-..|...-...   ..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieid   94 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEID   94 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEee
Confidence            467999999999999887651 33568899999999999999883211              0001111000000   00


Q ss_pred             CcccCChHH---HHHHHHHH-hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhhcc--CCceee
Q 048597          141 SWQENSFED---KALDIAGI-LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQM--EATMLN  211 (294)
Q Consensus       141 ~~~~~~~~~---~~~~l~~~-l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~~--~~~~~~  211 (294)
                      .......++   +...+... ..+++-++++|+++.  ...++.+...+......+.+|++|.+ ..+....  .+..++
T Consensus        95 aas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~  174 (546)
T PRK14957         95 AASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLH  174 (546)
T ss_pred             cccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEE
Confidence            001111222   22222211 235677999999975  34566666666544445556554443 3332111  233399


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          212 ASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       212 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                      +.+++.++....+.+.+...+...   -......|++.++|.+-
T Consensus       175 f~~Ls~~eI~~~L~~il~~egi~~---e~~Al~~Ia~~s~GdlR  215 (546)
T PRK14957        175 LKHISQADIKDQLKIILAKENINS---DEQSLEYIAYHAKGSLR  215 (546)
T ss_pred             eCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHH
Confidence            999999998888877654333111   12445788899999664

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.60  E-value=1.2e-06  Score=82.93  Aligned_cols=180  Identities=16%  Similarity=0.151  Sum_probs=103.0

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh--------------hHHHHHHHHHhCCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL--------------KKIQADIGKKIGLST---K  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~--------------~~i~~~i~~~~~~~~---~  140 (294)
                      ..++|.+..++.+.+++..+. -.+.+.++||.|+||||+|+.+...              -...+.+........   .
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~DiieId   94 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVELD   94 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCceEEec
Confidence            467999999999999887652 3457899999999999999988211              111111111110000   0


Q ss_pred             CcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec-CChHHhhc-c-CCcee
Q 048597          141 SWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT-NSRVVCGQ-M-EATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~~-~-~~~~~  210 (294)
                      .......++.. .+.+.+     .+++-++++|+++.  ...+..+...+......+.+|++| ....+... . .+..+
T Consensus        95 aas~igVd~IR-eIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~i  173 (605)
T PRK05896         95 AASNNGVDEIR-NIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRY  173 (605)
T ss_pred             cccccCHHHHH-HHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhc
Confidence            00112222222 222221     23455799999875  345666655554333345555555 33333221 1 23349


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH-HHHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL-ALKTVGR  262 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl-ai~~i~~  262 (294)
                      ++.+++.++....+...+.......+   .+.+..+++.++|.+- |+..+-.
T Consensus       174 eF~~Ls~~eL~~~L~~il~kegi~Is---~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        174 NFKKLNNSELQELLKSIAKKEKIKIE---DNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             ccCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHHHHH
Confidence            99999999998888877644331122   2456788999999664 4444433

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=7.6e-07  Score=81.46  Aligned_cols=176  Identities=14%  Similarity=0.084  Sum_probs=103.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCc-eEEEEEcCCCChHHHHHHHhhChhH----------------------HHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNR-GIIGLYGTGGVGKTTLLKQRANLKK----------------------IQADIGKK  134 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~----------------------i~~~i~~~  134 (294)
                      ..++|.+..++.|..++..+  .. ..+.++||.|+||||+|..+.....                      .-..|...
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~--~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~   93 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMG--RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAG   93 (397)
T ss_pred             hhccChHHHHHHHHHHHHhC--CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcC
Confidence            46799999999999888876  44 4588999999999999988721110                      00111110


Q ss_pred             hCCCC---CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec-CChHHhh
Q 048597          135 IGLST---KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT-NSRVVCG  203 (294)
Q Consensus       135 ~~~~~---~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~  203 (294)
                      .....   ........++.. .+.+.+     .+.+-++|+|+++.  ...++.+...+......+.+|++| +...+..
T Consensus        94 ~~~n~~~~~~~~~~~id~Ir-~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~  172 (397)
T PRK14955         94 TSLNISEFDAASNNSVDDIR-LLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPA  172 (397)
T ss_pred             CCCCeEeecccccCCHHHHH-HHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHH
Confidence            00000   000111123332 233333     34566889999976  345666666665444456666555 3333332


Q ss_pred             ccC--CceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          204 QME--ATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       204 ~~~--~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      ...  +..+++.++++++....+...+.......+   .+.+..|++.++|.+--+..
T Consensus       173 tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i~---~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        173 TIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVD---ADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHH
Confidence            221  122899999999998888876643321122   35678899999997754443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.59  E-value=1.5e-06  Score=78.32  Aligned_cols=179  Identities=15%  Similarity=0.110  Sum_probs=103.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHhCCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKIGLST---K  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~~~~~---~  140 (294)
                      ..++|.+..++.+..++..+. -...+.++|++|+||||+|+.+.....              .-..+........   .
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~~~   92 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIEID   92 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEee
Confidence            467999999999999887652 345788999999999999987722110              0011111100000   0


Q ss_pred             CcccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhh-ccC-Ccee
Q 048597          141 SWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCG-QME-ATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~-~~~-~~~~  210 (294)
                      ........+. ..+.+.+     .+++-++++|++...  .....+...+......+.+|++|.+.. +.. ... +..+
T Consensus        93 ~~~~~~~~~~-~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  171 (355)
T TIGR02397        93 AASNNGVDDI-REILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRF  171 (355)
T ss_pred             ccccCCHHHH-HHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEE
Confidence            0001122221 2222222     245568899998653  445555545543334566666665443 221 111 2238


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      ++.++++++....+...+.......+   .+....+++.++|.|..+....
T Consensus       172 ~~~~~~~~~l~~~l~~~~~~~g~~i~---~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       172 DFKRIPLEDIVERLKKILDKEGIKIE---DEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             EcCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCChHHHHHHH
Confidence            89999999998888877644332222   3567888999999887665443

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=1.3e-06  Score=81.13  Aligned_cols=176  Identities=16%  Similarity=0.119  Sum_probs=104.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCc-eEEEEEcCCCChHHHHHHHhhCh--------------hHHHHHHHHHhCCCC---
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNR-GIIGLYGTGGVGKTTLLKQRANL--------------KKIQADIGKKIGLST---  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~~GiGKTtLa~~v~~~--------------~~i~~~i~~~~~~~~---  139 (294)
                      ..+||.+..++.|.+.+..+  .. ..+.++|+.|+||||+|+.+...              -..-..|........   
T Consensus        13 ~dliGQe~vv~~L~~a~~~~--ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~ei   90 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLN--KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEI   90 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcC--CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEE
Confidence            46799999999888888766  44 48999999999999999887210              011112221111100   


Q ss_pred             CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecC-ChHHhhcc--CCce
Q 048597          140 KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTN-SRVVCGQM--EATM  209 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr-~~~v~~~~--~~~~  209 (294)
                      ........++... +.+..     .++.-++|+|+++.  ....+.+...+......+++|++|. ...+...+  .+..
T Consensus        91 daas~~~vddIR~-Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~  169 (491)
T PRK14964         91 DAASNTSVDDIKV-ILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQR  169 (491)
T ss_pred             ecccCCCHHHHHH-HHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhhee
Confidence            0001122333322 22222     35667899999975  3445666555544444566665554 33443222  2233


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      +++.+++.++....+.+.+.......+   .+....|++.++|.+-.+..
T Consensus       170 ~~f~~l~~~el~~~L~~ia~~Egi~i~---~eAL~lIa~~s~GslR~als  216 (491)
T PRK14964        170 FDLQKIPTDKLVEHLVDIAKKENIEHD---EESLKLIAENSSGSMRNALF  216 (491)
T ss_pred             eecccccHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHH
Confidence            999999999999988887755432222   24567889999888754433

>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=98.56  E-value=4.3e-07  Score=70.30  Aligned_cols=43  Identities=30%  Similarity=0.314  Sum_probs=35.2

Q ss_pred             eehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh
Q 048597           81 IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      +|++..+..+...+...  ....+.|+|++|+|||||++.+.+..
T Consensus         1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009           1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            36788888888888764  45789999999999999999985543

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.54  E-value=1.7e-06  Score=82.18  Aligned_cols=182  Identities=16%  Similarity=0.166  Sum_probs=106.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCCCCCc-
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLSTKSW-  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~~~~~-  142 (294)
                      ..++|.+..+..|.+++..+ .-...+.++|+.|+||||+|+.+....              ..-+.|........... 
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId   94 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQEN-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEID   94 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEe
Confidence            46789998888888888765 124688899999999999998872111              11111111111000000 


Q ss_pred             --ccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCC-hHHhhcc--CCcee
Q 048597          143 --QENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQM--EATML  210 (294)
Q Consensus       143 --~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~~--~~~~~  210 (294)
                        .....++. ..+.+.+     .+++-++|+|+++..  ...+.|...+........+|++|.+ ..+...+  .+..+
T Consensus        95 ~a~~~~Id~i-R~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i  173 (624)
T PRK14959         95 GASNRGIDDA-KRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHF  173 (624)
T ss_pred             cccccCHHHH-HHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhcc
Confidence              01122222 2233332     356679999999763  4455665555433334556665544 3332211  12349


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHHHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKTVGRAM  264 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~i~~~L  264 (294)
                      ++.+++.++....+.+.+.......+   .+....|++.++|.+ .|+..+..++
T Consensus       174 ~F~pLs~~eL~~~L~~il~~egi~id---~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        174 TFTRLSEAGLEAHLTKVLGREGVDYD---PAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             ccCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            99999999999888876654332122   356788999999965 5666665443

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

Probab=98.54  E-value=1.5e-05  Score=71.80  Aligned_cols=182  Identities=16%  Similarity=0.165  Sum_probs=110.0

Q ss_pred             cCceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHh---------------------hChhHHHHHHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQR---------------------ANLKKIQADIGK  133 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v---------------------~~~~~i~~~i~~  133 (294)
                      +..+.+|+.+++++...|..-  ...+.-+.|+|+.|+|||+.++.+                     .+..++...+..
T Consensus        16 P~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~   95 (366)
T COG1474          16 PEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN   95 (366)
T ss_pred             cccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence            445899999999999988652  223344999999999999999998                     234467777777


Q ss_pred             HhCCCCCCcccCChHHHHHHHHHHh--ccCCeEEEEccccCccch--hhhcCCcCC-CCCCcEE--EEecCChHH-----
Q 048597          134 KIGLSTKSWQENSFEDKALDIAGIL--SRKRFVLLLDDIWEHINL--NKLGVPLQY-LHLGSKI--VFTTNSRVV-----  201 (294)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~l~~~l--~~kr~LlvlDdv~~~~~~--~~l~~~l~~-~~~gs~i--ivTtr~~~v-----  201 (294)
                      .++....  ......+....+.+.+  .++.+++|||++.....-  +.+...+.. ....++|  |..+.+...     
T Consensus        96 ~~~~~p~--~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld  173 (366)
T COG1474          96 KLGKVPL--TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLD  173 (366)
T ss_pred             HcCCCCC--CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhh
Confidence            7752111  2344555666666666  467899999999763221  222111111 1113443  334443332     


Q ss_pred             ---hhccCCceeecCCCCHHHHHHHHHHHh---CCCCCCCCCCHHHHHHHHHHhCC-CChHHHHHHH
Q 048597          202 ---CGQMEATMLNASPLRDEEAWRLFEEAV---GRYVLDSHPDIPELAKTMAEECC-CLPLALKTVG  261 (294)
Q Consensus       202 ---~~~~~~~~~~l~~L~~~~~~~Lf~~~~---~~~~~~~~~~~~~~~~~I~~~c~-GlPlai~~i~  261 (294)
                         ....+...+...|-+.++-..++..++   +... ..+++..+++..++..-+ -.-.|+..+-
T Consensus       174 ~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~-~~~~~vl~lia~~~a~~~GDAR~aidilr  239 (366)
T COG1474         174 PRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAG-VIDDDVLKLIAALVAAESGDARKAIDILR  239 (366)
T ss_pred             hhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCC-CcCccHHHHHHHHHHHcCccHHHHHHHHH
Confidence               233334448899999999999998877   3333 233444444444444444 4455555543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=1.7e-06  Score=81.23  Aligned_cols=177  Identities=15%  Similarity=0.076  Sum_probs=102.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCc-eEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNR-GIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS---T  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~---~  139 (294)
                      ..+||.+..+..|.+++..+  .. ..+.++|+.|+||||+|+.+....              ..-..|...-...   .
T Consensus        16 ~divGq~~v~~~L~~~~~~~--~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~ei   93 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQ--YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEV   93 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhC--CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEE
Confidence            46899999999999999876  44 467899999999999998872111              1111111100000   0


Q ss_pred             CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCCh-HHh-hcc-CCce
Q 048597          140 KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSR-VVC-GQM-EATM  209 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~-~v~-~~~-~~~~  209 (294)
                      ........++..+ +.+.+     .++.-++++|+++.  ....+.+...+......+++|++|.+. .+. +.. .+..
T Consensus        94 daas~~~v~~iR~-l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~  172 (509)
T PRK14958         94 DAASRTKVEDTRE-LLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQ  172 (509)
T ss_pred             cccccCCHHHHHH-HHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhh
Confidence            0001222333322 22222     35667899999986  345565655554433456666655433 222 111 1223


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      +++.+++.++....+.+.+...+....   .+....|++.++|.+..+..+
T Consensus       173 ~~f~~l~~~~i~~~l~~il~~egi~~~---~~al~~ia~~s~GslR~al~l  220 (509)
T PRK14958        173 FHLAQLPPLQIAAHCQHLLKEENVEFE---NAALDLLARAANGSVRDALSL  220 (509)
T ss_pred             hhcCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHH
Confidence            889999999887777666543332211   234578888999988555443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.52  E-value=2.1e-06  Score=84.73  Aligned_cols=174  Identities=13%  Similarity=0.083  Sum_probs=102.1

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCc-eEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHH----hCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNR-GIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKK----IGLS  138 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~----~~~~  138 (294)
                      ..+||.+..++.|.+++..+  ++ ..+.++|+.|+||||+|+.+....              ..-..|...    +.+.
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~--ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~   92 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSG--RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVT   92 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhC--CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEE
Confidence            46799999999999999876  44 468999999999999998882111              001111111    0000


Q ss_pred             -CCCcccCChHHHHHHHHHH-----hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecC-ChHHhhccC--C
Q 048597          139 -TKSWQENSFEDKALDIAGI-----LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTN-SRVVCGQME--A  207 (294)
Q Consensus       139 -~~~~~~~~~~~~~~~l~~~-----l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr-~~~v~~~~~--~  207 (294)
                       .+.......++.. .+.+.     ..++.-++|||+++.  ...++.|...+..-...+.+|++|. ...+...+.  +
T Consensus        93 eidaas~~~Vd~iR-~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc  171 (824)
T PRK07764         93 EIDAASHGGVDDAR-ELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRT  171 (824)
T ss_pred             EecccccCCHHHHH-HHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhhe
Confidence             0000112233332 23322     245666899999976  3556666666654444555555554 334433222  3


Q ss_pred             ceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHH
Q 048597          208 TMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLAL  257 (294)
Q Consensus       208 ~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai  257 (294)
                      ..|++.+++.++....+.+.+.......   -.+....|++.++|.+..+
T Consensus       172 ~~v~F~~l~~~~l~~~L~~il~~EGv~i---d~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        172 HHYPFRLVPPEVMRGYLERICAQEGVPV---EPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             eEEEeeCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence            3399999999999888887664333111   1244577888899877433

>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=98.52  E-value=2.2e-06  Score=71.97  Aligned_cols=168  Identities=17%  Similarity=0.216  Sum_probs=87.5

Q ss_pred             cCceeehh-HHHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCCC
Q 048597           77 ERTVIRQE-LLLDRVWRFVTDQ-ERNRGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLST  139 (294)
Q Consensus        77 ~~~~vGr~-~~~~~l~~~L~~~-~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~~  139 (294)
                      ++.++|-. +..-.....+... ......+.|+|+.|+|||.|++.+++..               +....+...+.-  
T Consensus         8 dnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~--   85 (219)
T PF00308_consen    8 DNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRD--   85 (219)
T ss_dssp             CCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHT--
T ss_pred             ccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHc--
Confidence            34455642 2223333334333 3345678999999999999999885432               122222222210  


Q ss_pred             CCcccCChHHHHHHHHHHhccCCeEEEEccccCc---cchhh-hcCCcCC-CCCCcEEEEecCChH---------Hhhcc
Q 048597          140 KSWQENSFEDKALDIAGILSRKRFVLLLDDIWEH---INLNK-LGVPLQY-LHLGSKIVFTTNSRV---------VCGQM  205 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~---~~~~~-l~~~l~~-~~~gs~iivTtr~~~---------v~~~~  205 (294)
                           .    ....+.+.++ .-=+|++||++..   ..|.. +...+.. ...|.++|+|+....         ..+.+
T Consensus        86 -----~----~~~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl  155 (219)
T PF00308_consen   86 -----G----EIEEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRL  155 (219)
T ss_dssp             -----T----SHHHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHH
T ss_pred             -----c----cchhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhH
Confidence                 0    1122334444 3348889999763   22332 2211211 123668999995432         23334


Q ss_pred             CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          206 EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       206 ~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      .... ++++++++++...++.+.+.......   -.++..-|++.+.+..-.+..
T Consensus       156 ~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l---~~~v~~~l~~~~~~~~r~L~~  207 (219)
T PF00308_consen  156 SWGLVVELQPPDDEDRRRILQKKAKERGIEL---PEEVIEYLARRFRRDVRELEG  207 (219)
T ss_dssp             HCSEEEEE----HHHHHHHHHHHHHHTT--S----HHHHHHHHHHTTSSHHHHHH
T ss_pred             hhcchhhcCCCCHHHHHHHHHHHHHHhCCCC---cHHHHHHHHHhhcCCHHHHHH
Confidence            4444 99999999999999999886544222   236667777776655444433

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=98.51  E-value=2e-06  Score=72.97  Aligned_cols=149  Identities=16%  Similarity=0.197  Sum_probs=85.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHH---HHHHHHHhccCCeEEEEccccC---cc
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDK---ALDIAGILSRKRFVLLLDDIWE---HI  174 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~---~~~l~~~l~~kr~LlvlDdv~~---~~  174 (294)
                      ...+.|+|+.|+|||.|++.+.+...      .. +...-   -.+..++   ...+.+.+..-. +|++||+..   ..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~------~~-~~~v~---y~~~~~~~~~~~~~~~~~~~~d-~LiiDDi~~~~~~~  113 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFE------QR-GEPAV---YLPLAELLDRGPELLDNLEQYE-LVCLDDLDVIAGKA  113 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH------hC-CCcEE---EeeHHHHHhhhHHHHHhhhhCC-EEEEechhhhcCCh
Confidence            46789999999999999998854221      00 10000   0011111   122333333333 688999964   23


Q ss_pred             chhh-hcCCcCC-CCCCcEEEEecCChHH---------hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHH
Q 048597          175 NLNK-LGVPLQY-LHLGSKIVFTTNSRVV---------CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPEL  242 (294)
Q Consensus       175 ~~~~-l~~~l~~-~~~gs~iivTtr~~~v---------~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~  242 (294)
                      .|.. +...+.. ...|..+|+|++....         ..++.... +.++++++++-..+++.++.......+   .++
T Consensus       114 ~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~---~ev  190 (234)
T PRK05642        114 DWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLT---DEV  190 (234)
T ss_pred             HHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCC---HHH
Confidence            4543 3333321 2235678888875332         22333334 889999999999999866643322222   467


Q ss_pred             HHHHHHhCCCChHHHHHHHHH
Q 048597          243 AKTMAEECCCLPLALKTVGRA  263 (294)
Q Consensus       243 ~~~I~~~c~GlPlai~~i~~~  263 (294)
                      ..-|++.+.|..-.+..+-..
T Consensus       191 ~~~L~~~~~~d~r~l~~~l~~  211 (234)
T PRK05642        191 GHFILTRGTRSMSALFDLLER  211 (234)
T ss_pred             HHHHHHhcCCCHHHHHHHHHH
Confidence            788888888876555544433

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.50  E-value=8.9e-07  Score=75.80  Aligned_cols=167  Identities=14%  Similarity=0.100  Sum_probs=101.1

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC---hhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN---LKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~---~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..++|.+..+.-|.+.+...  ..+....+||+|.|||+-|.....   -.++...=...+..+..  ...+.  ...++
T Consensus        36 de~~gQe~vV~~L~~a~~~~--~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSde--rGisv--vr~Ki  109 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRR--ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDE--RGISV--VREKI  109 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhc--CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccc--ccccc--hhhhh
Confidence            46789999999999998884  789999999999999998876521   11111110000111100  01110  11111


Q ss_pred             HH--Hhcc----------CC-eEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCceeecCCCC
Q 048597          155 AG--ILSR----------KR-FVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATMLNASPLR  216 (294)
Q Consensus       155 ~~--~l~~----------kr-~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~~~l~~L~  216 (294)
                      +.  .+..          .+ -++|||+.++  .+.|..+...+......++.++.+..-. +....  .+..+..++|.
T Consensus       110 k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~  189 (346)
T KOG0989|consen  110 KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLK  189 (346)
T ss_pred             cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcc
Confidence            11  1111          12 4788999987  5789988777766555566655554332 21111  12239999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCC
Q 048597          217 DEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCL  253 (294)
Q Consensus       217 ~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~Gl  253 (294)
                      +++...-++..+..++...+.   +..+.|++.++|-
T Consensus       190 d~~iv~rL~~Ia~~E~v~~d~---~al~~I~~~S~Gd  223 (346)
T KOG0989|consen  190 DEDIVDRLEKIASKEGVDIDD---DALKLIAKISDGD  223 (346)
T ss_pred             hHHHHHHHHHHHHHhCCCCCH---HHHHHHHHHcCCc
Confidence            999988888877655533333   5568899999884

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=2.5e-06  Score=81.82  Aligned_cols=178  Identities=12%  Similarity=0.124  Sum_probs=104.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCCC---
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLST---  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~~---  139 (294)
                      ..++|.+..++.|..++..+. -...+.++|+.|+||||+|+.+....               .....+........   
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~~~i   94 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDVIEM   94 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeEEEE
Confidence            468999999999988888652 33567899999999999999882111               11222222111100   


Q ss_pred             CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhhcc--CCce
Q 048597          140 KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQM--EATM  209 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~~--~~~~  209 (294)
                      ........++. ..+.+.+     .+++-++|+|+++.  ....+.+...+......+.+|+++.+ ..+....  .+..
T Consensus        95 ~~~~~~~vd~i-r~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~SR~~~  173 (585)
T PRK14950         95 DAASHTSVDDA-REIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQR  173 (585)
T ss_pred             eccccCCHHHH-HHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHhccce
Confidence            00011222322 2233322     24567899999875  34455565555443344566655543 3332211  1223


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      +.+.+++.++....+...+...+...+   .+....|++.|+|.+..+...
T Consensus       174 i~f~~l~~~el~~~L~~~a~~egl~i~---~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        174 FDFHRHSVADMAAHLRKIAAAEGINLE---PGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             eeCCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            889999999988888877654332222   356788999999988655443

>PRK06620 hypothetical protein; Validated

Probab=98.48  E-value=2.4e-06  Score=71.38  Aligned_cols=160  Identities=12%  Similarity=0.043  Sum_probs=88.9

Q ss_pred             cCceeeh-hH-HHHHHHHHHhcCCCCc--eEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHH
Q 048597           77 ERTVIRQ-EL-LLDRVWRFVTDQERNR--GIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKAL  152 (294)
Q Consensus        77 ~~~~vGr-~~-~~~~l~~~L~~~~~~~--~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~  152 (294)
                      ++.++|. .. ....+..+-.....+.  +.+.|+|++|+|||+|++.+.+....       ...+..        ....
T Consensus        16 d~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~-------~~~~~~--------~~~~   80 (214)
T PRK06620         16 DEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNA-------YIIKDI--------FFNE   80 (214)
T ss_pred             hhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhccCC-------EEcchh--------hhch
Confidence            4556776 22 3344444332211122  67999999999999999976443210       001000        0000


Q ss_pred             HHHHHhccCCeEEEEccccCccchhhhcCCcCC-CCCCcEEEEecCChH-------HhhccCCce-eecCCCCHHHHHHH
Q 048597          153 DIAGILSRKRFVLLLDDIWEHINLNKLGVPLQY-LHLGSKIVFTTNSRV-------VCGQMEATM-LNASPLRDEEAWRL  223 (294)
Q Consensus       153 ~l~~~l~~kr~LlvlDdv~~~~~~~~l~~~l~~-~~~gs~iivTtr~~~-------v~~~~~~~~-~~l~~L~~~~~~~L  223 (294)
                         +.. ...-++++||++...+ ..+...+.. ...|..+++|++...       ..+++.... ++++++++++...+
T Consensus        81 ---~~~-~~~d~lliDdi~~~~~-~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~  155 (214)
T PRK06620         81 ---EIL-EKYNAFIIEDIENWQE-PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKIL  155 (214)
T ss_pred             ---hHH-hcCCEEEEeccccchH-HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHH
Confidence               111 2345789999974221 112111110 134668888887433       233444444 99999999998888


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          224 FEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       224 f~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      +++.+.......+   .++..-|++.+.|---.+.-
T Consensus       156 l~k~~~~~~l~l~---~ev~~~L~~~~~~d~r~l~~  188 (214)
T PRK06620        156 IFKHFSISSVTIS---RQIIDFLLVNLPREYSKIIE  188 (214)
T ss_pred             HHHHHHHcCCCCC---HHHHHHHHHHccCCHHHHHH
Confidence            8887753332222   36778888888876544443

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.46  E-value=4.1e-06  Score=77.73  Aligned_cols=169  Identities=14%  Similarity=0.151  Sum_probs=97.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVL  165 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~Ll  165 (294)
                      ...+.|+|+.|+|||+|++.+.+..               ++...+...+..         .......+.+.+. ..-+|
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~---------~~~~~~~~~~~~~-~~dvL  210 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQK---------THKEIEQFKNEIC-QNDVL  210 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHH---------hhhHHHHHHHHhc-cCCEE
Confidence            4578999999999999999885421               122222222210         0011222333333 34488


Q ss_pred             EEccccCc---cch-hhhcCCcCC-CCCCcEEEEecCCh---------HHhhccCCce-eecCCCCHHHHHHHHHHHhCC
Q 048597          166 LLDDIWEH---INL-NKLGVPLQY-LHLGSKIVFTTNSR---------VVCGQMEATM-LNASPLRDEEAWRLFEEAVGR  230 (294)
Q Consensus       166 vlDdv~~~---~~~-~~l~~~l~~-~~~gs~iivTtr~~---------~v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~  230 (294)
                      ++||+...   ..+ +.+...|.. ...|..||+|+...         .+..++.... +.+++++.++-..++.+++..
T Consensus       211 iIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~  290 (450)
T PRK14087        211 IIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKN  290 (450)
T ss_pred             EEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHh
Confidence            99999652   222 233322221 12345688887543         2233344444 889999999999999998854


Q ss_pred             CCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH------c---CCCCHHHHHHHHHHH
Q 048597          231 YVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM------R---SISSIEEWEHAIKII  280 (294)
Q Consensus       231 ~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L------~---~~~~~~~w~~~l~~l  280 (294)
                      .... ..--.++..-|++.++|.|-.+..+...+      .   ..-+.+.-+.++..+
T Consensus       291 ~gl~-~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~  348 (450)
T PRK14087        291 QNIK-QEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDI  348 (450)
T ss_pred             cCCC-CCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhc
Confidence            3211 12235778999999999997776554322      2   113455556665554

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.45  E-value=4e-06  Score=79.28  Aligned_cols=175  Identities=13%  Similarity=0.059  Sum_probs=100.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~---~~  140 (294)
                      ..++|.+..+..+.+++..+. -...+.++|+.|+||||+|+.+....              ..-..+...-...   ..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~   94 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVD   94 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEee
Confidence            467999999999999988751 23467899999999999998882111              0001111000000   00


Q ss_pred             CcccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCCh-HHhhccC--Ccee
Q 048597          141 SWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSR-VVCGQME--ATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~-~v~~~~~--~~~~  210 (294)
                      .......++.. .+.+..     .+++-++|+|+++..  ...+.+...+......+.+|++|.+. .+.....  +..+
T Consensus        95 ~~~~~~vd~ir-~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~  173 (527)
T PRK14969         95 AASNTQVDAMR-ELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQF  173 (527)
T ss_pred             ccccCCHHHHH-HHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHH
Confidence            00112233322 222222     356679999999863  34555555554433445666555443 2221111  2239


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLAL  257 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai  257 (294)
                      ++.+++.++....+.+.+...+...   -......|++.++|.+--+
T Consensus       174 ~f~~l~~~~i~~~L~~il~~egi~~---~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        174 NLKQMPPPLIVSHLQHILEQENIPF---DATALQLLARAAAGSMRDA  217 (527)
T ss_pred             hcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHH
Confidence            9999999999888877664333111   1245578899999977533

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

Probab=98.44  E-value=1.1e-06  Score=67.25  Aligned_cols=95  Identities=26%  Similarity=0.349  Sum_probs=60.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC------------------------hhHHHHHHHHHhCCCCCCcccCChHHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN------------------------LKKIQADIGKKIGLSTKSWQENSFEDKALDIA  155 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~------------------------~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~  155 (294)
                      +.+++.|+|++|+|||++++.+..                        ...+...+...++.....  ..+...+...+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~   80 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLI   80 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHH
Confidence            457899999999999999999822                        345677788888764442  345677777888


Q ss_pred             HHhccCCe-EEEEccccCc---cchhhhcCCcCCCCCCcEEEEecCC
Q 048597          156 GILSRKRF-VLLLDDIWEH---INLNKLGVPLQYLHLGSKIVFTTNS  198 (294)
Q Consensus       156 ~~l~~kr~-LlvlDdv~~~---~~~~~l~~~l~~~~~gs~iivTtr~  198 (294)
                      +.+...+. +||+||++..   ..++.+...+.  ..+.++|+..+.
T Consensus        81 ~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   81 DALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            88866655 9999999764   22333322222  456677776654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.43  E-value=1.8e-05  Score=72.23  Aligned_cols=196  Identities=17%  Similarity=0.165  Sum_probs=108.5

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----HH-HHHHHHhCCCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ-ADIGKKIGLSTK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~-~~i~~~~~~~~~  140 (294)
                      ..+.|++..++++.+.+...           -..++-|.++|++|+|||++|+.+.+...     +. ..+....     
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~-----  205 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF-----  205 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhh-----
Confidence            35789999999988876431           12456799999999999999999854221     00 0010000     


Q ss_pred             CcccCChHHHHHHHHHHh-ccCCeEEEEccccCcc------------c----hhhhcCCcC--CCCCCcEEEEecCChHH
Q 048597          141 SWQENSFEDKALDIAGIL-SRKRFVLLLDDIWEHI------------N----LNKLGVPLQ--YLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~------------~----~~~l~~~l~--~~~~gs~iivTtr~~~v  201 (294)
                        ... .......+.+.. .....+|+|||+....            .    +..+...+.  ....+..||.||.....
T Consensus       206 --~g~-~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~  282 (389)
T PRK03992        206 --IGE-GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDI  282 (389)
T ss_pred             --ccc-hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhh
Confidence              011 112222333332 3456899999997520            1    111111111  11234567777765432


Q ss_pred             hh--cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHHH---HHH--HcCC--
Q 048597          202 CG--QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKTV---GRA--MRSI--  267 (294)
Q Consensus       202 ~~--~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~i---~~~--L~~~--  267 (294)
                      ..  ..   .... +++.+.+.++-.++|+.++.........++    ..+++.+.|+- --+..+   |++  ++.+  
T Consensus       283 ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~----~~la~~t~g~sgadl~~l~~eA~~~a~~~~~~  358 (389)
T PRK03992        283 LDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDL----EELAELTEGASGADLKAICTEAGMFAIRDDRT  358 (389)
T ss_pred             CCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCH----HHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCC
Confidence            11  11   2234 999999999999999987754332222333    55667777754 222222   222  2222  


Q ss_pred             -CCHHHHHHHHHHHHhcCC
Q 048597          268 -SSIEEWEHAIKIILRYGR  285 (294)
Q Consensus       268 -~~~~~w~~~l~~l~~~~~  285 (294)
                       -+.++...+++.++....
T Consensus       359 ~i~~~d~~~A~~~~~~~~~  377 (389)
T PRK03992        359 EVTMEDFLKAIEKVMGKEE  377 (389)
T ss_pred             CcCHHHHHHHHHHHhcccc
Confidence             356778888777766543

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

Probab=98.42  E-value=1.9e-06  Score=75.52  Aligned_cols=151  Identities=17%  Similarity=0.136  Sum_probs=87.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHH--HhccCCeEEEEccccCc--cc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAG--ILSRKRFVLLLDDIWEH--IN  175 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~--~l~~kr~LlvlDdv~~~--~~  175 (294)
                      .++.+.+||++|+||||||+.+.+..+-..  ...+.++.......+..+..+.-++  .+.++|.+|++|+|+.-  .+
T Consensus       161 ~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQ  238 (554)
T KOG2028|consen  161 RIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQ  238 (554)
T ss_pred             CCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhh
Confidence            788999999999999999998843322111  1111111111122233333333332  24688999999999752  22


Q ss_pred             hhhhcCCcCCCCCCcEEEE--ecCChHH----hhccCCceeecCCCCHHHHHHHHHHHhC---CCCC----CCCCC---H
Q 048597          176 LNKLGVPLQYLHLGSKIVF--TTNSRVV----CGQMEATMLNASPLRDEEAWRLFEEAVG---RYVL----DSHPD---I  239 (294)
Q Consensus       176 ~~~l~~~l~~~~~gs~iiv--Ttr~~~v----~~~~~~~~~~l~~L~~~~~~~Lf~~~~~---~~~~----~~~~~---~  239 (294)
                      -+   ..||...+|+-++|  ||.+...    +-...+..+-|++|..+.-..++.+...   ....    .+++.   -
T Consensus       239 QD---~fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve  315 (554)
T KOG2028|consen  239 QD---TFLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVE  315 (554)
T ss_pred             hh---cccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhh
Confidence            22   23566777876665  5555443    2223334488999999999988887442   1111    11111   1


Q ss_pred             HHHHHHHHHhCCCChH
Q 048597          240 PELAKTMAEECCCLPL  255 (294)
Q Consensus       240 ~~~~~~I~~~c~GlPl  255 (294)
                      ..+..-++..|.|-.-
T Consensus       316 ~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  316 DSIIDYLAYLSDGDAR  331 (554)
T ss_pred             HHHHHHHHHhcCchHH
Confidence            2455667778888653

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=9.6e-06  Score=77.70  Aligned_cols=173  Identities=14%  Similarity=0.100  Sum_probs=99.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH----------------------HHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK----------------------IQADIGKKI  135 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~----------------------i~~~i~~~~  135 (294)
                      ..++|.+..+..|.+++..+ .-...+.++|+.|+||||+|+.+.....                      .-..|...-
T Consensus        16 ~eivGQe~i~~~L~~~i~~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMD-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhccC
Confidence            46799999999999988765 1335688999999999999988721110                      000111100


Q ss_pred             CCCCCCc---ccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEec-CChHHhhc
Q 048597          136 GLSTKSW---QENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTT-NSRVVCGQ  204 (294)
Q Consensus       136 ~~~~~~~---~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~~  204 (294)
                      .......   .....++... +.+.+     .+.+-++|+|+++..  ...+.+...+......+.+|++| +...+...
T Consensus        95 ~~n~~~~d~~s~~~vd~Ir~-l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~T  173 (620)
T PRK14954         95 SLNISEFDAASNNSVDDIRQ-LRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPAT  173 (620)
T ss_pred             CCCeEEecccccCCHHHHHH-HHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHH
Confidence            0000000   1112333332 22222     355668899998763  44556655554433345555444 43333322


Q ss_pred             -c-CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          205 -M-EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       205 -~-~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                       . .+..+++.+++.++....+.+.+.......+   .+.+..|++.++|..-
T Consensus       174 I~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I~---~eal~~La~~s~Gdlr  223 (620)
T PRK14954        174 IASRCQRFNFKRIPLDEIQSQLQMICRAEGIQID---ADALQLIARKAQGSMR  223 (620)
T ss_pred             HHhhceEEecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHhCCCHH
Confidence             2 2333999999999988888776643321122   3567889999999554

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.40  E-value=1.4e-06  Score=75.15  Aligned_cols=145  Identities=13%  Similarity=0.120  Sum_probs=75.4

Q ss_pred             ceeehhHHHHHHHHH---Hhc----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCC-CCCCcc-
Q 048597           79 TVIRQELLLDRVWRF---VTD----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGL-STKSWQ-  143 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~---L~~----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~-~~~~~~-  143 (294)
                      .++|.+..+++|.+.   +..          .......+.++|++|+||||+|+.+.....       ..+. +....- 
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~-------~~~~~~~~~~v~   79 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFK-------EMNVLSKGHLIE   79 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHH-------hcCcccCCceEE
Confidence            468887766655433   311          122456788999999999999998854321       1111 000000 


Q ss_pred             -------cCChHHHHHHHHHHhc-cCCeEEEEccccCc----------cchhhhcCCcCCCCCCcEEEEecCChHH----
Q 048597          144 -------ENSFEDKALDIAGILS-RKRFVLLLDDIWEH----------INLNKLGVPLQYLHLGSKIVFTTNSRVV----  201 (294)
Q Consensus       144 -------~~~~~~~~~~l~~~l~-~kr~LlvlDdv~~~----------~~~~~l~~~l~~~~~gs~iivTtr~~~v----  201 (294)
                             .....+....+.+.+. ....+|++|+++..          +..+.+...+........+++++.....    
T Consensus        80 ~~~~~l~~~~~g~~~~~~~~~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~  159 (261)
T TIGR02881        80 VERADLVGEYIGHTAQKTREVIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFL  159 (261)
T ss_pred             ecHHHhhhhhccchHHHHHHHHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHH
Confidence                   0000001112222221 12358999999752          1233333333333333355555543221    


Q ss_pred             ------hhccCCceeecCCCCHHHHHHHHHHHhCCC
Q 048597          202 ------CGQMEATMLNASPLRDEEAWRLFEEAVGRY  231 (294)
Q Consensus       202 ------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~  231 (294)
                            ...+ ...+++.+++.++..+++++.+...
T Consensus       160 ~~~p~L~sRf-~~~i~f~~~~~~el~~Il~~~~~~~  194 (261)
T TIGR02881       160 SLNPGLRSRF-PISIDFPDYTVEELMEIAERMVKER  194 (261)
T ss_pred             hcChHHHhcc-ceEEEECCCCHHHHHHHHHHHHHHc
Confidence                  2222 1128899999999999998877543

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.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=8.8e-06  Score=77.42  Aligned_cols=173  Identities=12%  Similarity=0.043  Sum_probs=100.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC-----
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS-----  138 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~-----  138 (294)
                      ..++|.+..++.|.+++..+. -...+.++|+.|+||||+|+.+....              ..-..|...-+..     
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~dvie   91 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSIDVVE   91 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCceEEE
Confidence            467999999999999998761 33457899999999999999882111              1111111100000     


Q ss_pred             CCCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEE-ecCChHHhhcc--CCc
Q 048597          139 TKSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVF-TTNSRVVCGQM--EAT  208 (294)
Q Consensus       139 ~~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iiv-Ttr~~~v~~~~--~~~  208 (294)
                      .........++. ..+.+.+     .+++-++|+|+++.  ....+.|...+......+.+|+ ||....+...+  .+.
T Consensus        92 idaas~~gvd~i-Rel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SRc~  170 (584)
T PRK14952         92 LDAASHGGVDDT-RELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTH  170 (584)
T ss_pred             eccccccCHHHH-HHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHhce
Confidence            000011122222 2222222     35666899999875  4456666555554333455554 44444433221  233


Q ss_pred             eeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          209 MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       209 ~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                      .+++.+++.++..+.+.+.+........   .+....|++.++|.+-
T Consensus       171 ~~~F~~l~~~~i~~~L~~i~~~egi~i~---~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        171 HYPFRLLPPRTMRALIARICEQEGVVVD---DAVYPLVIRAGGGSPR  214 (584)
T ss_pred             EEEeeCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHH
Confidence            4999999999988888776644331111   2455778888888764

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=9.1e-06  Score=76.32  Aligned_cols=179  Identities=12%  Similarity=0.038  Sum_probs=103.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~---~~  140 (294)
                      ..++|-+.....+...+..+. -...+.++|+.|+||||+|+.+....              ..-..+.......   ..
T Consensus        14 deiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~eld   92 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMD   92 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEec
Confidence            468999999999999987762 33467899999999999998762110              0011111111100   00


Q ss_pred             CcccCChHHHHHHHHHH----hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCCh-HHhh--ccCCceee
Q 048597          141 SWQENSFEDKALDIAGI----LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSR-VVCG--QMEATMLN  211 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~-~v~~--~~~~~~~~  211 (294)
                      .......++....+...    ..+++-++|+|+++.  ....+.+...+......+++|++|.+. .+..  .-.+..++
T Consensus        93 aas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~  172 (535)
T PRK08451         93 AASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFR  172 (535)
T ss_pred             cccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEE
Confidence            00111233433333221    124566899999976  344555555554433456666666543 2211  11233499


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          212 ASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       212 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      +.+++.++....+.+.+...+....   .+....|++.++|.+--+..+
T Consensus       173 F~~Ls~~ei~~~L~~Il~~EGi~i~---~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        173 FKQIPQNSIISHLKTILEKEGVSYE---PEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHH
Confidence            9999999998888876654332222   356688899999988555443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.38  E-value=1.4e-06  Score=86.75  Aligned_cols=173  Identities=14%  Similarity=0.137  Sum_probs=91.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH---HHHHHH-HHhC-CCCCCc-----ccCCh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK---IQADIG-KKIG-LSTKSW-----QENSF  147 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---i~~~i~-~~~~-~~~~~~-----~~~~~  147 (294)
                      ..++||++++.+++..|...  ...-+.++|++|+||||||..+.....   +-..+. ..+. +.....     .....
T Consensus       187 d~~iGr~~ei~~~i~~l~r~--~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~  264 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRR--RQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEF  264 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcC--CcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHH
Confidence            45799999999999988876  445566999999999999987733210   000000 0000 000000     00111


Q ss_pred             HHHHHHHHHHhc--cCCeEEEEccccCcc---------chhhhcCCcCCCCCC-cEEEEecCChHH--------hhccCC
Q 048597          148 EDKALDIAGILS--RKRFVLLLDDIWEHI---------NLNKLGVPLQYLHLG-SKIVFTTNSRVV--------CGQMEA  207 (294)
Q Consensus       148 ~~~~~~l~~~l~--~kr~LlvlDdv~~~~---------~~~~l~~~l~~~~~g-s~iivTtr~~~v--------~~~~~~  207 (294)
                      +.....+.+.+.  +++.+|++|+++...         +...+..+.  -.+| -++|-+|.....        +-.-..
T Consensus       265 e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~--l~~G~l~~IgaTT~~e~~~~~~~d~AL~rRf  342 (852)
T TIGR03345       265 ENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPA--LARGELRTIAATTWAEYKKYFEKDPALTRRF  342 (852)
T ss_pred             HHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHH--hhCCCeEEEEecCHHHHhhhhhccHHHHHhC
Confidence            122222333222  468999999997631         111222222  2223 456666654322        111123


Q ss_pred             ceeecCCCCHHHHHHHHHHHhCCCCC-CCCCCHHHHHHHHHHhCCCCh
Q 048597          208 TMLNASPLRDEEAWRLFEEAVGRYVL-DSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       208 ~~~~l~~L~~~~~~~Lf~~~~~~~~~-~~~~~~~~~~~~I~~~c~GlP  254 (294)
                      ..+.+.+++.++...++......... ..-.--.+....+++.|.+.+
T Consensus       343 ~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       343 QVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             eEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence            34999999999999997543321110 011112344566777776543

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.36  E-value=1.3e-05  Score=76.67  Aligned_cols=179  Identities=16%  Similarity=0.092  Sum_probs=105.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh-----hHH--------------HHHHHHHhCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL-----KKI--------------QADIGKKIGLS  138 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~-----~~i--------------~~~i~~~~~~~  138 (294)
                      ..++|.+..++.|.+++..+. -...+.++|+.|+||||+|+.+...     ...              -..|.......
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~D  102 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHVD  102 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCCc
Confidence            468999999999999998762 2447899999999999999988211     100              01111111000


Q ss_pred             C---CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEec-CChHHhhcc--
Q 048597          139 T---KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTT-NSRVVCGQM--  205 (294)
Q Consensus       139 ~---~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~~~--  205 (294)
                      .   ........++.. .+.+.+     .+++-++|+|+++..  ...+.+...+..-...+.+|++| ....+...+  
T Consensus       103 v~e~~a~s~~gvd~IR-eIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~S  181 (598)
T PRK09111        103 VLEMDAASHTGVDDIR-EIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLS  181 (598)
T ss_pred             eEEecccccCCHHHHH-HHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHh
Confidence            0   000112233322 232222     345668999999753  44566655554444456665555 333332211  


Q ss_pred             CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          206 EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       206 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      .+..+++.+++.++....+.+.+........   .+....|++.++|.+.-+....
T Consensus       182 Rcq~~~f~~l~~~el~~~L~~i~~kegi~i~---~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        182 RCQRFDLRRIEADVLAAHLSRIAAKEGVEVE---DEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             heeEEEecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            2233999999999999988887754332222   2556889999999886665443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.36  E-value=1.1e-05  Score=75.01  Aligned_cols=173  Identities=14%  Similarity=0.127  Sum_probs=98.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLS---T  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~---~  139 (294)
                      ..++|.+..+..+.+++..+. -...+.++|+.|+||||+|+.+....               ..-..+...-...   .
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~~~i   95 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDVLEI   95 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCceEEe
Confidence            468999999999999988651 23578899999999999998872111               0001111000000   0


Q ss_pred             CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhhcc--CCce
Q 048597          140 KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQM--EATM  209 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~~--~~~~  209 (294)
                      ........++.. .+.+.+     .+.+-++|+|++..  ....+.+...+......+.+|++|.+ ..+...+  .+..
T Consensus        96 ~g~~~~gid~ir-~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sRc~~  174 (451)
T PRK06305         96 DGASHRGIEDIR-QINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQK  174 (451)
T ss_pred             eccccCCHHHHH-HHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHhceE
Confidence            000111122222 222322     35677899999865  23444554454443335566666543 2222211  1223


Q ss_pred             eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          210 LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                      +++.++++++....+.+.+...+...+   .+....|++.++|.+-
T Consensus       175 v~f~~l~~~el~~~L~~~~~~eg~~i~---~~al~~L~~~s~gdlr  217 (451)
T PRK06305        175 MHLKRIPEETIIDKLALIAKQEGIETS---REALLPIARAAQGSLR  217 (451)
T ss_pred             EeCCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHH
Confidence            999999999988888776643321121   3556889999999664

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=9.8e-06  Score=73.50  Aligned_cols=173  Identities=12%  Similarity=0.107  Sum_probs=97.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHH----HHHhCCC---CCCcccCChHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADI----GKKIGLS---TKSWQENSFEDK  150 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i----~~~~~~~---~~~~~~~~~~~~  150 (294)
                      ..++|.+...+.+.+.+..+. -.+.+.++|+.|+||||+|+.+....  ....    ...+...   .........++.
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~l--~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i   93 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARKI--NQPGYDDPNEDFSFNIFELDAASNNSVDDI   93 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHh--cCCCCCCCCCCCCcceEEeccccCCCHHHH
Confidence            457999999999999988751 34588899999999999998872211  0000    0000000   000011122232


Q ss_pred             HHHHHHH----hccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCC-hHHhh-cc-CCceeecCCCCHHHHH
Q 048597          151 ALDIAGI----LSRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNS-RVVCG-QM-EATMLNASPLRDEEAW  221 (294)
Q Consensus       151 ~~~l~~~----l~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~-~~-~~~~~~l~~L~~~~~~  221 (294)
                      ...+...    ..+++-++++|++...  ..++.+...+......+.+|++|.. ..+.. .. .+..+++.++++++..
T Consensus        94 ~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~  173 (367)
T PRK14970         94 RNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIK  173 (367)
T ss_pred             HHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHH
Confidence            2222211    1245668999998652  3455554444332334455555533 22211 11 1223899999999999


Q ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          222 RLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       222 ~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      ..+.+.+...+...+   .+....+++.++|.+-.
T Consensus       174 ~~l~~~~~~~g~~i~---~~al~~l~~~~~gdlr~  205 (367)
T PRK14970        174 EHLAGIAVKEGIKFE---DDALHIIAQKADGALRD  205 (367)
T ss_pred             HHHHHHHHHcCCCCC---HHHHHHHHHhCCCCHHH
Confidence            888877654332222   25667888888886553

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.34  E-value=2.5e-05  Score=72.83  Aligned_cols=187  Identities=18%  Similarity=0.172  Sum_probs=102.1

Q ss_pred             eeehhH--HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH---------------HHHHHHHHhCCCCCCc
Q 048597           80 VIRQEL--LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK---------------IQADIGKKIGLSTKSW  142 (294)
Q Consensus        80 ~vGr~~--~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---------------i~~~i~~~~~~~~~~~  142 (294)
                      ++|...  ....+..+..........+.|+|++|+|||+|++.+.+...               ....+...+.      
T Consensus       125 v~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~------  198 (450)
T PRK00149        125 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALR------  198 (450)
T ss_pred             ccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHH------
Confidence            456443  23333333333222346799999999999999998854321               1111111110      


Q ss_pred             ccCChHHHHHHHHHHhccCCeEEEEccccCc---cch-hhhcCCcCC-CCCCcEEEEecCChH---------HhhccCCc
Q 048597          143 QENSFEDKALDIAGILSRKRFVLLLDDIWEH---INL-NKLGVPLQY-LHLGSKIVFTTNSRV---------VCGQMEAT  208 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~---~~~-~~l~~~l~~-~~~gs~iivTtr~~~---------v~~~~~~~  208 (294)
                       ....    ..+.+.++ +.-+|+|||++..   ..+ +.+...|.. ...|..+++|+....         +...+...
T Consensus       199 -~~~~----~~~~~~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g  272 (450)
T PRK00149        199 -NNTM----EEFKEKYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWG  272 (450)
T ss_pred             -cCcH----HHHHHHHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCC
Confidence             0011    12333333 3448999999652   111 222221211 112445777776431         23344444


Q ss_pred             e-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH----HHHH---HHcCCCCHHHHHHHHHHH
Q 048597          209 M-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK----TVGR---AMRSISSIEEWEHAIKII  280 (294)
Q Consensus       209 ~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~----~i~~---~L~~~~~~~~w~~~l~~l  280 (294)
                      . +++++.+.++-..++.+.+.......+   .++...|++.+.|..-.+.    .+..   .....-+....+.++..+
T Consensus       273 l~v~i~~pd~~~r~~il~~~~~~~~~~l~---~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        273 LTVDIEPPDLETRIAILKKKAEEEGIDLP---DEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             eeEEecCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            4 999999999999999988754332222   3667889999888765433    2221   222225677788887766


Q ss_pred             H
Q 048597          281 L  281 (294)
Q Consensus       281 ~  281 (294)
                      -
T Consensus       350 ~  350 (450)
T PRK00149        350 L  350 (450)
T ss_pred             h
Confidence            3

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

Probab=98.33  E-value=7.9e-06  Score=69.46  Aligned_cols=176  Identities=18%  Similarity=0.171  Sum_probs=104.0

Q ss_pred             CceeehhHHHHHHHHHHhc---CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTD---QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..|+|.++.++++.-++..   ....+--+.++||+|.||||||..+.+...+      .+..... ..-.-..+++..+
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgv------n~k~tsG-p~leK~gDlaaiL   98 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGV------NLKITSG-PALEKPGDLAAIL   98 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcC------CeEeccc-ccccChhhHHHHH
Confidence            4689999988888777764   3446789999999999999999876442211      1111111 0111223333333


Q ss_pred             HHHhccCCeEEEEccccCcc-c--------hhhhcCCc-CCCCCCc-----------EEEEecCChHHhhccCCc--e-e
Q 048597          155 AGILSRKRFVLLLDDIWEHI-N--------LNKLGVPL-QYLHLGS-----------KIVFTTNSRVVCGQMEAT--M-L  210 (294)
Q Consensus       155 ~~~l~~kr~LlvlDdv~~~~-~--------~~~l~~~l-~~~~~gs-----------~iivTtr~~~v~~~~~~~--~-~  210 (294)
                      -. |+.. =++++|+++... .        .+++..-. -..+.++           -|=.|||...+.+.....  . .
T Consensus        99 t~-Le~~-DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~  176 (332)
T COG2255          99 TN-LEEG-DVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQ  176 (332)
T ss_pred             hc-CCcC-CeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCee
Confidence            32 3333 466789887621 1        11111000 0011222           234788876654433222  2 7


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHc
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMR  265 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~  265 (294)
                      +++-.+.+|..++..+.+..-+....   .+-+.+|++...|-|--+.-+-+.++
T Consensus       177 rlefY~~~eL~~Iv~r~a~~l~i~i~---~~~a~eIA~rSRGTPRIAnRLLrRVR  228 (332)
T COG2255         177 RLEFYTVEELEEIVKRSAKILGIEID---EEAALEIARRSRGTPRIANRLLRRVR  228 (332)
T ss_pred             eeecCCHHHHHHHHHHHHHHhCCCCC---hHHHHHHHHhccCCcHHHHHHHHHHH
Confidence            78888999999999988744332232   25679999999999977666655544

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.33  E-value=1.7e-05  Score=64.90  Aligned_cols=156  Identities=19%  Similarity=0.141  Sum_probs=87.3

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHh-----CCCCCCcccCChHH
Q 048597           89 RVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKI-----GLSTKSWQENSFED  149 (294)
Q Consensus        89 ~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~-----~~~~~~~~~~~~~~  149 (294)
                      .+.+.+..+ .-...+.++|+.|+||||+|+.+....-              .-..+...-     .+... ......++
T Consensus         3 ~l~~~i~~~-~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~-~~~~~~~~   80 (188)
T TIGR00678         3 QLKRALEKG-RLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPE-GQSIKVDQ   80 (188)
T ss_pred             HHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccc-cCcCCHHH
Confidence            344555544 1236799999999999999988721110              001111000     00000 01122233


Q ss_pred             HHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCCh-HHhhcc--CCceeecCCCCHHH
Q 048597          150 KALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSR-VVCGQM--EATMLNASPLRDEE  219 (294)
Q Consensus       150 ~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~-~v~~~~--~~~~~~l~~L~~~~  219 (294)
                      .. .+.+.+     .+.+-++|+||+..  ....+.+...+......+.+|++|++. .+....  .+..+++.+++.++
T Consensus        81 i~-~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~  159 (188)
T TIGR00678        81 VR-ELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEA  159 (188)
T ss_pred             HH-HHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHH
Confidence            32 222322     35567899999976  334555655554444456676666543 221111  12239999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          220 AWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       220 ~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      ....+.+. +     ..   .+.+..|++.++|.|..
T Consensus       160 ~~~~l~~~-g-----i~---~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       160 LLQWLIRQ-G-----IS---EEAAELLLALAGGSPGA  187 (188)
T ss_pred             HHHHHHHc-C-----CC---HHHHHHHHHHcCCCccc
Confidence            98888776 1     11   35678999999998853

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.31  E-value=1.2e-05  Score=71.43  Aligned_cols=137  Identities=12%  Similarity=0.075  Sum_probs=78.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|.+...+.+..++..+. -...+.++|++|+||||+|+.+++...  .   ..+.+....   .........+.++
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~~~--~---~~~~i~~~~---~~~~~i~~~l~~~   91 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNEVG--A---EVLFVNGSD---CRIDFVRNRLTRF   91 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhC--c---cceEeccCc---ccHHHHHHHHHHH
Confidence            467999999999999988652 346777799999999999998854321  0   011111111   1122222223222


Q ss_pred             h-----ccCCeEEEEccccCc---cchhhhcCCcCCCCCCcEEEEecCChHH-----hhccCCceeecCCCCHHHHHHHH
Q 048597          158 L-----SRKRFVLLLDDIWEH---INLNKLGVPLQYLHLGSKIVFTTNSRVV-----CGQMEATMLNASPLRDEEAWRLF  224 (294)
Q Consensus       158 l-----~~kr~LlvlDdv~~~---~~~~~l~~~l~~~~~gs~iivTtr~~~v-----~~~~~~~~~~l~~L~~~~~~~Lf  224 (294)
                      .     .+.+-++++||+...   .....+...+.....++++|+||.....     ...+  ..+.+...+.++...++
T Consensus        92 ~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~--~~i~~~~p~~~~~~~il  169 (316)
T PHA02544         92 ASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRC--RVIDFGVPTKEEQIEMM  169 (316)
T ss_pred             HHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhc--eEEEeCCCCHHHHHHHH
Confidence            2     235668999999753   1222233223333456788888865331     1212  23677777777776555


Q ss_pred             H
Q 048597          225 E  225 (294)
Q Consensus       225 ~  225 (294)
                      .
T Consensus       170 ~  170 (316)
T PHA02544        170 K  170 (316)
T ss_pred             H
Confidence            4

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.30  E-value=2.7e-05  Score=74.20  Aligned_cols=176  Identities=14%  Similarity=0.094  Sum_probs=100.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh--------------hHHHHHHHHHhCCCCCCc-
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL--------------KKIQADIGKKIGLSTKSW-  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~--------------~~i~~~i~~~~~~~~~~~-  142 (294)
                      ..++|.+..+..+.+++..+. -.+.+.++|+.|+||||+|+.+...              -..-..+........-.. 
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv~eid   94 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVIEID   94 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCeEEee
Confidence            468999999999999988752 3456788999999999999888211              111111111111000000 


Q ss_pred             --ccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec-CChHHhhcc--CCcee
Q 048597          143 --QENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT-NSRVVCGQM--EATML  210 (294)
Q Consensus       143 --~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~~~--~~~~~  210 (294)
                        .....++. ..+.+.+     .++.-++++|+++.  ...+..+...+........+|++| ....+...+  .+..+
T Consensus        95 aas~~~vd~i-r~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~  173 (559)
T PRK05563         95 AASNNGVDEI-RDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRF  173 (559)
T ss_pred             ccccCCHHHH-HHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEE
Confidence              11222222 2233322     35667889999975  345666655554333344445444 333332211  12338


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      .+.+++.++....+...+...+....   .+....|++.++|.+..+.
T Consensus       174 ~f~~~~~~ei~~~L~~i~~~egi~i~---~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        174 DFKRISVEDIVERLKYILDKEGIEYE---DEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHH
Confidence            89999999988888876644332122   2456778888888775443

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.29  E-value=4.9e-05  Score=69.86  Aligned_cols=165  Identities=18%  Similarity=0.166  Sum_probs=92.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhH---------------HHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKK---------------IQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVL  165 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~---------------i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~Ll  165 (294)
                      ...+.|+|+.|+|||+|++.+.+...               ....+...+.       ....    ..+.+.+.. .-+|
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~-------~~~~----~~~~~~~~~-~dlL  203 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALR-------NNKM----EEFKEKYRS-VDLL  203 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHH-------cCCH----HHHHHHHHh-CCEE
Confidence            45789999999999999998854221               1111111110       0011    122233322 3489


Q ss_pred             EEccccCcc---ch-hhhcCCcCC-CCCCcEEEEecCChH---------HhhccCCce-eecCCCCHHHHHHHHHHHhCC
Q 048597          166 LLDDIWEHI---NL-NKLGVPLQY-LHLGSKIVFTTNSRV---------VCGQMEATM-LNASPLRDEEAWRLFEEAVGR  230 (294)
Q Consensus       166 vlDdv~~~~---~~-~~l~~~l~~-~~~gs~iivTtr~~~---------v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~  230 (294)
                      +|||++...   .+ +.+...+.. ...|..+|+|+....         +...+.... +.+.+.+.++-..++.+.+..
T Consensus       204 iiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~  283 (405)
T TIGR00362       204 LIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEE  283 (405)
T ss_pred             EEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHH
Confidence            999997521   11 122222211 123456777776421         223333333 889999999999999988855


Q ss_pred             CCCCCCCCHHHHHHHHHHhCCCChHHHHH----HH---HHHcCCCCHHHHHHHHHHH
Q 048597          231 YVLDSHPDIPELAKTMAEECCCLPLALKT----VG---RAMRSISSIEEWEHAIKII  280 (294)
Q Consensus       231 ~~~~~~~~~~~~~~~I~~~c~GlPlai~~----i~---~~L~~~~~~~~w~~~l~~l  280 (294)
                      .....+   .++...|++.+.|.+-.+.-    +.   ......-+....+.++..+
T Consensus       284 ~~~~l~---~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~  337 (405)
T TIGR00362       284 EGLELP---DEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDL  337 (405)
T ss_pred             cCCCCC---HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHh
Confidence            432222   46778888888887654332    22   1222225667777777765

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).

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=2.3e-05  Score=75.31  Aligned_cols=177  Identities=14%  Similarity=0.116  Sum_probs=102.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCCC---
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLST---  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~~---  139 (294)
                      ..++|.+..++.|.+++..+. -...+.++|+.|+||||+|+.+....               ..-..|........   
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~~~l   95 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNIHEL   95 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCceEEe
Confidence            467999999999999998761 33568999999999999988762211               00011111100000   


Q ss_pred             CCcccCChHHHHHHHHHH----hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec-CChHHhhccC--Ccee
Q 048597          140 KSWQENSFEDKALDIAGI----LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT-NSRVVCGQME--ATML  210 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~----l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~~~~--~~~~  210 (294)
                      ........++....+...    ..+++-++|+|++..  ...++.+...+..-...+.+|++| ....+.....  +..+
T Consensus        96 d~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv  175 (614)
T PRK14971         96 DAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIF  175 (614)
T ss_pred             cccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhhee
Confidence            000112233333322111    134566889999876  345666666555443455665544 4344332222  2339


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      ++.+++.++....+.+.+...+....   .+....|++.++|-.--+.
T Consensus       176 ~f~~ls~~ei~~~L~~ia~~egi~i~---~~al~~La~~s~gdlr~al  220 (614)
T PRK14971        176 DFNRIQVADIVNHLQYVASKEGITAE---PEALNVIAQKADGGMRDAL  220 (614)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHH
Confidence            99999999999888877654432222   2456889999999665443

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.26  E-value=3e-05  Score=74.99  Aligned_cols=175  Identities=13%  Similarity=0.110  Sum_probs=100.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---------HHHHHHHHHhCCCCC-----Ccc
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---------KIQADIGKKIGLSTK-----SWQ  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------~i~~~i~~~~~~~~~-----~~~  143 (294)
                      ..++|.+..+..|..++..+. -.+.+.++||.|+||||+|+.+....         ..........+....     ...
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieidaas   96 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMDAAS   96 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEeccc
Confidence            467999999999999998752 34567899999999999998882110         000000000111000     000


Q ss_pred             cCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEE-EecCChHHhhc-c-CCceeecC
Q 048597          144 ENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIV-FTTNSRVVCGQ-M-EATMLNAS  213 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~ii-vTtr~~~v~~~-~-~~~~~~l~  213 (294)
                      ....++ ...+.+.+     .+++-++|+|+++.  ...+..+...+......+.+| +|+....+... . .+..+++.
T Consensus        97 n~~vd~-IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~  175 (725)
T PRK07133         97 NNGVDE-IRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFR  175 (725)
T ss_pred             cCCHHH-HHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEcc
Confidence            112222 22333333     35667999999875  345666655554333344444 44444444321 2 23349999


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHH
Q 048597          214 PLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLAL  257 (294)
Q Consensus       214 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai  257 (294)
                      +++.++....+...+........   .+.+..|++.++|.+--+
T Consensus       176 ~L~~eeI~~~L~~il~kegI~id---~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        176 RISEDEIVSRLEFILEKENISYE---KNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHH
Confidence            99999998888876543321111   245678899998876433

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

Probab=98.26  E-value=3.7e-05  Score=70.13  Aligned_cols=193  Identities=13%  Similarity=0.110  Sum_probs=103.1

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----HH-HHHHHHhCCCCCC
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ-ADIGKKIGLSTKS  141 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~-~~i~~~~~~~~~~  141 (294)
                      .+.|.+..+++|.+.+...           -..++-+.++|++|+|||+||+.+.+...     +. ..+....      
T Consensus       146 digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~------  219 (398)
T PTZ00454        146 DIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKY------  219 (398)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHh------
Confidence            4778888888777766421           12467899999999999999999843221     10 0111100      


Q ss_pred             cccCChHHHHHHHHHHhccCCeEEEEccccCcc------------c----hhhhcCCcC--CCCCCcEEEEecCChHHhh
Q 048597          142 WQENSFEDKALDIAGILSRKRFVLLLDDIWEHI------------N----LNKLGVPLQ--YLHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~------------~----~~~l~~~l~--~~~~gs~iivTtr~~~v~~  203 (294)
                       .......+...+.......+.+|++|++....            .    +..+...+.  ....+..+|+||.......
T Consensus       220 -~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LD  298 (398)
T PTZ00454        220 -LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLD  298 (398)
T ss_pred             -cchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCC
Confidence             01111222222222334678999999976410            0    111111111  1223556788887544321


Q ss_pred             --cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH----HHHHHHH--HcCC---C
Q 048597          204 --QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA----LKTVGRA--MRSI---S  268 (294)
Q Consensus       204 --~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla----i~~i~~~--L~~~---~  268 (294)
                        ..   .... +++...+.++...+|.............++    .++++.+.|+.-|    +..-|++  ++..   -
T Consensus       299 pAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~----~~la~~t~g~sgaDI~~l~~eA~~~A~r~~~~~i  374 (398)
T PTZ00454        299 PALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDL----EDFVSRPEKISAADIAAICQEAGMQAVRKNRYVI  374 (398)
T ss_pred             HHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCH----HHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCCcc
Confidence              11   2233 888888998888888866643332222333    4556666665432    2222332  2222   3


Q ss_pred             CHHHHHHHHHHHHh
Q 048597          269 SIEEWEHAIKIILR  282 (294)
Q Consensus       269 ~~~~w~~~l~~l~~  282 (294)
                      +.++++.++.....
T Consensus       375 ~~~df~~A~~~v~~  388 (398)
T PTZ00454        375 LPKDFEKGYKTVVR  388 (398)
T ss_pred             CHHHHHHHHHHHHh
Confidence            46677777776544

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=4.8e-05  Score=72.39  Aligned_cols=177  Identities=15%  Similarity=0.108  Sum_probs=103.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~~~~---~~  140 (294)
                      ..++|.+..+..|..++..+. -.+.+.++|+.|+||||+|+.+....-              .-..+...-...   ..
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~~id   94 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVIEID   94 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeEEec
Confidence            468999999999999998752 345789999999999999988722110              011111110000   00


Q ss_pred             CcccCChHHHHHHHHHH-----hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhhc-c-CCcee
Q 048597          141 SWQENSFEDKALDIAGI-----LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQ-M-EATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~-----l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~-~-~~~~~  210 (294)
                      .......++... +.+.     ..+++-++|+|+++.  ...++.+...+......+.+|++|.. ..+... . .+..+
T Consensus        95 gas~~~vddIr~-l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~~  173 (563)
T PRK06647         95 GASNTSVQDVRQ-IKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHF  173 (563)
T ss_pred             CcccCCHHHHHH-HHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceEE
Confidence            001122333322 2211     235667899999876  34566666666544445566655543 333221 1 12238


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      ++.+++.++....+.+.+.......   -.+....|++.++|.+-.+..
T Consensus       174 ~f~~l~~~el~~~L~~i~~~egi~i---d~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        174 NFRLLSLEKIYNMLKKVCLEDQIKY---EDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             EecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHH
Confidence            9999999998888887664433222   135567788999997754433

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

Probab=98.24  E-value=1.4e-05  Score=73.00  Aligned_cols=127  Identities=20%  Similarity=0.136  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHH-hCCCCCCcccCChHHHHHHHHHHh---cc
Q 048597           85 LLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKK-IGLSTKSWQENSFEDKALDIAGIL---SR  160 (294)
Q Consensus        85 ~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~-~~~~~~~~~~~~~~~~~~~l~~~l---~~  160 (294)
                      .-..++.+.+...  . .++.|.||.++|||||++.+      .+..... +.....+ ...+...+.+.+....   ..
T Consensus        24 ~~~~~l~~~~~~~--~-~i~~i~GpR~~GKTtll~~l------~~~~~~~~iy~~~~d-~~~~~~~l~d~~~~~~~~~~~   93 (398)
T COG1373          24 KLLPRLIKKLDLR--P-FIILILGPRQVGKTTLLKLL------IKGLLEEIIYINFDD-LRLDRIELLDLLRAYIELKER   93 (398)
T ss_pred             hhhHHHHhhcccC--C-cEEEEECCccccHHHHHHHH------HhhCCcceEEEEecc-hhcchhhHHHHHHHHHHhhcc
Confidence            3444555554444  2 29999999999999998443      1111111 1111111 0111122222222222   23


Q ss_pred             CCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHH-----hhcc-CCce-eecCCCCHHHHHH
Q 048597          161 KRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVV-----CGQM-EATM-LNASPLRDEEAWR  222 (294)
Q Consensus       161 kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v-----~~~~-~~~~-~~l~~L~~~~~~~  222 (294)
                      ++..++||+|.....|......+.+..+. ++++|+.+...     +... +-.. +++-|||-.+-..
T Consensus        94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            67899999999999999887777766555 78888877554     2222 2223 9999999888764

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

Probab=98.24  E-value=6.1e-05  Score=65.23  Aligned_cols=179  Identities=16%  Similarity=0.120  Sum_probs=102.4

Q ss_pred             Cceeehh---HHHHHHHHHHhcCC-CCceEEEEEcCCCChHHHHHHHh-------------------------hChhHHH
Q 048597           78 RTVIRQE---LLLDRVWRFVTDQE-RNRGIIGLYGTGGVGKTTLLKQR-------------------------ANLKKIQ  128 (294)
Q Consensus        78 ~~~vGr~---~~~~~l~~~L~~~~-~~~~vi~I~G~~GiGKTtLa~~v-------------------------~~~~~i~  128 (294)
                      +..||..   ..++.+.+++..+. ...+.+.|+|.+|.|||++++..                         ++..++.
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y  113 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFY  113 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHH
Confidence            4556654   34555555555542 35678999999999999999998                         5666788


Q ss_pred             HHHHHHhCCCCCCcccCChHHHHHHHHHHhc-cCCeEEEEccccCcc--------chhhhcCCcCCCCCCcEEEEecCCh
Q 048597          129 ADIGKKIGLSTKSWQENSFEDKALDIAGILS-RKRFVLLLDDIWEHI--------NLNKLGVPLQYLHLGSKIVFTTNSR  199 (294)
Q Consensus       129 ~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~kr~LlvlDdv~~~~--------~~~~l~~~l~~~~~gs~iivTtr~~  199 (294)
                      ..|+..++.+...  ......+.......++ -+--+||+|++++.-        ..-.+...+...-.=+-|.+.|+..
T Consensus       114 ~~IL~~lgaP~~~--~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A  191 (302)
T PF05621_consen  114 SAILEALGAPYRP--RDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREA  191 (302)
T ss_pred             HHHHHHhCcccCC--CCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHH
Confidence            8999999876542  3344444444445554 345589999998721        1111112222222223445555433


Q ss_pred             HH--------hhccCCceeecCCCCH-HHHHHHHHHHh--CCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          200 VV--------CGQMEATMLNASPLRD-EEAWRLFEEAV--GRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       200 ~v--------~~~~~~~~~~l~~L~~-~~~~~Lf~~~~--~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      .-        ++....  +.+..... ++...|+..-.  ..-...+.-...++++.|...|+|+.=-+..+
T Consensus       192 ~~al~~D~QLa~RF~~--~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  192 YRALRTDPQLASRFEP--FELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHHhccCHHHHhccCC--ccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            22        222222  44444432 34445543321  11121233345688999999999998555443

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

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.23  E-value=4.8e-05  Score=73.21  Aligned_cols=178  Identities=13%  Similarity=0.088  Sum_probs=102.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh----------------HHHHHHHHHhCCCC--
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK----------------KIQADIGKKIGLST--  139 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~----------------~i~~~i~~~~~~~~--  139 (294)
                      ..++|.+.....|..++..+. -...+.++|+.|+||||+|+.+....                ...+.+........  
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~e   94 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVIE   94 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEEE
Confidence            457899999999999888752 23578899999999999999882211                11111211111100  


Q ss_pred             -CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCC-hHHhhcc--CCc
Q 048597          140 -KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNS-RVVCGQM--EAT  208 (294)
Q Consensus       140 -~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~-~~v~~~~--~~~  208 (294)
                       ........+...+.+ +.+     .+++-++|+|+++.  ...++.+...+......+.+|++|.+ ..+...+  .+.
T Consensus        95 i~~~~~~~vd~IReii-~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrSRc~  173 (620)
T PRK14948         95 IDAASNTGVDNIRELI-ERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQ  173 (620)
T ss_pred             EeccccCCHHHHHHHH-HHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHhhee
Confidence             000112232332222 222     25566899999976  34566665555443334555555543 2232211  223


Q ss_pred             eeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          209 MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       209 ~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      .+++.+++.++....+...+........   .+....|++.++|.+..+..+
T Consensus       174 ~~~f~~l~~~ei~~~L~~ia~kegi~is---~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        174 RFDFRRIPLEAMVQHLSEIAEKESIEIE---PEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            3888899998888877766644321222   245688999999987655443

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2.2e-05  Score=75.08  Aligned_cols=178  Identities=12%  Similarity=0.069  Sum_probs=100.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLST---K  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~~---~  140 (294)
                      ..++|.+..+..|.+++..+. -...+.++|+.|+||||+|+.+....              ..-..|...-....   .
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~eid   94 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVFEID   94 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCeeeee
Confidence            468999999999999988761 23567899999999999998872211              11111111110000   0


Q ss_pred             CcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec-CChHHhhccC--Ccee
Q 048597          141 SWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT-NSRVVCGQME--ATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~~~~--~~~~  210 (294)
                      .......++. ..+.+.+     .+++-++|+|+++.  ....+.+...+......+.+|++| ....+.....  +..+
T Consensus        95 ~~s~~~v~~i-r~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SRc~~~  173 (576)
T PRK14965         95 GASNTGVDDI-RELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRF  173 (576)
T ss_pred             ccCccCHHHH-HHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHhhhhh
Confidence            0011122222 2333333     34556899999975  344555655554333345555444 4444432221  2238


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKTV  260 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~i  260 (294)
                      ++.+++.++....+...+...+....   .+....|++.++|.. .++..+
T Consensus       174 ~f~~l~~~~i~~~L~~i~~~egi~i~---~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        174 DFRRIPLQKIVDRLRYIADQEGISIS---DAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             hcCCCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            89999999888877766543331111   245677888888865 344443

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

Probab=98.22  E-value=3.3e-06  Score=83.19  Aligned_cols=146  Identities=18%  Similarity=0.218  Sum_probs=80.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH---HHHHH-HHHhC-CCC-----CCcccCCh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK---IQADI-GKKIG-LST-----KSWQENSF  147 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---i~~~i-~~~~~-~~~-----~~~~~~~~  147 (294)
                      +.++||++++++++..|...  ...-+.++|++|+|||++|+.+.....   +-..+ ...++ +..     ........
T Consensus       182 ~~~igr~~ei~~~~~~L~~~--~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~  259 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRR--KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDF  259 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchH
Confidence            35899999999999988776  445567999999999999987733210   00000 00000 000     00001122


Q ss_pred             HHHHHHHHHHh-ccCCeEEEEccccCcc----------chhhh-cCCcCCCCCC-cEEEEecCChHH--------hhccC
Q 048597          148 EDKALDIAGIL-SRKRFVLLLDDIWEHI----------NLNKL-GVPLQYLHLG-SKIVFTTNSRVV--------CGQME  206 (294)
Q Consensus       148 ~~~~~~l~~~l-~~kr~LlvlDdv~~~~----------~~~~l-~~~l~~~~~g-s~iivTtr~~~v--------~~~~~  206 (294)
                      +.....+.+.+ ..++.+|++|+++...          +...+ ...+.   .| -++|-+|...+.        +-.-.
T Consensus       260 e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~---~g~i~~IgaTt~~e~~~~~~~d~al~rR  336 (731)
T TIGR02639       260 EERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS---SGKLRCIGSTTYEEYKNHFEKDRALSRR  336 (731)
T ss_pred             HHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh---CCCeEEEEecCHHHHHHHhhhhHHHHHh
Confidence            23333333333 3467899999997421          11222 22222   23 345555543221        11112


Q ss_pred             CceeecCCCCHHHHHHHHHHHh
Q 048597          207 ATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       207 ~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                      ...+++.+++.++..+++....
T Consensus       337 f~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       337 FQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             CceEEeCCCCHHHHHHHHHHHH
Confidence            2349999999999999998654

>PF14516 AAA_35: AAA-like domain

Probab=98.21  E-value=0.00015  Score=64.87  Aligned_cols=181  Identities=14%  Similarity=0.144  Sum_probs=104.8

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh------------------------hChhHHHH---
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR------------------------ANLKKIQA---  129 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v------------------------~~~~~i~~---  129 (294)
                      .+..|.|...-+++.+.+...   -..+.|.|+..+|||||+..+                        .+..+..+   
T Consensus        10 ~~~Yi~R~~~e~~~~~~i~~~---G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~   86 (331)
T PF14516_consen   10 SPFYIERPPAEQECYQEIVQP---GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFC   86 (331)
T ss_pred             CCcccCchHHHHHHHHHHhcC---CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHH
Confidence            456789986777777777763   379999999999999999888                        12222333   


Q ss_pred             -HHHHHhCCCCCC---c--ccCChHHHHHHHHHHh---ccCCeEEEEccccCccc---h-hhhcCCc----CCCC----C
Q 048597          130 -DIGKKIGLSTKS---W--QENSFEDKALDIAGIL---SRKRFVLLLDDIWEHIN---L-NKLGVPL----QYLH----L  188 (294)
Q Consensus       130 -~i~~~~~~~~~~---~--~~~~~~~~~~~l~~~l---~~kr~LlvlDdv~~~~~---~-~~l~~~l----~~~~----~  188 (294)
                       .+..++++...-   +  ...+.......+.+.+   .+++.+|+||++.....   + +++...+    ....    .
T Consensus        87 ~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~  166 (331)
T PF14516_consen   87 EEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIW  166 (331)
T ss_pred             HHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCccc
Confidence             334444432210   0  0112223333344433   26899999999975211   1 1111111    1000    1


Q ss_pred             Cc--EEEEecCChHHh-----hccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          189 GS--KIVFTTNSRVVC-----GQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       189 gs--~iivTtr~~~v~-----~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      .+  -|++.+......     ...+... +.|.+++.++...|+.+.-..    ..+   ...++|...+||+|.-+..+
T Consensus       167 ~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~----~~~---~~~~~l~~~tgGhP~Lv~~~  239 (331)
T PF14516_consen  167 QKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE----FSQ---EQLEQLMDWTGGHPYLVQKA  239 (331)
T ss_pred             ceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc----CCH---HHHHHHHHHHCCCHHHHHHH
Confidence            11  122222111111     1112223 899999999999998775322    111   22789999999999999999


Q ss_pred             HHHHcCC
Q 048597          261 GRAMRSI  267 (294)
Q Consensus       261 ~~~L~~~  267 (294)
                      +..+..+
T Consensus       240 ~~~l~~~  246 (331)
T PF14516_consen  240 CYLLVEE  246 (331)
T ss_pred             HHHHHHc
Confidence            9999763

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.20  E-value=8.5e-06  Score=81.26  Aligned_cols=145  Identities=17%  Similarity=0.183  Sum_probs=79.2

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH---HHHHHH-HHhC-C------CCCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK---IQADIG-KKIG-L------STKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---i~~~i~-~~~~-~------~~~~~~~~~  146 (294)
                      ..++||+++++++++.|...  ...-+.++|++|+|||++|..+.....   +-..+. ..++ +      ....+ ...
T Consensus       179 ~~~igr~~ei~~~~~~L~r~--~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~-~ge  255 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRR--TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKY-RGE  255 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccc--ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCC-ccH
Confidence            35799999999999999876  344557999999999999988732210   000000 0000 0      00000 111


Q ss_pred             hHHHHHHHHHHh-ccCCeEEEEccccCcc---------chhhhcCCcCCCCCCcEEEEecCChHHhh--------ccCCc
Q 048597          147 FEDKALDIAGIL-SRKRFVLLLDDIWEHI---------NLNKLGVPLQYLHLGSKIVFTTNSRVVCG--------QMEAT  208 (294)
Q Consensus       147 ~~~~~~~l~~~l-~~kr~LlvlDdv~~~~---------~~~~l~~~l~~~~~gs~iivTtr~~~v~~--------~~~~~  208 (294)
                      .++....+.+.+ ..++.+|++|+++...         +...+..+....+ .-++|.+|.......        .....
T Consensus       256 ~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg-~l~~IgaTt~~ey~~~ie~D~aL~rRf~  334 (821)
T CHL00095        256 FEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG-ELQCIGATTLDEYRKHIEKDPALERRFQ  334 (821)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC-CcEEEEeCCHHHHHHHHhcCHHHHhcce
Confidence            222333333333 3567899999997421         1222322221111 235666665544311        11222


Q ss_pred             eeecCCCCHHHHHHHHHH
Q 048597          209 MLNASPLRDEEAWRLFEE  226 (294)
Q Consensus       209 ~~~l~~L~~~~~~~Lf~~  226 (294)
                      .+.+...+.++...++..
T Consensus       335 ~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        335 PVYVGEPSVEETIEILFG  352 (821)
T ss_pred             EEecCCCCHHHHHHHHHH
Confidence            378888898888888764

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.19  E-value=4.7e-05  Score=70.55  Aligned_cols=166  Identities=18%  Similarity=0.166  Sum_probs=91.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVL  165 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~Ll  165 (294)
                      ...+.|+|++|+|||+|++.+.+..               +....+...+.       ....    ..+.+....+.-+|
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~-------~~~~----~~f~~~~~~~~dvL  198 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMK-------EGKL----NEFREKYRKKVDVL  198 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHh-------cccH----HHHHHHHHhcCCEE
Confidence            4569999999999999999885431               11111211111       0011    12333333345689


Q ss_pred             EEccccCc---cch-hhhcCCcCC-CCCCcEEEEecCC-hH--------HhhccCCce-eecCCCCHHHHHHHHHHHhCC
Q 048597          166 LLDDIWEH---INL-NKLGVPLQY-LHLGSKIVFTTNS-RV--------VCGQMEATM-LNASPLRDEEAWRLFEEAVGR  230 (294)
Q Consensus       166 vlDdv~~~---~~~-~~l~~~l~~-~~~gs~iivTtr~-~~--------v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~  230 (294)
                      ++||+...   ..+ ..+...+.. ...|..+|+||.. ..        +...+.... +.+++.+.+.-..++++.+..
T Consensus       199 lIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~  278 (440)
T PRK14088        199 LIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEI  278 (440)
T ss_pred             EEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHh
Confidence            99999742   111 122222211 1224468888753 22        122233333 889999999999999988754


Q ss_pred             CCCCCCCCHHHHHHHHHHhCCCChHHHHHHH-------HHHcCCCCHHHHHHHHHHH
Q 048597          231 YVLDSHPDIPELAKTMAEECCCLPLALKTVG-------RAMRSISSIEEWEHAIKII  280 (294)
Q Consensus       231 ~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~-------~~L~~~~~~~~w~~~l~~l  280 (294)
                      .....+   .++...|++.+.|..-.+.-+-       .+....-+...-+.++..+
T Consensus       279 ~~~~l~---~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~~~  332 (440)
T PRK14088        279 EHGELP---EEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKDF  332 (440)
T ss_pred             cCCCCC---HHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            332222   3667888888887543322211       1122224566666666655

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.19  E-value=9.3e-05  Score=69.32  Aligned_cols=179  Identities=15%  Similarity=0.070  Sum_probs=100.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH----H-----HHHH-HHHhCC-CCCC-----
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK----I-----QADI-GKKIGL-STKS-----  141 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~----i-----~~~i-~~~~~~-~~~~-----  141 (294)
                      ..++|.+..+..+.+++..+. -.+.+.++|+.|+||||+|+.+.....    .     -.+. ...+.. ...+     
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eid   94 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEID   94 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEe
Confidence            457899999999999998752 345677899999999999988722110    0     0000 000000 0000     


Q ss_pred             -cccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec-CChHHhhc-c-CCcee
Q 048597          142 -WQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT-NSRVVCGQ-M-EATML  210 (294)
Q Consensus       142 -~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt-r~~~v~~~-~-~~~~~  210 (294)
                       ......++ ...+.+.+     .+++-++|+|+++.  ....+.+...+........+|++| +...+... . .+..+
T Consensus        95 aas~~gvd~-ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc~~i  173 (486)
T PRK14953         95 AASNRGIDD-IRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRF  173 (486)
T ss_pred             CccCCCHHH-HHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhceEE
Confidence             01112222 22333333     35667999999875  334555544444333344555444 33333211 1 22348


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      ++.+++.++....+.+.+........   .+....|++.++|.+..+..+.
T Consensus       174 ~f~~ls~~el~~~L~~i~k~egi~id---~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        174 IFSKPTKEQIKEYLKRICNEEKIEYE---EKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             EcCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999988888876644332222   2456778888999776444433

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.19  E-value=3.9e-05  Score=67.03  Aligned_cols=142  Identities=11%  Similarity=0.087  Sum_probs=74.6

Q ss_pred             ceeehhHHHHHHHHHHh---cC----------CCCceEEEEEcCCCChHHHHHHHhhChhH------------HH-HHHH
Q 048597           79 TVIRQELLLDRVWRFVT---DQ----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK------------IQ-ADIG  132 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~---~~----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~------------i~-~~i~  132 (294)
                      .++|.+..+++|.++..   ..          .....-+.++|++|+||||+|+.+.....            +. ..+.
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            46887766666544322   11          01223688999999999999976632111            00 0111


Q ss_pred             HHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCc-----------cchhhhcCCcCCCCCCcEEEEecCChHH
Q 048597          133 KKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEH-----------INLNKLGVPLQYLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~-----------~~~~~l~~~l~~~~~gs~iivTtr~~~v  201 (294)
                      ..+       ...+.......+.+   -..-+|+||++...           +.+..+...+.....+.+||+++.....
T Consensus       103 ~~~-------~g~~~~~~~~~~~~---a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~  172 (284)
T TIGR02880       103 GQY-------IGHTAPKTKEILKR---AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRM  172 (284)
T ss_pred             Hhh-------cccchHHHHHHHHH---ccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHH
Confidence            110       01111111111221   23368999999631           1223333333334445567777654322


Q ss_pred             hhcc--C-------CceeecCCCCHHHHHHHHHHHhCC
Q 048597          202 CGQM--E-------ATMLNASPLRDEEAWRLFEEAVGR  230 (294)
Q Consensus       202 ~~~~--~-------~~~~~l~~L~~~~~~~Lf~~~~~~  230 (294)
                      -...  .       ...+++.+++.++...++...+..
T Consensus       173 ~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~  210 (284)
T TIGR02880       173 DSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKE  210 (284)
T ss_pred             HHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHH
Confidence            1111  1       223999999999999999887744

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.19  E-value=4.3e-05  Score=72.09  Aligned_cols=193  Identities=15%  Similarity=0.086  Sum_probs=100.9

Q ss_pred             CceeehhHHHHHHHHHHh---cC-------CCCceEEEEEcCCCChHHHHHHHhhChhHH-----H-HHHHHHhCCCCCC
Q 048597           78 RTVIRQELLLDRVWRFVT---DQ-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKI-----Q-ADIGKKIGLSTKS  141 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~---~~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i-----~-~~i~~~~~~~~~~  141 (294)
                      ..++|.+..++++.+++.   ..       ....+-+.++||+|+|||+||+.+.+...+     . ..+....      
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~------  128 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF------  128 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHH------
Confidence            457888776665555443   21       123456899999999999999998432110     0 0010000      


Q ss_pred             cccCChHHHHHHHHHHhccCCeEEEEccccCcc------------chhh----hcCCcC--CCCCCcEEEEecCChHH--
Q 048597          142 WQENSFEDKALDIAGILSRKRFVLLLDDIWEHI------------NLNK----LGVPLQ--YLHLGSKIVFTTNSRVV--  201 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~------------~~~~----l~~~l~--~~~~gs~iivTtr~~~v--  201 (294)
                       .......+...+.......+++|+|||++...            .+..    +...+.  ....+..||.||.....  
T Consensus       129 -~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld  207 (495)
T TIGR01241       129 -VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLD  207 (495)
T ss_pred             -hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcC
Confidence             01112223333333334667999999996521            1111    111111  12234456666655432  


Q ss_pred             ---hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHHHHH---H--HcCC---C
Q 048597          202 ---CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKTVGR---A--MRSI---S  268 (294)
Q Consensus       202 ---~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~i~~---~--L~~~---~  268 (294)
                         ........ +++...+.++-.++|...+.........+    ...+++.+.|.- -.+..+..   +  .+.+   -
T Consensus       208 ~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~G~sgadl~~l~~eA~~~a~~~~~~~i  283 (495)
T TIGR01241       208 PALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVD----LKAVARRTPGFSGADLANLLNEAALLAARKNKTEI  283 (495)
T ss_pred             HHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchh----HHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCC
Confidence               11122334 88999999888888887764432121112    357888888744 33333332   1  1211   3


Q ss_pred             CHHHHHHHHHHHH
Q 048597          269 SIEEWEHAIKIIL  281 (294)
Q Consensus       269 ~~~~w~~~l~~l~  281 (294)
                      +.++.+.+++...
T Consensus       284 ~~~~l~~a~~~~~  296 (495)
T TIGR01241       284 TMNDIEEAIDRVI  296 (495)
T ss_pred             CHHHHHHHHHHHh
Confidence            5677777766654

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.

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

Probab=98.17  E-value=1.5e-06  Score=70.62  Aligned_cols=43  Identities=26%  Similarity=0.377  Sum_probs=29.5

Q ss_pred             ceeehhHHHHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHh
Q 048597           79 TVIRQELLLDRVWRFVTD-QERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~-~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|+||+++++++...|.. .+...+.+.|+|++|+|||+|++.+
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~   44 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRAL   44 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHH
Confidence            379999999999999942 2346799999999999999999977

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.16  E-value=3.2e-05  Score=74.17  Aligned_cols=47  Identities=19%  Similarity=0.280  Sum_probs=38.3

Q ss_pred             CceeehhHHHHHHHHHHhcCC---CCceEEEEEcCCCChHHHHHHHhhCh
Q 048597           78 RTVIRQELLLDRVWRFVTDQE---RNRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~---~~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ..++|.++.++++..++....   ....++.|+|++|+||||+++.+...
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999987632   23467999999999999999999543

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.16  E-value=0.0001  Score=71.26  Aligned_cols=182  Identities=20%  Similarity=0.170  Sum_probs=111.3

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-------------------hChhHHHHHHHHHhCC
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-------------------ANLKKIQADIGKKIGL  137 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-------------------~~~~~i~~~i~~~~~~  137 (294)
                      ....|-|.    ++++.|... .+.+.+.|.-|+|.|||||+.+.                   -+..+....++..++-
T Consensus        18 ~~~~v~R~----rL~~~L~~~-~~~RL~li~APAGfGKttl~aq~~~~~~~~~~v~Wlslde~dndp~rF~~yLi~al~~   92 (894)
T COG2909          18 PDNYVVRP----RLLDRLRRA-NDYRLILISAPAGFGKTTLLAQWRELAADGAAVAWLSLDESDNDPARFLSYLIAALQQ   92 (894)
T ss_pred             cccccccH----HHHHHHhcC-CCceEEEEeCCCCCcHHHHHHHHHHhcCcccceeEeecCCccCCHHHHHHHHHHHHHH
Confidence            34456565    455555543 26799999999999999999887                   2233455555555542


Q ss_pred             CCCC-----------cccCChHHHHHHHHHHhc--cCCeEEEEccccCc--cchh-hhcCCcCCCCCCcEEEEecCChHH
Q 048597          138 STKS-----------WQENSFEDKALDIAGILS--RKRFVLLLDDIWEH--INLN-KLGVPLQYLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       138 ~~~~-----------~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~--~~~~-~l~~~l~~~~~gs~iivTtr~~~v  201 (294)
                      ..+.           .+..+...+...+...+.  .+++.+||||.+-.  ..+. .+...+.....+-.+++|||+..-
T Consensus        93 ~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~  172 (894)
T COG2909          93 ATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQ  172 (894)
T ss_pred             hCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCC
Confidence            1111           112334445555555553  56899999998752  2222 222222333346789999998764


Q ss_pred             hhccC--Cce--eecC----CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCC
Q 048597          202 CGQME--ATM--LNAS----PLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISS  269 (294)
Q Consensus       202 ~~~~~--~~~--~~l~----~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~  269 (294)
                      .....  ...  ++++    .|+.+|+-++|.......-      -..-.+.+.+..+|=+-|+..++=.++.+.+
T Consensus       173 l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~L------d~~~~~~L~~~teGW~~al~L~aLa~~~~~~  242 (894)
T COG2909         173 LGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPL------DAADLKALYDRTEGWAAALQLIALALRNNTS  242 (894)
T ss_pred             CcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCC------ChHHHHHHHhhcccHHHHHHHHHHHccCCCc
Confidence            33211  111  3332    3789999999987653321      1234688999999999999999888874333

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.13  E-value=0.00013  Score=64.89  Aligned_cols=153  Identities=12%  Similarity=0.052  Sum_probs=88.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh-----hChh---------HHHHHHHHHhC-----CCCCC-cccCChHHHHHHHHHHh-
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR-----ANLK---------KIQADIGKKIG-----LSTKS-WQENSFEDKALDIAGIL-  158 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v-----~~~~---------~i~~~i~~~~~-----~~~~~-~~~~~~~~~~~~l~~~l-  158 (294)
                      -...+.++|+.|+||||+|..+     +...         ..-+.|...-.     +.... ......++..+ +.+.+ 
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~-l~~~~~   99 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRE-LVSFVV   99 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHH-HHHHHh
Confidence            4567999999999999999887     1110         01111111100     00000 01123333332 33333 


Q ss_pred             ----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChHH-hhc--cCCceeecCCCCHHHHHHHHHHHhC
Q 048597          159 ----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRVV-CGQ--MEATMLNASPLRDEEAWRLFEEAVG  229 (294)
Q Consensus       159 ----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~v-~~~--~~~~~~~l~~L~~~~~~~Lf~~~~~  229 (294)
                          .+++-++|+|+++.  ....+.+...+.....++.+|++|.+... ...  ..+..+++.+++.+++.+.+.....
T Consensus       100 ~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~  179 (328)
T PRK05707        100 QTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALP  179 (328)
T ss_pred             hccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcc
Confidence                34555678899976  45566665566544456777777776543 211  1233499999999999988876531


Q ss_pred             CCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          230 RYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       230 ~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      ..       ..+.+..++..++|.|+.+..+
T Consensus       180 ~~-------~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        180 ES-------DERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             cC-------ChHHHHHHHHHcCCCHHHHHHH
Confidence            11       1233567789999999866544

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.12  E-value=8.6e-06  Score=81.32  Aligned_cols=147  Identities=14%  Similarity=0.202  Sum_probs=78.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---HHHHHHH-HHh-CC--C----CCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---KIQADIG-KKI-GL--S----TKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---~i~~~i~-~~~-~~--~----~~~~~~~~  146 (294)
                      ..++||+.++.+++..|...  ....+.++|++|+||||||..+....   .+-..+. ..+ .+  .    ...+. ..
T Consensus       178 ~~vigr~~ei~~~i~iL~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~-g~  254 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYR-GE  254 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcC--CcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchh-hh
Confidence            35899999999999999876  44566699999999999998773211   0000000 000 00  0    00000 11


Q ss_pred             hHHHHHHHHHHh--ccCCeEEEEccccCcc---------chhhhcCCcCCCCCCcEEEEecCChHH--------hhccCC
Q 048597          147 FEDKALDIAGIL--SRKRFVLLLDDIWEHI---------NLNKLGVPLQYLHLGSKIVFTTNSRVV--------CGQMEA  207 (294)
Q Consensus       147 ~~~~~~~l~~~l--~~kr~LlvlDdv~~~~---------~~~~l~~~l~~~~~gs~iivTtr~~~v--------~~~~~~  207 (294)
                      .+.....+.+.+  .+++.+|++|+++...         +...+..+....+ .-++|-+|.....        +-.-..
T Consensus       255 ~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g-~l~~IgaTt~~e~r~~~~~d~al~rRf  333 (857)
T PRK10865        255 FEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATTLDEYRQYIEKDAALERRF  333 (857)
T ss_pred             hHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC-CCeEEEcCCCHHHHHHhhhcHHHHhhC
Confidence            222222233222  2568999999998631         1223323322211 2456656555443        111122


Q ss_pred             ceeecCCCCHHHHHHHHHHHh
Q 048597          208 TMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       208 ~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                      ..+.+...+.++...++....
T Consensus       334 ~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        334 QKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             CEEEeCCCCHHHHHHHHHHHh
Confidence            236666668888888876543

>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=98.11  E-value=7.7e-05  Score=67.42  Aligned_cols=183  Identities=14%  Similarity=0.171  Sum_probs=111.6

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHH-HHh------------------hChhHHHHHHHHHhCCC-----
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLL-KQR------------------ANLKKIQADIGKKIGLS-----  138 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa-~~v------------------~~~~~i~~~i~~~~~~~-----  138 (294)
                      |.+..++|..||...  .-.+|.|.||-|+||+.|+ .++                  -++.......+.++|..     
T Consensus         1 R~e~~~~L~~wL~e~--~~TFIvV~GPrGSGK~elV~d~~L~~r~~vL~IDC~~i~~ar~D~~~I~~lA~qvGY~PvFsw   78 (431)
T PF10443_consen    1 RKEAIEQLKSWLNEN--PNTFIVVQGPRGSGKRELVMDHVLKDRKNVLVIDCDQIVKARGDAAFIKNLASQVGYFPVFSW   78 (431)
T ss_pred             CchHHHHHHHHHhcC--CCeEEEEECCCCCCccHHHHHHHHhCCCCEEEEEChHhhhccChHHHHHHHHHhcCCCcchHH
Confidence            556789999999987  5679999999999999999 555                  23334445555555421     


Q ss_pred             ----------------C--CCcccCChH-HHHHH-------HHH-------------------Hh---ccCCeEEEEccc
Q 048597          139 ----------------T--KSWQENSFE-DKALD-------IAG-------------------IL---SRKRFVLLLDDI  170 (294)
Q Consensus       139 ----------------~--~~~~~~~~~-~~~~~-------l~~-------------------~l---~~kr~LlvlDdv  170 (294)
                                      +  ..+ ..+.+ ++...       |+.                   +|   ..++-+||+|+.
T Consensus        79 ~nSiss~IDLa~qGltGqKaGf-Ses~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVIdnF  157 (431)
T PF10443_consen   79 MNSISSFIDLAVQGLTGQKAGF-SESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVIDNF  157 (431)
T ss_pred             HHHHHHHHHHHHhhccccccCC-CCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEEcch
Confidence                            0  001 12222 22211       111                   01   123678999998


Q ss_pred             cCcc--------chhhhcCCcCCCCCCcEEEEecCChHHh----hccCCce---eecCCCCHHHHHHHHHHHhCCCCCC-
Q 048597          171 WEHI--------NLNKLGVPLQYLHLGSKIVFTTNSRVVC----GQMEATM---LNASPLRDEEAWRLFEEAVGRYVLD-  234 (294)
Q Consensus       171 ~~~~--------~~~~l~~~l~~~~~gs~iivTtr~~~v~----~~~~~~~---~~l~~L~~~~~~~Lf~~~~~~~~~~-  234 (294)
                      -...        .+.++...+...+ =.+||++|.+....    ..+...+   +.|.-.+.+.|.++...++...... 
T Consensus       158 ~~k~~~~~~iy~~laeWAa~Lv~~n-IAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~~~~~  236 (431)
T PF10443_consen  158 LHKAEENDFIYDKLAEWAASLVQNN-IAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDEDTEDS  236 (431)
T ss_pred             hccCcccchHHHHHHHHHHHHHhcC-ccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhccccccc
Confidence            6521        1112223333332 35788887665442    2333222   8899999999999999988543111 


Q ss_pred             -----------CC-----CCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCC
Q 048597          235 -----------SH-----PDIPELAKTMAEECCCLPLALKTVGRAMRSISS  269 (294)
Q Consensus       235 -----------~~-----~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~  269 (294)
                                 ..     .....-....+...||-=.-+..+++.++.-.+
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~  287 (431)
T PF10443_consen  237 SDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGES  287 (431)
T ss_pred             ccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCC
Confidence                       00     122334477889999999999999999987544

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 [].

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.11  E-value=1.4e-05  Score=79.93  Aligned_cols=146  Identities=14%  Similarity=0.215  Sum_probs=79.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH---HHHHHH-HHhC-CC------CCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK---IQADIG-KKIG-LS------TKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---i~~~i~-~~~~-~~------~~~~~~~~  146 (294)
                      ..++||+.++.+++..|...  ....+.++|++|+|||+++..+.....   +-..+. ..+. +.      ...+. ..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~-g~  249 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYR-GE  249 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhh-hh
Confidence            35899999999999999876  345556899999999999987632110   000000 0000 00      00000 11


Q ss_pred             hHHHHHHHHHHhc--cCCeEEEEccccCcc---------chhhhcCCcCCCCCC-cEEEEecCChHHhh--------ccC
Q 048597          147 FEDKALDIAGILS--RKRFVLLLDDIWEHI---------NLNKLGVPLQYLHLG-SKIVFTTNSRVVCG--------QME  206 (294)
Q Consensus       147 ~~~~~~~l~~~l~--~kr~LlvlDdv~~~~---------~~~~l~~~l~~~~~g-s~iivTtr~~~v~~--------~~~  206 (294)
                      .+.....+.+.+.  +++.+|++|+++...         +...+..+..  ..| -++|.+|.......        .-.
T Consensus       250 ~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l--~~g~i~~IgaTt~~e~r~~~~~d~al~rR  327 (852)
T TIGR03346       250 FEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPAL--ARGELHCIGATTLDEYRKYIEKDAALERR  327 (852)
T ss_pred             HHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhh--hcCceEEEEeCcHHHHHHHhhcCHHHHhc
Confidence            2222233333332  468999999998521         1222222222  223 35555555443311        112


Q ss_pred             CceeecCCCCHHHHHHHHHHHh
Q 048597          207 ATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       207 ~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                      ...+.+...+.++...++....
T Consensus       328 f~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       328 FQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             CCEEEeCCCCHHHHHHHHHHHH
Confidence            2337888889999999887543

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.10  E-value=7.5e-05  Score=70.97  Aligned_cols=192  Identities=15%  Similarity=0.129  Sum_probs=98.7

Q ss_pred             ceeehhHH--HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHH-----------HHHHHHhCCCCCCcccC
Q 048597           79 TVIRQELL--LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQ-----------ADIGKKIGLSTKSWQEN  145 (294)
Q Consensus        79 ~~vGr~~~--~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~-----------~~i~~~~~~~~~~~~~~  145 (294)
                      .++|-...  ...+..+..........+.|+|..|+|||.|++.+.+...-.           ..|...+...   ....
T Consensus       290 FvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~a---l~~~  366 (617)
T PRK14086        290 FVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINS---IRDG  366 (617)
T ss_pred             hcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHH---HHhc
Confidence            34555433  223333333322233568999999999999999885432110           0111111000   0000


Q ss_pred             ChHHHHHHHHHHhccCCeEEEEccccCc---cchh-hhcCCcCC-CCCCcEEEEecCCh---------HHhhccCCce-e
Q 048597          146 SFEDKALDIAGILSRKRFVLLLDDIWEH---INLN-KLGVPLQY-LHLGSKIVFTTNSR---------VVCGQMEATM-L  210 (294)
Q Consensus       146 ~~~~~~~~l~~~l~~kr~LlvlDdv~~~---~~~~-~l~~~l~~-~~~gs~iivTtr~~---------~v~~~~~~~~-~  210 (294)
                          ....+.+.+.. -=+|+|||+...   ..|. .+...|.. ...|..||+||...         .+...+.... +
T Consensus       367 ----~~~~f~~~y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv  441 (617)
T PRK14086        367 ----KGDSFRRRYRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLIT  441 (617)
T ss_pred             ----cHHHHHHHhhc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceE
Confidence                01122222222 247899999752   2232 22222221 12245688888752         2233444444 9


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH-------HHHcCCCCHHHHHHHHHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG-------RAMRSISSIEEWEHAIKIIL  281 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~-------~~L~~~~~~~~w~~~l~~l~  281 (294)
                      ++++.+.+.-..++.+++.......+   .++..-|++.+.+..-.+.-+-       .+....-+...-+.++..+.
T Consensus       442 ~I~~PD~EtR~aIL~kka~~r~l~l~---~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~~  516 (617)
T PRK14086        442 DVQPPELETRIAILRKKAVQEQLNAP---PEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDLI  516 (617)
T ss_pred             EcCCCCHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhh
Confidence            99999999999999988855443332   3666777777765543332221       11122245566666666553

>CHL00181 cbbX CbbX; Provisional

Probab=98.10  E-value=0.00013  Score=63.77  Aligned_cols=145  Identities=14%  Similarity=0.158  Sum_probs=75.7

Q ss_pred             CceeehhHHHHHHHHHH---hcC----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCC-Ccc
Q 048597           78 RTVIRQELLLDRVWRFV---TDQ----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTK-SWQ  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L---~~~----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~-~~~  143 (294)
                      ..++|.+..+++|.++.   .-.          ......+.++|++|+||||+|+.+....       ...+.... ...
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~-------~~~g~~~~~~~~   95 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADIL-------YKLGYIKKGHLL   95 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH-------HHcCCCCCCceE
Confidence            35688776666554432   111          1123458899999999999999984421       11111000 000


Q ss_pred             cCChHHHH--------HHHHHHhc-cCCeEEEEccccCc-----------cchhhhcCCcCCCCCCcEEEEecCChHH--
Q 048597          144 ENSFEDKA--------LDIAGILS-RKRFVLLLDDIWEH-----------INLNKLGVPLQYLHLGSKIVFTTNSRVV--  201 (294)
Q Consensus       144 ~~~~~~~~--------~~l~~~l~-~kr~LlvlDdv~~~-----------~~~~~l~~~l~~~~~gs~iivTtr~~~v--  201 (294)
                      ..+...+.        ......+. ...-+|+||++...           +....+...+.....+.+||+++.....  
T Consensus        96 ~v~~~~l~~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~  175 (287)
T CHL00181         96 TVTRDDLVGQYIGHTAPKTKEVLKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDK  175 (287)
T ss_pred             EecHHHHHHHHhccchHHHHHHHHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHH
Confidence            00011111        11112221 12359999999642           1222333333333345667777764433  


Q ss_pred             --------hhccCCceeecCCCCHHHHHHHHHHHhCC
Q 048597          202 --------CGQMEATMLNASPLRDEEAWRLFEEAVGR  230 (294)
Q Consensus       202 --------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~  230 (294)
                              ...+ ...+.+.+++.++..+++.+.+..
T Consensus       176 ~~~~np~L~sR~-~~~i~F~~~t~~el~~I~~~~l~~  211 (287)
T CHL00181        176 FYESNPGLSSRI-ANHVDFPDYTPEELLQIAKIMLEE  211 (287)
T ss_pred             HHhcCHHHHHhC-CceEEcCCcCHHHHHHHHHHHHHH
Confidence                    2222 122899999999999998887743

>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=98.07  E-value=4.7e-06  Score=63.67  Aligned_cols=21  Identities=48%  Similarity=0.542  Sum_probs=18.0

Q ss_pred             EEEEcCCCChHHHHHHHhhCh
Q 048597          104 IGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~~~  124 (294)
                      |.|+|++|+||||+|+.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            579999999999999888443

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 ....

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

Probab=98.06  E-value=8.9e-06  Score=79.71  Aligned_cols=146  Identities=19%  Similarity=0.203  Sum_probs=80.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHH-----HHHhC-C------CCCCcccC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADI-----GKKIG-L------STKSWQEN  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i-----~~~~~-~------~~~~~~~~  145 (294)
                      +.++||+.++.+++..|...  ...-+.++|++|+|||++|+.+..... ....     ...++ .      .... ...
T Consensus       186 ~~liGR~~ei~~~i~iL~r~--~~~n~LLvGppGvGKT~lae~la~~i~-~~~vP~~l~~~~~~~l~~~~llaG~~-~~G  261 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIV-QGDVPEVMADCTIYSLDIGSLLAGTK-YRG  261 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHH-hcCCCchhcCCeEEeccHHHHhcccc-hhh
Confidence            35899999999999988875  334556899999999999988742110 0000     00000 0      0000 001


Q ss_pred             ChHHHHHHHHHHh-ccCCeEEEEccccCc----------cchhhhcCCcCCCCCCcEEEEecCChHHhh--------ccC
Q 048597          146 SFEDKALDIAGIL-SRKRFVLLLDDIWEH----------INLNKLGVPLQYLHLGSKIVFTTNSRVVCG--------QME  206 (294)
Q Consensus       146 ~~~~~~~~l~~~l-~~kr~LlvlDdv~~~----------~~~~~l~~~l~~~~~gs~iivTtr~~~v~~--------~~~  206 (294)
                      ..+.....+...+ +.+..+|++|+++..          .+...+..++... ..-++|-+|.......        .-.
T Consensus       262 e~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~~E~~~~~~~D~AL~rR  340 (758)
T PRK11034        262 DFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQEFSNIFEKDRALARR  340 (758)
T ss_pred             hHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCChHHHHHHhhccHHHHhh
Confidence            1222223333333 345789999999742          1222222232222 1235555555443211        112


Q ss_pred             CceeecCCCCHHHHHHHHHHHh
Q 048597          207 ATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       207 ~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                      ...+.+.+.+.++...++....
T Consensus       341 Fq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        341 FQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             CcEEEeCCCCHHHHHHHHHHHH
Confidence            2349999999999999987543

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

Probab=98.06  E-value=0.00014  Score=67.06  Aligned_cols=198  Identities=16%  Similarity=0.110  Sum_probs=103.2

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC-CCcccCC
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST-KSWQENS  146 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~-~~~~~~~  146 (294)
                      .+.|.+..+++|.+.+.-.           -.....+.++|++|+|||+||+.+.+....  .+....+... ..+....
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~--~fi~V~~seL~~k~~Ge~  261 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA--TFLRVVGSELIQKYLGDG  261 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCC--CEEEEecchhhhhhcchH
Confidence            4678888888887776421           124567889999999999999999553210  0000000000 0000111


Q ss_pred             hHHHHHHHHHHhccCCeEEEEccccCcc------------c----hhhhcCCcC--CCCCCcEEEEecCChHHhhc--c-
Q 048597          147 FEDKALDIAGILSRKRFVLLLDDIWEHI------------N----LNKLGVPLQ--YLHLGSKIVFTTNSRVVCGQ--M-  205 (294)
Q Consensus       147 ~~~~~~~l~~~l~~kr~LlvlDdv~~~~------------~----~~~l~~~l~--~~~~gs~iivTtr~~~v~~~--~-  205 (294)
                      ...+...+.....+.+.+|+||++....            .    +..+...+.  ....+..||+||...+....  . 
T Consensus       262 ~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlR  341 (438)
T PTZ00361        262 PKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIR  341 (438)
T ss_pred             HHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhcc
Confidence            1112222222234677899999985310            0    111111111  11235578888875543221  1 


Q ss_pred             --CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH----HHHHHHHHH--cCC---CCHHHH
Q 048597          206 --EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL----ALKTVGRAM--RSI---SSIEEW  273 (294)
Q Consensus       206 --~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl----ai~~i~~~L--~~~---~~~~~w  273 (294)
                        .... +++.+.+.++..++|..+..........++    ..++..+.|+-=    ++..-|+++  +..   -+.+++
T Consensus       342 pGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl----~~la~~t~g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~  417 (438)
T PTZ00361        342 PGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDL----EEFIMAKDELSGADIKAICTEAGLLALRERRMKVTQADF  417 (438)
T ss_pred             CCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCH----HHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCccCHHHH
Confidence              1223 899999999999999877644332223334    445555555433    233333332  222   356777


Q ss_pred             HHHHHHHHh
Q 048597          274 EHAIKIILR  282 (294)
Q Consensus       274 ~~~l~~l~~  282 (294)
                      +.+++....
T Consensus       418 ~~A~~~v~~  426 (438)
T PTZ00361        418 RKAKEKVLY  426 (438)
T ss_pred             HHHHHHHHh
Confidence            777776533

>CHL00176 ftsH cell division protein; Validated

Probab=98.04  E-value=0.00027  Score=68.29  Aligned_cols=194  Identities=16%  Similarity=0.113  Sum_probs=101.6

Q ss_pred             CceeehhHHHHHHHHH---HhcCC-------CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc----c
Q 048597           78 RTVIRQELLLDRVWRF---VTDQE-------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW----Q  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~---L~~~~-------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~----~  143 (294)
                      ..+.|.++..+++.+.   +....       ...+-|.++|++|+|||+||+.+.....+-     .+.++...+    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-----~i~is~s~f~~~~~  257 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-----FFSISGSEFVEMFV  257 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eeeccHHHHHHHhh
Confidence            3577877655555444   33321       234579999999999999999984422100     000000000    0


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCc------------cc----hhhhcCCcC--CCCCCcEEEEecCChHHhh--
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEH------------IN----LNKLGVPLQ--YLHLGSKIVFTTNSRVVCG--  203 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~------------~~----~~~l~~~l~--~~~~gs~iivTtr~~~v~~--  203 (294)
                      ......+...+.......+++|+|||++..            ..    +..+...+.  ....+..+|.||.......  
T Consensus       258 g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~A  337 (638)
T CHL00176        258 GVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAA  337 (638)
T ss_pred             hhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhh
Confidence            111122233344444577899999999642            11    222221111  1233556677776543311  


Q ss_pred             ---ccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHHHHH---HH---cCC--CCH
Q 048597          204 ---QMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKTVGR---AM---RSI--SSI  270 (294)
Q Consensus       204 ---~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~i~~---~L---~~~--~~~  270 (294)
                         ...... +.+...+.++-.++|+.++......  +  ......+++.+.|.. --+..+..   ++   +.+  -+.
T Consensus       338 LlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~--~--d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~~~~It~  413 (638)
T CHL00176        338 LLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS--P--DVSLELIARRTPGFSGADLANLLNEAAILTARRKKATITM  413 (638)
T ss_pred             hhccccCceEEEECCCCHHHHHHHHHHHHhhcccc--h--hHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCCCcCH
Confidence               112233 8888899999899998877542211  1  223467888888833 22332222   11   111  355


Q ss_pred             HHHHHHHHHH
Q 048597          271 EEWEHAIKII  280 (294)
Q Consensus       271 ~~w~~~l~~l  280 (294)
                      ++.+.+++.+
T Consensus       414 ~dl~~Ai~rv  423 (638)
T CHL00176        414 KEIDTAIDRV  423 (638)
T ss_pred             HHHHHHHHHH
Confidence            6677776665

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

Probab=98.00  E-value=1.8e-05  Score=66.50  Aligned_cols=101  Identities=20%  Similarity=0.175  Sum_probs=59.9

Q ss_pred             cCceeehhHHHHHHHHHHhc--CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTD--QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~--~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      -+.++|.+...+.|++-...  ......-+.+||..|+|||+|++.+.+...-..  ++-+.+...  .-.+...+...+
T Consensus        26 l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G--LRlIev~k~--~L~~l~~l~~~l  101 (249)
T PF05673_consen   26 LDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG--LRLIEVSKE--DLGDLPELLDLL  101 (249)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC--ceEEEECHH--HhccHHHHHHHH
Confidence            45689999888877765432  112567888999999999999998844222111  122222111  122334444444


Q ss_pred             HHHhccCCeEEEEccccC---ccchhhhcCCc
Q 048597          155 AGILSRKRFVLLLDDIWE---HINLNKLGVPL  183 (294)
Q Consensus       155 ~~~l~~kr~LlvlDdv~~---~~~~~~l~~~l  183 (294)
                      +.  ...||+|++||+.=   ......+...+
T Consensus       102 ~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~L  131 (249)
T PF05673_consen  102 RD--RPYKFILFCDDLSFEEGDTEYKALKSVL  131 (249)
T ss_pred             hc--CCCCEEEEecCCCCCCCcHHHHHHHHHh
Confidence            42  45799999999842   33455554444

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.98  E-value=7.4e-05  Score=69.23  Aligned_cols=165  Identities=14%  Similarity=0.167  Sum_probs=88.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhH-------------HHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKK-------------IQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLL  167 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~-------------i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~Llvl  167 (294)
                      ...+.|+|+.|+|||+|++.+.+...             +...+...+.       ..    ....++..+ ...-+|++
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~-------~~----~~~~f~~~~-~~~dvLiI  208 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIR-------SG----EMQRFRQFY-RNVDALFI  208 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHh-------cc----hHHHHHHHc-ccCCEEEE
Confidence            45789999999999999998854321             1111111110       00    011233322 23458899


Q ss_pred             ccccCccc----hhhhcCCcCC-CCCCcEEEEecCCh---------HHhhccCCce-eecCCCCHHHHHHHHHHHhCCCC
Q 048597          168 DDIWEHIN----LNKLGVPLQY-LHLGSKIVFTTNSR---------VVCGQMEATM-LNASPLRDEEAWRLFEEAVGRYV  232 (294)
Q Consensus       168 Ddv~~~~~----~~~l~~~l~~-~~~gs~iivTtr~~---------~v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~  232 (294)
                      ||+.....    .+.+...+.. ...|..||+||...         .+...+.... +.+.+++.++...++.+++....
T Consensus       209 DDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~  288 (445)
T PRK12422        209 EDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALS  288 (445)
T ss_pred             cchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcC
Confidence            99865321    1222222211 11245788888542         1233344344 89999999999999998875443


Q ss_pred             CCCCCCHHHHHHHHHHhCCCC-hHHHHHHHHH---------HcCCCCHHHHHHHHHHH
Q 048597          233 LDSHPDIPELAKTMAEECCCL-PLALKTVGRA---------MRSISSIEEWEHAIKII  280 (294)
Q Consensus       233 ~~~~~~~~~~~~~I~~~c~Gl-Plai~~i~~~---------L~~~~~~~~w~~~l~~l  280 (294)
                      ...+   .++..-|+..+.|. |-....+-.+         ....-+.+.-+.++..+
T Consensus       289 ~~l~---~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~~~l~~~  343 (445)
T PRK12422        289 IRIE---ETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVDDIKALLHDV  343 (445)
T ss_pred             CCCC---HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            2222   35556676666643 3333222222         11224566666666654

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.97  E-value=0.00025  Score=62.77  Aligned_cols=173  Identities=13%  Similarity=0.062  Sum_probs=100.5

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC----hh----HHHHHHHHHhCCCC-----C-----
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN----LK----KIQADIGKKIGLST-----K-----  140 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~----~~----~i~~~i~~~~~~~~-----~-----  140 (294)
                      .++|.+..++.+...+..+. -.+...++|+.|+||+++|..+..    ..    .....+. ....+.     .     
T Consensus         5 ~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~-~~~hPDl~~i~p~~~~~   82 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLE-EGNHPDLLWVEPTYQHQ   82 (314)
T ss_pred             HhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccc-cCCCCCEEEEecccccc
Confidence            57899999999999988761 247999999999999999877711    10    0000110 000000     0     


Q ss_pred             C-----------------cccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec
Q 048597          141 S-----------------WQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT  196 (294)
Q Consensus       141 ~-----------------~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt  196 (294)
                      .                 ......+ ....+.+++     .+++-++|+|++..  ....+.+...+....+ +.+|++|
T Consensus        83 g~~~~~~~~~~~~~~~~~~~~I~id-~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~-~~fILi~  160 (314)
T PRK07399         83 GKLITASEAEEAGLKRKAPPQIRLE-QIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGN-GTLILIA  160 (314)
T ss_pred             ccccchhhhhhccccccccccCcHH-HHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCC-CeEEEEE
Confidence            0                 0001111 223444444     35677899999876  3445555555543333 3555555


Q ss_pred             CCh-HHhhcc--CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          197 NSR-VVCGQM--EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       197 r~~-~v~~~~--~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      .+. .+...+  .+..+++.++++++..+.+.+......    .  ......++..++|.|..+..+.
T Consensus       161 ~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~----~--~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        161 PSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI----L--NINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             CChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc----c--hhHHHHHHHHcCCCHHHHHHHH
Confidence            443 332222  223399999999999999987643211    0  1113578899999997665543

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.95  E-value=0.0003  Score=59.15  Aligned_cols=164  Identities=17%  Similarity=0.202  Sum_probs=92.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh------------------hChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHh-cc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR------------------ANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGIL-SR  160 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v------------------~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l-~~  160 (294)
                      +..++.++|.-|+|||++.+.+                  .....+...+...+..................+.... ++
T Consensus        50 ~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g  129 (269)
T COG3267          50 GQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKG  129 (269)
T ss_pred             CCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhC
Confidence            5679999999999999999944                  2333455555555543111101111222333333333 57


Q ss_pred             CC-eEEEEccccC--ccchhhhcCCcC---CCCCCcEEEEecCCh-------HHhhcc--CCce-eecCCCCHHHHHHHH
Q 048597          161 KR-FVLLLDDIWE--HINLNKLGVPLQ---YLHLGSKIVFTTNSR-------VVCGQM--EATM-LNASPLRDEEAWRLF  224 (294)
Q Consensus       161 kr-~LlvlDdv~~--~~~~~~l~~~l~---~~~~gs~iivTtr~~-------~v~~~~--~~~~-~~l~~L~~~~~~~Lf  224 (294)
                      +| ..+++||.+.  ....+.++-...   +...--+|+.....+       .+....  ...- |++.|++.++...++
T Consensus       130 ~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~yl  209 (269)
T COG3267         130 KRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAETGLYL  209 (269)
T ss_pred             CCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHHHHHHH
Confidence            77 8999999876  333443322111   111111233333211       011111  1222 899999999888888


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH
Q 048597          225 EEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRA  263 (294)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~  263 (294)
                      ..++.......+---.+....|.....|.|.+|..++..
T Consensus       210 ~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         210 RHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             HHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            877744332222222355688999999999999887653

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

Probab=97.94  E-value=0.00024  Score=64.43  Aligned_cols=125  Identities=20%  Similarity=0.238  Sum_probs=74.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhH---------------HHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeE
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKK---------------IQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFV  164 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~---------------i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~L  164 (294)
                      ....+.|+|+.|+|||.|++.+.+...               ...++...+.           +.-...+++..  .-=+
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~-----------~~~~~~Fk~~y--~~dl  178 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALR-----------DNEMEKFKEKY--SLDL  178 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHH-----------hhhHHHHHHhh--ccCe
Confidence            478999999999999999999844221               1111111110           01222344433  3348


Q ss_pred             EEEccccCc---cchh-hhcCCcCC-CCCCcEEEEecCCh---------HHhhccCCce-eecCCCCHHHHHHHHHHHhC
Q 048597          165 LLLDDIWEH---INLN-KLGVPLQY-LHLGSKIVFTTNSR---------VVCGQMEATM-LNASPLRDEEAWRLFEEAVG  229 (294)
Q Consensus       165 lvlDdv~~~---~~~~-~l~~~l~~-~~~gs~iivTtr~~---------~v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~  229 (294)
                      +++||++-.   +.|. .+...|.. ...|-.||+|++..         ....++.... +.+.+.+.+....++.+++.
T Consensus       179 llIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~  258 (408)
T COG0593         179 LLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAE  258 (408)
T ss_pred             eeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHH
Confidence            899999762   2232 22222221 12234899988542         2344455555 99999999999999999875


Q ss_pred             CCCCCCCC
Q 048597          230 RYVLDSHP  237 (294)
Q Consensus       230 ~~~~~~~~  237 (294)
                      ......++
T Consensus       259 ~~~~~i~~  266 (408)
T COG0593         259 DRGIEIPD  266 (408)
T ss_pred             hcCCCCCH
Confidence            55434433

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.93  E-value=5.1e-05  Score=71.00  Aligned_cols=152  Identities=13%  Similarity=0.082  Sum_probs=81.9

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHH-----HHHhCCCCCCc
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADI-----GKKIGLSTKSW  142 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i-----~~~~~~~~~~~  142 (294)
                      .+.|.+..++++.+.+...           -..++-+.++||+|+|||++|+.+.+.....-..     ...+.+.....
T Consensus       183 dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~eL  262 (512)
T TIGR03689       183 DIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPEL  262 (512)
T ss_pred             HcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchhh
Confidence            4678898888888876421           1245679999999999999999986532111000     00000100000


Q ss_pred             cc---CChHHHHHHHHHHh-----ccCCeEEEEccccCc---------cch-----hhhcCCcCC--CCCCcEEEEecCC
Q 048597          143 QE---NSFEDKALDIAGIL-----SRKRFVLLLDDIWEH---------INL-----NKLGVPLQY--LHLGSKIVFTTNS  198 (294)
Q Consensus       143 ~~---~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~---------~~~-----~~l~~~l~~--~~~gs~iivTtr~  198 (294)
                      ..   .........+....     .+++++|+||+++..         .+.     ..+...+..  ...+..||.||..
T Consensus       263 l~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~  342 (512)
T TIGR03689       263 LNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNR  342 (512)
T ss_pred             cccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCC
Confidence            00   01112222232222     247899999999752         111     122212211  1123445666654


Q ss_pred             hHH---h--hccCCce-eecCCCCHHHHHHHHHHHhCC
Q 048597          199 RVV---C--GQMEATM-LNASPLRDEEAWRLFEEAVGR  230 (294)
Q Consensus       199 ~~v---~--~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~  230 (294)
                      ...   +  ....... +++...+.++..++|..++..
T Consensus       343 ~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       343 EDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             hhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence            432   1  1112333 899999999999999987643

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.

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

Probab=97.91  E-value=0.00021  Score=70.50  Aligned_cols=45  Identities=27%  Similarity=0.359  Sum_probs=36.0

Q ss_pred             cCceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.+..++.+...+...       .....++.++||.|+|||+||+.+
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~l  504 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQL  504 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHH
Confidence            345889999999988888642       123457899999999999999998

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

Probab=97.90  E-value=6.8e-05  Score=62.55  Aligned_cols=59  Identities=15%  Similarity=0.159  Sum_probs=36.4

Q ss_pred             HHHHHHHHHhccCCeEEEEccccCc---cchhhhcCCcC--CCCCCcEEEEecCChHHhhccCC
Q 048597          149 DKALDIAGILSRKRFVLLLDDIWEH---INLNKLGVPLQ--YLHLGSKIVFTTNSRVVCGQMEA  207 (294)
Q Consensus       149 ~~~~~l~~~l~~kr~LlvlDdv~~~---~~~~~l~~~l~--~~~~gs~iivTtr~~~v~~~~~~  207 (294)
                      +..-.+.+.|-..+-+|+.|+--..   ..-..+...|.  ....|..||+.|.+..++..+..
T Consensus       148 qQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~dr  211 (226)
T COG1136         148 QQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYADR  211 (226)
T ss_pred             HHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhCCE
Confidence            3444577777888889999975321   11112222222  12347789999999999885543

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

Probab=97.87  E-value=6.5e-05  Score=60.37  Aligned_cols=62  Identities=18%  Similarity=0.266  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHhccCCeEEEEcccc----CccchhhhcCCcCCCCCCcEEEEecCChHHhhccCCce
Q 048597          148 EDKALDIAGILSRKRFVLLLDDIW----EHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM  209 (294)
Q Consensus       148 ~~~~~~l~~~l~~kr~LlvlDdv~----~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~  209 (294)
                      ++..-.|.+.+-+++-+|+-|+--    -...|+-+...-.-+..|..|+++|.+......+....
T Consensus       142 EQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~~rv  207 (223)
T COG2884         142 EQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMRHRV  207 (223)
T ss_pred             HHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhccCcE
Confidence            334445666777888999999653    33455544222223556999999999999887776655

>PRK10536 hypothetical protein; Provisional

Probab=97.85  E-value=2.9e-05  Score=65.92  Aligned_cols=39  Identities=15%  Similarity=0.248  Sum_probs=33.5

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.++......++.++...    .++.+.|++|+|||+||..+
T Consensus        56 ~i~p~n~~Q~~~l~al~~~----~lV~i~G~aGTGKT~La~a~   94 (262)
T PRK10536         56 PILARNEAQAHYLKAIESK----QLIFATGEAGCGKTWISAAK   94 (262)
T ss_pred             cccCCCHHHHHHHHHHhcC----CeEEEECCCCCCHHHHHHHH
Confidence            4567888888899888764    59999999999999999886

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.84  E-value=0.0017  Score=57.58  Aligned_cols=163  Identities=9%  Similarity=0.030  Sum_probs=93.5

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-----hChh---------HHHHHHHHHhC-----CCCCCcccCC
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-----ANLK---------KIQADIGKKIG-----LSTKSWQENS  146 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-----~~~~---------~i~~~i~~~~~-----~~~~~~~~~~  146 (294)
                      ....+.+.+..+ .-...+.++|+.|+||+++|..+     +...         ..-+.+...-.     +.........
T Consensus        10 ~~~~l~~~~~~~-rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~   88 (325)
T PRK06871         10 TYQQITQAFQQG-LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIG   88 (325)
T ss_pred             HHHHHHHHHHcC-CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCC
Confidence            344566666554 13468889999999999999988     2110         11111111000     0000001122


Q ss_pred             hHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCceeecCCCC
Q 048597          147 FEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATMLNASPLR  216 (294)
Q Consensus       147 ~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~~~l~~L~  216 (294)
                      .++.. .+.+.+     .+++-++|+|+++.  ......+...+.....++.+|++|.+.. +...+  .+..+.+.+++
T Consensus        89 id~iR-~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~  167 (325)
T PRK06871         89 VDQVR-EINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPE  167 (325)
T ss_pred             HHHHH-HHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCC
Confidence            33332 333433     36667888999976  3456666666655555667777776543 33222  23449999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          217 DEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       217 ~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      +++..+.+.......     .   ..+...+..++|.|+.+.
T Consensus       168 ~~~~~~~L~~~~~~~-----~---~~~~~~~~l~~g~p~~A~  201 (325)
T PRK06871        168 EQQALDWLQAQSSAE-----I---SEILTALRINYGRPLLAL  201 (325)
T ss_pred             HHHHHHHHHHHhccC-----h---HHHHHHHHHcCCCHHHHH
Confidence            999988887654211     1   124567888999997443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.84  E-value=0.00042  Score=68.57  Aligned_cols=167  Identities=17%  Similarity=0.112  Sum_probs=88.6

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCC----Ccc
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTK----SWQ  143 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~----~~~  143 (294)
                      .+.|.+..++.|.+.+...           -...+-+.++|++|+|||+||+.+.+....  .   .+.+...    .+.
T Consensus       454 di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~--~---fi~v~~~~l~~~~v  528 (733)
T TIGR01243       454 DIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA--N---FIAVRGPEILSKWV  528 (733)
T ss_pred             hcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC--C---EEEEehHHHhhccc
Confidence            4678887777777665421           123456899999999999999999443210  0   0000000    001


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCcc---------c-----hhhhcCCcCC--CCCCcEEEEecCChHHhh---c
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEHI---------N-----LNKLGVPLQY--LHLGSKIVFTTNSRVVCG---Q  204 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~---------~-----~~~l~~~l~~--~~~gs~iivTtr~~~v~~---~  204 (294)
                      ..+...+...+...-....++|++|++....         .     ...+...+..  ...+.-||.||.......   .
T Consensus       529 Gese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~all  608 (733)
T TIGR01243       529 GESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALL  608 (733)
T ss_pred             CcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhc
Confidence            1122222222333334667999999986410         0     1112111111  122345566665543311   1


Q ss_pred             --cCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          205 --MEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       205 --~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                        ..... +.+...+.++-.++|+.+..........++    ..+++.|.|.-
T Consensus       609 RpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l----~~la~~t~g~s  657 (733)
T TIGR01243       609 RPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDL----EELAEMTEGYT  657 (733)
T ss_pred             CCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCH----HHHHHHcCCCC
Confidence              12334 888889999999998766543322222233    55667777755

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.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.83  E-value=0.00015  Score=67.54  Aligned_cols=153  Identities=16%  Similarity=0.135  Sum_probs=90.0

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh--------------hChhHHHHHHHHHhCCC---CC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR--------------ANLKKIQADIGKKIGLS---TK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v--------------~~~~~i~~~i~~~~~~~---~~  140 (294)
                      ++++|.+.....|.+.+..+. -..-....|+.|+||||+|+.+              |+.-..-+.|...-.+.   -+
T Consensus        16 ~evvGQe~v~~~L~nal~~~r-i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEiD   94 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGR-IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEID   94 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCc-chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccchhhh
Confidence            356999999999999888762 3457789999999999999887              11111112222110000   00


Q ss_pred             CcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcE-EEEecCChHHh-hcc-CCcee
Q 048597          141 SWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSK-IVFTTNSRVVC-GQM-EATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~-iivTtr~~~v~-~~~-~~~~~  210 (294)
                      .......++. +.|.+..     .++--++++|+|+-  ...|..+...+...-.... |+.||-...+. +.. .+.+|
T Consensus        95 aASn~gVddi-R~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRcq~f  173 (515)
T COG2812          95 AASNTGVDDI-REIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRF  173 (515)
T ss_pred             hhhccChHHH-HHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhccccc
Confidence            0112223332 2233332     35556889999974  6788888777644333334 44555444442 222 23349


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCC
Q 048597          211 NASPLRDEEAWRLFEEAVGRYV  232 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~  232 (294)
                      .++.|+.++....+...+..+.
T Consensus       174 ~fkri~~~~I~~~L~~i~~~E~  195 (515)
T COG2812         174 DFKRLDLEEIAKHLAAILDKEG  195 (515)
T ss_pred             cccCCCHHHHHHHHHHHHHhcC
Confidence            9999999988877777665544

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

Probab=97.82  E-value=0.00038  Score=61.70  Aligned_cols=186  Identities=17%  Similarity=0.158  Sum_probs=102.6

Q ss_pred             CcCceeehhHHHHHHHHHHhcCCCC-ceEEEEEcCCCChHHHHHHHh----------------hChhHHHHHHHHHhCCC
Q 048597           76 VERTVIRQELLLDRVWRFVTDQERN-RGIIGLYGTGGVGKTTLLKQR----------------ANLKKIQADIGKKIGLS  138 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~~~~~-~~vi~I~G~~GiGKTtLa~~v----------------~~~~~i~~~i~~~~~~~  138 (294)
                      ..+.+.+|+..+..+..++...+.. ++.|.|.|-+|.|||.+++++                |+..-....|+...+..
T Consensus         4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~   83 (438)
T KOG2543|consen    4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLA   83 (438)
T ss_pred             cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccC
Confidence            3567889999999999998877653 456699999999999999998                44445666777776522


Q ss_pred             CCC-ccc-C---ChHHHHHHHHH--Hhc--cCCeEEEEccccCccchhhh--------cCCcCCCCCCcEEEEecCC-hH
Q 048597          139 TKS-WQE-N---SFEDKALDIAG--ILS--RKRFVLLLDDIWEHINLNKL--------GVPLQYLHLGSKIVFTTNS-RV  200 (294)
Q Consensus       139 ~~~-~~~-~---~~~~~~~~l~~--~l~--~kr~LlvlDdv~~~~~~~~l--------~~~l~~~~~gs~iivTtr~-~~  200 (294)
                      ... ... .   ...+....+.+  ..+  ++.++||||++....+.+.+        ...++  .....|++..-. +.
T Consensus        84 d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~--~~~i~iils~~~~e~  161 (438)
T KOG2543|consen   84 DKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLN--EPTIVIILSAPSCEK  161 (438)
T ss_pred             CCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhC--CCceEEEEeccccHH
Confidence            221 010 0   11112222222  112  46899999999764443322        11111  223334333322 22


Q ss_pred             -HhhccCCce---eecCCCCHHHHHHHHHHHhCCCCC-CCCCCHHH-HHHHHHHhCCCChHHHHHHHHHH
Q 048597          201 -VCGQMEATM---LNASPLRDEEAWRLFEEAVGRYVL-DSHPDIPE-LAKTMAEECCCLPLALKTVGRAM  264 (294)
Q Consensus       201 -v~~~~~~~~---~~l~~L~~~~~~~Lf~~~~~~~~~-~~~~~~~~-~~~~I~~~c~GlPlai~~i~~~L  264 (294)
                       ....+++..   ++...-+.++...++.+.-.+... +-...+-. +..-....|+ -+-.+..+....
T Consensus       162 ~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~  230 (438)
T KOG2543|consen  162 QYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLA  230 (438)
T ss_pred             HhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHH
Confidence             222244432   778888999988888664332110 00011111 2234445666 555555555443

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.81  E-value=3.4e-05  Score=68.92  Aligned_cols=159  Identities=21%  Similarity=0.209  Sum_probs=97.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC------------------hhHHHH-HHHHHhCCCCCCcccCChHHHHHHHHHHhcc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN------------------LKKIQA-DIGKKIGLSTKSWQENSFEDKALDIAGILSR  160 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~------------------~~~i~~-~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~  160 (294)
                      ..+.+.++|+||+||||++-.+-.                  +..... .....+|++..     +-+.....+...+.+
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~-----~g~~~~~~~~~~~~~   87 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAHAASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQ-----PGDSAVDTLVRRIGD   87 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHhHhhhcccceeeeeccccCchhHhHHHHHhhcccccc-----cchHHHHHHHHHHhh
Confidence            458999999999999999888722                  112222 22222333221     112234456677789


Q ss_pred             CCeEEEEccccCcc-chhhhcCCcCCCCCCcEEEEecCChHHhhccCCce-eecCCCCHH-HHHHHHHHHhCC--CCCCC
Q 048597          161 KRFVLLLDDIWEHI-NLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM-LNASPLRDE-EAWRLFEEAVGR--YVLDS  235 (294)
Q Consensus       161 kr~LlvlDdv~~~~-~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~-~~l~~L~~~-~~~~Lf~~~~~~--~~~~~  235 (294)
                      +|.++|+||..+.. .-..+...+-.+...-.|+.|+|....   +.... +.+.+|+.. ++.++|...+..  .....
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l  164 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWL  164 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccceee
Confidence            99999999986621 111111122222223457777776532   22233 777777654 688888766522  11122


Q ss_pred             CCCHHHHHHHHHHhCCCChHHHHHHHHHHcC
Q 048597          236 HPDIPELAKTMAEECCCLPLALKTVGRAMRS  266 (294)
Q Consensus       236 ~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~  266 (294)
                      .......+.+|.+...|.|++|...++..++
T Consensus       165 ~~~~~a~v~~icr~ldg~~laielaaarv~s  195 (414)
T COG3903         165 TDDNAAAVAEICRRLDGIPLAIELAAARVRS  195 (414)
T ss_pred             cCCchHHHHHHHHHhhcchHHHHHHHHHHHh
Confidence            2334567799999999999999999998877

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.79  E-value=0.00065  Score=58.67  Aligned_cols=33  Identities=30%  Similarity=0.411  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           85 LLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        85 ~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++..++..+    ..|.+.|++|+|||+||+.+
T Consensus         9 ~l~~~~l~~l~~g----~~vLL~G~~GtGKT~lA~~l   41 (262)
T TIGR02640         9 RVTSRALRYLKSG----YPVHLRGPAGTGKTTLAMHV   41 (262)
T ss_pred             HHHHHHHHHHhcC----CeEEEEcCCCCCHHHHHHHH
Confidence            3455666666654    56779999999999999988

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).

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

Probab=97.78  E-value=0.00079  Score=55.98  Aligned_cols=89  Identities=17%  Similarity=0.180  Sum_probs=55.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---HHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---KIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..+||-++.++++.-...++  +.+-+.|.||+|+||||-+..+....   ...+.++ .++-+    +....+-....|
T Consensus        27 ~dIVGNe~tv~rl~via~~g--nmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vL-ELNAS----deRGIDvVRn~I   99 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEG--NMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVL-ELNAS----DERGIDVVRNKI   99 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcC--CCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhh-hccCc----cccccHHHHHHH
Confidence            46899999999888777766  88999999999999999766552210   0111111 11111    223334444455


Q ss_pred             HHHhc-------cCCeEEEEccccCc
Q 048597          155 AGILS-------RKRFVLLLDDIWEH  173 (294)
Q Consensus       155 ~~~l~-------~kr~LlvlDdv~~~  173 (294)
                      +.+-+       ++.-+++||+..+.
T Consensus       100 K~FAQ~kv~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  100 KMFAQKKVTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             HHHHHhhccCCCCceeEEEeeccchh
Confidence            44432       55668899998873

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

Probab=97.77  E-value=0.00016  Score=68.87  Aligned_cols=142  Identities=21%  Similarity=0.199  Sum_probs=80.4

Q ss_pred             CceeehhHHHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHhh----------------ChhHHHHHHHHHhCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ----ERNRGIIGLYGTGGVGKTTLLKQRA----------------NLKKIQADIGKKIGL  137 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~~GiGKTtLa~~v~----------------~~~~i~~~i~~~~~~  137 (294)
                      ..-+|.++..++|+++|.-.    .-.-++++++||+|+|||+|++.|.                +..+|..|=-..+| 
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIG-  401 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIG-  401 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccc-
Confidence            34589999999999999642    3355899999999999999998772                11222222111111 


Q ss_pred             CCCCcccCChHHHHHHHHHHhccCCeEEEEccccCc------cchhhhcCCcC-CCCC------------CcEE-EEecC
Q 048597          138 STKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEH------INLNKLGVPLQ-YLHL------------GSKI-VFTTN  197 (294)
Q Consensus       138 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~------~~~~~l~~~l~-~~~~------------gs~i-ivTtr  197 (294)
                             .-.....+.+.+. +.+.-+++||+++..      +.-..+...|. ..++            =|.| +|+|-
T Consensus       402 -------amPGrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTA  473 (782)
T COG0466         402 -------AMPGKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATA  473 (782)
T ss_pred             -------cCChHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeec
Confidence                   1122333333332 567789999998752      11111111111 0000            1334 45554


Q ss_pred             Ch-H-H-hhccCCce-eecCCCCHHHHHHHHHHHh
Q 048597          198 SR-V-V-CGQMEATM-LNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       198 ~~-~-v-~~~~~~~~-~~l~~L~~~~~~~Lf~~~~  228 (294)
                      |. + + +..+.-.. +++...++++=.++-++++
T Consensus       474 Nsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         474 NSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             CccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            32 2 1 22333333 8999999998888776654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.76  E-value=0.00012  Score=73.03  Aligned_cols=45  Identities=27%  Similarity=0.341  Sum_probs=36.5

Q ss_pred             cCceeehhHHHHHHHHHHhc-------CCCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTD-------QERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.+..++.+.+.+..       +.....++.++||.|+|||.||+.+
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~L  616 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALAL  616 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHH
Confidence            35689999999999988853       2234558999999999999999887

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.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.75  E-value=0.0016  Score=57.69  Aligned_cols=165  Identities=15%  Similarity=0.048  Sum_probs=91.9

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-----hChh------HHHHHHHHHhC-----C--CCCCc-----
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-----ANLK------KIQADIGKKIG-----L--STKSW-----  142 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-----~~~~------~i~~~i~~~~~-----~--~~~~~-----  142 (294)
                      ....+...+..+ .-...+.++|+.|+||+++|..+     +...      ....-+...-.     +  ..+..     
T Consensus        12 ~~~~l~~~~~~~-rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~   90 (319)
T PRK08769         12 AYDQTVAALDAG-RLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLR   90 (319)
T ss_pred             HHHHHHHHHHcC-CcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCccccccc
Confidence            455566666554 13457999999999999999887     2110      00011110000     0  00000     


Q ss_pred             ccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCceeec
Q 048597          143 QENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATMLNA  212 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~~~l  212 (294)
                      .....++ ...+.+.+     .+++-++|+|++...  ..-..+...+..-..++.+|++|.+.. +...+  .+..+.+
T Consensus        91 ~~I~idq-IR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~  169 (319)
T PRK08769         91 TEIVIEQ-VREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEF  169 (319)
T ss_pred             ccccHHH-HHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeC
Confidence            0011222 22333333     356679999999763  344455555544444667777776543 32222  2333899


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          213 SPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       213 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      .+++.+++.+.+... +     .+   ...+..++..++|.|+.+..+.
T Consensus       170 ~~~~~~~~~~~L~~~-~-----~~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        170 KLPPAHEALAWLLAQ-G-----VS---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             CCcCHHHHHHHHHHc-C-----CC---hHHHHHHHHHcCCCHHHHHHHh
Confidence            999999998888653 1     11   1235678999999998775543

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=0.00062  Score=62.80  Aligned_cols=152  Identities=22%  Similarity=0.222  Sum_probs=90.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHhh-----ChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHh----ccCCeEEEEcc
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQRA-----NLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGIL----SRKRFVLLLDD  169 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v~-----~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l----~~kr~LlvlDd  169 (294)
                      .....+.+.|++|+|||+||..+.     ...++         ++.......++......+.+.+    +..--.||+||
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKi---------iSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDd  606 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKI---------ISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDD  606 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhcCCCeEEE---------eChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcc
Confidence            467789999999999999998772     11111         1111122334444455555544    34457899999


Q ss_pred             ccCccchhhhcCCcCC-------------CCCCcE--EEEecCChHHhhccCCc----e-eecCCCCH-HHHHHHHHHHh
Q 048597          170 IWEHINLNKLGVPLQY-------------LHLGSK--IVFTTNSRVVCGQMEAT----M-LNASPLRD-EEAWRLFEEAV  228 (294)
Q Consensus       170 v~~~~~~~~l~~~l~~-------------~~~gs~--iivTtr~~~v~~~~~~~----~-~~l~~L~~-~~~~~Lf~~~~  228 (294)
                      +...-+|-.++..|..             ..+|-|  |+-||....+...|+-.    . |++..++. ++..+.++..-
T Consensus       607 iErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n  686 (744)
T KOG0741|consen  607 IERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELN  686 (744)
T ss_pred             hhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHcc
Confidence            9887677665544321             122334  34455556776666532    2 88999976 66777666543


Q ss_pred             -CCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcC
Q 048597          229 -GRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS  266 (294)
Q Consensus       229 -~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~  266 (294)
                       +.     +.....++.+...+|  +-..|+.+-.++..
T Consensus       687 ~fs-----d~~~~~~~~~~~~~~--~~vgIKklL~lie~  718 (744)
T KOG0741|consen  687 IFS-----DDEVRAIAEQLLSKK--VNVGIKKLLMLIEM  718 (744)
T ss_pred             CCC-----cchhHHHHHHHhccc--cchhHHHHHHHHHH
Confidence             22     334556677777777  44455665555543

>PHA00729 NTP-binding motif containing protein

Probab=97.73  E-value=0.0001  Score=61.52  Aligned_cols=77  Identities=16%  Similarity=0.123  Sum_probs=44.0

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH-----HHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccC-C-
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQADIGKKIGLSTKSWQENSFEDKALDIAGILSRK-R-  162 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~k-r-  162 (294)
                      +++.+...  ....|.|.|++|+||||||..+....-     +...  ...+.......-.+..++...+.....+. + 
T Consensus         8 ~~~~l~~~--~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~--~~~~d~~~~~~fid~~~Ll~~L~~a~~~~~~~   83 (226)
T PHA00729          8 IVSAYNNN--GFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTK--DDAWQYVQNSYFFELPDALEKIQDAIDNDYRI   83 (226)
T ss_pred             HHHHHhcC--CeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccch--hhHHhcCCcEEEEEHHHHHHHHHHHHhcCCCC
Confidence            44444444  456799999999999999998854321     1000  00111111112345666777776655432 2 


Q ss_pred             eEEEEccc
Q 048597          163 FVLLLDDI  170 (294)
Q Consensus       163 ~LlvlDdv  170 (294)
                      =+||+||+
T Consensus        84 dlLIIDd~   91 (226)
T PHA00729         84 PLIIFDDA   91 (226)
T ss_pred             CEEEEeCC
Confidence            37899995

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

Probab=97.71  E-value=0.0019  Score=58.86  Aligned_cols=195  Identities=17%  Similarity=0.138  Sum_probs=108.6

Q ss_pred             cCceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHhhC---------------------hhHHHHHHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQRAN---------------------LKKIQADIGK  133 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v~~---------------------~~~i~~~i~~  133 (294)
                      +..++||+.++..+-.|+...  ......+-|.|-+|.|||.+...++.                     ...++..|..
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~  228 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFS  228 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHH
Confidence            456899999999999998764  33567889999999999999887711                     1123344433


Q ss_pred             Hh-CCCCCCcccCChHHHHHHHHHHhccC--CeEEEEccccCcc--chhhhcCCcC-CCCCCcEEEEecCChHH------
Q 048597          134 KI-GLSTKSWQENSFEDKALDIAGILSRK--RFVLLLDDIWEHI--NLNKLGVPLQ-YLHLGSKIVFTTNSRVV------  201 (294)
Q Consensus       134 ~~-~~~~~~~~~~~~~~~~~~l~~~l~~k--r~LlvlDdv~~~~--~~~~l~~~l~-~~~~gs~iivTtr~~~v------  201 (294)
                      .+ .....   .....+....+.....+.  -+++|+|+++.-.  .-..+...|. ..-.++++|+..--..+      
T Consensus       229 ~~~q~~~s---~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~  305 (529)
T KOG2227|consen  229 SLLQDLVS---PGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRF  305 (529)
T ss_pred             HHHHHhcC---CchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHH
Confidence            33 11011   111245556666666544  4899999997521  1111111111 12235555543321111      


Q ss_pred             ---hhc-cCCce--eecCCCCHHHHHHHHHHHhCCCCC--CCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHH
Q 048597          202 ---CGQ-MEATM--LNASPLRDEEAWRLFEEAVGRYVL--DSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEW  273 (294)
Q Consensus       202 ---~~~-~~~~~--~~l~~L~~~~~~~Lf~~~~~~~~~--~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w  273 (294)
                         ... .+..+  +...|.+.++..++|..++.....  ..+.-++-.+++++...|.+--|+.+.-+.+.-  -..+|
T Consensus       306 LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~aiEI--~E~e~  383 (529)
T KOG2227|consen  306 LPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAIEI--AEIEK  383 (529)
T ss_pred             hhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHHHH--HHHHH
Confidence               111 22233  889999999999999988754321  112223344455555555555555555544432  23445


Q ss_pred             HHH
Q 048597          274 EHA  276 (294)
Q Consensus       274 ~~~  276 (294)
                      +..
T Consensus       384 r~~  386 (529)
T KOG2227|consen  384 RKI  386 (529)
T ss_pred             hhc
Confidence            444

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.71  E-value=0.00055  Score=61.12  Aligned_cols=146  Identities=13%  Similarity=0.073  Sum_probs=82.4

Q ss_pred             ceee-hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh-----Ch---------hHHHHHHHHHhCC----CC
Q 048597           79 TVIR-QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA-----NL---------KKIQADIGKKIGL----ST  139 (294)
Q Consensus        79 ~~vG-r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~-----~~---------~~i~~~i~~~~~~----~~  139 (294)
                      .++| .+..++.+...+..+ .-.+...++|+.|+||||+|+.+.     ..         -..-+.+...-..    ..
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~   84 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVA   84 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEec
Confidence            3566 666777787777655 235677999999999999998871     10         0111111110000    00


Q ss_pred             CCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCce
Q 048597          140 KSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATM  209 (294)
Q Consensus       140 ~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~  209 (294)
                      ........++... +.+.+     .+.+-++|+|++..  ....+.+...+.....++.+|++|.+.. +...+  .+..
T Consensus        85 ~~~~~i~id~ir~-l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~  163 (329)
T PRK08058         85 PDGQSIKKDQIRY-LKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQV  163 (329)
T ss_pred             cccccCCHHHHHH-HHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhcee
Confidence            0001122233322 22322     35566899999876  3345556666655455677777776543 22211  2333


Q ss_pred             eecCCCCHHHHHHHHHH
Q 048597          210 LNASPLRDEEAWRLFEE  226 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~  226 (294)
                      +++.+++.++..+.+..
T Consensus       164 i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        164 VEFRPLPPESLIQRLQE  180 (329)
T ss_pred             eeCCCCCHHHHHHHHHH
Confidence            99999999998877764

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.69  E-value=0.0011  Score=62.22  Aligned_cols=169  Identities=17%  Similarity=0.071  Sum_probs=85.8

Q ss_pred             CceeehhHHHHHHHHHH---hc-----CCCCceEEEEEcCCCChHHHHHHHhhChhHHH---HHHHHHhCCCCCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFV---TD-----QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQ---ADIGKKIGLSTKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L---~~-----~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~---~~i~~~~~~~~~~~~~~~  146 (294)
                      ..+.|.+..++.+....   ..     +-...+-|.++|++|+|||.+|+.+.+....-   -....-+.    .....+
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~----~~vGes  303 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFG----GIVGES  303 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcc----cccChH
Confidence            35667765555444321   11     11245679999999999999999984321100   00000000    001112


Q ss_pred             hHHHHHHHHHHhccCCeEEEEccccCcc----c------hhh----hcCCcCCCCCCcEEEEecCChHH-----hhccCC
Q 048597          147 FEDKALDIAGILSRKRFVLLLDDIWEHI----N------LNK----LGVPLQYLHLGSKIVFTTNSRVV-----CGQMEA  207 (294)
Q Consensus       147 ~~~~~~~l~~~l~~kr~LlvlDdv~~~~----~------~~~----l~~~l~~~~~gs~iivTtr~~~v-----~~~~~~  207 (294)
                      ...+...+...-...+++|++|++....    .      -..    +...+.....+.-||.||.+..-     ......
T Consensus       304 e~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRF  383 (489)
T CHL00195        304 ESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRF  383 (489)
T ss_pred             HHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcC
Confidence            2222222322224678999999996421    0      001    11111122233345666655432     111233


Q ss_pred             ce-eecCCCCHHHHHHHHHHHhCCCCCC--CCCCHHHHHHHHHHhCCCCh
Q 048597          208 TM-LNASPLRDEEAWRLFEEAVGRYVLD--SHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       208 ~~-~~l~~L~~~~~~~Lf~~~~~~~~~~--~~~~~~~~~~~I~~~c~GlP  254 (294)
                      .. +.+..-+.++-.++|..+.......  ...+    ...+++.+.|+-
T Consensus       384 D~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~d----l~~La~~T~GfS  429 (489)
T CHL00195        384 DEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYD----IKKLSKLSNKFS  429 (489)
T ss_pred             CeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccC----HHHHHhhcCCCC
Confidence            34 8888889999999998877543211  1222    356677777655

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.69  E-value=0.00022  Score=54.36  Aligned_cols=20  Identities=40%  Similarity=0.537  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+.|+|++|+||||+++.+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l   22 (148)
T smart00382        3 EVILIVGPPGSGKTTLARAL   22 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHH
Confidence            67899999999999999988

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.

>TIGR00763 lon ATP-dependent protease La

Probab=97.69  E-value=0.00056  Score=68.01  Aligned_cols=45  Identities=29%  Similarity=0.362  Sum_probs=35.8

Q ss_pred             CceeehhHHHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ----ERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|.+..++.|.+++...    .....++.++|++|+|||++|+.+.
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA  368 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIA  368 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHH
Confidence            44789999999998877532    2234589999999999999999983

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.66  E-value=0.0015  Score=61.31  Aligned_cols=87  Identities=17%  Similarity=0.122  Sum_probs=59.0

Q ss_pred             ceeehhHHHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHhhChhHHH------HHHHHHhCCCCCCc
Q 048597           79 TVIRQELLLDRVWRFVTDQ----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQ------ADIGKKIGLSTKSW  142 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~------~~i~~~~~~~~~~~  142 (294)
                      .+-|.+..+.++++++..-          =..++-|.+|||+|+|||.||+.+.+...+-      .++..       ..
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivS-------Gv  263 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVS-------GV  263 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhc-------cc
Confidence            4668899999888887542          1357889999999999999999884433211      11111       11


Q ss_pred             ccCChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          143 QENSFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      ...++..+.+-+.+.-..-.|++++|++..
T Consensus       264 SGESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  264 SGESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             CcccHHHHHHHHHHHhccCCeEEEeecccc
Confidence            234455555555555677899999999975

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

Probab=97.66  E-value=0.00038  Score=68.87  Aligned_cols=46  Identities=30%  Similarity=0.383  Sum_probs=37.5

Q ss_pred             cCceeehhHHHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHhh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ----ERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ....+|.+..+++|+++|...    .....++.++|++|+||||+++.+.
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia  370 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIA  370 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHH
Confidence            345799999999999988741    2245689999999999999999884

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.65  E-value=0.0033  Score=56.14  Aligned_cols=164  Identities=10%  Similarity=0.018  Sum_probs=94.1

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-----hChh---------HHHHHHHHHhC-----CCCCCc-ccC
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-----ANLK---------KIQADIGKKIG-----LSTKSW-QEN  145 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-----~~~~---------~i~~~i~~~~~-----~~~~~~-~~~  145 (294)
                      .-+++.+.+..+ .-...+.+.|+.|+||+|+|..+     +...         ..-+.|.....     +..... ...
T Consensus        10 ~~~~l~~~~~~~-rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I   88 (334)
T PRK07993         10 DYEQLVGSYQAG-RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSL   88 (334)
T ss_pred             HHHHHHHHHHcC-CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccC
Confidence            345666666654 24568889999999999999886     2110         01111111100     000000 112


Q ss_pred             ChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhhc--cCCceeecCCC
Q 048597          146 SFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQ--MEATMLNASPL  215 (294)
Q Consensus       146 ~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~--~~~~~~~l~~L  215 (294)
                      ..++.. .+.+.+     .+++-++|+|+...  ...-..+...+..-..++.+|++|.+.. +...  ..+..+.+.++
T Consensus        89 ~idqiR-~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~  167 (334)
T PRK07993         89 GVDAVR-EVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPP  167 (334)
T ss_pred             CHHHHH-HHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCC
Confidence            333332 344433     36677999999876  3455666666655555667777776543 3322  22334899999


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          216 RDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       216 ~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      ++++..+.+....+.     +   .+.+..++..++|.|..+..
T Consensus       168 ~~~~~~~~L~~~~~~-----~---~~~a~~~~~la~G~~~~Al~  203 (334)
T PRK07993        168 PEQYALTWLSREVTM-----S---QDALLAALRLSAGAPGAALA  203 (334)
T ss_pred             CHHHHHHHHHHccCC-----C---HHHHHHHHHHcCCCHHHHHH
Confidence            999998877653211     1   13357889999999975443

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

Probab=97.64  E-value=0.0002  Score=60.76  Aligned_cols=21  Identities=48%  Similarity=0.661  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+||.|.|||||++.+
T Consensus        30 G~~~~iiGPNGaGKSTLlK~i   50 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAI   50 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            379999999999999999999

>PRK08118 topology modulation protein; Reviewed

Probab=97.61  E-value=8.2e-05  Score=59.71  Aligned_cols=67  Identities=21%  Similarity=0.316  Sum_probs=37.2

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhHHH-HHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKKIQ-ADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~i~-~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      ..|.|+|++|+||||||+.+++...+. -++...++.+.  ....+.++....+...+.+..  .|+|....
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~--w~~~~~~~~~~~~~~~~~~~~--wVidG~~~   69 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPN--WEGVPKEEQITVQNELVKEDE--WIIDGNYG   69 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccC--CcCCCHHHHHHHHHHHhcCCC--EEEeCCcc
Confidence            358999999999999999996543322 12222222211  122233344444455555554  46677643

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.61  E-value=0.0013  Score=65.05  Aligned_cols=167  Identities=16%  Similarity=0.076  Sum_probs=87.2

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCC----Ccc
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTK----SWQ  143 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~----~~~  143 (294)
                      .+.|.+..++.+.+++...           -...+.|.++|++|+||||||+.+.+.....  +   +.+...    ...
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~--~---i~i~~~~i~~~~~  253 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY--F---ISINGPEIMSKYY  253 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe--E---EEEecHHHhcccc
Confidence            4789999888888776431           1234678999999999999999884422100  0   000000    001


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCcc--------c-----hhhhcCCcCC-CCCCcEEEE-ecCChH-H--h-hc
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEHI--------N-----LNKLGVPLQY-LHLGSKIVF-TTNSRV-V--C-GQ  204 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~--------~-----~~~l~~~l~~-~~~gs~iiv-Ttr~~~-v--~-~~  204 (294)
                      ......+...+.........+|+|||+....        .     ...+...+.. ...+..+++ +|.... +  + ..
T Consensus       254 g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r  333 (733)
T TIGR01243       254 GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRR  333 (733)
T ss_pred             cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhC
Confidence            1112223333333335567899999985411        0     1112111111 122334444 444332 1  1 11


Q ss_pred             c-CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          205 M-EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       205 ~-~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                      . .... +.+...+.++-.+++.............    ....+++.+.|.-
T Consensus       334 ~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~----~l~~la~~t~G~~  381 (733)
T TIGR01243       334 PGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDV----DLDKLAEVTHGFV  381 (733)
T ss_pred             chhccEEEEeCCcCHHHHHHHHHHHhcCCCCcccc----CHHHHHHhCCCCC
Confidence            1 1223 7788888888888888655332211111    2466778888865

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.61  E-value=0.0012  Score=66.37  Aligned_cols=44  Identities=32%  Similarity=0.365  Sum_probs=35.5

Q ss_pred             CceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.+..++.+...+...       .....++.++|+.|+|||+||+.+
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aL  618 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKAL  618 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHH
Confidence            46899999988888888642       122357899999999999999998

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

Probab=97.60  E-value=0.0003  Score=68.41  Aligned_cols=103  Identities=25%  Similarity=0.319  Sum_probs=65.8

Q ss_pred             cCceeehhHHHHHHHHHHhc-------CCCCceEEEEEcCCCChHHHHHHHh-------------hChhHHHH--HHHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTD-------QERNRGIIGLYGTGGVGKTTLLKQR-------------ANLKKIQA--DIGKK  134 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~~GiGKTtLa~~v-------------~~~~~i~~--~i~~~  134 (294)
                      ...++|.++.+..+.+.+..       +.....+....||.|+|||.||+.+             +++.+-..  .+..-
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrL  569 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRL  569 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHH
Confidence            35689999999999998864       2345678888999999999999998             33333322  22333


Q ss_pred             hCCCCCCcccCChHHHHHHHHHHhccCCe-EEEEccccC--ccchhhhcCCc
Q 048597          135 IGLSTKSWQENSFEDKALDIAGILSRKRF-VLLLDDIWE--HINLNKLGVPL  183 (294)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~l~~~l~~kr~-LlvlDdv~~--~~~~~~l~~~l  183 (294)
                      +|.+.. +-..+.   .-.|-+.++.++| +|.||++..  ++-++-+...|
T Consensus       570 IGaPPG-YVGyee---GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVl  617 (786)
T COG0542         570 IGAPPG-YVGYEE---GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVL  617 (786)
T ss_pred             hCCCCC-Cceecc---ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHh
Confidence            343322 222221   2345666778877 888999976  34444444444

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.59  E-value=0.013  Score=51.93  Aligned_cols=179  Identities=9%  Similarity=0.043  Sum_probs=101.4

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh-----hChh--------HHHHHHHHHhC-----CCCC-CcccCC
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR-----ANLK--------KIQADIGKKIG-----LSTK-SWQENS  146 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v-----~~~~--------~i~~~i~~~~~-----~~~~-~~~~~~  146 (294)
                      ....+...+..+ .-...+.+.|+.|+||+++|..+     +...        ..-..+...-.     +... ......
T Consensus        11 ~~~~l~~~~~~~-rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~   89 (319)
T PRK06090         11 VWQNWKAGLDAG-RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSIT   89 (319)
T ss_pred             HHHHHHHHHHcC-CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCC
Confidence            344555555544 24568999999999999999887     1111        01111111100     0000 001223


Q ss_pred             hHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCceeecCCCC
Q 048597          147 FEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATMLNASPLR  216 (294)
Q Consensus       147 ~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~~~l~~L~  216 (294)
                      .++.. .+.+.+     .+++-++|+|++..  ....+.+...+.....++.+|++|.+.. +...+  .+..+.+.+++
T Consensus        90 vdqiR-~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~  168 (319)
T PRK06090         90 VEQIR-QCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPS  168 (319)
T ss_pred             HHHHH-HHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCC
Confidence            34333 344443     34566889999976  4566666666655555666776666543 32222  23349999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHHH
Q 048597          217 DEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIIL  281 (294)
Q Consensus       217 ~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l~  281 (294)
                      .++..+.+....      . +    ....++..++|.|+.+..+.   .. ...+.++..+..+.
T Consensus       169 ~~~~~~~L~~~~------~-~----~~~~~l~l~~G~p~~A~~~~---~~-~~~~~~~~~~~~l~  218 (319)
T PRK06090        169 TAQAMQWLKGQG------I-T----VPAYALKLNMGSPLKTLAMM---KE-GGLEKYHKLERQLV  218 (319)
T ss_pred             HHHHHHHHHHcC------C-c----hHHHHHHHcCCCHHHHHHHh---CC-CcHHHHHHHHHHHH
Confidence            999988886531      1 1    13567899999999876553   22 23444555555554

>PRK07261 topology modulation protein; Provisional

Probab=97.59  E-value=4.7e-05  Score=61.37  Aligned_cols=66  Identities=23%  Similarity=0.364  Sum_probs=39.5

Q ss_pred             EEEEEcCCCChHHHHHHHhhChhHHHH-HHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          103 IIGLYGTGGVGKTTLLKQRANLKKIQA-DIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~~~~i~~-~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      .|.|+|++|+||||||+.+.....+.. ++....+.  ......+.++....+.+.+.+.+  .|+|....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~--wIidg~~~   68 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQ--PNWQERDDDDMIADISNFLLKHD--WIIDGNYS   68 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEec--cccccCCHHHHHHHHHHHHhCCC--EEEcCcch
Confidence            589999999999999998832211100 00000111  11234456677777777787666  67787754

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

Probab=97.58  E-value=0.0027  Score=56.07  Aligned_cols=194  Identities=14%  Similarity=0.132  Sum_probs=110.5

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----HH-HHHHHHhCCCCCC
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ-ADIGKKIGLSTKS  141 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~-~~i~~~~~~~~~~  141 (294)
                      .+-|.++.+++|-+.+.-+           =..++-|.++||+|.|||-||++|.+...     +. .++.+.. +..  
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKY-iGE--  228 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKY-IGE--  228 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHH-hcc--
Confidence            3557888888887776432           13678999999999999999999955332     11 1111111 111  


Q ss_pred             cccCChHHHHHHHHHHhc-cCCeEEEEccccCcc----------c------hhhhcCCcC--CCCCCcEEEEecCChHHh
Q 048597          142 WQENSFEDKALDIAGILS-RKRFVLLLDDIWEHI----------N------LNKLGVPLQ--YLHLGSKIVFTTNSRVVC  202 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l~-~kr~LlvlDdv~~~~----------~------~~~l~~~l~--~~~~gs~iivTtr~~~v~  202 (294)
                           -..+...+++.-+ ...++|++|++....          +      .-++...+.  +.....+||..|...++.
T Consensus       229 -----GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~L  303 (406)
T COG1222         229 -----GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDIL  303 (406)
T ss_pred             -----chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcccc
Confidence                 1234445555444 567999999987410          0      111111111  123346888888765542


Q ss_pred             -----hccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh----HHHHHHHHHHcC--C---
Q 048597          203 -----GQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP----LALKTVGRAMRS--I---  267 (294)
Q Consensus       203 -----~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP----lai~~i~~~L~~--~---  267 (294)
                           ....-.. +++..-+.+--.++|+-|...-.....-++    ..+++.|.|.-    -|+.+=|++++-  .   
T Consensus       304 DPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~----e~la~~~~g~sGAdlkaictEAGm~AiR~~R~~  379 (406)
T COG1222         304 DPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDL----ELLARLTEGFSGADLKAICTEAGMFAIRERRDE  379 (406)
T ss_pred             ChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCH----HHHHHhcCCCchHHHHHHHHHHhHHHHHhccCe
Confidence                 1122233 777755666667777777655443344455    45666666665    455555665433  2   


Q ss_pred             CCHHHHHHHHHHHHhcC
Q 048597          268 SSIEEWEHAIKIILRYG  284 (294)
Q Consensus       268 ~~~~~w~~~l~~l~~~~  284 (294)
                      -+.++..++.+.+-...
T Consensus       380 Vt~~DF~~Av~KV~~~~  396 (406)
T COG1222         380 VTMEDFLKAVEKVVKKK  396 (406)
T ss_pred             ecHHHHHHHHHHHHhcc
Confidence            24567777766665543

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.57  E-value=7.5e-05  Score=66.50  Aligned_cols=45  Identities=22%  Similarity=0.374  Sum_probs=38.7

Q ss_pred             cCceeehhHHHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ----ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.++.++++++++...    ....+++.++||+|+||||||+.+
T Consensus        50 ~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~L   98 (361)
T smart00763       50 DHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECL   98 (361)
T ss_pred             chhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHH
Confidence            347899999999999999763    235689999999999999999998

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

>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=97.57  E-value=0.00084  Score=53.56  Aligned_cols=133  Identities=17%  Similarity=0.136  Sum_probs=71.7

Q ss_pred             ehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC-----h--------hHHHHHHHHHhCC-----CCCCc-
Q 048597           82 RQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN-----L--------KKIQADIGKKIGL-----STKSW-  142 (294)
Q Consensus        82 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~-----~--------~~i~~~i~~~~~~-----~~~~~-  142 (294)
                      |.+...+.|.+.+..+ .-...+.++|+.|+||+|+|..+..     .        -..-..+......     ..... 
T Consensus         1 gq~~~~~~L~~~~~~~-~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~   79 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG-RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKK   79 (162)
T ss_dssp             S-HHHHHHHHHHHHCT-C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSS
T ss_pred             CcHHHHHHHHHHHHcC-CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEeccccc
Confidence            4556677777777665 2345789999999999999988711     0        1112222211110     01100 


Q ss_pred             ccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChHH-h-hcc-CCceeec
Q 048597          143 QENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRVV-C-GQM-EATMLNA  212 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~v-~-~~~-~~~~~~l  212 (294)
                      .....++.. .+.+.+     .++.-++|+|++..  .+....+...+.....++.+|++|++..- . +.. .+..+++
T Consensus        80 ~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~  158 (162)
T PF13177_consen   80 KSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRF  158 (162)
T ss_dssp             SSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE
T ss_pred             chhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEec
Confidence            122344443 555544     34567999999986  45677776666666667888888877542 1 211 2222666


Q ss_pred             CCCC
Q 048597          213 SPLR  216 (294)
Q Consensus       213 ~~L~  216 (294)
                      .+||
T Consensus       159 ~~ls  162 (162)
T PF13177_consen  159 RPLS  162 (162)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            6654

...

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.55  E-value=0.012  Score=52.69  Aligned_cols=90  Identities=17%  Similarity=0.097  Sum_probs=58.6

Q ss_pred             cCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCCh-HHhhcc--CCceeecCCCCHHHHHHHHHHHhCCCCCC
Q 048597          160 RKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSR-VVCGQM--EATMLNASPLRDEEAWRLFEEAVGRYVLD  234 (294)
Q Consensus       160 ~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~-~v~~~~--~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~  234 (294)
                      +++-++|+|+.+.  ....+.+...+..-..++.+|++|.+. .+...+  .+..+.+.+++.++..+.+... +.    
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~-~~----  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ-GV----  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc-CC----
Confidence            5566889999976  456777766666555567666666554 332221  2334999999999999888764 11    


Q ss_pred             CCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          235 SHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       235 ~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                        +.    ....+..++|.|+.+..+
T Consensus       206 --~~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        206 --AD----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             --Ch----HHHHHHHcCCCHHHHHHH
Confidence              11    134577889999755543

>PRK08116 hypothetical protein; Validated

Probab=97.54  E-value=0.00036  Score=60.40  Aligned_cols=22  Identities=41%  Similarity=0.370  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..+.++|+.|+|||.||..+.+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~  136 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIAN  136 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998843

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

Probab=97.54  E-value=0.00015  Score=61.85  Aligned_cols=25  Identities=32%  Similarity=0.193  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-..++|+|++|+|||||++.+++.
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~   39 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANA   39 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3478999999999999999999543

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.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.53  E-value=0.00089  Score=55.54  Aligned_cols=61  Identities=13%  Similarity=0.197  Sum_probs=39.0

Q ss_pred             HHHHHHHHHhccCCeEEEEccccCccchhhhcCC---cC-CCCCCcEEEEecCChHHhhccCCce
Q 048597          149 DKALDIAGILSRKRFVLLLDDIWEHINLNKLGVP---LQ-YLHLGSKIVFTTNSRVVCGQMEATM  209 (294)
Q Consensus       149 ~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~l~~~---l~-~~~~gs~iivTtr~~~v~~~~~~~~  209 (294)
                      ....+|.+.+--++-+.+||+..+.-+.+.+...   +. -...|+-+++.|....++.......
T Consensus       150 kKR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~  214 (251)
T COG0396         150 KKRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDK  214 (251)
T ss_pred             HHHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCE
Confidence            3444555566667889999999886555544211   11 1233667888899888887775544

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.53  E-value=0.00026  Score=59.47  Aligned_cols=22  Identities=32%  Similarity=0.616  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+|+|+|++|+|||||.+.+
T Consensus        28 ~GEfvsilGpSGcGKSTLLrii   49 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLI   49 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999999

>PRK08181 transposase; Validated

Probab=97.53  E-value=0.00026  Score=61.15  Aligned_cols=20  Identities=30%  Similarity=0.408  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-+.++|++|+|||.||..+
T Consensus       107 ~nlll~Gp~GtGKTHLa~Ai  126 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAI  126 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHH
Confidence            45999999999999999988

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.52  E-value=0.0027  Score=54.13  Aligned_cols=199  Identities=16%  Similarity=0.179  Sum_probs=109.0

Q ss_pred             eeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh----hC--hhHHHHH---HH---------------HHh
Q 048597           80 VIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR----AN--LKKIQAD---IG---------------KKI  135 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v----~~--~~~i~~~---i~---------------~~~  135 (294)
                      +.++++....+......+  ..+-..++||+|.||-|.+..+    |.  ..++.-.   |.               ..+
T Consensus        15 l~~~~e~~~~Lksl~~~~--d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHl   92 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSSTG--DFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHL   92 (351)
T ss_pred             cccHHHHHHHHHHhcccC--CCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceE
Confidence            566666666666655533  6889999999999999987655    22  1111100   00               000


Q ss_pred             CCCCCCcccCChHHHHHHHHHHh-------cc-CCe-EEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhh
Q 048597          136 GLSTKSWQENSFEDKALDIAGIL-------SR-KRF-VLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCG  203 (294)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~l~~~l-------~~-kr~-LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~  203 (294)
                      .+..++....|..-.++.+++.-       .+ +.| ++|+-.+.+  .+.-..++.....=...+|+|+...+-. +..
T Consensus        93 EitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cns~SriIe  172 (351)
T KOG2035|consen   93 EITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNSTSRIIE  172 (351)
T ss_pred             EeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEecCcccchh
Confidence            01111112222222222232221       22 333 455666554  2333333333322233567776654422 222


Q ss_pred             ccCCce--eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCC----------CCHH
Q 048597          204 QMEATM--LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSI----------SSIE  271 (294)
Q Consensus       204 ~~~~~~--~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~----------~~~~  271 (294)
                      .+....  +++...+++|....+++.+..++...+   .+++++|+++|+|.---+..+-..++.+          -..-
T Consensus       173 pIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp---~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a~~~~i~~~  249 (351)
T KOG2035|consen  173 PIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP---KELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTANSQVIPKP  249 (351)
T ss_pred             HHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc---HHHHHHHHHHhcccHHHHHHHHHHHHhccccccccCCCCCCc
Confidence            222222  889999999999999988866553332   5889999999999765555544444432          1245


Q ss_pred             HHHHHHHHHHhc
Q 048597          272 EWEHAIKIILRY  283 (294)
Q Consensus       272 ~w~~~l~~l~~~  283 (294)
                      +|+-++.++.+.
T Consensus       250 dWe~~i~e~a~~  261 (351)
T KOG2035|consen  250 DWEIYIQEIARV  261 (351)
T ss_pred             cHHHHHHHHHHH
Confidence            899888887764

>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=97.52  E-value=6.9e-05  Score=56.47  Aligned_cols=19  Identities=42%  Similarity=0.588  Sum_probs=18.2

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|+|.|++|+||||+|+.+
T Consensus         1 vI~I~G~~gsGKST~a~~L   19 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKEL   19 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHH
Confidence            6899999999999999998

...

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

Probab=97.51  E-value=0.00049  Score=67.69  Aligned_cols=44  Identities=23%  Similarity=0.249  Sum_probs=36.0

Q ss_pred             CceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.++.++.|...+...       ......+.++||+|+|||+||+.+
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~L  508 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQL  508 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHH
Confidence            45899999999999888632       223467999999999999999988

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.51  E-value=0.0005  Score=69.03  Aligned_cols=45  Identities=29%  Similarity=0.363  Sum_probs=36.7

Q ss_pred             cCceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.+..++.+...+...       .....++.++|++|+|||++|+.+
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~L  615 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKAL  615 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHH
Confidence            356899999999999988752       123457889999999999999998

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.

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.49  E-value=0.0056  Score=58.42  Aligned_cols=183  Identities=16%  Similarity=0.125  Sum_probs=108.6

Q ss_pred             cCceeehhHHHHHHHHHHhcC--C-CCceEEEEEcCCCChHHHHHHHh--------------------------hChhHH
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ--E-RNRGIIGLYGTGGVGKTTLLKQR--------------------------ANLKKI  127 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~--~-~~~~vi~I~G~~GiGKTtLa~~v--------------------------~~~~~i  127 (294)
                      +..+-+|+.+..+|-.++..-  . ...+.+-|.|-+|+|||..+..|                          ....++
T Consensus       395 p~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~  474 (767)
T KOG1514|consen  395 PESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREI  474 (767)
T ss_pred             cccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHH
Confidence            345678999999999988652  2 34559999999999999999888                          223334


Q ss_pred             HHHHHHHhCCCCCCcccCChHHHHHHHHHHh-----ccCCeEEEEccccCccc--hhhhcCCcC-CCCCCcEEEEecC-C
Q 048597          128 QADIGKKIGLSTKSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWEHIN--LNKLGVPLQ-YLHLGSKIVFTTN-S  198 (294)
Q Consensus       128 ~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~~~--~~~l~~~l~-~~~~gs~iivTtr-~  198 (294)
                      ...|...+....     .......+.|..++     +.+.+++++|++.....  -+-+...|. ....+|+++|-+= +
T Consensus       475 Y~~I~~~lsg~~-----~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaN  549 (767)
T KOG1514|consen  475 YEKIWEALSGER-----VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIAN  549 (767)
T ss_pred             HHHHHHhcccCc-----ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecc
Confidence            445555443211     12222333344433     24568899998754211  111111111 1234566654431 1


Q ss_pred             ----------hHHhhccCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH
Q 048597          199 ----------RVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM  264 (294)
Q Consensus       199 ----------~~v~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L  264 (294)
                                ..++..++-..+..+|.+.++-.++...++.....-.+.-.+-++++|+...|..-.|+...-+..
T Consensus       550 TmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA~  625 (767)
T KOG1514|consen  550 TMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRAA  625 (767)
T ss_pred             cccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence                      123555566568899999998888887776444322333445566788877777777666655443

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

Probab=97.47  E-value=0.0004  Score=67.54  Aligned_cols=143  Identities=18%  Similarity=0.242  Sum_probs=80.4

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh------ChhHHHH-------HHHHHhCCCCCCccc
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA------NLKKIQA-------DIGKKIGLSTKSWQE  144 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~------~~~~i~~-------~i~~~~~~~~~~~~~  144 (294)
                      +.++||++++.++++.|.....+.+  .++|.+|+|||+++.-+.      +....++       ++..-+  .+..+ .
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNP--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~Lv--AGaky-R  244 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNP--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLV--AGAKY-R  244 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCC--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHh--ccccc-c
Confidence            3479999999999999987643433  368999999999875541      1111110       011100  11111 2


Q ss_pred             CChHHHHHHHHHHh-ccCCeEEEEccccCc----------cchhhh-cCCcCCCCCCcEEEEecCChH-------Hhhcc
Q 048597          145 NSFEDKALDIAGIL-SRKRFVLLLDDIWEH----------INLNKL-GVPLQYLHLGSKIVFTTNSRV-------VCGQM  205 (294)
Q Consensus       145 ~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~----------~~~~~l-~~~l~~~~~gs~iivTtr~~~-------v~~~~  205 (294)
                      -+.++....+.+.+ +..+.+|++|.+++.          -+-..+ ..+|..+. --.|=.||-++.       .|-..
T Consensus       245 GeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGe-L~~IGATT~~EYRk~iEKD~AL~R  323 (786)
T COG0542         245 GEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGE-LRCIGATTLDEYRKYIEKDAALER  323 (786)
T ss_pred             CcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCC-eEEEEeccHHHHHHHhhhchHHHh
Confidence            23444444444444 345899999999862          112222 22332222 124445554332       12233


Q ss_pred             CCceeecCCCCHHHHHHHHHH
Q 048597          206 EATMLNASPLRDEEAWRLFEE  226 (294)
Q Consensus       206 ~~~~~~l~~L~~~~~~~Lf~~  226 (294)
                      ..+++.+...+.+++..+++-
T Consensus       324 RFQ~V~V~EPs~e~ti~ILrG  344 (786)
T COG0542         324 RFQKVLVDEPSVEDTIAILRG  344 (786)
T ss_pred             cCceeeCCCCCHHHHHHHHHH
Confidence            344588999999999888864

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.47  E-value=0.00056  Score=68.47  Aligned_cols=45  Identities=27%  Similarity=0.302  Sum_probs=35.8

Q ss_pred             cCceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.+..++.+...+...       ......+.++||.|+|||+||+.+
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~L  559 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKAL  559 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHH
Confidence            356899999999998888632       223456789999999999999988

>PRK06696 uridine kinase; Validated

Probab=97.44  E-value=0.00022  Score=59.99  Aligned_cols=41  Identities=17%  Similarity=0.207  Sum_probs=33.1

Q ss_pred             ehhHHHHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           82 RQELLLDRVWRFVTD-QERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        82 Gr~~~~~~l~~~L~~-~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .|+..+++|.+.+.. ......+|+|.|++|+||||||+.+.
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~   43 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELA   43 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHH
Confidence            366677788887764 34478899999999999999998884

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.43  E-value=0.00061  Score=64.88  Aligned_cols=148  Identities=15%  Similarity=0.060  Sum_probs=78.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHH----HHhccCCeEEEEccccCc--
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIA----GILSRKRFVLLLDDIWEH--  173 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~----~~l~~kr~LlvlDdv~~~--  173 (294)
                      ...-|.|.|+.|+|||+||+.+++-.. ...+....-.+++.......+..+..+.    +.+...+-+|||||++..  
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~  508 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSIIVLDDLDCLAS  508 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEEEEcchhhhhc
Confidence            456899999999999999999977555 3333322223333333334444443333    334678999999999641  


Q ss_pred             ------cchhh-----------hcCCcCCCCCCcE--EEEecCChHHh-----hccCCce-eecCCCCHHHHHHHHHHHh
Q 048597          174 ------INLNK-----------LGVPLQYLHLGSK--IVFTTNSRVVC-----GQMEATM-LNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       174 ------~~~~~-----------l~~~l~~~~~gs~--iivTtr~~~v~-----~~~~~~~-~~l~~L~~~~~~~Lf~~~~  228 (294)
                            .+|..           +...+  ...+.+  +|.|..+..-.     ...-.+. ..|.++...+-.++++...
T Consensus       509 ~s~~e~~q~~~~~~rla~flnqvi~~y--~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~  586 (952)
T KOG0735|consen  509 ASSNENGQDGVVSERLAAFLNQVIKIY--LKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIF  586 (952)
T ss_pred             cCcccCCcchHHHHHHHHHHHHHHHHH--HccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHH
Confidence                  12221           11111  223444  34444432211     1111122 7788888877777766544


Q ss_pred             CCCCCCCCCCHHHHHHHHHHhCCCC
Q 048597          229 GRYVLDSHPDIPELAKTMAEECCCL  253 (294)
Q Consensus       229 ~~~~~~~~~~~~~~~~~I~~~c~Gl  253 (294)
                      .......   ..+...-+..+|+|.
T Consensus       587 s~~~~~~---~~~dLd~ls~~TEGy  608 (952)
T KOG0735|consen  587 SKNLSDI---TMDDLDFLSVKTEGY  608 (952)
T ss_pred             Hhhhhhh---hhHHHHHHHHhcCCc
Confidence            3222111   112223388888884

>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=97.42  E-value=0.00048  Score=56.73  Aligned_cols=70  Identities=20%  Similarity=0.215  Sum_probs=41.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHh------------------h--ChhHHHHHHHHHhCCCCCCc-ccCChHHHHHHHHHHhc
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR------------------A--NLKKIQADIGKKIGLSTKSW-QENSFEDKALDIAGILS  159 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v------------------~--~~~~i~~~i~~~~~~~~~~~-~~~~~~~~~~~l~~~l~  159 (294)
                      +++|.++|+.|+||||.+-++                  |  .-.+.++.+.+.++++.... ...+.........+.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~   80 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFR   80 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHh
Confidence            479999999999999887777                  2  12245567777777643211 12234444433333333


Q ss_pred             c-CCeEEEEccc
Q 048597          160 R-KRFVLLLDDI  170 (294)
Q Consensus       160 ~-kr~LlvlDdv  170 (294)
                      . +.=++++|-.
T Consensus        81 ~~~~D~vlIDT~   92 (196)
T PF00448_consen   81 KKGYDLVLIDTA   92 (196)
T ss_dssp             HTTSSEEEEEE-
T ss_pred             hcCCCEEEEecC
Confidence            3 3347777865

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 ....

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.42  E-value=0.0017  Score=61.29  Aligned_cols=43  Identities=23%  Similarity=0.346  Sum_probs=33.4

Q ss_pred             ceeehhHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHh
Q 048597           79 TVIRQELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++--.+-++++..||...   ....+++.+.||+|+||||.++.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~L   65 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVL   65 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHH
Confidence            3444456788888888752   234679999999999999999888

>PRK06526 transposase; Provisional

Probab=97.41  E-value=0.00032  Score=60.21  Aligned_cols=21  Identities=29%  Similarity=0.352  Sum_probs=18.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..-+.++|++|+|||+||..+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al  118 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGL  118 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHH
Confidence            356899999999999999988

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

Probab=97.41  E-value=0.00075  Score=57.51  Aligned_cols=22  Identities=45%  Similarity=0.681  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+||+|+|||||.+.+
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l   48 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCL   48 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4589999999999999999999

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=97.41  E-value=0.00044  Score=63.50  Aligned_cols=21  Identities=33%  Similarity=0.589  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..++|+||+|+|||||++.+
T Consensus       362 G~~lgIIGPSgSGKSTLaR~l  382 (580)
T COG4618         362 GEALGIIGPSGSGKSTLARLL  382 (580)
T ss_pred             CceEEEECCCCccHHHHHHHH
Confidence            479999999999999999998

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

Probab=97.40  E-value=0.00043  Score=55.28  Aligned_cols=100  Identities=23%  Similarity=0.287  Sum_probs=54.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhH------------HH-----HHHHHHhCCCCCCcccCChHHHHHHHHHHhccCC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKK------------IQ-----ADIGKKIGLSTKSWQENSFEDKALDIAGILSRKR  162 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~------------i~-----~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr  162 (294)
                      .-.+++|.|++|+|||||++.+.....            +.     ......++...   +-+.-+...-.+...+-.++
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~---qLS~G~~qrl~laral~~~p  101 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVY---QLSVGERQMVEIARALARNA  101 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEE---ecCHHHHHHHHHHHHHhcCC
Confidence            347999999999999999999933221            10     00111111100   01111222334555666778


Q ss_pred             eEEEEccccCc---cchhhhcCCcCC-CCCCcEEEEecCChHHh
Q 048597          163 FVLLLDDIWEH---INLNKLGVPLQY-LHLGSKIVFTTNSRVVC  202 (294)
Q Consensus       163 ~LlvlDdv~~~---~~~~~l~~~l~~-~~~gs~iivTtr~~~v~  202 (294)
                      -++++|+.-+.   .....+...+.. ...|..||++|.+....
T Consensus       102 ~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216         102 RLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             CEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            89999998652   222222222211 12366788888886643

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.

>PRK06762 hypothetical protein; Provisional

Probab=97.39  E-value=0.0013  Score=52.47  Aligned_cols=21  Identities=43%  Similarity=0.559  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.+|.|.|++|+||||+|+.+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L   22 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQL   22 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999987

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

Probab=97.38  E-value=0.0011  Score=56.08  Aligned_cols=164  Identities=18%  Similarity=0.219  Sum_probs=90.9

Q ss_pred             CceeehhHHHH---HHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHhhChhHH-------HHHHHHHhCCCCCCcc
Q 048597           78 RTVIRQELLLD---RVWRFVTDQ----ERNRGIIGLYGTGGVGKTTLLKQRANLKKI-------QADIGKKIGLSTKSWQ  143 (294)
Q Consensus        78 ~~~vGr~~~~~---~l~~~L~~~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i-------~~~i~~~~~~~~~~~~  143 (294)
                      +.+||.++...   -|+..|.++    +-.++-|..+||+|.|||.+|+.+.+..++       .+-|...+|       
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVG-------  193 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVG-------  193 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhh-------
Confidence            34688775443   456666654    346789999999999999999999665542       122222221       


Q ss_pred             cCChHHHHHHHHHHh-ccCCeEEEEccccCc----------cchhhhcCCc----C--CCCCCcEEEEecCChHHhh---
Q 048597          144 ENSFEDKALDIAGIL-SRKRFVLLLDDIWEH----------INLNKLGVPL----Q--YLHLGSKIVFTTNSRVVCG---  203 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~----------~~~~~l~~~l----~--~~~~gs~iivTtr~~~v~~---  203 (294)
                        +-......+.+.- +.-.|++++|++...          .+...+..+|    .  ..+.|..-|..|.+.+...   
T Consensus       194 --dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~ai  271 (368)
T COG1223         194 --DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAI  271 (368)
T ss_pred             --hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHH
Confidence              1111222222222 456899999988641          1222222221    1  1334555566665554422   


Q ss_pred             ccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          204 QMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       204 ~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                      ...... ++...-++++-..++...+-.-.......    .+.++++.+|+.
T Consensus       272 RsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~----~~~~~~~t~g~S  319 (368)
T COG1223         272 RSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD----LRYLAAKTKGMS  319 (368)
T ss_pred             HhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC----HHHHHHHhCCCC
Confidence            112222 77777788888888887763221111222    366777777764

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

Probab=97.38  E-value=0.00093  Score=54.97  Aligned_cols=57  Identities=14%  Similarity=0.197  Sum_probs=33.7

Q ss_pred             HHHHHHHhccCCeEEEEccccCccc---hhhhcCCcC-CCCCCcEEEEecCChHHhhccCC
Q 048597          151 ALDIAGILSRKRFVLLLDDIWEHIN---LNKLGVPLQ-YLHLGSKIVFTTNSRVVCGQMEA  207 (294)
Q Consensus       151 ~~~l~~~l~~kr~LlvlDdv~~~~~---~~~l~~~l~-~~~~gs~iivTtr~~~v~~~~~~  207 (294)
                      .-.|.+.|.-++-++.+|+.-+.-+   ..++..... -...|-..++.|..-..|.....
T Consensus       144 RVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr~Vad  204 (240)
T COG1126         144 RVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREVAD  204 (240)
T ss_pred             HHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHHHhhh
Confidence            3456677778888999999876322   222211111 13346678888887666554443

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.37  E-value=0.00079  Score=55.61  Aligned_cols=22  Identities=50%  Similarity=0.736  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i   47 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLI   47 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

>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=97.35  E-value=0.00014  Score=60.03  Aligned_cols=36  Identities=17%  Similarity=0.164  Sum_probs=25.9

Q ss_pred             ehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           82 RQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        82 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+..+....++.|...    .++.+.|++|+|||.||-..
T Consensus         4 p~~~~Q~~~~~al~~~----~~v~~~G~AGTGKT~LA~a~   39 (205)
T PF02562_consen    4 PKNEEQKFALDALLNN----DLVIVNGPAGTGKTFLALAA   39 (205)
T ss_dssp             --SHHHHHHHHHHHH-----SEEEEE--TTSSTTHHHHHH
T ss_pred             CCCHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHH
Confidence            4556677778888744    79999999999999998776

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR01069 mutS2 MutS2 family protein

Probab=97.35  E-value=0.00028  Score=69.67  Aligned_cols=166  Identities=17%  Similarity=0.189  Sum_probs=86.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCC--C------------------CCcc---cCChHHHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLS--T------------------KSWQ---ENSFEDKALDIAG  156 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~--~------------------~~~~---~~~~~~~~~~l~~  156 (294)
                      +..++.|+||+|.|||||.+.+....     +..+.++.  .                  .+..   ..+...-...+..
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~~-----l~aq~G~~Vpa~~~~~~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~  395 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLLA-----LMFQSGIPIPANEHSEIPYFEEIFADIGDEQSIEQNLSTFSGHMKNISA  395 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHHH-----HHHHhCCCccCCccccccchhheeeecChHhHHhhhhhHHHHHHHHHHH
Confidence            34799999999999999999984321     11111100  0                  0000   0001111112222


Q ss_pred             Hhc--cCCeEEEEccccCccc---hhhh----cCCcCCCCCCcEEEEecCChHHhhccCCce----eecCCCCHHHHHHH
Q 048597          157 ILS--RKRFVLLLDDIWEHIN---LNKL----GVPLQYLHLGSKIVFTTNSRVVCGQMEATM----LNASPLRDEEAWRL  223 (294)
Q Consensus       157 ~l~--~kr~LlvlDdv~~~~~---~~~l----~~~l~~~~~gs~iivTtr~~~v~~~~~~~~----~~l~~L~~~~~~~L  223 (294)
                      .+.  ..+-|+++|+.-...+   -..+    ...+  ...|+.+|+||.............    ..+. ++.+ ... 
T Consensus       396 il~~~~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l--~~~g~~viitTH~~eL~~~~~~~~~v~~~~~~-~d~~-~l~-  470 (771)
T TIGR01069       396 ILSKTTENSLVLFDELGAGTDPDEGSALAISILEYL--LKQNAQVLITTHYKELKALMYNNEGVENASVL-FDEE-TLS-  470 (771)
T ss_pred             HHHhcCCCcEEEecCCCCCCCHHHHHHHHHHHHHHH--HhcCCEEEEECChHHHHHHhcCCCCeEEeEEE-EcCC-CCc-
Confidence            332  4788999999876322   2222    2222  235789999999887643322111    1111 1111 000 


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Q 048597          224 FEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILR  282 (294)
Q Consensus       224 f~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l~~  282 (294)
                      |..++.. +   .+. ...|-.|++++ |+|-.+..-|.-+.. ....+.+.++..|.+
T Consensus       471 p~Ykl~~-G---~~g-~S~a~~iA~~~-Glp~~ii~~A~~~~~-~~~~~~~~li~~L~~  522 (771)
T TIGR01069       471 PTYKLLK-G---IPG-ESYAFEIAQRY-GIPHFIIEQAKTFYG-EFKEEINVLIEKLSA  522 (771)
T ss_pred             eEEEECC-C---CCC-CcHHHHHHHHh-CcCHHHHHHHHHHHH-hhHHHHHHHHHHHHH
Confidence            1011111 1   111 24577888877 699999988887765 355677777777765

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.

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.34  E-value=0.0011  Score=58.65  Aligned_cols=38  Identities=21%  Similarity=0.280  Sum_probs=32.7

Q ss_pred             ehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           82 RQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        82 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|..+..--+++|.++  ....|.+.|.+|.|||-||-..
T Consensus       228 prn~eQ~~ALdlLld~--dI~lV~L~G~AGtGKTlLALaA  265 (436)
T COG1875         228 PRNAEQRVALDLLLDD--DIDLVSLGGKAGTGKTLLALAA  265 (436)
T ss_pred             cccHHHHHHHHHhcCC--CCCeEEeeccCCccHhHHHHHH
Confidence            4667777778888888  8999999999999999998776

>TIGR00767 rho transcription termination factor Rho

Probab=97.34  E-value=0.00046  Score=62.34  Aligned_cols=23  Identities=26%  Similarity=0.154  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-..++|+|++|+|||||++.++
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~  189 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIA  189 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHH
Confidence            34679999999999999999983

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

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.34  E-value=0.00036  Score=64.38  Aligned_cols=88  Identities=20%  Similarity=0.232  Sum_probs=56.6

Q ss_pred             eeehh---HHHHHHHHHHhcCC-------CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHH
Q 048597           80 VIRQE---LLLDRVWRFVTDQE-------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFED  149 (294)
Q Consensus        80 ~vGr~---~~~~~l~~~L~~~~-------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~  149 (294)
                      +-|-|   .++++|+++|.++.       .=++-|.++||+|.|||-||+.|.....+-     .+..++++++.+-...
T Consensus       306 VkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP-----FF~~sGSEFdEm~VGv  380 (752)
T KOG0734|consen  306 VKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP-----FFYASGSEFDEMFVGV  380 (752)
T ss_pred             ccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC-----eEeccccchhhhhhcc
Confidence            45655   47888899998763       236789999999999999999985544321     1112233333333333


Q ss_pred             HHHHHHHHh----ccCCeEEEEccccC
Q 048597          150 KALDIAGIL----SRKRFVLLLDDIWE  172 (294)
Q Consensus       150 ~~~~l~~~l----~~kr~LlvlDdv~~  172 (294)
                      -+..+++.+    ..-+|+|++|++..
T Consensus       381 GArRVRdLF~aAk~~APcIIFIDEiDa  407 (752)
T KOG0734|consen  381 GARRVRDLFAAAKARAPCIIFIDEIDA  407 (752)
T ss_pred             cHHHHHHHHHHHHhcCCeEEEEechhh
Confidence            344455444    35579999999875

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

Probab=97.33  E-value=0.00082  Score=56.20  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l   53 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLL   53 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHH
Confidence            4579999999999999999999

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.33  E-value=0.0011  Score=53.71  Aligned_cols=104  Identities=20%  Similarity=0.188  Sum_probs=55.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh------------hHHH---HHHHHHhCCCCCCc------------ccCCh-HHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL------------KKIQ---ADIGKKIGLSTKSW------------QENSF-EDKA  151 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~------------~~i~---~~i~~~~~~~~~~~------------~~~~~-~~~~  151 (294)
                      .-.+++|.|++|+|||||++.+...            ..+.   ..+...++......            ...+. +...
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~G~~qr  106 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSGGERQR  106 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCEEHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCHHHHHH
Confidence            3478999999999999999999211            1121   12222232211110            01111 1122


Q ss_pred             HHHHHHhccCCeEEEEccccCcc---chhhhcCCcCCCCCCcEEEEecCChHHhh
Q 048597          152 LDIAGILSRKRFVLLLDDIWEHI---NLNKLGVPLQYLHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~~---~~~~l~~~l~~~~~gs~iivTtr~~~v~~  203 (294)
                      -.|...+-.++-++++|+..+.-   ....+...+.....+..||++|++.....
T Consensus       107 v~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  161 (178)
T cd03247         107 LALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence            23455556778899999986532   12222222211123567888888877654

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.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.33  E-value=0.0021  Score=57.16  Aligned_cols=127  Identities=15%  Similarity=0.074  Sum_probs=65.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh-----h----------HHHHHHHHHhC-----CCCCC----c----ccCChHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL-----K----------KIQADIGKKIG-----LSTKS----W----QENSFEDKA  151 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~-----~----------~i~~~i~~~~~-----~~~~~----~----~~~~~~~~~  151 (294)
                      -...+.++|+.|+||||+|..+...     .          ..-+.+...-.     +....    .    .....++..
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR   99 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVR   99 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHH
Confidence            4567999999999999999887111     0          00011110000     00000    0    011233333


Q ss_pred             HHHHHHhc-----cCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhhcc--CCceeecCCCCHHHHH
Q 048597          152 LDIAGILS-----RKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQM--EATMLNASPLRDEEAW  221 (294)
Q Consensus       152 ~~l~~~l~-----~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~~--~~~~~~l~~L~~~~~~  221 (294)
                       .+.+.+.     +++-++++|++...  ..-..+...+.....++.+|++|.+.. +....  .+..+.+.+++.++..
T Consensus       100 -~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~  178 (325)
T PRK08699        100 -EIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEAL  178 (325)
T ss_pred             -HHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHH
Confidence             3444442     44556667877652  233333333322223466777777654 32222  2333999999999988


Q ss_pred             HHHHHH
Q 048597          222 RLFEEA  227 (294)
Q Consensus       222 ~Lf~~~  227 (294)
                      +.+.+.
T Consensus       179 ~~L~~~  184 (325)
T PRK08699        179 AYLRER  184 (325)
T ss_pred             HHHHhc
Confidence            877653

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

Probab=97.32  E-value=0.0013  Score=52.97  Aligned_cols=105  Identities=20%  Similarity=0.268  Sum_probs=55.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh------------hHHH----HHHHHHhCCCCCC--cccCCh--------HHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL------------KKIQ----ADIGKKIGLSTKS--WQENSF--------EDKALD  153 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~------------~~i~----~~i~~~~~~~~~~--~~~~~~--------~~~~~~  153 (294)
                      .-.+++|+|++|.|||||++.+...            ..+.    ..+...++.....  ....+.        +...-.
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~~~g~~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~lLS~G~~~rl~  106 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEILIDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIRENILSGGQRQRIA  106 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEECCEEhhhcCHHHHHhhEEEEcCCchhccchHHHHhhCHHHHHHHH
Confidence            4479999999999999999999221            1111    1112222221111  001111        111123


Q ss_pred             HHHHhccCCeEEEEccccCc---cchhhhcCCcCCCCCCcEEEEecCChHHhhc
Q 048597          154 IAGILSRKRFVLLLDDIWEH---INLNKLGVPLQYLHLGSKIVFTTNSRVVCGQ  204 (294)
Q Consensus       154 l~~~l~~kr~LlvlDdv~~~---~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~  204 (294)
                      +...+-.+.-++++|+-...   .....+...+.....+..||++|.+......
T Consensus       107 la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~  160 (171)
T cd03228         107 IARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD  160 (171)
T ss_pred             HHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh
Confidence            44555667789999997652   1222222222211224678888888766543

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.

>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=97.30  E-value=0.0012  Score=53.56  Aligned_cols=103  Identities=28%  Similarity=0.356  Sum_probs=56.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh--------------------hHHHHH------HHHHhCCCCC---CcccCC-hHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL--------------------KKIQAD------IGKKIGLSTK---SWQENS-FED  149 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~--------------------~~i~~~------i~~~~~~~~~---~~~~~~-~~~  149 (294)
                      +-.+++|+|++|+|||||++.+...                    ......      ++..+++...   .....+ -+.
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~  103 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGER  103 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHH
Confidence            3479999999999999999999111                    111111      2333343211   011112 122


Q ss_pred             HHHHHHHHhccCCeEEEEccccCc---cchhhhcCCcCC--CCCCcEEEEecCChHHh
Q 048597          150 KALDIAGILSRKRFVLLLDDIWEH---INLNKLGVPLQY--LHLGSKIVFTTNSRVVC  202 (294)
Q Consensus       150 ~~~~l~~~l~~kr~LlvlDdv~~~---~~~~~l~~~l~~--~~~gs~iivTtr~~~v~  202 (294)
                      ..-.+...+-..+-++++|+.-..   .....+...+..  ...|..||++|.+....
T Consensus       104 qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         104 QRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            233455666678889999998652   222233222221  11256788888876654

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.

>PRK07667 uridine kinase; Provisional

Probab=97.30  E-value=0.00037  Score=57.33  Aligned_cols=36  Identities=25%  Similarity=0.411  Sum_probs=29.6

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+.+.+.+........+|+|.|++|+||||+++.+.
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~   38 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLK   38 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            456777777665567899999999999999998874

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

Probab=97.29  E-value=0.00052  Score=65.40  Aligned_cols=43  Identities=26%  Similarity=0.355  Sum_probs=37.2

Q ss_pred             ceeehhHHHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHh
Q 048597           79 TVIRQELLLDRVWRFVTD----QERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-+|.++.+++|++++.-    ++.+-++++.+||+|+|||++++.|
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSI  458 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSI  458 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHH
Confidence            349999999999999964    3456789999999999999999887

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.29  E-value=0.00033  Score=54.27  Aligned_cols=107  Identities=12%  Similarity=0.086  Sum_probs=57.0

Q ss_pred             eehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhcc
Q 048597           81 IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSR  160 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~  160 (294)
                      ||....+.++.+.+..-......|.|.|..|+||+++|+.++....-.....    . ........     ..+.+.  .
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~----~-~~~~~~~~-----~~~l~~--a   68 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRANGPF----I-VIDCASLP-----AELLEQ--A   68 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-C----C-CCCHHCTC-----HHHHHH--C
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCe----E-EechhhCc-----HHHHHH--c
Confidence            4666666677666665333557789999999999999998854332200000    0 00000111     112221  2


Q ss_pred             CCeEEEEccccCc--cchhhhcCCcCC-CCCCcEEEEecCCh
Q 048597          161 KRFVLLLDDIWEH--INLNKLGVPLQY-LHLGSKIVFTTNSR  199 (294)
Q Consensus       161 kr~LlvlDdv~~~--~~~~~l~~~l~~-~~~gs~iivTtr~~  199 (294)
                      +.-.|+|+|+..-  .....+...+.. .....|+|.||...
T Consensus        69 ~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   69 KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence            5667889999762  233333333321 24567999998754

>PRK09183 transposase/IS protein; Provisional

Probab=97.27  E-value=0.00042  Score=59.70  Aligned_cols=22  Identities=41%  Similarity=0.445  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+.|+|++|+|||+||..+.
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~  123 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALG  123 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHH
Confidence            3568899999999999999883

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.25  E-value=0.002  Score=53.41  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l   47 (204)
T PRK13538         26 AGELVQIEGPNGAGKTSLLRIL   47 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

>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=97.24  E-value=0.00062  Score=55.11  Aligned_cols=104  Identities=18%  Similarity=0.114  Sum_probs=54.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHH-HH---HHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCcc-
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQAD-IG---KKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHI-  174 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~-i~---~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-  174 (294)
                      .-.+++|+|++|+|||||++.+......... +.   ..++.......-+.-+...-.+...+..+.-++++|+--..- 
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllLDEPts~LD  103 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLFDEPSAYLD  103 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEEECCcccCC
Confidence            3479999999999999999998443321100 00   001110110001111222334555666788899999875521 


Q ss_pred             --chhhhcCCcCC--CCCCcEEEEecCChHHhh
Q 048597          175 --NLNKLGVPLQY--LHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       175 --~~~~l~~~l~~--~~~gs~iivTtr~~~v~~  203 (294)
                        ....+...+..  ...+..||++|.+.....
T Consensus       104 ~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222         104 IEQRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence              22222222211  112356888888766544

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.24  E-value=0.00036  Score=65.67  Aligned_cols=43  Identities=21%  Similarity=0.343  Sum_probs=37.1

Q ss_pred             ceeehhHHHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHh
Q 048597           79 TVIRQELLLDRVWRFVTD----QERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++|.++.+++|++.|..    -+...+++.++||+|+||||||+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~l  123 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERL  123 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHH
Confidence            469999999999999932    2346689999999999999999998

>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=97.23  E-value=0.00079  Score=54.26  Aligned_cols=104  Identities=19%  Similarity=0.262  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh------------HH----HHHHHHHhCCCCCCcc--c-------CC-hHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK------------KI----QADIGKKIGLSTKSWQ--E-------NS-FEDKALD  153 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~------------~i----~~~i~~~~~~~~~~~~--~-------~~-~~~~~~~  153 (294)
                      .-.+++|+|++|+|||||++.+....            .+    ...+...++.......  .       .+ -+...-.
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~lLS~G~~qrv~  106 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNELGDHVGYLPQDDELFSGSIAENILSGGQRQRLG  106 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCCCCCeEEECCEEcccCCHHHHHhheEEECCCCccccCcHHHHCcCHHHHHHHH
Confidence            34699999999999999999992211            11    1112222222111100  0       01 1112223


Q ss_pred             HHHHhccCCeEEEEccccCcc---chhhhcCCcCC-CCCCcEEEEecCChHHhh
Q 048597          154 IAGILSRKRFVLLLDDIWEHI---NLNKLGVPLQY-LHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       154 l~~~l~~kr~LlvlDdv~~~~---~~~~l~~~l~~-~~~gs~iivTtr~~~v~~  203 (294)
                      |...+-.+.-++++|+....-   ....+...+.. ...|..||++|.+.....
T Consensus       107 la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  160 (173)
T cd03246         107 LARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA  160 (173)
T ss_pred             HHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            445556677799999986521   12222222211 123667888888876654

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

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.21  E-value=0.0016  Score=55.73  Aligned_cols=21  Identities=43%  Similarity=0.823  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        25 Ge~~~i~G~NGsGKSTLlk~L   45 (246)
T cd03237          25 SEVIGILGPNGIGKTTFIKML   45 (246)
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999999

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.20  E-value=0.00074  Score=55.89  Aligned_cols=64  Identities=17%  Similarity=0.188  Sum_probs=39.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHH----------------HHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCe
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQ----------------ADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRF  163 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~----------------~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~  163 (294)
                      .+.+|+|.|.+|+||||+|+.+.......                ..+..........+...+.+-+.+.|...+++++.
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~~~~~I~~D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L~~g~~v   86 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVEKVVVISLDDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDLKQGKPV   86 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcCcceEeeccccccchhhcCHhhcCCcCccChhhhcHHHHHHHHHHHHcCCcc
Confidence            56899999999999999999983322210                01111222222222345666677778887777763

>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=97.20  E-value=0.00076  Score=54.62  Aligned_cols=22  Identities=41%  Similarity=0.635  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l   46 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCI   46 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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.

>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=97.20  E-value=0.002  Score=51.89  Aligned_cols=104  Identities=23%  Similarity=0.340  Sum_probs=55.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh------------HHH---HHHHHHhCCCCCC---cccCCh--------H-HHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK------------KIQ---ADIGKKIGLSTKS---WQENSF--------E-DKAL  152 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~------------~i~---~~i~~~~~~~~~~---~~~~~~--------~-~~~~  152 (294)
                      .-.+++|+|++|.|||||++.+....            .+.   ..+...++.....   ....+.        . ...-
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G~~qrv  104 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLLKPDSGEIKVLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKLSGGMKQRL  104 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEEcccchHhhhccEEEEecCCccccCCcHHHHhhcCHHHHHHH
Confidence            34699999999999999999993221            111   1112222211111   111111        1 1122


Q ss_pred             HHHHHhccCCeEEEEccccCccc---hhhhcCCcCC-CCCCcEEEEecCChHHhh
Q 048597          153 DIAGILSRKRFVLLLDDIWEHIN---LNKLGVPLQY-LHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       153 ~l~~~l~~kr~LlvlDdv~~~~~---~~~l~~~l~~-~~~gs~iivTtr~~~v~~  203 (294)
                      .+...+..++-++++|+.-..-+   ...+...+.. ...|..+|++|.+.....
T Consensus       105 ~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~  159 (173)
T cd03230         105 ALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH
Confidence            35556667888999999865322   2222222221 122677888888876544

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.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.20  E-value=0.00092  Score=54.91  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...|.++.||+|+||||+.+.+
T Consensus        32 ~~~VTAlIGPSGcGKST~LR~l   53 (253)
T COG1117          32 KNKVTALIGPSGCGKSTLLRCL   53 (253)
T ss_pred             CCceEEEECCCCcCHHHHHHHH
Confidence            4589999999999999999998

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.18  E-value=0.002  Score=53.44  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l   48 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLI   48 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.18  E-value=0.0019  Score=54.07  Aligned_cols=22  Identities=50%  Similarity=0.690  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l   48 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKML   48 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999999

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.

>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=97.17  E-value=0.002  Score=50.22  Aligned_cols=99  Identities=28%  Similarity=0.341  Sum_probs=54.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHH-H----HHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCc-
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQAD-I----GKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEH-  173 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~-i----~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~-  173 (294)
                      .-.+++|+|++|.|||||++.+......... +    ...++...   +-+.-+...-.+...+-.+.-++++|+.-.. 
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~---~lS~G~~~rv~laral~~~p~illlDEP~~~L  101 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFE---QLSGGEKMRLALAKLLLENPNLLLLDEPTNHL  101 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEc---cCCHHHHHHHHHHHHHhcCCCEEEEeCCccCC
Confidence            4479999999999999999999554322110 0    00111100   0111122333455666677889999987642 


Q ss_pred             --cchhhhcCCcCCCCCCcEEEEecCChHHhh
Q 048597          174 --INLNKLGVPLQYLHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       174 --~~~~~l~~~l~~~~~gs~iivTtr~~~v~~  203 (294)
                        .....+...+...  +..|+++|.......
T Consensus       102 D~~~~~~l~~~l~~~--~~til~~th~~~~~~  131 (144)
T cd03221         102 DLESIEALEEALKEY--PGTVILVSHDRYFLD  131 (144)
T ss_pred             CHHHHHHHHHHHHHc--CCEEEEEECCHHHHH
Confidence              2222332222222  246888888766543

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.

>PRK12377 putative replication protein; Provisional

Probab=97.16  E-value=0.0022  Score=54.80  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....+.++|++|+|||+||..+.+
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~  123 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGN  123 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998843

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.16  E-value=0.0015  Score=54.42  Aligned_cols=22  Identities=41%  Similarity=0.619  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l   46 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLI   46 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999998

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

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

Probab=97.16  E-value=0.00021  Score=57.97  Aligned_cols=21  Identities=38%  Similarity=0.441  Sum_probs=18.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..-+.++|+.|+|||.||..+
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai   67 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAI   67 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHH
T ss_pred             CeEEEEEhhHhHHHHHHHHHH
Confidence            467999999999999999988

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.

>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=97.15  E-value=0.0022  Score=51.36  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l   47 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRAL   47 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.15  E-value=0.0022  Score=60.60  Aligned_cols=113  Identities=22%  Similarity=0.271  Sum_probs=64.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh------------------------------------------h-C-hhHHHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR------------------------------------------A-N-LKKIQADIGKKI  135 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v------------------------------------------~-~-~~~i~~~i~~~~  135 (294)
                      .-..|+|+|+.|+|||||.+.+                                          + . ...-.+.++.++
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f  426 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRF  426 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHc
Confidence            4578999999999999999998                                          0 0 011222333344


Q ss_pred             CCCCCCcc----cCCh-HHHHHHHHHHhccCCeEEEEccccCcc---chhhhcCCcCCCCCCcEEEEecCChHHhhccCC
Q 048597          136 GLSTKSWQ----ENSF-EDKALDIAGILSRKRFVLLLDDIWEHI---NLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA  207 (294)
Q Consensus       136 ~~~~~~~~----~~~~-~~~~~~l~~~l~~kr~LlvlDdv~~~~---~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~  207 (294)
                      +++.....    ..+- +...-.+...+-.+.-+||||+--+.-   ..+.+...+..- .| .||+.|.+.........
T Consensus       427 ~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f-~G-tvl~VSHDr~Fl~~va~  504 (530)
T COG0488         427 GFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDF-EG-TVLLVSHDRYFLDRVAT  504 (530)
T ss_pred             CCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhC-CC-eEEEEeCCHHHHHhhcc
Confidence            33322110    1111 222233455556788999999876632   333333333222 24 58889999887766654


Q ss_pred             ceeecCC
Q 048597          208 TMLNASP  214 (294)
Q Consensus       208 ~~~~l~~  214 (294)
                      ..+.+.+
T Consensus       505 ~i~~~~~  511 (530)
T COG0488         505 RIWLVED  511 (530)
T ss_pred             eEEEEcC
Confidence            4455553

>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=97.15  E-value=0.00033  Score=54.27  Aligned_cols=20  Identities=50%  Similarity=0.634  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +|.+.|++|+||||+|+.+.
T Consensus         1 lii~~G~pgsGKSt~a~~l~   20 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLA   20 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            68899999999999999983

...

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.15  E-value=0.0013  Score=59.06  Aligned_cols=35  Identities=29%  Similarity=0.155  Sum_probs=25.8

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++++.+..-. .-..+.|+|++|+|||||++.+
T Consensus       119 ~~~RvID~l~PiG-kGQR~LIvG~pGtGKTTLl~~l  153 (380)
T PRK12608        119 LSMRVVDLVAPIG-KGQRGLIVAPPRAGKTVLLQQI  153 (380)
T ss_pred             hhHhhhhheeecC-CCceEEEECCCCCCHHHHHHHH
Confidence            3445777776422 2346699999999999999986

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.14  E-value=0.0091  Score=55.58  Aligned_cols=37  Identities=24%  Similarity=0.329  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHh-----cCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           85 LLLDRVWRFVT-----DQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        85 ~~~~~l~~~L~-----~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-++++..||.     ...-+.+++.|.||+|+||||.++.+
T Consensus        89 kKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvL  130 (634)
T KOG1970|consen   89 KKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVL  130 (634)
T ss_pred             HhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHH
Confidence            45778888887     34345679999999999999999887

>PRK04132 replication factor C small subunit; Provisional

Probab=97.14  E-value=0.0042  Score=61.66  Aligned_cols=149  Identities=11%  Similarity=0.037  Sum_probs=84.3

Q ss_pred             Ec--CCCChHHHHHHHhhChhHHHHH-H-HHHhCCCCCCcccCChHHHHHHHHHHhc------cCCeEEEEccccCc--c
Q 048597          107 YG--TGGVGKTTLLKQRANLKKIQAD-I-GKKIGLSTKSWQENSFEDKALDIAGILS------RKRFVLLLDDIWEH--I  174 (294)
Q Consensus       107 ~G--~~GiGKTtLa~~v~~~~~i~~~-i-~~~~~~~~~~~~~~~~~~~~~~l~~~l~------~kr~LlvlDdv~~~--~  174 (294)
                      .|  |.++||||+|..+.+..  ..+ + ...+.+...  +....+.....+.+...      .+..++++|+++..  .
T Consensus       570 ~G~lPh~lGKTT~A~ala~~l--~g~~~~~~~lElNAS--d~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~~  645 (846)
T PRK04132        570 GGNLPTVLHNTTAALALAREL--FGENWRHNFLELNAS--DERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQD  645 (846)
T ss_pred             cCCCCCcccHHHHHHHHHHhh--hcccccCeEEEEeCC--CcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCHH
Confidence            36  88899999998874421  000 0 001111111  11233444444443331      13479999999873  4


Q ss_pred             chhhhcCCcCCCCCCcEEEEecCChH-Hhhc--cCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCC
Q 048597          175 NLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQ--MEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECC  251 (294)
Q Consensus       175 ~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~--~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~  251 (294)
                      ....+...+..-...+++|++|.+.. +...  ..+..+++.+++.++....+...+.......+   .+....|++.|+
T Consensus       646 AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~---~e~L~~Ia~~s~  722 (846)
T PRK04132        646 AQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT---EEGLQAILYIAE  722 (846)
T ss_pred             HHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHcC
Confidence            55556555543334566776665543 2211  12334999999999988888776644332222   356789999999


Q ss_pred             CChHHHHHHHH
Q 048597          252 CLPLALKTVGR  262 (294)
Q Consensus       252 GlPlai~~i~~  262 (294)
                      |-+-.+..+-.
T Consensus       723 GDlR~AIn~Lq  733 (846)
T PRK04132        723 GDMRRAINILQ  733 (846)
T ss_pred             CCHHHHHHHHH
Confidence            98855544443

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.13  E-value=0.002  Score=56.87  Aligned_cols=42  Identities=31%  Similarity=0.280  Sum_probs=29.5

Q ss_pred             ehhHHHHHHHHHHhcCC--CCceEEEEEcCCCChHHHHHHHhhC
Q 048597           82 RQELLLDRVWRFVTDQE--RNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        82 Gr~~~~~~l~~~L~~~~--~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ++........+++..-.  ....-+.++|+.|+|||.||..+.+
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~  178 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIAN  178 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            45555555566665421  1346799999999999999998833

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.13  E-value=0.0029  Score=53.86  Aligned_cols=37  Identities=22%  Similarity=0.316  Sum_probs=26.4

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+..+..+..........+.++|++|+|||+|+..+.
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia  120 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAIC  120 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHH
Confidence            4445555554432234588999999999999999983

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.12  E-value=0.0027  Score=52.83  Aligned_cols=19  Identities=47%  Similarity=0.814  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +++|+|++|+|||||++.+
T Consensus        27 ~~~i~G~nGsGKSTLl~~l   45 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRIL   45 (211)
T ss_pred             cEEEECCCCCCHHHHHHHH
Confidence            8999999999999999999

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.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.12  E-value=0.0028  Score=52.94  Aligned_cols=22  Identities=36%  Similarity=0.472  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~i   57 (214)
T PRK13543         36 AGEALLVQGDNGAGKTTLLRVL   57 (214)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHH
Confidence            4479999999999999999999

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=97.11  E-value=0.0011  Score=54.96  Aligned_cols=103  Identities=21%  Similarity=0.178  Sum_probs=54.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh----------------HHHHHHHHHhCCCCCCcccCChHHHH---HHHHHHh--
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK----------------KIQADIGKKIGLSTKSWQENSFEDKA---LDIAGIL--  158 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~----------------~i~~~i~~~~~~~~~~~~~~~~~~~~---~~l~~~l--  158 (294)
                      ...++.|.|++|.||||+++.+....                .+...+...++....  .........   ..+...+  
T Consensus        28 ~~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~vpa~~~~l~~~d~I~~~~~~~d~--~~~~~S~fs~e~~~~~~il~~  105 (204)
T cd03282          28 SSRFHIITGPNMSGKSTYLKQIALLAIMAQIGCFVPAEYATLPIFNRLLSRLSNDDS--MERNLSTFASEMSETAYILDY  105 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCCcchhhcCccChhheeEecCCccc--cchhhhHHHHHHHHHHHHHHh
Confidence            34899999999999999999883322                111112112111100  011111111   1122222  


Q ss_pred             ccCCeEEEEccccCc---cch----hhhcCCcCCCCCCcEEEEecCChHHhhccC
Q 048597          159 SRKRFVLLLDDIWEH---INL----NKLGVPLQYLHLGSKIVFTTNSRVVCGQME  206 (294)
Q Consensus       159 ~~kr~LlvlDdv~~~---~~~----~~l~~~l~~~~~gs~iivTtr~~~v~~~~~  206 (294)
                      ..++-|+++|+....   .+.    ..+...+.  ..|+.+|++|.....+....
T Consensus       106 ~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~--~~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         106 ADGDSLVLIDELGRGTSSADGFAISLAILECLI--KKESTVFFATHFRDIAAILG  158 (204)
T ss_pred             cCCCcEEEeccccCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhh
Confidence            356789999998542   111    11222222  22788999999988766544

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

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.10  E-value=0.00072  Score=57.16  Aligned_cols=25  Identities=36%  Similarity=0.587  Sum_probs=22.0

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHhh
Q 048597           98 ERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        98 ~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .....+|+|.|++|+|||||++.+.
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~   54 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLE   54 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHH
Confidence            3467899999999999999999873

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.09  E-value=0.00071  Score=60.95  Aligned_cols=25  Identities=28%  Similarity=0.115  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      -...+|+|++|+|||||++.|++..
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I  193 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSI  193 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHH
Confidence            4678899999999999999985433

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.09  E-value=0.00035  Score=62.31  Aligned_cols=26  Identities=23%  Similarity=0.322  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHhhCh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ..+..++||||+|+|||.+|+.+++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            36789999999999999999988543

>PRK06547 hypothetical protein; Provisional

Probab=97.08  E-value=0.00077  Score=54.30  Aligned_cols=32  Identities=25%  Similarity=0.179  Sum_probs=24.9

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +...+...  ...+|+|.|++|+||||+++.+..
T Consensus         6 ~~~~~~~~--~~~~i~i~G~~GsGKTt~a~~l~~   37 (172)
T PRK06547          6 IAARLCGG--GMITVLIDGRSGSGKTTLAGALAA   37 (172)
T ss_pred             HHHHhhcC--CCEEEEEECCCCCCHHHHHHHHHH
Confidence            33444443  788999999999999999988843

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.08  E-value=0.005  Score=53.28  Aligned_cols=112  Identities=21%  Similarity=0.233  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh------------hHH-----HHHHHHHhC-CCCCCc----c
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL------------KKI-----QADIGKKIG-LSTKSW----Q  143 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~------------~~i-----~~~i~~~~~-~~~~~~----~  143 (294)
                      ..+.++..+... ....-++|+|+.|+|||||++.+...            .++     ..++...+. ++....    +
T Consensus        97 ~~~~~l~~l~~~-~~~~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~  175 (270)
T TIGR02858        97 AADKLLPYLVRN-NRVLNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTD  175 (270)
T ss_pred             cHHHHHHHHHhC-CCeeEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhccccccccccccc
Confidence            344455555532 24578999999999999999998211            111     233333222 111110    0


Q ss_pred             cCChHHHHHHHHHHhc-cCCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHH
Q 048597          144 ENSFEDKALDIAGILS-RKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~-~kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v  201 (294)
                      ..+....+..+...+. ..+-++++|++-..+.+..+...+.   .|..+|+||....+
T Consensus       176 v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~  231 (270)
T TIGR02858       176 VLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDV  231 (270)
T ss_pred             ccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHH
Confidence            1111111223333333 5788999999987766666644442   47789999987655

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.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.08  E-value=0.015  Score=55.31  Aligned_cols=157  Identities=17%  Similarity=0.116  Sum_probs=82.8

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----HHH--HHHHHhCCCCC
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQA--DIGKKIGLSTK  140 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~~--~i~~~~~~~~~  140 (294)
                      .+-|.++.+.++.+.+..+           -..++-|.++||+|+|||++|+.+.+...     +..  -|...+     
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~v-----  509 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYV-----  509 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhc-----
Confidence            4445776666666555322           14678999999999999999999955332     111  111111     


Q ss_pred             CcccCChHHHHHHHHHHhccCCeEEEEccccCcc-------------chhhhcCCcCC--CCCCcEEEEecCCh-HH-hh
Q 048597          141 SWQENSFEDKALDIAGILSRKRFVLLLDDIWEHI-------------NLNKLGVPLQY--LHLGSKIVFTTNSR-VV-CG  203 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-------------~~~~l~~~l~~--~~~gs~iivTtr~~-~v-~~  203 (294)
                         ..++..+..-+.+.=+--.++|+||++....             .+..+..-+..  ..++--||-.|... .+ ..
T Consensus       510 ---GeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~A  586 (693)
T KOG0730|consen  510 ---GESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPA  586 (693)
T ss_pred             ---CchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHH
Confidence               2233333333333334557999999987521             01111111111  11122233333222 22 11


Q ss_pred             ccC---Cce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHH
Q 048597          204 QME---ATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELA  243 (294)
Q Consensus       204 ~~~---~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~  243 (294)
                      .+.   ... +.+.+-+.+...++|+.++-.......-++.+++
T Consensus       587 LlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La  630 (693)
T KOG0730|consen  587 LLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELA  630 (693)
T ss_pred             HcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHH
Confidence            222   334 7788888888899999888554433333444443

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=97.08  E-value=0.02  Score=50.77  Aligned_cols=37  Identities=24%  Similarity=0.449  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHhcCC-CCceEEEEEcCCCChHHHHHHHh
Q 048597           85 LLLDRVWRFVTDQE-RNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        85 ~~~~~l~~~L~~~~-~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+.|.+.+...+ ....+|+|.|+=|+||||+.+.+
T Consensus         3 ~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l   40 (325)
T PF07693_consen    3 PYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNML   40 (325)
T ss_pred             HHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHH
Confidence            34556677776643 57889999999999999999988

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.06  E-value=0.0013  Score=60.36  Aligned_cols=45  Identities=33%  Similarity=0.271  Sum_probs=33.7

Q ss_pred             CceeehhHHHHHHHHHHhcC--------------CCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ--------------ERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~--------------~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|.+..++.+...+...              +...+.+.++|++|+|||+||+.+.
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA  129 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLA  129 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHH
Confidence            46899998888776555211              0123679999999999999999884

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=97.06  E-value=0.0033  Score=52.11  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|.|++|+|||||++.+
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l   54 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILAL   54 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999999

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.

>COG3910 Predicted ATPase [General function prediction only]

Probab=97.06  E-value=0.0028  Score=51.03  Aligned_cols=22  Identities=36%  Similarity=0.457  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++-.|+|..|+|||||+-.+
T Consensus        36 ~apIT~i~GENGsGKSTLLEai   57 (233)
T COG3910          36 RAPITFITGENGSGKSTLLEAI   57 (233)
T ss_pred             cCceEEEEcCCCccHHHHHHHH
Confidence            4689999999999999999988

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

Probab=97.06  E-value=0.0018  Score=55.25  Aligned_cols=125  Identities=20%  Similarity=0.240  Sum_probs=69.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh------------hC--------hh---HHHHHHHHHhCCCCCCc---c-cCChHH-HH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR------------AN--------LK---KIQADIGKKIGLSTKSW---Q-ENSFED-KA  151 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v------------~~--------~~---~i~~~i~~~~~~~~~~~---~-~~~~~~-~~  151 (294)
                      +-.+++|+|.+|+|||||++.+            |+        ..   +-..+++..+++.....   . ..+-.+ ..
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQR  117 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQR  117 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhhh
Confidence            4579999999999999999999            22        11   12234455555432110   0 111112 22


Q ss_pred             HHHHHHhccCCeEEEEccccCcc------chhhhcCCcCCCCCCcEEEEecCChHHhhccCCce--eecCC-CCHHHHHH
Q 048597          152 LDIAGILSRKRFVLLLDDIWEHI------NLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM--LNASP-LRDEEAWR  222 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~~------~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~--~~l~~-L~~~~~~~  222 (294)
                      -.|.+.|.-+.-|+|.|+.-+.-      +.-.+...+. ...|-..++.|.+-.++..+....  ..++. .......+
T Consensus       118 i~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq-~~~~lt~lFIsHDL~vv~~isdri~VMy~G~iVE~g~~~~  196 (268)
T COG4608         118 IGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQ-EELGLTYLFISHDLSVVRYISDRIAVMYLGKIVEIGPTEE  196 (268)
T ss_pred             HHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHH-HHhCCeEEEEEEEHHhhhhhcccEEEEecCceeEecCHHH
Confidence            24667788899999999875532      2222222221 223556777888877776665443  22222 33344445


Q ss_pred             HHH
Q 048597          223 LFE  225 (294)
Q Consensus       223 Lf~  225 (294)
                      +|.
T Consensus       197 ~~~  199 (268)
T COG4608         197 VFS  199 (268)
T ss_pred             Hhh
Confidence            553

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.06  E-value=0.0021  Score=53.76  Aligned_cols=99  Identities=17%  Similarity=0.240  Sum_probs=57.6

Q ss_pred             CceeehhHHHHHHHHHHhc--CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTD--QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIA  155 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~--~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~  155 (294)
                      ..++|.+...+.+++--..  ......-|.+||..|+|||+|++.+.+...-  .-+.-+.+     ...+... ...|.
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~--~glrLVEV-----~k~dl~~-Lp~l~  131 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYAD--EGLRLVEV-----DKEDLAT-LPDLV  131 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHh--cCCeEEEE-----cHHHHhh-HHHHH
Confidence            4678988877777654432  1125568999999999999999988542211  00011111     1111111 12344


Q ss_pred             HHh--ccCCeEEEEccccC---ccchhhhcCCcC
Q 048597          156 GIL--SRKRFVLLLDDIWE---HINLNKLGVPLQ  184 (294)
Q Consensus       156 ~~l--~~kr~LlvlDdv~~---~~~~~~l~~~l~  184 (294)
                      +.|  ...||+|+.||+.=   ......+...+.
T Consensus       132 ~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~Le  165 (287)
T COG2607         132 ELLRARPEKFILFCDDLSFEEGDDAYKALKSALE  165 (287)
T ss_pred             HHHhcCCceEEEEecCCCCCCCchHHHHHHHHhc
Confidence            444  46799999999942   345555655553

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.05  E-value=0.0012  Score=58.95  Aligned_cols=43  Identities=16%  Similarity=0.139  Sum_probs=33.9

Q ss_pred             eeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           80 VIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ++|....+.++.+.+..-.....-|.|+|..|+||+++|+.+.
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH   43 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLH   43 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHH
Confidence            4677777777777776544455778999999999999999884

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

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

Probab=97.05  E-value=0.0029  Score=51.42  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l   46 (182)
T cd03215          25 AGEIVGIAGLVGNGQTELAEAL   46 (182)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999999

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.

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

Probab=97.04  E-value=0.0059  Score=53.60  Aligned_cols=22  Identities=55%  Similarity=0.736  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++++.|++|+|||||.+.+
T Consensus        30 ~Gei~gllG~NGAGKTTllk~l   51 (293)
T COG1131          30 PGEIFGLLGPNGAGKTTLLKIL   51 (293)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=97.04  E-value=0.0032  Score=55.54  Aligned_cols=22  Identities=32%  Similarity=0.628  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        18 ~Ge~~~l~G~NGaGKSTLl~~l   39 (302)
T TIGR01188        18 EGEVFGFLGPNGAGKTTTIRML   39 (302)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999999

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.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=97.04  E-value=0.0038  Score=55.02  Aligned_cols=22  Identities=36%  Similarity=0.644  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|+.|.|||||++.+
T Consensus        27 ~Gei~~l~G~NGaGKTTLl~~l   48 (301)
T TIGR03522        27 KGRIVGFLGPNGAGKSTTMKII   48 (301)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.0047  Score=58.11  Aligned_cols=169  Identities=18%  Similarity=0.111  Sum_probs=92.3

Q ss_pred             ceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCC----cc
Q 048597           79 TVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKS----WQ  143 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~----~~  143 (294)
                      .+-|.++...++...+..+           -..+.-|.+|||+|+|||-||+.|.|...+-     .+.+.+..    +-
T Consensus       512 dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~N-----FisVKGPELlNkYV  586 (802)
T KOG0733|consen  512 DIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGAN-----FISVKGPELLNKYV  586 (802)
T ss_pred             hcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCc-----eEeecCHHHHHHHh
Confidence            3344566666666665543           1246789999999999999999996644321     00011100    01


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCc-------cch------hhhcCCcC--CCCCCcEEEEecCChHHh-----h
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEH-------INL------NKLGVPLQ--YLHLGSKIVFTTNSRVVC-----G  203 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~-------~~~------~~l~~~l~--~~~~gs~iivTtr~~~v~-----~  203 (294)
                      ..++.....-+++.=..-.|+|++|++...       ..|      ..+..-+.  ....|--||-.|...++.     .
T Consensus       587 GESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLR  666 (802)
T KOG0733|consen  587 GESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILR  666 (802)
T ss_pred             hhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcC
Confidence            123333333344443567899999998751       111      12211111  234566666666554431     1


Q ss_pred             ccCCce-eecCCCCHHHHHHHHHHHhCCCC--CCCCCCHHHHHHHHHHhCCCCh
Q 048597          204 QMEATM-LNASPLRDEEAWRLFEEAVGRYV--LDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       204 ~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~--~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                      ...-.. +.++.-+.+|-..+++...-...  ...+-++.++++.  .+|.|.-
T Consensus       667 PGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  667 PGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             CCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            112233 77888888899999988775322  2333455555443  3566654

>PRK04296 thymidine kinase; Provisional

Probab=97.03  E-value=0.00073  Score=55.40  Aligned_cols=96  Identities=24%  Similarity=0.154  Sum_probs=51.4

Q ss_pred             eEEEEEcCCCChHHHHHHHhhCh-----------------hHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeE
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANL-----------------KKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFV  164 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~-----------------~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~L  164 (294)
                      .++.|+|+.|.||||++..+...                 ..-...+..+++............++...+.+ ..++.-+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~~~dv   81 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGEKIDC   81 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCCCCCE
Confidence            57889999999999998777111                 11111233333322111111223344444444 2334458


Q ss_pred             EEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH
Q 048597          165 LLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV  200 (294)
Q Consensus       165 lvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~  200 (294)
                      |++|++.-.  ++...+...+  ...|..+++|.+..+
T Consensus        82 viIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         82 VLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             EEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            999999542  2233332222  234778999998844

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=97.03  E-value=0.00062  Score=67.46  Aligned_cols=166  Identities=21%  Similarity=0.189  Sum_probs=88.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCC--------------------ccc---CChHHHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKS--------------------WQE---NSFEDKALDIAG  156 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~--------------------~~~---~~~~~~~~~l~~  156 (294)
                      +.+++.|+||++.||||+.+.+.-     ..++.+.++....                    ...   .+...-...+..
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl-----~~~maq~G~~vpa~~~~~i~~~~~i~~~ig~~~si~~~lStfS~~m~~~~~  400 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGL-----AALMAKSGLPIPANEPSEIPVFKEIFADIGDEQSIEQSLSTFSGHMTNIVR  400 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHH-----HHHHHHhCCCcccCCCccccccceEEEecCCccchhhchhHHHHHHHHHHH
Confidence            457899999999999999998821     1122222211000                    000   111111222233


Q ss_pred             Hhc--cCCeEEEEccccCccc---hhhh----cCCcCCCCCCcEEEEecCChHHhhccCCce----eecCCCCHHHHHHH
Q 048597          157 ILS--RKRFVLLLDDIWEHIN---LNKL----GVPLQYLHLGSKIVFTTNSRVVCGQMEATM----LNASPLRDEEAWRL  223 (294)
Q Consensus       157 ~l~--~kr~LlvlDdv~~~~~---~~~l----~~~l~~~~~gs~iivTtr~~~v~~~~~~~~----~~l~~L~~~~~~~L  223 (294)
                      .+.  ..+-|+++|+.-...+   -..+    ...+  ...|+.+|+||....+........    ..+. ++.+ ... 
T Consensus       401 Il~~~~~~sLvLlDE~~~GtDp~eg~ala~aile~l--~~~~~~vIitTH~~el~~~~~~~~~v~~~~~~-~d~~-~l~-  475 (782)
T PRK00409        401 ILEKADKNSLVLFDELGAGTDPDEGAALAISILEYL--RKRGAKIIATTHYKELKALMYNREGVENASVE-FDEE-TLR-  475 (782)
T ss_pred             HHHhCCcCcEEEecCCCCCCCHHHHHHHHHHHHHHH--HHCCCEEEEECChHHHHHHHhcCCCeEEEEEE-EecC-cCc-
Confidence            332  4778999999875322   1122    2222  224789999999987755433221    2221 1111 100 


Q ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Q 048597          224 FEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILR  282 (294)
Q Consensus       224 f~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l~~  282 (294)
                      +...+.. +   .+ -...|-+|++.+ |+|-.+..-|.-+-. ......+.++..|..
T Consensus       476 ~~Ykl~~-G---~~-g~S~a~~iA~~~-Glp~~ii~~A~~~~~-~~~~~~~~li~~l~~  527 (782)
T PRK00409        476 PTYRLLI-G---IP-GKSNAFEIAKRL-GLPENIIEEAKKLIG-EDKEKLNELIASLEE  527 (782)
T ss_pred             EEEEEee-C---CC-CCcHHHHHHHHh-CcCHHHHHHHHHHHh-hhhhHHHHHHHHHHH
Confidence            0001111 1   11 124577888877 699999988887665 355677777777765

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

Probab=97.03  E-value=0.00047  Score=56.68  Aligned_cols=19  Identities=58%  Similarity=0.842  Sum_probs=18.2

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|+|.|++|+||||+|+.+
T Consensus         1 IIgI~G~sgSGKTTla~~L   19 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRL   19 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHH
Confidence            6999999999999999988

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 ....

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.02  E-value=0.0011  Score=55.32  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+++.|+|+.|.|||||.+.+.
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~   50 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVA   50 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHH
Confidence            4899999999999999999884

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

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.02  E-value=0.0015  Score=58.14  Aligned_cols=21  Identities=33%  Similarity=0.406  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+.++|+.|+|||+||..+
T Consensus       183 ~~~Lll~G~~GtGKThLa~aI  203 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCI  203 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHH
Confidence            377999999999999999988

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.02  E-value=0.0074  Score=54.66  Aligned_cols=22  Identities=45%  Similarity=0.570  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|+++|++|+||||++..+
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKL  261 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKM  261 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHH
Confidence            4579999999999999999888

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=97.01  E-value=0.0054  Score=48.78  Aligned_cols=60  Identities=17%  Similarity=0.220  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHhccCCeEEEEccccC------ccchhhhcCCcCCCCCCcEEEEecCChHHhhccCCc
Q 048597          148 EDKALDIAGILSRKRFVLLLDDIWE------HINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEAT  208 (294)
Q Consensus       148 ~~~~~~l~~~l~~kr~LlvlDdv~~------~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~  208 (294)
                      ++..-.|.+.+...+-+++-|+---      .....++...+ ....|+.+++.|.+..++..|.-.
T Consensus       151 EQQRVAiARAfa~~P~vLfADEPTGNLD~~Tg~~iaDLlF~l-nre~G~TlVlVTHD~~LA~Rc~R~  216 (228)
T COG4181         151 EQQRVALARAFAGRPDVLFADEPTGNLDRATGDKIADLLFAL-NRERGTTLVLVTHDPQLAARCDRQ  216 (228)
T ss_pred             HHHHHHHHHHhcCCCCEEeccCCCCCcchhHHHHHHHHHHHH-hhhcCceEEEEeCCHHHHHhhhhe
Confidence            3444456677778888888886532      23344443333 244688999999999988776543

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.00  E-value=0.00062  Score=56.64  Aligned_cols=24  Identities=38%  Similarity=0.472  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +..+|+|.|++|+|||||++.+..
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~   28 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYE   28 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999999998843

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.025  Score=55.15  Aligned_cols=169  Identities=17%  Similarity=0.100  Sum_probs=96.3

Q ss_pred             ceeehhH---HHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHhhChhHH------HHHHHHHhCCCCCCc
Q 048597           79 TVIRQEL---LLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKI------QADIGKKIGLSTKSW  142 (294)
Q Consensus        79 ~~vGr~~---~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i------~~~i~~~~~~~~~~~  142 (294)
                      ++.|.++   ++++++++|.++       ..-++=+.++||+|+|||-||+.+.....+      -.+|.+.++...   
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~g~~---  388 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFVGVG---  388 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhcccc---
Confidence            3567664   566667777664       235778999999999999999999543332      123333332210   


Q ss_pred             ccCChHHHHHHHHHHh-ccCCeEEEEccccCcc-----------------chhhhcCCcCC--CCCCcEEEEecCChHHh
Q 048597          143 QENSFEDKALDIAGIL-SRKRFVLLLDDIWEHI-----------------NLNKLGVPLQY--LHLGSKIVFTTNSRVVC  202 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~-----------------~~~~l~~~l~~--~~~gs~iivTtr~~~v~  202 (294)
                           ......|...- ...++++.+|++....                 .++++...+..  ...+--++-+|+..++.
T Consensus       389 -----asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~l  463 (774)
T KOG0731|consen  389 -----ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDIL  463 (774)
T ss_pred             -----hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCcccc
Confidence                 11222233222 4567899999886411                 12222211111  11222334455544441


Q ss_pred             -----hccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          203 -----GQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       203 -----~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                           ..-.... +.+..-+.....++|.-++......  .+..++.+ |+....|++=|..
T Consensus       464 d~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~--~e~~dl~~-~a~~t~gf~gadl  522 (774)
T KOG0731|consen  464 DPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD--DEDVDLSK-LASLTPGFSGADL  522 (774)
T ss_pred             CHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC--cchhhHHH-HHhcCCCCcHHHH
Confidence                 1112223 8888888888999999888654422  34456666 9999999885543

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.99  E-value=0.0075  Score=58.76  Aligned_cols=140  Identities=16%  Similarity=0.053  Sum_probs=72.0

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhHH-----H-HHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCcc-
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKKI-----Q-ADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHI-  174 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~i-----~-~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-  174 (294)
                      +-|.++|++|+||||+++.+.....+     . ..+....       ...........+.......+++|++|+++... 
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~-------~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~  258 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMF-------VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGR  258 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhh-------hcccHHHHHHHHHHHHhcCCcEEEehhHhhhhh
Confidence            45999999999999999988332110     0 0011000       01112223333333334567899999986521 


Q ss_pred             -----------ch----hhhcCCcC--CCCCCcEEEEecCChHHhh---c--cCCce-eecCCCCHHHHHHHHHHHhCCC
Q 048597          175 -----------NL----NKLGVPLQ--YLHLGSKIVFTTNSRVVCG---Q--MEATM-LNASPLRDEEAWRLFEEAVGRY  231 (294)
Q Consensus       175 -----------~~----~~l~~~l~--~~~~gs~iivTtr~~~v~~---~--~~~~~-~~l~~L~~~~~~~Lf~~~~~~~  231 (294)
                                 ..    ..+...+.  ....+.-+|.||...+...   .  ..... +.+...+.++-.++++.+....
T Consensus       259 ~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~  338 (644)
T PRK10733        259 QRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV  338 (644)
T ss_pred             ccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcC
Confidence                       11    11111111  1123444556776654321   1  12233 8888888888888888776443


Q ss_pred             CCCCCCCHHHHHHHHHHhCCC
Q 048597          232 VLDSHPDIPELAKTMAEECCC  252 (294)
Q Consensus       232 ~~~~~~~~~~~~~~I~~~c~G  252 (294)
                      ......++    ..+++.+.|
T Consensus       339 ~l~~~~d~----~~la~~t~G  355 (644)
T PRK10733        339 PLAPDIDA----AIIARGTPG  355 (644)
T ss_pred             CCCCcCCH----HHHHhhCCC
Confidence            22222222    345666666

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.99  E-value=0.001  Score=54.98  Aligned_cols=98  Identities=13%  Similarity=0.115  Sum_probs=54.6

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhHHH---------H--HHHHHhCCC--CCCcccCChHHHHHHHHHHhccCCeEEEEc
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKKIQ---------A--DIGKKIGLS--TKSWQENSFEDKALDIAGILSRKRFVLLLD  168 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~i~---------~--~i~~~~~~~--~~~~~~~~~~~~~~~l~~~l~~kr~LlvlD  168 (294)
                      .+|.|+|+.|+||||+++.+.....-.         .  ++...-..+  .......+.......+...+....=++++|
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~~~~~~i~q~~vg~~~~~~~~~i~~aLr~~pd~ii~g   81 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHESKRSLINQREVGLDTLSFENALKAALRQDPDVILVG   81 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccccCccceeeecccCCCccCHHHHHHHHhcCCcCEEEEc
Confidence            478999999999999998762111000         0  000000000  000001122345566777777778899999


Q ss_pred             cccCccchhhhcCCcCCCCCCcEEEEecCChHHh
Q 048597          169 DIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVC  202 (294)
Q Consensus       169 dv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~  202 (294)
                      ++.+.+.+..+...   ...|..++.|+...++.
T Consensus        82 Eird~e~~~~~l~~---a~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          82 EMRDLETIRLALTA---AETGHLVMSTLHTNSAA  112 (198)
T ss_pred             CCCCHHHHHHHHHH---HHcCCEEEEEecCCcHH
Confidence            99876655443222   22355677777766554

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.

>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=96.97  E-value=0.00055  Score=51.82  Aligned_cols=21  Identities=48%  Similarity=0.662  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHhhCh
Q 048597          104 IGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~~~  124 (294)
                      |+|.|++|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999655

...

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.97  E-value=0.0016  Score=62.15  Aligned_cols=46  Identities=22%  Similarity=0.247  Sum_probs=38.2

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...++|....+.++.+.+..-......|.|+|+.|+|||++|+.+.
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih  240 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIH  240 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHH
Confidence            3578999999999888887644455678899999999999999984

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.

>TIGR00235 udk uridine kinase

Probab=96.96  E-value=0.0007  Score=56.28  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|+|+|++|+|||||++.+..
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999854

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

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=96.95  E-value=0.0045  Score=51.79  Aligned_cols=22  Identities=36%  Similarity=0.477  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|.|++|+|||||++.+
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~i   50 (220)
T cd03245          29 AGEKVAIIGRVGSGKSTLLKLL   50 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999999

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.95  E-value=0.011  Score=51.85  Aligned_cols=152  Identities=14%  Similarity=0.152  Sum_probs=86.1

Q ss_pred             CceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHhhCh--------------------hHHHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQRANL--------------------KKIQADIGKKI  135 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v~~~--------------------~~i~~~i~~~~  135 (294)
                      ..++|-.++..++-.++...  .+...-+.|+||.|.|||+|...+..+                    .-..+.|..++
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql  103 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQL  103 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHH
Confidence            45789999999998888652  235678889999999999997776221                    11334444444


Q ss_pred             CCCCCC--cccCChHHHHHHHHHHhc------cCCeEEEEccccCccc-------hhhhcCCcCCCCCCcEEEEecCChH
Q 048597          136 GLSTKS--WQENSFEDKALDIAGILS------RKRFVLLLDDIWEHIN-------LNKLGVPLQYLHLGSKIVFTTNSRV  200 (294)
Q Consensus       136 ~~~~~~--~~~~~~~~~~~~l~~~l~------~kr~LlvlDdv~~~~~-------~~~l~~~l~~~~~gs~iivTtr~~~  200 (294)
                      ......  ....+..+...++...|+      +-.+++|+|+++.-..       +..+...-....+-+-|-+|||-..
T Consensus       104 ~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~  183 (408)
T KOG2228|consen  104 ALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDI  183 (408)
T ss_pred             HHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccH
Confidence            321110  112223333444444443      3357888888764211       1111111111223345568888643


Q ss_pred             -------HhhccCCce-eecCCCCHHHHHHHHHHHhC
Q 048597          201 -------VCGQMEATM-LNASPLRDEEAWRLFEEAVG  229 (294)
Q Consensus       201 -------v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~  229 (294)
                             |-....... +-+.+++-++...++++...
T Consensus       184 lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  184 LELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             HHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence                   333344444 66677888888888887763

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=96.95  E-value=0.0034  Score=53.29  Aligned_cols=22  Identities=36%  Similarity=0.655  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i   46 (237)
T TIGR00968        25 TGSLVALLGPSGSGKSTLLRII   46 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.95  E-value=0.038  Score=50.45  Aligned_cols=180  Identities=18%  Similarity=0.172  Sum_probs=88.6

Q ss_pred             HHHHHHHHHHhcCC-------CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           85 LLLDRVWRFVTDQE-------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        85 ~~~~~l~~~L~~~~-------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++.+.+++...+       .--+-..++||+|.||||++.++.|..+--   ...+.++    ...+..+    |+..
T Consensus       212 ~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~yd---IydLeLt----~v~~n~d----Lr~L  280 (457)
T KOG0743|consen  212 RIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYD---IYDLELT----EVKLDSD----LRHL  280 (457)
T ss_pred             HHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCc---eEEeeec----cccCcHH----HHHH
Confidence            34555555554431       235678899999999999987763321100   0000110    0111122    3333


Q ss_pred             h--ccCCeEEEEccccCccc--------------------hhhhcCC----cCCCCCCcEE-EEecCChHH---hh-ccC
Q 048597          158 L--SRKRFVLLLDDIWEHIN--------------------LNKLGVP----LQYLHLGSKI-VFTTNSRVV---CG-QME  206 (294)
Q Consensus       158 l--~~kr~LlvlDdv~~~~~--------------------~~~l~~~----l~~~~~gs~i-ivTtr~~~v---~~-~~~  206 (294)
                      |  ...+-+||+.|+....+                    +..|...    ...++ +-|| |+||...+-   |- ..+
T Consensus       281 L~~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg-~ERIivFTTNh~EkLDPALlRpG  359 (457)
T KOG0743|consen  281 LLATPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCG-DERIIVFTTNHKEKLDPALLRPG  359 (457)
T ss_pred             HHhCCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCC-CceEEEEecCChhhcCHhhcCCC
Confidence            3  34556777777754211                    1111111    11121 2355 566665543   21 112


Q ss_pred             -Cce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHH-HHcCCCC-HHHHHHHHHHHHh
Q 048597          207 -ATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGR-AMRSISS-IEEWEHAIKIILR  282 (294)
Q Consensus       207 -~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~-~L~~~~~-~~~w~~~l~~l~~  282 (294)
                       ... +++.-=+.+....||...++.+.  .+    .+..+|.+.-.|.-+.=..++. +|.++.+ ....+.+.+.|++
T Consensus       360 RmDmhI~mgyCtf~~fK~La~nYL~~~~--~h----~L~~eie~l~~~~~~tPA~V~e~lm~~~~dad~~lk~Lv~~l~~  433 (457)
T KOG0743|consen  360 RMDMHIYMGYCTFEAFKTLASNYLGIEE--DH----RLFDEIERLIEETEVTPAQVAEELMKNKNDADVALKGLVEALES  433 (457)
T ss_pred             cceeEEEcCCCCHHHHHHHHHHhcCCCC--Cc----chhHHHHHHhhcCccCHHHHHHHHhhccccHHHHHHHHHHHHHh
Confidence             222 78888888888888887776533  12    3455666655666555555554 4544322 2333444444443

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.93  E-value=0.00091  Score=61.95  Aligned_cols=43  Identities=12%  Similarity=0.132  Sum_probs=37.7

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...++||++.++.+...+..+    .-|.|.|++|+|||+||+.+..
T Consensus        19 ~~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~   61 (498)
T PRK13531         19 EKGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKF   61 (498)
T ss_pred             hhhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHH
Confidence            456899999999999988877    7899999999999999988843

>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=96.93  E-value=0.0035  Score=49.56  Aligned_cols=101  Identities=24%  Similarity=0.300  Sum_probs=54.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhHHH----------------HHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKKIQ----------------ADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFV  164 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~i~----------------~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~L  164 (294)
                      -.+++|+|+.|.|||||++.+.......                ..+...+.....   -..-+...-.+...+....-+
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~q---lS~G~~~r~~l~~~l~~~~~i  101 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQ---LSGGQRQRVALARALLLNPDL  101 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHHHhceEEEee---CCHHHHHHHHHHHHHhcCCCE
Confidence            3799999999999999999994332110                111111111000   111122233455556667889


Q ss_pred             EEEccccCc---cchhhhcCCcCC-CCCCcEEEEecCChHHhhc
Q 048597          165 LLLDDIWEH---INLNKLGVPLQY-LHLGSKIVFTTNSRVVCGQ  204 (294)
Q Consensus       165 lvlDdv~~~---~~~~~l~~~l~~-~~~gs~iivTtr~~~v~~~  204 (294)
                      +++|+.-..   .....+...+.. ...+..++++|.+......
T Consensus       102 ~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267         102 LLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             EEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            999998652   222222222211 1124678888887766544

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.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=96.92  E-value=0.004  Score=52.31  Aligned_cols=22  Identities=45%  Similarity=0.756  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l   46 (223)
T TIGR03740        25 KNSVYGLLGPNGAGKSTLLKMI   46 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

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.

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=96.92  E-value=0.0038  Score=57.93  Aligned_cols=40  Identities=23%  Similarity=0.201  Sum_probs=27.2

Q ss_pred             eehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           81 IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|.+... -+-..|.-+-+.-..|+++||.|+|||||.+.+
T Consensus       397 F~y~~~~-~iy~~l~fgid~~srvAlVGPNG~GKsTLlKl~  436 (614)
T KOG0927|consen  397 FGYSDNP-MIYKKLNFGIDLDSRVALVGPNGAGKSTLLKLI  436 (614)
T ss_pred             cCCCCcc-hhhhhhhcccCcccceeEecCCCCchhhhHHHH
Confidence            4554433 333334333334578999999999999999988

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

Probab=96.92  E-value=0.0049  Score=50.88  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|.|||||.+.+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l   46 (201)
T cd03231          25 AGEALQVTGPNGSGKTTLLRIL   46 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.92  E-value=0.0011  Score=51.89  Aligned_cols=37  Identities=27%  Similarity=0.460  Sum_probs=31.3

Q ss_pred             EEEEEcCCCChHHHHHHHh--------hChhHHHHHHHHHhCCCC
Q 048597          103 IIGLYGTGGVGKTTLLKQR--------ANLKKIQADIGKKIGLST  139 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v--------~~~~~i~~~i~~~~~~~~  139 (294)
                      +|.|.|++|+||||+|+.+        ++.-.++++++...+++-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~~vsaG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLKLVSAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCceeeccHHHHHHHHHcCCCH
Confidence            6899999999999999998        344478899998888753

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=96.92  E-value=0.0012  Score=60.49  Aligned_cols=46  Identities=30%  Similarity=0.268  Sum_probs=34.5

Q ss_pred             cCceeehhHHHHHHHHHHhc----------CC------CCceEEEEEcCCCChHHHHHHHhh
Q 048597           77 ERTVIRQELLLDRVWRFVTD----------QE------RNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~----------~~------~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...++|.++.++.+...+..          ..      -....|.++||+|+|||+||+.+.
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA  137 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLA  137 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHH
Confidence            45689999988888766521          10      013579999999999999999984

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.92  E-value=0.0049  Score=48.38  Aligned_cols=19  Identities=37%  Similarity=0.566  Sum_probs=17.6

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|.|+|.+|+|||||++.+
T Consensus         1 ~i~i~G~~GsGKSTla~~L   19 (149)
T cd02027           1 VIWLTGLSGSGKSTIARAL   19 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHH
Confidence            5789999999999999988

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=96.92  E-value=0.0073  Score=54.18  Aligned_cols=22  Identities=32%  Similarity=0.578  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|.|||||++.+
T Consensus        66 ~Gei~gLlGpNGaGKSTLl~~L   87 (340)
T PRK13536         66 SGECFGLLGPNGAGKSTIARMI   87 (340)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999999

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.023  Score=55.00  Aligned_cols=90  Identities=22%  Similarity=0.161  Sum_probs=54.6

Q ss_pred             CceeehhHHHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc----c
Q 048597           78 RTVIRQELLLDRVWRFVTD----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW----Q  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~----~  143 (294)
                      +.+-|.++.+.+|.+-+.-          +-.+.+-|.++||+|.|||-||++|...-.+.     .+.+.+.+.    -
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~-----FlSVKGPELLNMYV  746 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLN-----FLSVKGPELLNMYV  746 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceee-----EEeecCHHHHHHHh
Confidence            3466888888888877643          12346789999999999999999993321110     000111100    1


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      ..+++...+.+.+.=..+.|+|++|++++
T Consensus       747 GqSE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  747 GQSEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             cchHHHHHHHHHHhhccCCeEEEeccccc
Confidence            12233333333333357899999999976

>PRK08233 hypothetical protein; Provisional

Probab=96.92  E-value=0.00074  Score=54.60  Aligned_cols=22  Identities=36%  Similarity=0.441  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..+|+|.|++|+||||||+.+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~   24 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLT   24 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4799999999999999999883

>PTZ00301 uridine kinase; Provisional

Probab=96.91  E-value=0.00075  Score=56.16  Aligned_cols=21  Identities=33%  Similarity=0.597  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|+|.|++|+||||||+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l   23 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNI   23 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHH
Confidence            579999999999999999766

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.90  E-value=0.0057  Score=54.22  Aligned_cols=138  Identities=17%  Similarity=0.139  Sum_probs=73.2

Q ss_pred             eeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHhC-----CCCC
Q 048597           80 VIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKIG-----LSTK  140 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~~-----~~~~  140 (294)
                      ++|-+....++..+..........+.++||+|+||||+|..+....-              ....+...-.     +..+
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s   82 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPS   82 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccc
Confidence            56777788888888875433444699999999999999988721110              0001110000     1111


Q ss_pred             CcccCC-hHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCCh-HHhhccCC--ce
Q 048597          141 SWQENS-FEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSR-VVCGQMEA--TM  209 (294)
Q Consensus       141 ~~~~~~-~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~-~v~~~~~~--~~  209 (294)
                      .....+ ..+....+.+..     .++.-++++|++...  +.-..+...+......+.+|++|... .+...+..  ..
T Consensus        83 ~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SRc~~  162 (325)
T COG0470          83 DLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRCQR  162 (325)
T ss_pred             ccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhccee
Confidence            101111 223333333333     256789999999763  33444444444445567788777733 33222222  22


Q ss_pred             eecCCCCH
Q 048597          210 LNASPLRD  217 (294)
Q Consensus       210 ~~l~~L~~  217 (294)
                      +++.+.+.
T Consensus       163 i~f~~~~~  170 (325)
T COG0470         163 IRFKPPSR  170 (325)
T ss_pred             eecCCchH
Confidence            66666433

>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=96.90  E-value=0.0011  Score=56.00  Aligned_cols=21  Identities=38%  Similarity=0.450  Sum_probs=18.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++|+|++|+|||||+..+
T Consensus        13 ~fr~viIG~sGSGKT~li~~l   33 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSL   33 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHH
Confidence            357889999999999998887

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

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.89  E-value=0.0027  Score=62.42  Aligned_cols=45  Identities=16%  Similarity=0.215  Sum_probs=36.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|....+..+.+.+..-......|.|+|+.|+|||++|+.+.
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih  420 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIH  420 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHH
Confidence            358999988888877776543355789999999999999999983

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.89  E-value=0.0054  Score=51.86  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l   48 (234)
T cd03251          27 AGETVALVGPSGSGKSTLVNLI   48 (234)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

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.

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=96.88  E-value=0.0061  Score=51.83  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|.|++|+|||||++.+
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l   48 (242)
T TIGR03411        27 PGELRVIIGPNGAGKTTMMDVI   48 (242)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3478999999999999999999

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.87  E-value=0.0011  Score=63.42  Aligned_cols=64  Identities=27%  Similarity=0.319  Sum_probs=41.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc---ccCChHHHHHHHHHHhc--------cCCeEEEEc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW---QENSFEDKALDIAGILS--------RKRFVLLLD  168 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~---~~~~~~~~~~~l~~~l~--------~kr~LlvlD  168 (294)
                      ..++..++|++|+||||||+.|          +.+.|.+.-+.   +..+...+-++|...++        .+...||+|
T Consensus       325 ~kKilLL~GppGlGKTTLAHVi----------AkqaGYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViD  394 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVI----------AKQAGYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVID  394 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHH----------HHhcCceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEe
Confidence            4679999999999999999765          44555432221   22333444445554443        456679999


Q ss_pred             cccCc
Q 048597          169 DIWEH  173 (294)
Q Consensus       169 dv~~~  173 (294)
                      ++...
T Consensus       395 EIDGa  399 (877)
T KOG1969|consen  395 EIDGA  399 (877)
T ss_pred             cccCC
Confidence            99763

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=96.86  E-value=0.0072  Score=50.62  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        29 ~Ge~~~i~G~nGsGKSTLl~~l   50 (221)
T cd03244          29 PGEKVGIVGRTGSGKSSLLLAL   50 (221)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

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.

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=96.86  E-value=0.0045  Score=54.70  Aligned_cols=21  Identities=43%  Similarity=0.627  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|.|++|.|||||++.+
T Consensus        33 Gei~gllGpNGaGKSTLl~~l   53 (306)
T PRK13537         33 GECFGLLGPNGAGKTTTLRML   53 (306)
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999999

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.86  E-value=0.0034  Score=54.71  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l   53 (279)
T PRK13650         32 QGEWLSIIGHNGSGKSTTVRLI   53 (279)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999999

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=96.86  E-value=0.0038  Score=56.08  Aligned_cols=22  Identities=36%  Similarity=0.658  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Gei~~iiG~nGsGKSTLlk~L   51 (343)
T PRK11153         30 AGEIFGVIGASGAGKSTLIRCI   51 (343)
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999999

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.85  E-value=0.0059  Score=48.44  Aligned_cols=21  Identities=43%  Similarity=0.626  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..+.|.||+|+|||||.+.+
T Consensus        29 Ge~iaitGPSG~GKStllk~v   49 (223)
T COG4619          29 GEFIAITGPSGCGKSTLLKIV   49 (223)
T ss_pred             CceEEEeCCCCccHHHHHHHH
Confidence            468999999999999999999

>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=96.85  E-value=0.00085  Score=45.28  Aligned_cols=21  Identities=43%  Similarity=0.653  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +|.|.|++|+||||+++.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~   21 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAE   21 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999977643

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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.84  E-value=0.0032  Score=61.59  Aligned_cols=22  Identities=36%  Similarity=0.517  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..|+|+|.+|+|||||+|.+
T Consensus       498 ~Ge~vaIvG~SGsGKSTL~KLL  519 (709)
T COG2274         498 PGEKVAIVGRSGSGKSTLLKLL  519 (709)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4478999999999999999999

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=96.83  E-value=0.002  Score=54.14  Aligned_cols=158  Identities=15%  Similarity=0.205  Sum_probs=78.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh----------------hHHHHHHHHHhCCCCCCcc-cCChHHHHHHHHHHh--cc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL----------------KKIQADIGKKIGLSTKSWQ-ENSFEDKALDIAGIL--SR  160 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~----------------~~i~~~i~~~~~~~~~~~~-~~~~~~~~~~l~~~l--~~  160 (294)
                      +.+++.|.|+.|.||||+.+.+.-.                ..+...+...++....... -+....-...+...+  -.
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~~~~la~~g~~vpa~~~~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a~il~~~~  108 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGVIVLMAQIGCFVPCDSADIPIVDCILARVGASDSQLKGVSTFMAEMLETAAILKSAT  108 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHHHHhCCCcCcccEEEeccceeEeeeccccchhcCcChHHHHHHHHHHHHHhCC
Confidence            4579999999999999999998411                0011112222221111000 011111222233333  35


Q ss_pred             CCeEEEEcccc---Cccc-----hhhhcCCcCCCCCCcEEEEecCChHHhhccCCce----eecCCCCHH--HHHHHHHH
Q 048597          161 KRFVLLLDDIW---EHIN-----LNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM----LNASPLRDE--EAWRLFEE  226 (294)
Q Consensus       161 kr~LlvlDdv~---~~~~-----~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~----~~l~~L~~~--~~~~Lf~~  226 (294)
                      .+-|++||+.-   +..+     |..+ ..+.. ..|+.+|++|....+...+....    .++.....+  +... |.-
T Consensus       109 ~~sLvLLDEp~~gT~~lD~~~~~~~il-~~l~~-~~~~~vlisTH~~el~~~~~~~~~i~~g~~~~~~~~~~~~~~-~~Y  185 (222)
T cd03285         109 ENSLIIIDELGRGTSTYDGFGLAWAIA-EYIAT-QIKCFCLFATHFHELTALADEVPNVKNLHVTALTDDASRTLT-MLY  185 (222)
T ss_pred             CCeEEEEecCcCCCChHHHHHHHHHHH-HHHHh-cCCCeEEEEechHHHHHHhhcCCCeEEEEEEEEEeCCCCcEe-EEE
Confidence            68899999993   3221     2111 12221 24678999999776655433221    333221111  1110 111


Q ss_pred             HhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcC
Q 048597          227 AVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS  266 (294)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~  266 (294)
                      ++.. .. +.   ...|-.+++.+ |+|-.+..-|.-+..
T Consensus       186 ~l~~-G~-~~---~s~a~~~a~~~-g~p~~vi~~A~~~~~  219 (222)
T cd03285         186 KVEK-GA-CD---QSFGIHVAELA-NFPKEVIEMAKQKAL  219 (222)
T ss_pred             EEee-CC-CC---CcHHHHHHHHh-CcCHHHHHHHHHHHH
Confidence            1111 10 11   24577787776 899998888876654

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

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

Probab=96.82  E-value=0.0043  Score=55.70  Aligned_cols=22  Identities=36%  Similarity=0.635  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Gei~gIiG~sGaGKSTLlr~I   51 (343)
T TIGR02314        30 AGQIYGVIGASGAGKSTLIRCV   51 (343)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=96.82  E-value=0.0091  Score=54.22  Aligned_cols=22  Identities=45%  Similarity=0.607  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      --+.|+||||.|+|||||.+.+
T Consensus       612 mdSRiaIVGPNGVGKSTlLkLL  633 (807)
T KOG0066|consen  612 MDSRIAIVGPNGVGKSTLLKLL  633 (807)
T ss_pred             ccceeEEECCCCccHHHHHHHH
Confidence            4578999999999999999988

>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=96.80  E-value=0.0052  Score=51.98  Aligned_cols=22  Identities=41%  Similarity=0.594  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|.|||||++.+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l   46 (232)
T cd03300          25 EGEFFTLLGPSGCGKTTLLRLI   46 (232)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.78  E-value=0.00085  Score=55.29  Aligned_cols=21  Identities=43%  Similarity=0.678  Sum_probs=18.7

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +|+|.|++|+|||||++.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998843

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.77  E-value=0.0028  Score=51.80  Aligned_cols=21  Identities=48%  Similarity=0.512  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.|.+.|++|+||||+|+.+.
T Consensus         2 pLiIlTGyPgsGKTtfakeLa   22 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELA   22 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHH
Confidence            568899999999999999873

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.77  E-value=0.0011  Score=53.97  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.++|.|+|++|+||||+++.+.
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            46799999999999999999883

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.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.77  E-value=0.0012  Score=53.84  Aligned_cols=152  Identities=20%  Similarity=0.172  Sum_probs=73.2

Q ss_pred             EEEEEcCCCChHHHHHHHhhChhHHHHHH-----------------HHHhCCCCCCc-ccCChHHHHHHHHHHhcc--CC
Q 048597          103 IIGLYGTGGVGKTTLLKQRANLKKIQADI-----------------GKKIGLSTKSW-QENSFEDKALDIAGILSR--KR  162 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~~~~i~~~i-----------------~~~~~~~~~~~-~~~~~~~~~~~l~~~l~~--kr  162 (294)
                      ++.|+|+.|.||||+++.+.-.. ++.+.                 ...++...... .......-...+...+..  ++
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~-~la~~G~~v~a~~~~~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~~~~~   79 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIV-IMAQIGSFVPAESAELPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKNATEN   79 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH-HHHHhCCCeeehheEecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHhCCCC
Confidence            46799999999999999984111 11111                 11111110000 011122222334444444  78


Q ss_pred             eEEEEccccCccch-------hhhcCCcCCCCCCcEEEEecCChHHhhccCCc---e-eecCCCCHHHHHHHHHHHhCCC
Q 048597          163 FVLLLDDIWEHINL-------NKLGVPLQYLHLGSKIVFTTNSRVVCGQMEAT---M-LNASPLRDEEAWRLFEEAVGRY  231 (294)
Q Consensus       163 ~LlvlDdv~~~~~~-------~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~---~-~~l~~L~~~~~~~Lf~~~~~~~  231 (294)
                      -++++|+.-...+.       ..+...+.. ..++.+|++|...++...+...   . +++.-..+++. -.|..++.. 
T Consensus        80 ~llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~~~iii~TH~~~l~~~~~~~~~v~~~~~~~~~~~~~-~~~~Y~l~~-  156 (185)
T smart00534       80 SLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHELTKLADEHPGVRNLHMSADEETEN-LTFLYKLTP-  156 (185)
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCeEEEEecHHHHHHHhhcCccceEEEEEEEEecCc-eeEEEEEeE-
Confidence            89999998652211       111122211 2367899999988775543221   1 33322111111 001111111 


Q ss_pred             CCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH
Q 048597          232 VLDSHPDIPELAKTMAEECCCLPLALKTVGRA  263 (294)
Q Consensus       232 ~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~  263 (294)
                      .    ......|-.+++++ |+|-.+..-|..
T Consensus       157 G----~~~~s~a~~~a~~~-g~~~~i~~~a~~  183 (185)
T smart00534      157 G----VAGKSYGIEVAKLA-GLPKEVIERAKE  183 (185)
T ss_pred             C----CCCCcHHHHHHHHh-CCCHHHHHHHHH
Confidence            1    11123677788777 688877766643

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=96.75  E-value=0.0042  Score=61.26  Aligned_cols=22  Identities=36%  Similarity=0.449  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL  511 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLL  511 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4478999999999999999998

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.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.75  E-value=0.0062  Score=52.27  Aligned_cols=39  Identities=28%  Similarity=0.257  Sum_probs=26.5

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +...+..+......-+ +..-+.++|++|+|||.||..+-
T Consensus        88 ~~~~l~~~~~~~~~~~-~~~nl~l~G~~G~GKThLa~Ai~  126 (254)
T COG1484          88 DKKALEDLASLVEFFE-RGENLVLLGPPGVGKTHLAIAIG  126 (254)
T ss_pred             hHHHHHHHHHHHHHhc-cCCcEEEECCCCCcHHHHHHHHH
Confidence            3344444443332222 56789999999999999998883

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.74  E-value=0.0011  Score=52.04  Aligned_cols=22  Identities=41%  Similarity=0.360  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...-|+|.||+|+|||||++.+
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki   25 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKI   25 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHH
Confidence            3467999999999999999988

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=96.74  E-value=0.0053  Score=58.52  Aligned_cols=22  Identities=36%  Similarity=0.516  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       347 ~G~~~~ivG~sGsGKSTL~~ll  368 (529)
T TIGR02857       347 PGERVALVGPSGAGKSTLLNLL  368 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

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

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=96.74  E-value=0.0042  Score=60.01  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-..++|+|++|+|||||++.+
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL  381 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLL  381 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4578999999999999999998

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.73  E-value=0.0017  Score=56.61  Aligned_cols=22  Identities=32%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.+|+|.|++|+||||+|+.+
T Consensus        61 ~p~IIGIaG~~GSGKSTlar~L   82 (290)
T TIGR00554        61 IPYIISIAGSVAVGKSTTARIL   82 (290)
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            5789999999999999999876

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.73  E-value=0.0029  Score=48.48  Aligned_cols=37  Identities=24%  Similarity=0.258  Sum_probs=26.0

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +..++-..|...=..-.+|.+.|+-|+|||||++.+.
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~   43 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLL   43 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHH
Confidence            4444444454322234699999999999999998873

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=96.72  E-value=0.0078  Score=56.95  Aligned_cols=57  Identities=21%  Similarity=0.296  Sum_probs=35.1

Q ss_pred             HHHHHHHhccCCeEEEEccccCccchh---hhcCCcCCCCCCcEEEEecCChHHhhccCCce
Q 048597          151 ALDIAGILSRKRFVLLLDDIWEHINLN---KLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM  209 (294)
Q Consensus       151 ~~~l~~~l~~kr~LlvlDdv~~~~~~~---~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~  209 (294)
                      .-.|.+.|-.+.=+|+||+--+.-+.+   .+...+. .-+| .+|+.|.+......+.+..
T Consensus       161 Rv~LA~aL~~~pDlLLLDEPTNHLD~~~i~WLe~~L~-~~~g-tviiVSHDR~FLd~V~t~I  220 (530)
T COG0488         161 RVALARALLEEPDLLLLDEPTNHLDLESIEWLEDYLK-RYPG-TVIVVSHDRYFLDNVATHI  220 (530)
T ss_pred             HHHHHHHHhcCCCEEEEcCCCcccCHHHHHHHHHHHH-hCCC-cEEEEeCCHHHHHHHhhhe
Confidence            334666667788899999887643322   2223332 2335 6999999987655554443

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.72  E-value=0.0072  Score=48.57  Aligned_cols=22  Identities=36%  Similarity=0.617  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|.|++|.|||||.+.|
T Consensus        24 ~ge~vAi~GpSGaGKSTLLnLI   45 (231)
T COG3840          24 AGEIVAILGPSGAGKSTLLNLI   45 (231)
T ss_pred             CCcEEEEECCCCccHHHHHHHH
Confidence            3479999999999999999999

>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=96.71  E-value=0.0054  Score=48.35  Aligned_cols=21  Identities=43%  Similarity=0.449  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|-|.|.+|+||||||+.+
T Consensus         2 g~vIwltGlsGsGKtTlA~~L   22 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARAL   22 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999998

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 ....

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.71  E-value=0.0046  Score=58.92  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL  381 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLL  381 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            5579999999999999999999

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.

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=96.69  E-value=0.0035  Score=56.51  Aligned_cols=59  Identities=19%  Similarity=0.296  Sum_probs=35.2

Q ss_pred             HHHHHHHhccCCeEEEEccccCc-cchh--hhcCCcCC--CCCCcEEEEecCChHHhhccCCce
Q 048597          151 ALDIAGILSRKRFVLLLDDIWEH-INLN--KLGVPLQY--LHLGSKIVFTTNSRVVCGQMEATM  209 (294)
Q Consensus       151 ~~~l~~~l~~kr~LlvlDdv~~~-~~~~--~l~~~l~~--~~~gs~iivTtr~~~v~~~~~~~~  209 (294)
                      ..+|.+.+..+.-+++.|..... +...  .+...+..  ...|+.+++.|+..++.+......
T Consensus       515 R~KLAkllaerpn~~~iDEF~AhLD~~TA~rVArkiselaRe~giTlivvThrpEv~~AL~PD~  578 (593)
T COG2401         515 RAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELAREAGITLIVVTHRPEVGNALRPDT  578 (593)
T ss_pred             HHHHHHHHhcCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCHHHHhccCCce
Confidence            44677777888889999987542 1111  11111111  224778888888888876665443

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.69  E-value=0.0044  Score=59.76  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       368 ~G~~~aIvG~sGsGKSTLl~ll  389 (582)
T PRK11176        368 AGKTVALVGRSGSGKSTIANLL  389 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4468999999999999999999

>PRK06921 hypothetical protein; Provisional

Probab=96.69  E-value=0.005  Score=53.25  Aligned_cols=24  Identities=46%  Similarity=0.642  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....+.++|+.|+|||+|+..+.+
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~  139 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAAN  139 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            356799999999999999988854

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

Probab=96.69  E-value=0.0023  Score=55.75  Aligned_cols=124  Identities=17%  Similarity=0.186  Sum_probs=68.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHH----------------HHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCe
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKI----------------QADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRF  163 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i----------------~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~  163 (294)
                      ..++|.++||+|.|||+|.+.+.....|                ..-|..++.-     .......+..+|.+.+.++..
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsE-----SgKlV~kmF~kI~ELv~d~~~  250 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSE-----SGKLVAKMFQKIQELVEDRGN  250 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHhh-----hhhHHHHHHHHHHHHHhCCCc
Confidence            3589999999999999999888221111                1122333322     123455666777787776654


Q ss_pred             --EEEEccccCcc-----------chhhh------cCCcCC-CCCCcEEEEecCCh----HHhhccCCce-eecCCCCHH
Q 048597          164 --VLLLDDIWEHI-----------NLNKL------GVPLQY-LHLGSKIVFTTNSR----VVCGQMEATM-LNASPLRDE  218 (294)
Q Consensus       164 --LlvlDdv~~~~-----------~~~~l------~~~l~~-~~~gs~iivTtr~~----~v~~~~~~~~-~~l~~L~~~  218 (294)
                        ++.+|+|.+..           .-+.+      ...+.. ......+|+||.+-    ++|-.-.+.- ..+++-+.+
T Consensus       251 lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~TSNl~~siD~AfVDRADi~~yVG~Pt~~  330 (423)
T KOG0744|consen  251 LVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILATSNLTDSIDVAFVDRADIVFYVGPPTAE  330 (423)
T ss_pred             EEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEEEEeccchHHHHHHHhhhHhhheeecCCccHH
Confidence              45689996521           11111      001110 11123466666542    2333333333 678888888


Q ss_pred             HHHHHHHHHh
Q 048597          219 EAWRLFEEAV  228 (294)
Q Consensus       219 ~~~~Lf~~~~  228 (294)
                      ...++++.+.
T Consensus       331 ai~~Ilksci  340 (423)
T KOG0744|consen  331 AIYEILKSCI  340 (423)
T ss_pred             HHHHHHHHHH
Confidence            7777777653

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

Probab=96.68  E-value=0.002  Score=59.21  Aligned_cols=41  Identities=27%  Similarity=0.317  Sum_probs=35.2

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..+++.+...+.+...|...    ..+.++|++|+|||++|+.+.
T Consensus       175 ~d~~i~e~~le~l~~~L~~~----~~iil~GppGtGKT~lA~~la  215 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK----KNIILQGPPGVGKTFVARRLA  215 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC----CCEEEECCCCCCHHHHHHHHH
Confidence            34678888999999998865    688889999999999999884

>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=96.68  E-value=0.0029  Score=53.73  Aligned_cols=36  Identities=22%  Similarity=0.366  Sum_probs=27.5

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++..+.....+..+|+|.|++|+|||||+..+
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l   49 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDAL   49 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHH
Confidence            445666667666567889999999999999998776

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.

>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=96.67  E-value=0.0011  Score=55.77  Aligned_cols=21  Identities=38%  Similarity=0.536  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +|+|.|++|+||||||+.+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHH
Confidence            589999999999999988843

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

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

Probab=96.66  E-value=0.0059  Score=55.41  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        28 ~Ge~~~l~G~nGsGKSTLL~~i   49 (369)
T PRK11000         28 EGEFVVFVGPSGCGKSTLLRMI   49 (369)
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999999

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

Probab=96.66  E-value=0.0047  Score=55.78  Aligned_cols=21  Identities=43%  Similarity=0.604  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||.+.+
T Consensus        30 Ge~~~llG~sGsGKSTLLr~i   50 (356)
T PRK11650         30 GEFIVLVGPSGCGKSTLLRMV   50 (356)
T ss_pred             CCEEEEECCCCCcHHHHHHHH
Confidence            468999999999999999999

>PRK10867 signal recognition particle protein; Provisional

Probab=96.66  E-value=0.014  Score=53.89  Aligned_cols=22  Identities=32%  Similarity=0.363  Sum_probs=18.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.+|.++|++|+||||++..+
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakL  120 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKL  120 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHH
Confidence            4789999999999999966655

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=96.66  E-value=0.0072  Score=50.62  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-.+.+|+|++|+|||||.+.+
T Consensus        33 ~Gei~~iiGgSGsGKStlLr~I   54 (263)
T COG1127          33 RGEILAILGGSGSGKSTLLRLI   54 (263)
T ss_pred             CCcEEEEECCCCcCHHHHHHHH
Confidence            4579999999999999999999

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.65  E-value=0.0067  Score=52.99  Aligned_cols=22  Identities=27%  Similarity=0.564  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|.|||||++.+
T Consensus        31 ~Ge~~~i~G~nGaGKSTLl~~i   52 (283)
T PRK13636         31 KGEVTAILGGNGAGKSTLFQNL   52 (283)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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

Probab=96.65  E-value=0.0014  Score=52.95  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .++.|+|++|+|||||++.+..
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~   23 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARA   23 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998743

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.65  E-value=0.012  Score=45.92  Aligned_cols=19  Identities=42%  Similarity=0.543  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++.+.|++|+||||+|+.+
T Consensus         1 li~l~G~~GsGKST~a~~l   19 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKAL   19 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHH
Confidence            4789999999999999988

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.64  E-value=0.004  Score=50.11  Aligned_cols=25  Identities=40%  Similarity=0.453  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      ...+.|.||+|+|||||++.++...
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4689999999999999999886544

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.64  E-value=0.033  Score=53.09  Aligned_cols=168  Identities=15%  Similarity=0.072  Sum_probs=86.8

Q ss_pred             CceeehhHH---HHHHHHHHhcCC-------CCceEEEEEcCCCChHHHHHHHhhChhHHH------HHHHHHhCCCCCC
Q 048597           78 RTVIRQELL---LDRVWRFVTDQE-------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQ------ADIGKKIGLSTKS  141 (294)
Q Consensus        78 ~~~vGr~~~---~~~l~~~L~~~~-------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~------~~i~~~~~~~~~~  141 (294)
                      ..+-|.++.   +.++++.|.++.       .-++-|.++||+|.|||.||+.+.....+-      .+|.+.+ +    
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemf-V----  224 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF-V----  224 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhh-c----
Confidence            345687754   555666666543       346789999999999999999995544332      1222222 1    


Q ss_pred             cccCChHHHHHHHHHHhccCCeEEEEccccCc------------cchhh----hcCCcCC--CCCCcEEEEecCChHHh-
Q 048597          142 WQENSFEDKALDIAGILSRKRFVLLLDDIWEH------------INLNK----LGVPLQY--LHLGSKIVFTTNSRVVC-  202 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~------------~~~~~----l~~~l~~--~~~gs~iivTtr~~~v~-  202 (294)
                        ..........+.+..+.-+|++++|.+...            +.+++    +..-...  .+.|-.|+..|...+|. 
T Consensus       225 --GvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD  302 (596)
T COG0465         225 --GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLD  302 (596)
T ss_pred             --CCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccch
Confidence              111122233344444666899999988641            12322    2111111  22343344444444442 


Q ss_pred             ----hccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          203 ----GQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       203 ----~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                          ....... +.++.-+-..-.++++-++-.......-++    +.|++.+-|.--|
T Consensus       303 ~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl----~~iAr~tpGfsGA  357 (596)
T COG0465         303 PALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDL----KKIARGTPGFSGA  357 (596)
T ss_pred             HhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCH----HHHhhhCCCcccc
Confidence                1112222 556655555566666655533332222233    2377777776543

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.64  E-value=0.0016  Score=54.07  Aligned_cols=28  Identities=21%  Similarity=0.413  Sum_probs=23.1

Q ss_pred             cCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           96 DQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        96 ~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .......+|.|+|++|+|||||++.+..
T Consensus         8 ~~~~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738          8 NKPAKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCCCCCeEEEEECcCCCCHHHHHHHHHh
Confidence            3344678999999999999999988843

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

Probab=96.63  E-value=0.0073  Score=54.47  Aligned_cols=21  Identities=43%  Similarity=0.623  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||.+.+
T Consensus        30 Ge~~~l~GpsGsGKSTLLr~i   50 (353)
T TIGR03265        30 GEFVCLLGPSGCGKTTLLRII   50 (353)
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999999

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

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

Probab=96.62  E-value=0.007  Score=55.00  Aligned_cols=22  Identities=41%  Similarity=0.632  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||.+.+
T Consensus        39 ~Ge~~~LlGpsGsGKSTLLr~I   60 (375)
T PRK09452         39 NGEFLTLLGPSGCGKTTVLRLI   60 (375)
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999999

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=96.62  E-value=0.0079  Score=54.19  Aligned_cols=22  Identities=36%  Similarity=0.614  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        31 ~Ge~~~llGpsGsGKSTLLr~I   52 (351)
T PRK11432         31 QGTMVTLLGPSGCGKTTVLRLV   52 (351)
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999999

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

Probab=96.61  E-value=0.01  Score=50.66  Aligned_cols=75  Identities=15%  Similarity=0.126  Sum_probs=40.6

Q ss_pred             HHHHhccCCeEEEEccccCc---cchhhhcCCcC--CCCCCcEEEEecCC-hHHhhccCCce-eecCCCCHHHHHHHHHH
Q 048597          154 IAGILSRKRFVLLLDDIWEH---INLNKLGVPLQ--YLHLGSKIVFTTNS-RVVCGQMEATM-LNASPLRDEEAWRLFEE  226 (294)
Q Consensus       154 l~~~l~~kr~LlvlDdv~~~---~~~~~l~~~l~--~~~~gs~iivTtr~-~~v~~~~~~~~-~~l~~L~~~~~~~Lf~~  226 (294)
                      |...|-.+.-+++||+.--.   ..-..++..+.  ....++.|++||.. .+++..+...- +.-+.+=.+....-|+.
T Consensus       167 LaaaLLh~p~VLfLDEpTvgLDV~aq~~ir~Flke~n~~~~aTVllTTH~~~di~~lc~rv~~I~~Gqlv~dg~l~~l~~  246 (325)
T COG4586         167 LAAALLHPPKVLFLDEPTVGLDVNAQANIREFLKEYNEERQATVLLTTHIFDDIATLCDRVLLIDQGQLVFDGTLAQLQE  246 (325)
T ss_pred             HHHHhcCCCcEEEecCCccCcchhHHHHHHHHHHHHHHhhCceEEEEecchhhHHHhhhheEEeeCCcEeecccHHHHHH
Confidence            33444466778999976321   11112222221  24467899999986 45666655444 66655544444444444


Q ss_pred             Hh
Q 048597          227 AV  228 (294)
Q Consensus       227 ~~  228 (294)
                      .+
T Consensus       247 ~f  248 (325)
T COG4586         247 QF  248 (325)
T ss_pred             Hh
Confidence            44

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.60  E-value=0.015  Score=53.84  Aligned_cols=22  Identities=36%  Similarity=0.347  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.+|.++|++|+||||++..+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakL  115 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKL  115 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHH
Confidence            5789999999999999999887

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.60  E-value=0.0019  Score=47.51  Aligned_cols=22  Identities=27%  Similarity=0.347  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -..++|+|++|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4789999999999999998864

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=96.60  E-value=0.0052  Score=59.08  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|+.|+|||||++.+
T Consensus       357 ~G~~v~IvG~sGsGKSTLl~lL  378 (571)
T TIGR02203       357 PGETVALVGRSGSGKSTLVNLI  378 (571)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.59  E-value=0.011  Score=51.68  Aligned_cols=22  Identities=50%  Similarity=0.739  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++.++|++|+||||++..+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kL  214 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKL  214 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4569999999999999998777

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.58  E-value=0.0017  Score=52.97  Aligned_cols=80  Identities=20%  Similarity=0.157  Sum_probs=44.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhHHHHHH-----HHHhCCCC----------CCcccCChHHHHHHHHHHhccCCeEE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKKIQADI-----GKKIGLST----------KSWQENSFEDKALDIAGILSRKRFVL  165 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i-----~~~~~~~~----------~~~~~~~~~~~~~~l~~~l~~kr~Ll  165 (294)
                      -..+.|+|+.|+|||||++.+.........+     ...+..+.          ..............+...++..+=.+
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~~~~~~i~ied~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lR~~pd~i  104 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIPPDERIITIEDTAELQLPHPNWVRLVTRPGNVEGSGEVTMADLLRSALRMRPDRI  104 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCCCCEEEECCccccCCCCCCEEEEEEecCCCCCCCccCHHHHHHHHhccCCCEE
Confidence            4789999999999999999873321100000     00000000          00001112234455666677777888


Q ss_pred             EEccccCccchhhhc
Q 048597          166 LLDDIWEHINLNKLG  180 (294)
Q Consensus       166 vlDdv~~~~~~~~l~  180 (294)
                      +++++.+.+.+..+.
T Consensus       105 ~igEir~~ea~~~~~  119 (186)
T cd01130         105 IVGEVRGGEALDLLQ  119 (186)
T ss_pred             EEEccCcHHHHHHHH
Confidence            899998877666443

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.

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

Probab=96.58  E-value=0.0047  Score=46.61  Aligned_cols=44  Identities=20%  Similarity=0.298  Sum_probs=33.5

Q ss_pred             CceeehhHHHHHHHHHHhc-----CCCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTD-----QERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~-----~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|..-..+.+++.+.+     .+.++-|++.+|++|+|||.+++.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~li   73 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLI   73 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHH
Confidence            4578877666666665543     2457789999999999999998877

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

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.56  E-value=0.0021  Score=51.67  Aligned_cols=24  Identities=33%  Similarity=0.392  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+++|+|+.|+|||||++.+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~   28 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIP   28 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHH
Confidence            567999999999999999987743

>TIGR00959 ffh signal recognition particle protein

Probab=96.54  E-value=0.02  Score=52.84  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=19.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.++.++|++|+||||++..+
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakL  119 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKL  119 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHH
Confidence            4679999999999999996666

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.

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.54  E-value=0.014  Score=50.23  Aligned_cols=22  Identities=50%  Similarity=0.798  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|.|||||++.+
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i   56 (257)
T PRK14246         35 NNSIFGIMGPSGSGKSTLLKVL   56 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.54  E-value=0.0084  Score=57.93  Aligned_cols=22  Identities=41%  Similarity=0.557  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-..++|+|++|+|||||++.+
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL  396 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNAL  396 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.54  E-value=0.032  Score=49.97  Aligned_cols=25  Identities=36%  Similarity=0.353  Sum_probs=21.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHhhC
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..-+-|.++||+|.|||-||+.|+.
T Consensus       243 rPWkgvLm~GPPGTGKTlLAKAvAT  267 (491)
T KOG0738|consen  243 RPWKGVLMVGPPGTGKTLLAKAVAT  267 (491)
T ss_pred             cccceeeeeCCCCCcHHHHHHHHHH
Confidence            3567899999999999999999943

>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []

Probab=96.53  E-value=0.01  Score=49.63  Aligned_cols=46  Identities=22%  Similarity=0.239  Sum_probs=27.3

Q ss_pred             cCCeEEEEccccCc---cchhhhcCCcCCCCCCcEEEEecCChHHhhcc
Q 048597          160 RKRFVLLLDDIWEH---INLNKLGVPLQYLHLGSKIVFTTNSRVVCGQM  205 (294)
Q Consensus       160 ~kr~LlvlDdv~~~---~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~  205 (294)
                      +..-+++|||+...   .....+...+......+.+||||..+.+...+
T Consensus       157 ~~~p~~ilDEvd~~LD~~~~~~l~~~l~~~~~~~Q~ii~Th~~~~~~~a  205 (220)
T PF02463_consen  157 KPSPFLILDEVDAALDEQNRKRLADLLKELSKQSQFIITTHNPEMFEDA  205 (220)
T ss_dssp             S--SEEEEESTTTTS-HHHHHHHHHHHHHHTTTSEEEEE-S-HHHHTT-
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            34568999999763   33344444444444468899999998886655

The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.53  E-value=0.0019  Score=52.21  Aligned_cols=22  Identities=41%  Similarity=0.564  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+|.|+|++|+|||||++.+..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            5899999999999999999965

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.53  E-value=0.0067  Score=48.20  Aligned_cols=19  Identities=53%  Similarity=0.705  Sum_probs=17.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|+|.|.+|+||||+++.+
T Consensus         2 ~I~ITGTPGvGKTT~~~~L   20 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLL   20 (180)
T ss_pred             eEEEeCCCCCchHHHHHHH
Confidence            5899999999999999888

>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=96.53  E-value=0.008  Score=48.29  Aligned_cols=19  Identities=47%  Similarity=0.546  Sum_probs=17.4

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++.++|++|+||||++..+
T Consensus         2 ~~~~~G~~G~GKTt~~~~l   20 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKL   20 (173)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6889999999999998887

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.

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.52  E-value=0.0036  Score=55.54  Aligned_cols=45  Identities=24%  Similarity=0.353  Sum_probs=39.6

Q ss_pred             cCceeehhHHHHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ----ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~----~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.++.++++++.+...    +..-+++.++||.|.|||||+..+
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~L  108 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELL  108 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHH
Confidence            457899999999999999764    346789999999999999999988

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=96.51  E-value=0.014  Score=57.02  Aligned_cols=22  Identities=45%  Similarity=0.670  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       337 ~Ge~~~l~G~NGsGKSTLlk~l  358 (638)
T PRK10636        337 PGSRIGLLGRNGAGKSTLIKLL  358 (638)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=96.50  E-value=0.017  Score=48.59  Aligned_cols=20  Identities=40%  Similarity=0.506  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..|+|++|.|||||++.+
T Consensus        58 e~W~I~G~NGsGKTTLL~ll   77 (257)
T COG1119          58 EHWAIVGPNGAGKTTLLSLL   77 (257)
T ss_pred             CcEEEECCCCCCHHHHHHHH
Confidence            56789999999999999999

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

Probab=96.50  E-value=0.01  Score=52.76  Aligned_cols=21  Identities=38%  Similarity=0.600  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.++.++||+|+|||||.+.|
T Consensus        29 Gef~vllGPSGcGKSTlLr~I   49 (338)
T COG3839          29 GEFVVLLGPSGCGKSTLLRMI   49 (338)
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999999

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.50  E-value=0.019  Score=52.31  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.++|+.|+||||.+..+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKL  194 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKL  194 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4679999999999999988777

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.50  E-value=0.0093  Score=53.88  Aligned_cols=22  Identities=41%  Similarity=0.622  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.++|+.|+||||++..+
T Consensus       136 ~g~ii~lvGptGvGKTTtiakL  157 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKL  157 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3579999999999999999888

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=96.50  E-value=0.0053  Score=56.00  Aligned_cols=45  Identities=24%  Similarity=0.280  Sum_probs=36.1

Q ss_pred             cCceeehhHHHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ------------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.+..+..+..++...            +.....|.++|++|+||||||+.+
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~L   70 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRL   70 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHH
Confidence            456899999999888888541            112478999999999999999988

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.50  E-value=0.14  Score=45.25  Aligned_cols=49  Identities=22%  Similarity=0.118  Sum_probs=33.9

Q ss_pred             eeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHH
Q 048597          209 MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLAL  257 (294)
Q Consensus       209 ~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai  257 (294)
                      ++++.+++.+|+..++.-............-+...+++.-..+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            4789999999999998766644332222333455677777789999654

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).

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.49  E-value=0.007  Score=58.08  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++++|||+|.||||+|..+
T Consensus       493 pGe~vALVGPSGsGKSTiasLL  514 (716)
T KOG0058|consen  493 PGEVVALVGPSGSGKSTIASLL  514 (716)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.49  E-value=0.0043  Score=50.67  Aligned_cols=24  Identities=17%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|.|+||+|+|||||++.+..
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~   26 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLE   26 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHh
Confidence            468999999999999999999844

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.49  E-value=0.0021  Score=52.45  Aligned_cols=21  Identities=38%  Similarity=0.542  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .++.|+|++|+|||||++.+.
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~   23 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALR   23 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHh
Confidence            478999999999999999993

>PLN02318 phosphoribulokinase/uridine kinase

Probab=96.48  E-value=0.0034  Score=59.49  Aligned_cols=32  Identities=19%  Similarity=0.416  Sum_probs=25.6

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           91 WRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        91 ~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ++.+.....+..+|+|.|++|+|||||++.+.
T Consensus        55 ~qlL~~~~~~riIIGIaGpSGSGKTTLAk~La   86 (656)
T PLN02318         55 CQLLAQKNDGIILVGVAGPSGAGKTVFTEKVL   86 (656)
T ss_pred             HHHHHhcCCCeEEEEEECCCCCcHHHHHHHHH
Confidence            34444444467899999999999999999984

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

Probab=96.48  E-value=0.0097  Score=49.51  Aligned_cols=22  Identities=50%  Similarity=0.715  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++++|++|+|||||.+.+
T Consensus        28 ~Geiv~llG~NGaGKTTlLkti   49 (237)
T COG0410          28 RGEIVALLGRNGAGKTTLLKTI   49 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999999

>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=96.47  E-value=0.0084  Score=51.89  Aligned_cols=21  Identities=38%  Similarity=0.297  Sum_probs=16.5

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.|.|.|.+|+||||+|+.+.
T Consensus         2 pLiil~G~P~SGKTt~a~~L~   22 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELK   22 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHH
Confidence            578999999999999999983

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK04040 adenylate kinase; Provisional

Probab=96.47  E-value=0.0023  Score=52.38  Aligned_cols=21  Identities=38%  Similarity=0.593  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|+|++|+||||+++.+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l   22 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKA   22 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHH
Confidence            368999999999999999987

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=96.47  E-value=0.0039  Score=50.04  Aligned_cols=43  Identities=16%  Similarity=0.191  Sum_probs=32.8

Q ss_pred             eeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           80 VIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ++|....+.++.+.+..-......|.|+|..|+||+.+|+.+.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH   43 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIH   43 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHH
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHH
Confidence            4788888888888887644455778899999999999999993

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.46  E-value=0.0023  Score=49.14  Aligned_cols=21  Identities=43%  Similarity=0.680  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|+.|+|||||++.+
T Consensus        11 g~~~~i~G~nGsGKStLl~~l   31 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKAL   31 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHH
T ss_pred             CCEEEEEccCCCccccceeee
Confidence            368999999999999999988

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=96.46  E-value=0.0084  Score=59.29  Aligned_cols=22  Identities=32%  Similarity=0.371  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       499 ~G~~vaIvG~SGsGKSTLlklL  520 (708)
T TIGR01193       499 MNSKTTIVGMSGSGKSTLAKLL  520 (708)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

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.

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=96.46  E-value=0.013  Score=57.91  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       506 ~Ge~vaIvG~SGsGKSTLl~lL  527 (711)
T TIGR00958       506 PGEVVALVGPSGSGKSTVAALL  527 (711)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.45  E-value=0.036  Score=52.38  Aligned_cols=126  Identities=17%  Similarity=0.122  Sum_probs=70.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhH-----HHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCcc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKK-----IQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHI  174 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~  174 (294)
                      ....+.++||+|+|||.||+.+.+...     +...  ..+.    .+-..+.......+...-+...+.|++|++....
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~--~l~s----k~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~  348 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGS--ELLS----KWVGESEKNIRELFEKARKLAPSIIFIDEIDSLA  348 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCH--HHhc----cccchHHHHHHHHHHHHHcCCCcEEEEEchhhhh
Confidence            566899999999999999999955111     1100  0000    0112223333334444446788999999997521


Q ss_pred             ch-------------hhhcCCcC--CCCCCcEEEEecCChHHhh---cc--CCce-eecCCCCHHHHHHHHHHHhCCC
Q 048597          175 NL-------------NKLGVPLQ--YLHLGSKIVFTTNSRVVCG---QM--EATM-LNASPLRDEEAWRLFEEAVGRY  231 (294)
Q Consensus       175 ~~-------------~~l~~~l~--~~~~gs~iivTtr~~~v~~---~~--~~~~-~~l~~L~~~~~~~Lf~~~~~~~  231 (294)
                      .+             ..+...+.  ....+..+|-+|.......   ..  .-.. +.+.+-+.++..+.|+.+....
T Consensus       349 ~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~  426 (494)
T COG0464         349 SGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDK  426 (494)
T ss_pred             ccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhccc
Confidence            11             11211221  1222333455554433211   11  2233 8899999999999999988643

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.45  E-value=0.0042  Score=55.49  Aligned_cols=42  Identities=21%  Similarity=0.287  Sum_probs=35.1

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+||.++.+..++-.+.++  ...-+.|.|++|+|||||++.+
T Consensus         4 ~~ivgq~~~~~al~~~~~~~--~~g~vli~G~~G~gKttl~r~~   45 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDP--KIGGVMVMGDRGTGKSTAVRAL   45 (337)
T ss_pred             cccccHHHHHHHHHHHhcCC--CCCeEEEEcCCCCCHHHHHHHH
Confidence            35789999988887767665  4567889999999999999998

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.44  E-value=0.013  Score=56.49  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|.|||||++.+
T Consensus       365 ~G~~~aivG~sGsGKSTL~~ll  386 (574)
T PRK11160        365 AGEKVALLGRTGCGKSTLLQLL  386 (574)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999999

>PRK03839 putative kinase; Provisional

Probab=96.44  E-value=0.0023  Score=51.80  Aligned_cols=19  Identities=58%  Similarity=0.716  Sum_probs=17.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+++.+
T Consensus         2 ~I~l~G~pGsGKsT~~~~L   20 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLL   20 (180)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999998

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=96.44  E-value=0.011  Score=51.34  Aligned_cols=22  Identities=41%  Similarity=0.573  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|+.|.|||||++.+
T Consensus        29 ~Ge~~~IvG~nGsGKSTLl~~L   50 (275)
T cd03289          29 PGQRVGLLGRTGSGKSTLLSAF   50 (275)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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.

>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=96.43  E-value=0.0024  Score=51.61  Aligned_cols=104  Identities=20%  Similarity=0.211  Sum_probs=56.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh--------h--H---------HHHHHHHHhCCCCC--C--cccCCh-HHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL--------K--K---------IQADIGKKIGLSTK--S--WQENSF-EDKALDIA  155 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~--------~--~---------i~~~i~~~~~~~~~--~--~~~~~~-~~~~~~l~  155 (294)
                      .-.+++|+|++|+|||||.+.+...        .  .         .+.+++..+++...  .  ....+. ....-.+.
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~~q~~~l~~~~L~~~~~~~~~~~LSgGq~qrl~la   99 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFIDQLQFLIDVGLGYLTLGQKLSTLSGGELQRVKLA   99 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEEhHHHHHHHcCCCccccCCCcCcCCHHHHHHHHHH
Confidence            4479999999999999999988210        0  0         01224555554321  0  011111 12222344


Q ss_pred             HHhccC--CeEEEEccccCc---cchhhhcCCcCC-CCCCcEEEEecCChHHhh
Q 048597          156 GILSRK--RFVLLLDDIWEH---INLNKLGVPLQY-LHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       156 ~~l~~k--r~LlvlDdv~~~---~~~~~l~~~l~~-~~~gs~iivTtr~~~v~~  203 (294)
                      ..+-.+  .-++++|+.-..   .....+...+.. ...|..||++|.+.....
T Consensus       100 ral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238         100 SELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             HHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            555566  778889987552   222222222221 124667888888876654

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.

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=96.43  E-value=0.0052  Score=50.60  Aligned_cols=39  Identities=23%  Similarity=0.202  Sum_probs=29.7

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++|.+..+..+.-...+.    .-+.++|++|+|||+||+.+
T Consensus         4 dI~GQe~aKrAL~iAAaG~----h~lLl~GppGtGKTmlA~~l   42 (206)
T PF01078_consen    4 DIVGQEEAKRALEIAAAGG----HHLLLIGPPGTGKTMLARRL   42 (206)
T ss_dssp             CSSSTHHHHHHHHHHHHCC------EEEES-CCCTHHHHHHHH
T ss_pred             hhcCcHHHHHHHHHHHcCC----CCeEEECCCCCCHHHHHHHH
Confidence            5688887777776666644    78999999999999999998

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>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=96.42  E-value=0.0023  Score=49.41  Aligned_cols=18  Identities=44%  Similarity=0.613  Sum_probs=17.0

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.|+|++|+|||+||+.+
T Consensus         2 vlL~G~~G~GKt~l~~~l   19 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLAREL   19 (139)
T ss_dssp             EEEEESSSSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            689999999999999988

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.42  E-value=0.0025  Score=51.48  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ++|.+.|++|+||||+|+.+.
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~   23 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQ   23 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999999883

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

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=96.41  E-value=0.022  Score=54.30  Aligned_cols=22  Identities=41%  Similarity=0.623  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       344 ~Ge~~~l~G~NGsGKSTLl~~i  365 (530)
T PRK15064        344 AGERLAIIGENGVGKTTLLRTL  365 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999998

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

Probab=96.41  E-value=0.002  Score=47.56  Aligned_cols=19  Identities=53%  Similarity=0.826  Sum_probs=16.3

Q ss_pred             EEEEcCCCChHHHHHHHhh
Q 048597          104 IGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~  122 (294)
                      |-|+|++|+|||+||+.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~   19 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELA   19 (107)
T ss_pred             CEEECCCCCCHHHHHHHHH
Confidence            5689999999999997753

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

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.41  E-value=0.0027  Score=52.53  Aligned_cols=25  Identities=36%  Similarity=0.430  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ...+|+|+|++|+|||||++.+...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3478999999999999999998543

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

Probab=96.41  E-value=0.0089  Score=50.28  Aligned_cols=22  Identities=41%  Similarity=0.629  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+.++.|++|.||||..+.+
T Consensus        27 ~G~i~GllG~NGAGKTTtfRmI   48 (300)
T COG4152          27 PGEIFGLLGPNGAGKTTTFRMI   48 (300)
T ss_pred             CCeEEEeecCCCCCccchHHHH
Confidence            4589999999999999999999

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=96.41  E-value=0.021  Score=46.13  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..+-|.|+.|+|||||.+.+
T Consensus        28 Ge~~~i~G~NG~GKTtLLRil   48 (209)
T COG4133          28 GEALQITGPNGAGKTTLLRIL   48 (209)
T ss_pred             CCEEEEECCCCCcHHHHHHHH
Confidence            368889999999999999999

>PRK05439 pantothenate kinase; Provisional

Probab=96.40  E-value=0.0046  Score=54.44  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=21.3

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHh
Q 048597           98 ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        98 ~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+-+|+|.|++|+||||+|+.+
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L  106 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLL  106 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHH
Confidence            346789999999999999999887

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=96.40  E-value=0.017  Score=52.50  Aligned_cols=22  Identities=41%  Similarity=0.667  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||.+.+
T Consensus        44 ~Ge~~~llGpsGsGKSTLLr~I   65 (377)
T PRK11607         44 KGEIFALLGASGCGKSTLLRML   65 (377)
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999999

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.40  E-value=0.018  Score=56.44  Aligned_cols=21  Identities=43%  Similarity=0.661  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.++|+.|+||||++.++
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKL  205 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKL  205 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHH
Confidence            479999999999999998887

>PRK13409 putative ATPase RIL; Provisional

Probab=96.39  E-value=0.016  Score=55.98  Aligned_cols=21  Identities=43%  Similarity=0.721  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus       365 Geiv~l~G~NGsGKSTLlk~L  385 (590)
T PRK13409        365 GEVIGIVGPNGIGKTTFAKLL  385 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            358999999999999999998

>cd01394 radB RadB

Probab=96.38  E-value=0.017  Score=48.23  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|++|+|||||+.++
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~   39 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQL   39 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            5689999999999999999887

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

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=96.38  E-value=0.012  Score=58.33  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       504 ~Ge~vaIvG~sGsGKSTLlklL  525 (710)
T TIGR03796       504 PGQRVALVGGSGSGKSTIAKLV  525 (710)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999999

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.

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=96.38  E-value=0.01  Score=58.60  Aligned_cols=22  Identities=41%  Similarity=0.595  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       482 ~G~~vaivG~sGsGKSTL~~ll  503 (694)
T TIGR01846       482 PGEFIGIVGPSGSGKSTLTKLL  503 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999999

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.37  E-value=0.003  Score=50.58  Aligned_cols=22  Identities=32%  Similarity=0.276  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +...|.|+|++|+||||+|+.+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~L   24 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLL   24 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHH
Confidence            3468999999999999999988

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.37  E-value=0.0051  Score=51.65  Aligned_cols=105  Identities=16%  Similarity=0.105  Sum_probs=55.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhH----------------HHHHHHHHhCCCCCCc-ccCChHHHHHHHHHHh--cc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKK----------------IQADIGKKIGLSTKSW-QENSFEDKALDIAGIL--SR  160 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~----------------i~~~i~~~~~~~~~~~-~~~~~~~~~~~l~~~l--~~  160 (294)
                      ...++.|.|+.|.||||+.+.+....-                +...|...++....-. ..+....-...+...+  ..
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~~  109 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFDSVLTRMGASDSIQHGMSTFMVELSETSHILSNCT  109 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccceEEEEecCccccccccchHHHHHHHHHHHHHhCC
Confidence            347889999999999999998843211                0111111111110000 0111222222333333  35


Q ss_pred             CCeEEEEccccCcc------c-hhhhcCCcCCCCCCcEEEEecCChHHhhcc
Q 048597          161 KRFVLLLDDIWEHI------N-LNKLGVPLQYLHLGSKIVFTTNSRVVCGQM  205 (294)
Q Consensus       161 kr~LlvlDdv~~~~------~-~~~l~~~l~~~~~gs~iivTtr~~~v~~~~  205 (294)
                      ++-|+++|+.....      . ...+...+... .++.+|++|....++...
T Consensus       110 ~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~~~~i~~TH~~~l~~~~  160 (222)
T cd03287         110 SRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPSLGEIL  160 (222)
T ss_pred             CCeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cCCeEEEEcccHHHHHHH
Confidence            78999999974321      1 11122222222 468899999998876543

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

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.37  E-value=0.014  Score=52.82  Aligned_cols=32  Identities=31%  Similarity=0.330  Sum_probs=23.6

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-+.|..+=..-.++.|.|++|+|||||+.++
T Consensus        71 LD~vLgGGi~~GslvLI~G~pG~GKStLllq~  102 (372)
T cd01121          71 LDRVLGGGLVPGSVILIGGDPGIGKSTLLLQV  102 (372)
T ss_pred             HHHhhcCCccCCeEEEEEeCCCCCHHHHHHHH
Confidence            33334333224579999999999999999987

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.

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

Probab=96.36  E-value=0.0023  Score=52.17  Aligned_cols=20  Identities=45%  Similarity=0.606  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +|+|.|.+|+||||||+.+.
T Consensus         1 ii~i~G~sgsGKTtla~~l~   20 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQ   20 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999983

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.36  E-value=0.016  Score=53.22  Aligned_cols=22  Identities=41%  Similarity=0.594  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++++|+.|+||||++..+
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakL  211 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKL  211 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999866

>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=96.35  E-value=0.0025  Score=51.75  Aligned_cols=20  Identities=40%  Similarity=0.755  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +|+|.|.+|+||||||+.+.
T Consensus         1 ii~i~G~sgsGKttla~~l~   20 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLS   20 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999884

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

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.35  E-value=0.0024  Score=51.80  Aligned_cols=19  Identities=26%  Similarity=0.336  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|.|+|++|+||||+++.+
T Consensus         1 ~i~i~G~pGsGKst~a~~l   19 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKI   19 (183)
T ss_pred             CEEEECCCCCCHHHHHHHH
Confidence            5889999999999999988

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.

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

Probab=96.34  E-value=0.024  Score=45.31  Aligned_cols=21  Identities=48%  Similarity=0.732  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.|++|+|.+|+|||||.+.+
T Consensus        32 GeVLgiVGESGSGKtTLL~~i   52 (258)
T COG4107          32 GEVLGIVGESGSGKTTLLKCI   52 (258)
T ss_pred             CcEEEEEecCCCcHHhHHHHH
Confidence            469999999999999999998

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.34  E-value=0.0053  Score=55.93  Aligned_cols=45  Identities=24%  Similarity=0.296  Sum_probs=35.4

Q ss_pred             cCceeehhHHHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ------------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.++.+..+.-.+..+            +..++-|.++|++|+|||+||+.+
T Consensus        11 d~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraL   67 (441)
T TIGR00390        11 DKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRL   67 (441)
T ss_pred             hhhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHH
Confidence            356899998888887666542            123478999999999999999998

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]

Probab=96.34  E-value=0.0031  Score=51.36  Aligned_cols=49  Identities=20%  Similarity=0.341  Sum_probs=31.7

Q ss_pred             HHHHHHHHHhccCCeEEEEccccC------ccchhhhcCCcCCCCCCcEEEEecCCh
Q 048597          149 DKALDIAGILSRKRFVLLLDDIWE------HINLNKLGVPLQYLHLGSKIVFTTNSR  199 (294)
Q Consensus       149 ~~~~~l~~~l~~kr~LlvlDdv~~------~~~~~~l~~~l~~~~~gs~iivTtr~~  199 (294)
                      ...-+|.+.|...+.++.||+-..      ..+...+...|.+.  |--|++|-.+-
T Consensus       145 RRR~EIARaLa~~P~fiLLDEPFAGVDPiaV~dIq~iI~~L~~r--giGvLITDHNV  199 (243)
T COG1137         145 RRRVEIARALAANPKFILLDEPFAGVDPIAVIDIQRIIKHLKDR--GIGVLITDHNV  199 (243)
T ss_pred             HHHHHHHHHHhcCCCEEEecCCccCCCchhHHHHHHHHHHHHhC--CceEEEccccH
Confidence            334456666777888999998654      23455555555444  55589998774

>PRK06217 hypothetical protein; Validated

Probab=96.33  E-value=0.0027  Score=51.64  Aligned_cols=21  Identities=38%  Similarity=0.346  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..|.|.|++|+|||||++.+.
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~   22 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALA   22 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            358999999999999999883

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=96.33  E-value=0.0061  Score=48.31  Aligned_cols=35  Identities=20%  Similarity=0.298  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      .+++|..+|..     +++.++|++|+|||||++.+....
T Consensus        25 g~~~l~~~l~~-----k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   25 GIEELKELLKG-----KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             THHHHHHHHTT-----SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CHHHHHHHhcC-----CEEEEECCCCCCHHHHHHHHHhhc
Confidence            45566666653     699999999999999998886544

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.32  E-value=0.0055  Score=56.26  Aligned_cols=23  Identities=35%  Similarity=0.588  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-..++|+|++|+|||||++.+.
T Consensus       161 ~GqrigI~G~sG~GKSTLL~~I~  183 (444)
T PRK08972        161 KGQRMGLFAGSGVGKSVLLGMMT  183 (444)
T ss_pred             CCCEEEEECCCCCChhHHHHHhc
Confidence            34689999999999999999983

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.32  E-value=0.0027  Score=49.11  Aligned_cols=21  Identities=52%  Similarity=0.741  Sum_probs=18.5

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .|.|+|++|+|||||++.+..
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~   21 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLE   21 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999998854

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.32  E-value=0.0033  Score=50.67  Aligned_cols=23  Identities=39%  Similarity=0.424  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+|.+.|++|+||||+++.+.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~   28 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALY   28 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHH
Confidence            45799999999999999999883

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.31  E-value=0.018  Score=46.79  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...++.|.|++|+||||+++.+.
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~   39 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALE   39 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45799999999999999999984

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.31  E-value=0.028  Score=51.67  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.+|.++|+.|+||||++..+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKL  120 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKL  120 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4689999999999999998887

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.

>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=96.30  E-value=0.0027  Score=49.27  Aligned_cols=19  Identities=42%  Similarity=0.616  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|.|.|++|+||||+|+.+
T Consensus         1 ~I~i~G~~GsGKst~a~~l   19 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLL   19 (147)
T ss_pred             CEEEECCCCCCHHHHHHHH
Confidence            5899999999999999988

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.30  E-value=0.014  Score=45.24  Aligned_cols=108  Identities=13%  Similarity=0.152  Sum_probs=54.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC--------hhHHHHHHHHHhCCC-CCCcccCChHHHHHHHHHHhccCCeEEEEccc
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN--------LKKIQADIGKKIGLS-TKSWQENSFEDKALDIAGILSRKRFVLLLDDI  170 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~--------~~~i~~~i~~~~~~~-~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv  170 (294)
                      ..+-|.|.|.+|+|||||+..+..        ..++.++---.-+.. .......+.+.+...|-..+.+.-+++     
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~~~~~i~isd~vkEn~l~~gyDE~y~c~i~DEdkv~D~Le~~m~~Gg~IV-----   80 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKTGLEYIEISDLVKENNLYEGYDEEYKCHILDEDKVLDELEPLMIEGGNIV-----   80 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHhCCceEehhhHHhhhcchhcccccccCccccHHHHHHHHHHHHhcCCcEE-----
Confidence            456789999999999999999832        222222111111111 111223466677777777765544443     


Q ss_pred             cCccchhhhcCCcCCCCCCcEEEEecCChHHhhccCCceeecCCCCH
Q 048597          171 WEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRD  217 (294)
Q Consensus       171 ~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~~~l~~L~~  217 (294)
                          +|... ..||..--.-.++++|-+.....+.....|.-..+.+
T Consensus        81 ----DyHgC-d~FperwfdlVvVLr~~~s~LY~RL~sRgY~e~Ki~e  122 (176)
T KOG3347|consen   81 ----DYHGC-DFFPERWFDLVVVLRTPNSVLYDRLKSRGYSEKKIKE  122 (176)
T ss_pred             ----eeccc-CccchhheeEEEEEecCchHHHHHHHHcCCCHHHHhh
Confidence                33321 1233222223456666665555444433344444443

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.30  E-value=0.0032  Score=46.93  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHhhChhH
Q 048597          104 IGLYGTGGVGKTTLLKQRANLKK  126 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~~~~~  126 (294)
                      |.|+|..|+|||||++.+.+...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999998865443

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=96.30  E-value=0.02  Score=52.56  Aligned_cols=22  Identities=45%  Similarity=0.794  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||.+.+
T Consensus        28 ~Geiv~liGpNGaGKSTLLk~L   49 (402)
T PRK09536         28 EGSLVGLVGPNGAGKTTLLRAI   49 (402)
T ss_pred             CCCEEEEECCCCchHHHHHHHH
Confidence            4479999999999999999999

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.29  E-value=0.0024  Score=50.78  Aligned_cols=18  Identities=33%  Similarity=0.506  Sum_probs=16.5

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.|+|++|+||||+|+.+
T Consensus         1 i~l~G~~GsGKSTla~~l   18 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASAL   18 (163)
T ss_pred             CEEECCCCCCHHHHHHHH
Confidence            468999999999999987

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.29  E-value=0.0029  Score=51.22  Aligned_cols=19  Identities=42%  Similarity=0.543  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+|+.+
T Consensus         2 riiilG~pGaGK~T~A~~L   20 (178)
T COG0563           2 RILILGPPGAGKSTLAKKL   20 (178)
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            4789999999999999988

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.29  E-value=0.019  Score=49.93  Aligned_cols=23  Identities=39%  Similarity=0.611  Sum_probs=21.0

Q ss_pred             CCceEEEEEcCCCChHHHHHHHh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+..+|.|+|.+|+|||||+..+
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l  124 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTET  124 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHH
Confidence            37899999999999999999776

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.29  E-value=0.012  Score=57.04  Aligned_cols=22  Identities=41%  Similarity=0.658  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       366 ~Ge~iaIvG~SGsGKSTLl~lL  387 (592)
T PRK10790        366 SRGFVALVGHTGSGKSTLASLL  387 (592)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999999

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=96.29  E-value=0.014  Score=56.41  Aligned_cols=22  Identities=32%  Similarity=0.505  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       360 ~G~~~~ivG~sGsGKSTL~~ll  381 (585)
T TIGR01192       360 AGQTVAIVGPTGAGKTTLINLL  381 (585)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4589999999999999999998

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.

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

Probab=96.29  E-value=0.016  Score=49.01  Aligned_cols=22  Identities=41%  Similarity=0.493  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus        29 ~Ge~~~i~G~nGsGKSTL~~~l   50 (235)
T COG1122          29 KGERVLLIGPNGSGKSTLLKLL   50 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999998

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.28  E-value=0.023  Score=48.27  Aligned_cols=30  Identities=23%  Similarity=0.339  Sum_probs=23.4

Q ss_pred             HHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           92 RFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        92 ~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++|..+=..-+++.|.|++|+|||+|+.++
T Consensus        12 ~~l~GG~~~gs~~lI~G~pGsGKT~la~~~   41 (237)
T TIGR03877        12 EILHGGIPERNVVLLSGGPGTGKSIFSQQF   41 (237)
T ss_pred             HHhcCCCcCCeEEEEEcCCCCCHHHHHHHH
Confidence            334443335689999999999999999887

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.

>PRK00625 shikimate kinase; Provisional

Probab=96.25  E-value=0.0032  Score=50.75  Aligned_cols=19  Identities=42%  Similarity=0.328  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.++|++|+||||+++.+
T Consensus         2 ~I~LiG~pGsGKTT~~k~L   20 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKAL   20 (173)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999988

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.25  E-value=0.026  Score=47.78  Aligned_cols=29  Identities=24%  Similarity=0.206  Sum_probs=23.1

Q ss_pred             HHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           93 FVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        93 ~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|..+=..-+++.|.|++|+|||+|+.++
T Consensus        17 ~l~gG~~~g~~~~i~G~~GsGKt~l~~~~   45 (234)
T PRK06067         17 KLGGGIPFPSLILIEGDHGTGKSVLSQQF   45 (234)
T ss_pred             hhCCCCcCCcEEEEECCCCCChHHHHHHH
Confidence            34333335689999999999999999998

>TIGR02012 tigrfam_recA protein RecA

Probab=96.25  E-value=0.028  Score=49.79  Aligned_cols=73  Identities=19%  Similarity=0.277  Sum_probs=43.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh-------------Chh-HHHHHHHHHhCCCCCC---cccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA-------------NLK-KIQADIGKKIGLSTKS---WQENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~-------------~~~-~i~~~i~~~~~~~~~~---~~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-+++-|.|++|+|||||+.++.             +.. ......+..+++....   ....+.++....+...++ +.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~~~  133 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGA  133 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhccC
Confidence            55799999999999999988861             111 1222344555542211   112334444444544443 45


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      --++|+|.+-.
T Consensus       134 ~~lIVIDSv~a  144 (321)
T TIGR02012       134 VDIIVVDSVAA  144 (321)
T ss_pred             CcEEEEcchhh
Confidence            67899999853

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.

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

Probab=96.25  E-value=0.022  Score=51.41  Aligned_cols=82  Identities=24%  Similarity=0.295  Sum_probs=47.5

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCCCCCcc---cCChHH
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLSTKSWQ---ENSFED  149 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~~~~~~---~~~~~~  149 (294)
                      .++-+.|-.+=-.-++|.|-|.+|+|||||.-++....               .-.+--+.+++++.....   ..+.++
T Consensus        80 ~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~~vLYVsGEES~~QiklRA~RL~~~~~~l~l~aEt~~e~  159 (456)
T COG1066          80 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGKVLYVSGEESLQQIKLRADRLGLPTNNLYLLAETNLED  159 (456)
T ss_pred             HHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcCcEEEEeCCcCHHHHHHHHHHhCCCccceEEehhcCHHH
Confidence            34444444432245799999999999999998882111               112223456665443222   223333


Q ss_pred             HHHHHHHHhccCCeEEEEccccC
Q 048597          150 KALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       150 ~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      ....+.   +.+.-|+|+|.+.+
T Consensus       160 I~~~l~---~~~p~lvVIDSIQT  179 (456)
T COG1066         160 IIAELE---QEKPDLVVIDSIQT  179 (456)
T ss_pred             HHHHHH---hcCCCEEEEeccce
Confidence            333333   47788999999865

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.24  E-value=0.0041  Score=51.25  Aligned_cols=23  Identities=22%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +..+|.|+|++|+|||||++.+.
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~   45 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALE   45 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            56899999999999999999883

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.23  E-value=0.0036  Score=51.19  Aligned_cols=26  Identities=35%  Similarity=0.563  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      .-.+++|+|++|+|||||++.+....
T Consensus        17 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        17 RGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34699999999999999999886543

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK15453 phosphoribulokinase; Provisional

Probab=96.23  E-value=0.019  Score=49.64  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|.|.+|+||||+++.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l   25 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAF   25 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            5689999999999999999977

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.23  E-value=0.013  Score=46.58  Aligned_cols=103  Identities=20%  Similarity=0.217  Sum_probs=52.8

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhHHH-HHHHH----HhCCCCCCc---------ccCChHHHHHHHHHHhc----cCCe
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKKIQ-ADIGK----KIGLSTKSW---------QENSFEDKALDIAGILS----RKRF  163 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~i~-~~i~~----~~~~~~~~~---------~~~~~~~~~~~l~~~l~----~kr~  163 (294)
                      +++.|+|+.|.||||+++.+.-..-.. ..+..    +.+......         .-..-......+...+.    +++-
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~i~~~~~lS~G~~~~~~la~~L~~~~~~~~~  101 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAVSAELIFTRLQLSGGEKELSALALILALASLKPRP  101 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcchhhhccCcccCCCcceeeEEEEehheeeccccHHHHHHHHHHHHhcCCCCCC
Confidence            699999999999999999871111000 00000    011100000         01111222233444443    2678


Q ss_pred             EEEEccccCccch---hhhcCCcCC-CCCCcEEEEecCChHHhhc
Q 048597          164 VLLLDDIWEHINL---NKLGVPLQY-LHLGSKIVFTTNSRVVCGQ  204 (294)
Q Consensus       164 LlvlDdv~~~~~~---~~l~~~l~~-~~~gs~iivTtr~~~v~~~  204 (294)
                      ++++|+.-..-+.   ..+...+.. ...|+.+|++|........
T Consensus       102 llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~~~~~  146 (162)
T cd03227         102 LYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPELAEL  146 (162)
T ss_pred             EEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHh
Confidence            9999998763222   222222211 1126789999998887654

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.

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=96.22  E-value=0.019  Score=55.04  Aligned_cols=22  Identities=32%  Similarity=0.382  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       348 ~G~~~aivG~sGsGKSTL~~ll  369 (547)
T PRK10522        348 RGELLFLIGGNGSGKSTLAMLL  369 (547)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.22  E-value=0.021  Score=51.54  Aligned_cols=22  Identities=55%  Similarity=0.693  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +..++.++|+.|+||||++..+
T Consensus       205 ~~~ii~lvGptGvGKTTt~akL  226 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKL  226 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            5689999999999999998887

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=96.22  E-value=0.023  Score=52.93  Aligned_cols=21  Identities=38%  Similarity=0.594  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -+-.+|+|++|+||||+.+.+
T Consensus       101 g~rygLiG~nG~Gkst~L~~i  121 (614)
T KOG0927|consen  101 GRRYGLIGPNGSGKSTFLRAI  121 (614)
T ss_pred             CceEEEEcCCCCcHhHHHHHH
Confidence            478999999999999999999

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.21  E-value=0.0058  Score=52.80  Aligned_cols=34  Identities=29%  Similarity=0.498  Sum_probs=28.7

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+++..+.....+..+|+|.|.+|+|||||.-.+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L   71 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEAL   71 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHH
Confidence            4667777766678899999999999999998776

>PRK08149 ATP synthase SpaL; Validated

Probab=96.21  E-value=0.012  Score=54.13  Aligned_cols=23  Identities=26%  Similarity=0.535  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-..++|+|++|+|||||++.+.
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~  172 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLI  172 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHh
Confidence            34689999999999999999883

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.20  E-value=0.0037  Score=52.26  Aligned_cols=25  Identities=32%  Similarity=0.553  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3479999999999999999998443

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.20  E-value=0.014  Score=56.21  Aligned_cols=22  Identities=36%  Similarity=0.613  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       340 ~G~~~~ivG~sGsGKSTLl~ll  361 (569)
T PRK10789        340 PGQMLGICGPTGSGKSTLLSLI  361 (569)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.20  E-value=0.011  Score=46.74  Aligned_cols=41  Identities=15%  Similarity=0.130  Sum_probs=26.4

Q ss_pred             cCCeEEEEccccCc-----cchhhhcCCcCCCCCCcEEEEecCChH
Q 048597          160 RKRFVLLLDDIWEH-----INLNKLGVPLQYLHLGSKIVFTTNSRV  200 (294)
Q Consensus       160 ~kr~LlvlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtr~~~  200 (294)
                      +.-=|+|||++-..     -+.+.+...+.....+..+|+|.|+..
T Consensus        94 ~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          94 GEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             CCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            34459999998653     233444444444444678999999854

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.20  E-value=0.0038  Score=51.92  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G   49 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNG   49 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            347999999999999999999843

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.20  E-value=0.0048  Score=49.72  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+|.|+|++|+||||+++.+.
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la   25 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALA   25 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45699999999999999999873

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.19  E-value=0.0068  Score=53.93  Aligned_cols=34  Identities=26%  Similarity=0.393  Sum_probs=26.2

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+++.+........+|+|.|++|+|||||+..+
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l   76 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEAL   76 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHH
Confidence            3455555443446789999999999999999886

>PLN03073 ABC transporter F family; Provisional

Probab=96.19  E-value=0.03  Score=55.26  Aligned_cols=110  Identities=18%  Similarity=0.205  Sum_probs=0.0

Q ss_pred             EEEEEcCCCChHHHHHHHh---------------------------------------------hChhHHHHHHHHHhCC
Q 048597          103 IIGLYGTGGVGKTTLLKQR---------------------------------------------ANLKKIQADIGKKIGL  137 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v---------------------------------------------~~~~~i~~~i~~~~~~  137 (294)
                      +++|+|++|+|||||++.+                                             ....+-...++..+++
T Consensus       537 ~i~LvG~NGsGKSTLLk~L~Gll~p~~G~I~~~~~~~igyv~Q~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~L~~~gl  616 (718)
T PLN03073        537 RIAMVGPNGIGKSTILKLISGELQPSSGTVFRSAKVRMAVFSQHHVDGLDLSSNPLLYMMRCFPGVPEQKLRAHLGSFGV  616 (718)
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCCceEEECCceeEEEEeccccccCCcchhHHHHHHHhcCCCCHHHHHHHHHHCCC


Q ss_pred             CC-----CCcccCChHHHHHHHHHHhccCCeEEEEccccC---ccchhhhcCCcCCCCCCcEEEEecCChHHhhccCCce
Q 048597          138 ST-----KSWQENSFEDKALDIAGILSRKRFVLLLDDIWE---HINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM  209 (294)
Q Consensus       138 ~~-----~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~---~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~  209 (294)
                      ..     ....-+.-+...-.|...+-.+.-+++||+--+   ...-..+...+... .| .||++|.+...........
T Consensus       617 ~~~~~~~~~~~LSgGqkqRvaLAraL~~~p~lLLLDEPT~~LD~~s~~~l~~~L~~~-~g-tvIivSHd~~~i~~~~drv  694 (718)
T PLN03073        617 TGNLALQPMYTLSGGQKSRVAFAKITFKKPHILLLDEPSNHLDLDAVEALIQGLVLF-QG-GVLMVSHDEHLISGSVDEL  694 (718)
T ss_pred             ChHHhcCCccccCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHHc-CC-EEEEEECCHHHHHHhCCEE


Q ss_pred             eecCC
Q 048597          210 LNASP  214 (294)
Q Consensus       210 ~~l~~  214 (294)
                      +.+..
T Consensus       695 ~~l~~  699 (718)
T PLN03073        695 WVVSE  699 (718)
T ss_pred             EEEEC

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=96.19  E-value=0.012  Score=56.70  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-..++|+|++|.|||||++.+
T Consensus       365 ~Ge~i~IvG~sGsGKSTLlklL  386 (576)
T TIGR02204       365 PGETVALVGPSGAGKSTLFQLL  386 (576)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

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

Probab=96.17  E-value=0.032  Score=49.50  Aligned_cols=73  Identities=21%  Similarity=0.275  Sum_probs=43.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh-------------Ch-hHHHHHHHHHhCCCCCC---cccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA-------------NL-KKIQADIGKKIGLSTKS---WQENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~-------------~~-~~i~~~i~~~~~~~~~~---~~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-+++-|+|++|+|||||+.++.             +. ..+....+..++.....   ....+.++....+...++ +.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s~~  133 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVRSGA  133 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHhccC
Confidence            45799999999999999999871             10 11222344455432111   112334455555544443 45


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      --++|+|.+-.
T Consensus       134 ~~lIVIDSvaa  144 (325)
T cd00983         134 VDLIVVDSVAA  144 (325)
T ss_pred             CCEEEEcchHh
Confidence            67899998753

RecA couples ATP hydrolysis to DNA strand exchange.

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

Probab=96.17  E-value=0.004  Score=52.00  Aligned_cols=24  Identities=33%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~G   51 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILG   51 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            347999999999999999999843

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.16  E-value=0.0054  Score=40.24  Aligned_cols=20  Identities=35%  Similarity=0.526  Sum_probs=17.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+..|.|+.|+|||||.-.+
T Consensus        24 ~~tli~G~nGsGKSTllDAi   43 (62)
T PF13555_consen   24 DVTLITGPNGSGKSTLLDAI   43 (62)
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            37999999999999998766

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.16  E-value=0.028  Score=45.06  Aligned_cols=46  Identities=15%  Similarity=0.163  Sum_probs=28.2

Q ss_pred             HHHhcc-CCeEEEEccccCc-----cchhhhcCCcCCCCCCcEEEEecCChH
Q 048597          155 AGILSR-KRFVLLLDDIWEH-----INLNKLGVPLQYLHLGSKIVFTTNSRV  200 (294)
Q Consensus       155 ~~~l~~-kr~LlvlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtr~~~  200 (294)
                      ++.+.. .-=++|||++-..     -+.+.+...+.....+..+|+|.|+..
T Consensus        90 ~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        90 KEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence            344433 4459999998642     233344444444445678999999863

Alternate name: corrinoid adenosyltransferase.

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=96.15  E-value=0.018  Score=55.04  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       343 ~G~~~~ivG~sGsGKSTL~~ll  364 (544)
T TIGR01842       343 AGEALAIIGPSGSGKSTLARLI  364 (544)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999999

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.14  E-value=0.0057  Score=50.82  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ++++|+++|+.|+|||||...+..
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~   44 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLID   44 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999988743

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

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

Probab=96.14  E-value=0.0045  Score=48.05  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ++|.|+|+.|+|||||++.+.+
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~   22 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLIN   22 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999987744

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=96.13  E-value=0.0055  Score=51.30  Aligned_cols=21  Identities=38%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .++.|.|++|.||||+.+.+.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~   51 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVA   51 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            799999999999999999983

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

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.13  E-value=0.02  Score=49.61  Aligned_cols=84  Identities=23%  Similarity=0.239  Sum_probs=53.1

Q ss_pred             eeehhHHHHHHHHHHh----------cCCCCceEEEEEcCCCChHHHHHHHhhChhH-----HH--HHHHHHhCCCCCCc
Q 048597           80 VIRQELLLDRVWRFVT----------DQERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ--ADIGKKIGLSTKSW  142 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~----------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~--~~i~~~~~~~~~~~  142 (294)
                      +-|.+...+.|.+.+.          ......+-|.++||+|.|||.||+.|.....     +.  .-+...++      
T Consensus       135 VAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmG------  208 (439)
T KOG0739|consen  135 VAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMG------  208 (439)
T ss_pred             hccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhc------
Confidence            5577777776666542          1223578999999999999999999943322     11  11111221      


Q ss_pred             ccCChHHHHHHHHHHh-ccCCeEEEEccccC
Q 048597          143 QENSFEDKALDIAGIL-SRKRFVLLLDDIWE  172 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~  172 (294)
                         ..+.+...|++.- ..|.-+|++|++..
T Consensus       209 ---ESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  209 ---ESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             ---cHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence               1234555555554 47889999999874

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.13  E-value=0.0072  Score=52.42  Aligned_cols=32  Identities=22%  Similarity=0.350  Sum_probs=24.2

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++.+...   -+-+.++|+.|+|||++++..
T Consensus        22 ~~~ll~~l~~~---~~pvLl~G~~GtGKT~li~~~   53 (272)
T PF12775_consen   22 YSYLLDLLLSN---GRPVLLVGPSGTGKTSLIQNF   53 (272)
T ss_dssp             HHHHHHHHHHC---TEEEEEESSTTSSHHHHHHHH
T ss_pred             HHHHHHHHHHc---CCcEEEECCCCCchhHHHHhh
Confidence            34556655554   367799999999999999775

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

Probab=96.13  E-value=0.0043  Score=51.56  Aligned_cols=23  Identities=39%  Similarity=0.621  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+|++|+|||||++.+.
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~   47 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMIL   47 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHh
Confidence            34799999999999999999984

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=96.12  E-value=0.0041  Score=55.52  Aligned_cols=21  Identities=43%  Similarity=0.651  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.++++.||+|+|||||.+.|
T Consensus        31 Gef~~lLGPSGcGKTTlLR~I   51 (352)
T COG3842          31 GEFVTLLGPSGCGKTTLLRMI   51 (352)
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            379999999999999999999

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

Probab=96.11  E-value=0.0071  Score=51.15  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.++|++|+||||+.++|
T Consensus        26 ~gef~vliGpSGsGKTTtLkMI   47 (309)
T COG1125          26 EGEFLVLIGPSGSGKTTTLKMI   47 (309)
T ss_pred             CCeEEEEECCCCCcHHHHHHHH
Confidence            4478999999999999999999

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=96.11  E-value=0.0047  Score=51.48  Aligned_cols=24  Identities=42%  Similarity=0.804  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      . .+++|+|++|+|||||++.+...
T Consensus        23 ~-e~~~i~G~nGsGKSTLl~~l~G~   46 (214)
T cd03297          23 E-EVTGIFGASGAGKSTLLRCIAGL   46 (214)
T ss_pred             c-eeEEEECCCCCCHHHHHHHHhCC
Confidence            6 89999999999999999998543

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.

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.11  E-value=0.028  Score=45.84  Aligned_cols=21  Identities=38%  Similarity=0.570  Sum_probs=19.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..|.+.|++|+|||||.+.+
T Consensus        31 ge~vv~lGpSGcGKTTLLnl~   51 (259)
T COG4525          31 GELVVVLGPSGCGKTTLLNLI   51 (259)
T ss_pred             CCEEEEEcCCCccHHHHHHHH
Confidence            368889999999999999988

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=96.11  E-value=0.018  Score=56.78  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       478 ~Ge~vaIvG~sGsGKSTLlklL  499 (686)
T TIGR03797       478 PGEFVAIVGPSGSGKSTLLRLL  499 (686)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>PRK14974 cell division protein FtsY; Provisional

Probab=96.11  E-value=0.054  Score=48.36  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=19.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++.+|.++|++|+||||++..+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakL  160 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKL  160 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHH
Confidence            4689999999999999976666

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.10  E-value=0.0077  Score=53.81  Aligned_cols=40  Identities=28%  Similarity=0.357  Sum_probs=34.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.++.+..+...+..+    ..+.+.|++|+|||+||+.+
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~l   63 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARAL   63 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHH
Confidence            34899988888888888876    78999999999999999887

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.10  E-value=0.0044  Score=52.49  Aligned_cols=22  Identities=36%  Similarity=0.623  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l   46 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLI   46 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

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.

>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=96.10  E-value=0.0042  Score=48.64  Aligned_cols=18  Identities=44%  Similarity=0.451  Sum_probs=17.1

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.|+|++|+||||+|+.+
T Consensus         2 i~l~G~~GsGKstla~~l   19 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLL   19 (154)
T ss_pred             EEEEcCCCCCHHHHHHHH
Confidence            789999999999999998

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.

>PRK14530 adenylate kinase; Provisional

Probab=96.10  E-value=0.0044  Score=51.77  Aligned_cols=20  Identities=35%  Similarity=0.302  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|.|+|++|+||||+++.+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~L   23 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNL   23 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999988

>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=96.09  E-value=0.0079  Score=55.53  Aligned_cols=22  Identities=41%  Similarity=0.653  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-+..+++|..|+|||||.+++
T Consensus       105 ~GrRYGLvGrNG~GKsTLLRai  126 (582)
T KOG0062|consen  105 RGRRYGLVGRNGIGKSTLLRAI  126 (582)
T ss_pred             cccccceeCCCCCcHHHHHHHH
Confidence            3478899999999999999999

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=96.09  E-value=0.018  Score=54.13  Aligned_cols=123  Identities=22%  Similarity=0.294  Sum_probs=0.0

Q ss_pred             EEEEEcCCCChHHHHHHHh-------------------------------------------------------------
Q 048597          103 IIGLYGTGGVGKTTLLKQR-------------------------------------------------------------  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v-------------------------------------------------------------  121 (294)
                      +++|+|.+|+||||++..+                                                             
T Consensus        37 ~lgIvGESGsGKSt~a~~i~gll~~~~~~~~G~I~~~g~dl~~l~~~~~r~~rg~~Ia~i~Q~p~~slnP~~tIg~Qi~E  116 (539)
T COG1123          37 ILGIVGESGSGKSTLALALMGLLPEGGRITSGEVILDGRDLLGLSEREMRKLRGKRIAMIFQDPMTSLNPVMTIGDQIRE  116 (539)
T ss_pred             EEEEEcCCCCCHHHHHHHHhccCCCCCcccceEEEECCcchhcCCHHHHHHhccccEEEEecCchhhcCchhhHHHHHHH


Q ss_pred             ----------hChhHHHHHHHHHhCCCCCCcc------cCChHHHHHHHHHHhccCCeEEEEc------cccCccchhhh
Q 048597          122 ----------ANLKKIQADIGKKIGLSTKSWQ------ENSFEDKALDIAGILSRKRFVLLLD------DIWEHINLNKL  179 (294)
Q Consensus       122 ----------~~~~~i~~~i~~~~~~~~~~~~------~~~~~~~~~~l~~~l~~kr~LlvlD------dv~~~~~~~~l  179 (294)
                                -...+-..+++..++++.....      -+.-....-.+.-.|..+.-||+.|      |+-...+.-++
T Consensus       117 ~~~~h~~~~~~ea~~~a~elL~~Vgl~~~~~~~~yPheLSGG~rQRv~iAmALa~~P~LLIaDEPTTaLDvt~q~qIL~l  196 (539)
T COG1123         117 ALRLHGKGSRAEARKRAVELLEQVGLPDPERRDRYPHQLSGGMRQRVMIAMALALKPKLLIADEPTTALDVTTQAQILDL  196 (539)
T ss_pred             HHHHhccccHHHHHHHHHHHHHHcCCCChhhhccCCcccCchHHHHHHHHHHHhCCCCEEEECCCccccCHHHHHHHHHH


Q ss_pred             cCCcCCCCCCcEEEEecCChHHhhccCCce---eecCCCCHHHHHHHHHH
Q 048597          180 GVPLQYLHLGSKIVFTTNSRVVCGQMEATM---LNASPLRDEEAWRLFEE  226 (294)
Q Consensus       180 ~~~l~~~~~gs~iivTtr~~~v~~~~~~~~---~~l~~L~~~~~~~Lf~~  226 (294)
                      ...+. ...|..+|++|.+-.|...+....   |.=+-.....+.++|.+
T Consensus       197 lk~l~-~e~g~a~l~ITHDl~Vva~~aDrv~Vm~~G~iVE~G~~~~i~~~  245 (539)
T COG1123         197 LKDLQ-RELGMAVLFITHDLGVVAELADRVVVMYKGEIVETGPTEEILSN  245 (539)
T ss_pred             HHHHH-HHcCcEEEEEcCCHHHHHHhcCeEEEEECCEEEEecCHHHHHhc

>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=96.08  E-value=0.0044  Score=49.72  Aligned_cols=18  Identities=61%  Similarity=0.746  Sum_probs=15.9

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.|.|++|+|||||++.+
T Consensus         2 i~iTG~pG~GKTTll~k~   19 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKV   19 (168)
T ss_dssp             EEEES-TTSSHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHH
Confidence            789999999999999887

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.08  E-value=0.0046  Score=51.49  Aligned_cols=24  Identities=33%  Similarity=0.538  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G   47 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILG   47 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcC
Confidence            347999999999999999999844

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.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.07  E-value=0.0047  Score=51.46  Aligned_cols=24  Identities=42%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~G   50 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYG   50 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            347999999999999999999843

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.07  E-value=0.01  Score=47.35  Aligned_cols=19  Identities=47%  Similarity=0.580  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|.|.|+.|+||||+|+.+
T Consensus         2 iI~i~G~~GSGKstia~~l   20 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKIL   20 (171)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            7999999999999999998

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PRK09354 recA recombinase A; Provisional

Probab=96.07  E-value=0.034  Score=49.78  Aligned_cols=73  Identities=19%  Similarity=0.258  Sum_probs=43.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh-------------C-hhHHHHHHHHHhCCCCCC---cccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA-------------N-LKKIQADIGKKIGLSTKS---WQENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~-------------~-~~~i~~~i~~~~~~~~~~---~~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-+++-|+|++|+|||||+.++.             + ...+....+..+++....   ....+.++....+...++ +.
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s~~  138 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGA  138 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhcCC
Confidence            55799999999999999999871             1 111223445555543211   112334445444544443 45


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      --+||+|.+-.
T Consensus       139 ~~lIVIDSvaa  149 (349)
T PRK09354        139 VDLIVVDSVAA  149 (349)
T ss_pred             CCEEEEeChhh
Confidence            67899999853

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.06  E-value=0.015  Score=48.46  Aligned_cols=20  Identities=50%  Similarity=0.870  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.|++|+|||+|+..+
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i   35 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEI   35 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHH
Confidence            68899999999999999988

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.06  E-value=0.005  Score=49.81  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .++.|+|++|+|||||++.+..
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~   25 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAA   25 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998843

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.06  E-value=0.0047  Score=52.53  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l   48 (243)
T TIGR02315        27 PGEFVAIIGPSGAGKSTLLRCI   48 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=96.05  E-value=0.0049  Score=51.65  Aligned_cols=22  Identities=41%  Similarity=0.637  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -.+++|+|++|+|||||++.+.
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~   51 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIA   51 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHh
Confidence            4699999999999999999983

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.04  E-value=0.016  Score=48.95  Aligned_cols=20  Identities=40%  Similarity=0.468  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..|.|.|++|+||||+|+.+
T Consensus         7 mrIvl~G~PGsGK~T~a~~L   26 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEIL   26 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHH
Confidence            34899999999999999998

>PRK13949 shikimate kinase; Provisional

Probab=96.04  E-value=0.0048  Score=49.57  Aligned_cols=19  Identities=53%  Similarity=0.394  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|++|+||||+++.+
T Consensus         3 ~I~liG~~GsGKstl~~~L   21 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKAL   21 (169)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.04  E-value=0.008  Score=52.96  Aligned_cols=34  Identities=29%  Similarity=0.427  Sum_probs=26.2

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+++.+........+|+|+|++|+|||||+..+
T Consensus        21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l   54 (300)
T TIGR00750        21 KQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEAL   54 (300)
T ss_pred             HHHHHhCCcccCCceEEEEECCCCCCHHHHHHHH
Confidence            3444445444447899999999999999999887

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.03  E-value=0.0051  Score=50.92  Aligned_cols=25  Identities=52%  Similarity=0.611  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3479999999999999999998543

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.03  E-value=0.0054  Score=49.38  Aligned_cols=21  Identities=38%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...|.|+|+.|+|||||++.+
T Consensus         4 ~~~I~liG~~GaGKStl~~~L   24 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQL   24 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHH
Confidence            357999999999999999998

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

Probab=96.02  E-value=0.02  Score=45.32  Aligned_cols=37  Identities=43%  Similarity=0.628  Sum_probs=26.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh---------hChhHHHHHHHHHhCC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR---------ANLKKIQADIGKKIGL  137 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v---------~~~~~i~~~i~~~~~~  137 (294)
                      ..++.|+|-+|+||||+.+.+         .|.-.+.-+++..-++
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l~~~~ivNyG~~Mle~A~k~gl   49 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKELVKHKIVNYGDLMLEIAKKKGL   49 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHHhhceeeeHhHHHHHHHHHhCC
Confidence            579999999999999998877         2333455555555544

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.02  E-value=0.0082  Score=53.54  Aligned_cols=42  Identities=21%  Similarity=0.329  Sum_probs=33.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.++|.+..+..+.-.+...  +..-+.+.|+.|+||||+|+.+
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~--~~~~vLl~G~pG~gKT~lar~l   49 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDP--GIGGVLVFGDRGTGKSTAVRAL   49 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhcc--CCCcEEEEcCCCCCHHHHHHHH
Confidence            45789999888777555433  3456999999999999999998

>PRK14527 adenylate kinase; Provisional

Probab=96.01  E-value=0.0058  Score=50.03  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|+|++|+||||+|+.+
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~L   26 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERL   26 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999987

>PRK04182 cytidylate kinase; Provisional

Probab=96.01  E-value=0.011  Score=47.49  Aligned_cols=19  Identities=42%  Similarity=0.576  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|.|.|+.|+||||+++.+
T Consensus         2 ~I~i~G~~GsGKstia~~l   20 (180)
T PRK04182          2 IITISGPPGSGKTTVARLL   20 (180)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            7999999999999999999

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.01  E-value=0.0083  Score=53.74  Aligned_cols=44  Identities=23%  Similarity=0.305  Sum_probs=36.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +.+||.++.+..|+..+.++  ...-|.|.|+.|+||||+|+.+++
T Consensus        17 ~~ivGq~~~k~al~~~~~~p--~~~~vli~G~~GtGKs~~ar~~~~   60 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDP--KIGGVMIMGDRGTGKSTTIRALVD   60 (350)
T ss_pred             HHHhChHHHHHHHHHhccCC--CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            45799999888888777776  667788999999999999999843

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.01  E-value=0.024  Score=49.10  Aligned_cols=91  Identities=16%  Similarity=0.226  Sum_probs=57.1

Q ss_pred             CceeehhHHHHHHHHHHhc-----CCCCceEEEEEcCCCChHHHHHHHhhChh-------HHHHHHHHHhCCCCCCcccC
Q 048597           78 RTVIRQELLLDRVWRFVTD-----QERNRGIIGLYGTGGVGKTTLLKQRANLK-------KIQADIGKKIGLSTKSWQEN  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~-----~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-------~i~~~i~~~~~~~~~~~~~~  145 (294)
                      ..++|..-..+.++..+.+     .+.++-+++.+|.+|+||...++.+.+..       .....|......+..    .
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~----~  157 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHA----S  157 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCCh----H
Confidence            4577877677777777654     24577899999999999999998883221       122233333333322    2


Q ss_pred             ChHH----HHHHHHHHh-ccCCeEEEEccccC
Q 048597          146 SFED----KALDIAGIL-SRKRFVLLLDDIWE  172 (294)
Q Consensus       146 ~~~~----~~~~l~~~l-~~kr~LlvlDdv~~  172 (294)
                      ..+.    +...++..+ .-+|-|+|+|++..
T Consensus       158 ~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DK  189 (344)
T KOG2170|consen  158 KIEDYKEELKNRVRGTVQACQRSLFIFDEVDK  189 (344)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCceEEechhhh
Confidence            2333    333333333 34789999999987

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.00  E-value=0.0052  Score=52.19  Aligned_cols=22  Identities=36%  Similarity=0.590  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l   47 (241)
T cd03256          26 PGEFVALIGPSGAGKSTLLRCL   47 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=96.00  E-value=0.0057  Score=51.04  Aligned_cols=22  Identities=36%  Similarity=0.472  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        12 ~Ge~~~l~G~NGsGKSTLlk~i   33 (213)
T PRK15177         12 YHEHIGILAAPGSGKTTLTRLL   33 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.00  E-value=0.0053  Score=51.09  Aligned_cols=24  Identities=38%  Similarity=0.461  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G   49 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYK   49 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            347999999999999999999843

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

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.00  E-value=0.0053  Score=51.41  Aligned_cols=23  Identities=43%  Similarity=0.650  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+|++|+|||||++.+.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~   47 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLT   47 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34799999999999999999983

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.99  E-value=0.0087  Score=56.98  Aligned_cols=44  Identities=25%  Similarity=0.285  Sum_probs=36.1

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|.+..+..+...+...  ...-+.|+|++|+||||+|+.+++
T Consensus        65 ~~iiGqs~~i~~l~~al~~~--~~~~vLi~Ge~GtGKt~lAr~i~~  108 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGP--NPQHVIIYGPPGVGKTAAARLVLE  108 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHH
Confidence            35899999998888777554  445678999999999999998854

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.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.99  E-value=0.041  Score=49.80  Aligned_cols=68  Identities=26%  Similarity=0.291  Sum_probs=39.9

Q ss_pred             CceEEEEEcCCCChHHH-HHHHh-------------------hCh--hHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTT-LLKQR-------------------ANL--KKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTt-La~~v-------------------~~~--~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      +.++|.++||.|+|||| ||+..                   |.+  .+-++..+.-++++..  -..+..++...+...
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~--vv~~~~el~~ai~~l  279 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLE--VVYSPKELAEAIEAL  279 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceE--EecCHHHHHHHHHHh
Confidence            37999999999999995 55554                   211  1234445555555433  234555565555543


Q ss_pred             hccCCeEEEEcccc
Q 048597          158 LSRKRFVLLLDDIW  171 (294)
Q Consensus       158 l~~kr~LlvlDdv~  171 (294)
                       +++ =+|.+|-+.
T Consensus       280 -~~~-d~ILVDTaG  291 (407)
T COG1419         280 -RDC-DVILVDTAG  291 (407)
T ss_pred             -hcC-CEEEEeCCC
Confidence             344 456667664

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=95.99  E-value=0.44  Score=40.68  Aligned_cols=181  Identities=13%  Similarity=0.088  Sum_probs=89.5

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC-
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN-  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~-  145 (294)
                      +.+-|.+..++++++.+.-+           =..+.-+..+||+|.|||-+|+....-..  ..|+.-.+   .+.-.+ 
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~--aTFLKLAg---PQLVQMf  245 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTN--ATFLKLAG---PQLVQMF  245 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhcc--chHHHhcc---hHHHhhh
Confidence            34667888888988887432           13567899999999999999988732111  11222111   110011 


Q ss_pred             --ChHHHHHHHHHHh-ccCCeEEEEccccCc----c------c------hhhhcCCcCC--CCCCcEEEEecCChHHhh-
Q 048597          146 --SFEDKALDIAGIL-SRKRFVLLLDDIWEH----I------N------LNKLGVPLQY--LHLGSKIVFTTNSRVVCG-  203 (294)
Q Consensus       146 --~~~~~~~~l~~~l-~~kr~LlvlDdv~~~----~------~------~~~l~~~l~~--~~~gs~iivTtr~~~v~~-  203 (294)
                        +-..+...-+..- .....+|++|++...    .      +      .-.+...+..  .....+||..|..-++.. 
T Consensus       246 IGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvDiLDP  325 (424)
T KOG0652|consen  246 IGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVDILDP  325 (424)
T ss_pred             hcchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeecccccccCH
Confidence              1112222222222 356789999987531    0      0      1111111111  112346777765544421 


Q ss_pred             ----ccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH
Q 048597          204 ----QMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRA  263 (294)
Q Consensus       204 ----~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~  263 (294)
                          ...-.. ++...-+++.-..+++-+...-....+-.++++++.--..-|.--.|+-+=|++
T Consensus       326 ALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVEAGM  390 (424)
T KOG0652|consen  326 ALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVEAGM  390 (424)
T ss_pred             HHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehhhhH
Confidence                111222 666555555555566555544443445566666654333222222334444444

>PRK13947 shikimate kinase; Provisional

Probab=95.99  E-value=0.0051  Score=49.25  Aligned_cols=19  Identities=47%  Similarity=0.415  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|++|+||||+++.+
T Consensus         3 ~I~l~G~~GsGKst~a~~L   21 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRV   21 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHH
Confidence            4899999999999999998

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=95.99  E-value=0.036  Score=46.26  Aligned_cols=19  Identities=26%  Similarity=0.356  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|+|+|+.|+||||+|+.+
T Consensus         2 iI~i~G~~gsGKstva~~~   20 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFI   20 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHH
Confidence            7999999999999999998

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=95.98  E-value=0.0054  Score=51.59  Aligned_cols=25  Identities=40%  Similarity=0.595  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          25 KGEITALIGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3479999999999999999888654

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.98  E-value=0.0056  Score=50.30  Aligned_cols=25  Identities=32%  Similarity=0.526  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~   49 (195)
T PRK13541         25 PSAITYIKGANGCGKSSLLRMIAGI   49 (195)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3469999999999999999998443

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

Probab=95.97  E-value=0.026  Score=49.09  Aligned_cols=22  Identities=41%  Similarity=0.682  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+.+|+|.+|.|||||.+.+
T Consensus        31 ~GeI~GIIG~SGAGKSTLiR~i   52 (339)
T COG1135          31 KGEIFGIIGYSGAGKSTLLRLI   52 (339)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHH
Confidence            3479999999999999999999

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.97  E-value=0.025  Score=48.88  Aligned_cols=95  Identities=18%  Similarity=0.176  Sum_probs=51.5

Q ss_pred             eehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh-HHHHHHH-----HHhCCCC-C--CcccCChHHHH
Q 048597           81 IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK-KIQADIG-----KKIGLST-K--SWQENSFEDKA  151 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-~i~~~i~-----~~~~~~~-~--~~~~~~~~~~~  151 (294)
                      .|......+.+..+...  ....|.|.|+.|+||||+++.+.... .-...+.     ..+.... .  ...........
T Consensus        62 lg~~~~~~~~l~~~~~~--~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~~~~q~~v~~~~~~~~~  139 (264)
T cd01129          62 LGLKPENLEIFRKLLEK--PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQVNEKAGLTFA  139 (264)
T ss_pred             cCCCHHHHHHHHHHHhc--CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCCCceEEEeCCcCCcCHH
Confidence            34444333333333333  34689999999999999998762111 0000000     0000000 0  00011112356


Q ss_pred             HHHHHHhccCCeEEEEccccCccchh
Q 048597          152 LDIAGILSRKRFVLLLDDIWEHINLN  177 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~~~~~  177 (294)
                      ..+...|+...=.|+++++.+.+...
T Consensus       140 ~~l~~~lR~~PD~i~vgEiR~~e~a~  165 (264)
T cd01129         140 RGLRAILRQDPDIIMVGEIRDAETAE  165 (264)
T ss_pred             HHHHHHhccCCCEEEeccCCCHHHHH
Confidence            67788888888899999998876544

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.

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

Probab=95.96  E-value=0.0055  Score=52.03  Aligned_cols=22  Identities=41%  Similarity=0.662  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l   48 (239)
T cd03296          27 SGELVALLGPSGSGKTTLLRLI   48 (239)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=95.96  E-value=0.0058  Score=51.18  Aligned_cols=23  Identities=48%  Similarity=0.683  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+|++|+|||||++.+.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~   47 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIM   47 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHh
Confidence            34799999999999999999983

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.95  E-value=0.0057  Score=51.22  Aligned_cols=24  Identities=33%  Similarity=0.583  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G   53 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGG   53 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            347999999999999999999843

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.95  E-value=0.011  Score=56.56  Aligned_cols=45  Identities=16%  Similarity=0.153  Sum_probs=34.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +..+.|.+..+.|.++......+..+|.|+|++|+||||+++.+.
T Consensus       369 P~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La  413 (568)
T PRK05537        369 PEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALM  413 (568)
T ss_pred             ChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHH
Confidence            445667777776666655555566799999999999999999983

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.94  E-value=0.0057  Score=51.41  Aligned_cols=25  Identities=36%  Similarity=0.575  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          30 KGETLGLVGESGSGKSTLARAILGL   54 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3479999999999999999998443

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=95.93  E-value=0.0059  Score=51.62  Aligned_cols=22  Identities=36%  Similarity=0.678  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l   51 (233)
T cd03258          30 KGEIFGIIGRSGAGKSTLIRCI   51 (233)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=95.93  E-value=0.0059  Score=51.44  Aligned_cols=25  Identities=44%  Similarity=0.565  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGL   59 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcC
Confidence            3479999999999999999999443

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=95.93  E-value=0.02  Score=50.86  Aligned_cols=22  Identities=36%  Similarity=0.619  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~I   89 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMI   89 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHH
Confidence            3468899999999999999988

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=95.92  E-value=0.0061  Score=50.35  Aligned_cols=21  Identities=29%  Similarity=0.335  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+++|+|++|.|||||++.+.
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~   46 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIG   46 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHH
Confidence            799999999999999999984

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

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

Probab=95.92  E-value=0.006  Score=51.70  Aligned_cols=22  Identities=32%  Similarity=0.543  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l   47 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLL   47 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>smart00072 GuKc Guanylate kinase homologues

Probab=95.91  E-value=0.015  Score=47.27  Aligned_cols=23  Identities=48%  Similarity=0.569  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+.|.|+||+|+|||||++.+..
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~   24 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQ   24 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHh
Confidence            36899999999999999988843

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=95.91  E-value=0.033  Score=46.50  Aligned_cols=30  Identities=27%  Similarity=0.223  Sum_probs=23.1

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++..|-..  ...-..|.|++|+|||||.+.+
T Consensus       128 li~~ly~~--g~lntLiigpP~~GKTTlLRdi  157 (308)
T COG3854         128 LIKDLYQN--GWLNTLIIGPPQVGKTTLLRDI  157 (308)
T ss_pred             HHHHHHhc--CceeeEEecCCCCChHHHHHHH
Confidence            55555544  4555789999999999999887

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.91  E-value=0.011  Score=53.24  Aligned_cols=97  Identities=16%  Similarity=0.172  Sum_probs=55.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChh------HHH--H---HHHHHh--C-CCCCCcccCChHHHHHHHHHHhccCCeEEE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLK------KIQ--A---DIGKKI--G-LSTKSWQENSFEDKALDIAGILSRKRFVLL  166 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~------~i~--~---~i~~~~--~-~~~~~~~~~~~~~~~~~l~~~l~~kr~Llv  166 (294)
                      ...|.|.|+.|+||||+++.+....      .+.  .   ++...-  . ..... ...+.......++..|+...=.|+
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~e-vg~~~~~~~~~l~~~lr~~pd~i~  200 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQRE-VGLDTLSFANALRAALREDPDVIL  200 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccc-cCCCCcCHHHHHHHhhccCCCEEE
Confidence            4789999999999999998863210      000  0   000000  0 00000 011223456667888888999999


Q ss_pred             EccccCccchhhhcCCcCCCCCCcEEEEecCChHH
Q 048597          167 LDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       167 lDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v  201 (294)
                      +|++.+.+.+......   ...|..++.|....++
T Consensus       201 vgEird~~~~~~~l~a---a~tGh~v~~T~Ha~~~  232 (343)
T TIGR01420       201 IGEMRDLETVELALTA---AETGHLVFGTLHTNSA  232 (343)
T ss_pred             EeCCCCHHHHHHHHHH---HHcCCcEEEEEcCCCH
Confidence            9999877666543222   2335556666665444

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.

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

Probab=95.90  E-value=0.0062  Score=50.36  Aligned_cols=23  Identities=30%  Similarity=0.445  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -.+++|+|++|+|||||++.+..
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G   46 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGL   46 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999999844

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

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

Probab=95.90  E-value=0.0062  Score=50.67  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|.|++|+|||||++.+.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~   47 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIA   47 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHh
Confidence            34689999999999999999983

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.

>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=95.89  E-value=0.0045  Score=46.88  Aligned_cols=18  Identities=56%  Similarity=0.619  Sum_probs=13.8

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.|+|.+|+||||+|+.+
T Consensus         2 vLleg~PG~GKT~la~~l   19 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKAL   19 (131)
T ss_dssp             EEEES---HHHHHHHHHH
T ss_pred             EeeECCCccHHHHHHHHH
Confidence            679999999999999887

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.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.89  E-value=0.0062  Score=52.34  Aligned_cols=22  Identities=36%  Similarity=0.554  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l   47 (255)
T PRK11248         26 SGELLVVLGPSGCGKTTLLNLI   47 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

>PRK04328 hypothetical protein; Provisional

Probab=95.88  E-value=0.042  Score=47.02  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-+++.|.|++|+|||+|+.++
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~f   43 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQF   43 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHH
Confidence            4689999999999999999887

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.88  E-value=0.0064  Score=51.44  Aligned_cols=24  Identities=29%  Similarity=0.555  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        34 ~Ge~~~l~G~nGsGKSTLl~~l~G   57 (233)
T PRK11629         34 EGEMMAIVGSSGSGKSTLLHLLGG   57 (233)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            346999999999999999999944

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

Probab=95.88  E-value=0.014  Score=48.01  Aligned_cols=33  Identities=33%  Similarity=0.377  Sum_probs=24.2

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+.+..+...  .-+++.|.|++|+||||+++.+
T Consensus         6 Q~~a~~~~l~~--~~~~~~l~G~aGtGKT~~l~~~   38 (196)
T PF13604_consen    6 QREAVRAILTS--GDRVSVLQGPAGTGKTTLLKAL   38 (196)
T ss_dssp             HHHHHHHHHHC--TCSEEEEEESTTSTHHHHHHHH
T ss_pred             HHHHHHHHHhc--CCeEEEEEECCCCCHHHHHHHH
Confidence            34444445433  3478899999999999999887

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.88  E-value=0.013  Score=54.10  Aligned_cols=21  Identities=43%  Similarity=0.669  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..++|+|++|+|||||++.+
T Consensus       165 Gqri~I~G~SGsGKTTLL~~I  185 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAML  185 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

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

Probab=95.88  E-value=0.0065  Score=51.14  Aligned_cols=24  Identities=38%  Similarity=0.437  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|++|+|||||++.+..
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G   55 (225)
T PRK10247         32 AGEFKLITGPSGCGKSTLLKIVAS   55 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            347999999999999999999844

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.87  E-value=0.026  Score=53.09  Aligned_cols=22  Identities=41%  Similarity=0.665  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|+|++|+||||++..+
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakL  370 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKL  370 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999998877

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=95.87  E-value=0.0064  Score=51.46  Aligned_cols=23  Identities=43%  Similarity=0.602  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+|++|+|||||++.+.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~   47 (236)
T cd03219          25 PGEIHGLIGPNGAGKTTLFNLIS   47 (236)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHc
Confidence            34699999999999999999993

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PF13245 AAA_19: Part of AAA domain

Probab=95.87  E-value=0.008  Score=41.36  Aligned_cols=18  Identities=39%  Similarity=0.519  Sum_probs=14.9

Q ss_pred             ceEEEEEcCCCChHHHHH
Q 048597          101 RGIIGLYGTGGVGKTTLL  118 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa  118 (294)
                      .+++.|.|++|.|||+++
T Consensus        10 ~~~~vv~g~pGtGKT~~~   27 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTL   27 (76)
T ss_pred             CCeEEEECCCCCCHHHHH
Confidence            367888999999999554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	294
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-23
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-22
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	2e-08

>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 =  101 bits (253), Expect = 3e-24
 Identities = 42/238 (17%), Positives = 85/238 (35%), Gaps = 52/238 (21%)

Query: 76  VERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQ--------------- 120
           V R  +   +      + ++  +   G + ++G  G GK+ L  +               
Sbjct: 127 VTRKKLVNAIQ-----QKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGG 181

Query: 121 -----------RANLKKIQADIGKKIGLSTKSWQENSFEDKALD--IAGILSRK--RFVL 165
                         L K+Q ++  ++       Q      +     +  ++ RK  R +L
Sbjct: 182 VHWVSVGKQDKSGLLMKLQ-NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLL 240

Query: 166 LLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEAT---MLNASPLRDEEAWR 222
           +LDD+W   +       L+      +I+ TT  + V   +      +   S L  E+   
Sbjct: 241 ILDDVW---DSW----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLE 293

Query: 223 LFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKII 280
           +       +V     D+PE A ++ +EC   PL +  +G  +R       WE+ +K +
Sbjct: 294 ILS----LFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLR--DFPNRWEYYLKQL 345

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 99.2 bits (246), Expect = 2e-23
 Identities = 52/329 (15%), Positives = 102/329 (31%), Gaps = 93/329 (28%)

Query: 5   QQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDRLCLGGF---SIKLK-KEREANK 60
                        W   + +K  E+ +   E  L+I+      F    IK + ++     
Sbjct: 56  MSKDAVSGTLRLFWT--LLSKQEEMVQKFVEEVLRINY----KFLMSPIKTEQRQPSMMT 109

Query: 61  EVYEEVSE------DPAVELPVER----TVIRQELLLDRVWRFVTDQERNRGIIGLYGTG 110
            +Y E  +          +  V R      +RQ LL          + R    + + G  
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL----------ELRPAKNVLIDGVL 159

Query: 111 GVGKTTLLKQRANLKKIQA---------DIGK----------------KIGLSTKSWQEN 145
           G GKT +        K+Q          ++                  +I  +  S  ++
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219

Query: 146 S------FEDKALDIAGILSRKRFV---LLLDDIW--EHINLNKLGVPLQYLHLGSKIVF 194
           S            ++  +L  K +    L+L ++   +  N           +L  KI+ 
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN---------AFNLSCKILL 270

Query: 195 TTNSRVVCGQMEAT-------MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMA 247
           TT  + V   + A          ++  L  +E   L      +Y+     D+P       
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL----LKYLDCRPQDLPR------ 320

Query: 248 EECCCLPLALKTVGRAMRS-ISSIEEWEH 275
           E     P  L  +  ++R  +++ + W+H
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKH 349

>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 = 41.8 bits (97), Expect = 2e-04
 Identities = 50/310 (16%), Positives = 84/310 (27%), Gaps = 86/310 (27%)

Query: 18  WFKRVDNKVTEVAKLKQEGDL--QIDR----LCLGGFSIKLKKEREANKEVYEEVSEDPA 71
           W   + N  +    L+    L  QID           +IKL+        +  E+     
Sbjct: 186 WLN-LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH-----SIQAELRR--- 236

Query: 72  VELPVERTVIRQELLLDRVWR------F-------VTDQERNRGIIGLYGTGGVGKTTLL 118
             L   +      L+L  V        F       +T   R + +            +L 
Sbjct: 237 --LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT--TRFKQVTDFLSAATTTHISLD 292

Query: 119 KQRANLKKIQAD--IGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHINL 176
                L   +    + K +    +             ++ I    R  L   D W+H+N 
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNC 352

Query: 177 NKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSH 236
           +KL          + I            +E++ LN   L   E  ++F+      V    
Sbjct: 353 DKL----------TTI------------IESS-LNV--LEPAEYRKMFDRLS---VFPPS 384

Query: 237 PDIP-------------ELAKTMAEECCCLPLALKTVGRAMRSISSI---------EEWE 274
             IP                  +  +     L  K    +  SI SI          E+ 
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444

Query: 275 -HAIKIILRY 283
            H   I+  Y
Sbjct: 445 LHR-SIVDHY 453

>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 = 96.6 bits (240), Expect = 1e-22
 Identities = 28/241 (11%), Positives = 65/241 (26%), Gaps = 43/241 (17%)

Query: 74  LPVERTV-IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQ------------ 120
           +P + T  IR+  +   + +     + +   + L+G  G GK+ +  Q            
Sbjct: 124 VPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGIN 183

Query: 121 -------------RANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI------LSRK 161
                          +   +  DI   +          S E     +         + R 
Sbjct: 184 YDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRP 243

Query: 162 RFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEAT--MLNASPLRDEE 219
             + + DD+ +   +           L  + + TT    +      T   +  + L  +E
Sbjct: 244 NTLFVFDDVVQEETIRW------AQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 297

Query: 220 AWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKI 279
            +   E       +       ++     E     P  L    ++     + E+       
Sbjct: 298 CYDFLEAYGMP--MPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNK 354

Query: 280 I 280
           +
Sbjct: 355 L 355

>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 = 54.4 bits (131), Expect = 2e-08
 Identities = 49/287 (17%), Positives = 96/287 (33%), Gaps = 48/287 (16%)

Query: 29  VAKLKQEGDLQIDRLCLGGFSIKLKKEREANKEV----YEEVSEDPAVELPVERTVIRQE 84
              L  EG   +  L   G  +      +            V  +  V       V R++
Sbjct: 72  YNALLHEGYKDLAALLQSGLPLVSSSSGKDTDGGITSFVRTVLCEGGVPQRPVIFVTRKK 131

Query: 85  LLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTL----LKQRANLKKIQAD------IGKK 134
           L+   + + +       G + +YG  G GK+ L    ++  + L+   +       IGK+
Sbjct: 132 LV-HAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ 190

Query: 135 IG----------LSTKSWQENSFEDKALDIAGILSR---------KRFVLLLDDIWEHIN 175
                             +E+  +   L+I     R          R +L+LDD+W+   
Sbjct: 191 DKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD--- 247

Query: 176 LNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDS 235
                  L+      +I+ TT  + V   +     +  P+          E +  +V   
Sbjct: 248 ----PWVLKAFDNQCQILLTTRDKSVTDSVMGP-KHVVPVESGLGREKGLEILSLFVNMK 302

Query: 236 HPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILR 282
             D+P  A ++ +EC   PL +  +G      + + ++ +     LR
Sbjct: 303 KEDLPAEAHSIIKECKGSPLVVSLIG------ALLRDFPNRWAYYLR 343

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	294
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.98
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.95
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.93
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.93
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.62
2fna_A	357	Conserved hypothetical protein; structural genomic	99.59
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.49
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.45
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.41
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.41
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.41
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.38
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.3
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.28
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.16
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.04
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.96
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.88
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.85
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.83
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.82
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.79
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.76
3bos_A	242	Putative DNA replication factor; P-loop containing	98.74
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.74
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.72
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.72
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	98.72
3pvs_A	447	Replication-associated recombination protein A; ma	98.65
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.65
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.63
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.61
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.61
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.59
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.58
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.57
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.56
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.55
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.53
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.52
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.5
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.46
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.4
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.38
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.38
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.35
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.32
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.26
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.26
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.24
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.2
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.2
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.16
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.16
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.13
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.13
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.13
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.12
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.12
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.12
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.07
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.07
3co5_A	143	Putative two-component system transcriptional RES	98.06
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.05
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.04
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.01
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.97
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.96
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.95
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.91
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.88
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.85
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.8
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.79
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.78
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.74
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.72
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.61
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.6
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.57
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.5
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.38
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.35
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.33
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.32
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.32
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.27
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.24
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.18
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.18
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.13
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.01
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.0
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.0
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.98
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.94
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.93
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.92
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.92
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.92
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.91
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.9
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.86
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.86
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.85
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.85
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.85
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.82
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.78
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.78
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.78
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.76
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.76
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.76
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.76
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.75
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.71
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.71
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.7
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.69
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.69
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.69
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.68
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.65
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.63
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.61
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.57
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.56
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.56
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.56
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.56
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.55
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.55
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.54
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.54
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.54
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.53
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.51
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.51
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.51
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.5
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.5
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.49
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.48
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.46
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.44
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.44
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.44
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.42
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.41
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.41
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.41
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.41
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.41
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.4
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.4
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.4
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.39
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.38
1g6h_A	257	High-affinity branched-chain amino acid transport	96.38
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.36
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.35
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.35
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.35
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.35
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.34
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.33
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.33
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.32
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.32
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.32
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.32
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.31
1via_A	175	Shikimate kinase; structural genomics, transferase	96.31
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.3
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.3
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.29
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.29
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.29
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.29
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.28
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.28
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.27
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.27
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.27
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.27
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.25
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.25
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.24
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.24
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.24
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.23
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.22
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.22
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.21
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.2
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.2
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.19
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.18
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.17
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.17
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.17
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.17
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.16
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.15
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.15
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.14
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.13
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.13
2qgz_A	308	Helicase loader, putative primosome component; str	96.13
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	96.12
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.1
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.1
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.08
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.07
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.07
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.06
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.06
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	96.06
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.06
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.06
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.04
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.03
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.01
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.01
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.01
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.0
3ice_A	422	Transcription termination factor RHO; transcriptio	96.0
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.99
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.99
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.98
2og2_A	359	Putative signal recognition particle receptor; nuc	95.97
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.97
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.96
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.96
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.96
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.96
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.95
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.95
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.95
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.95
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.92
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.92
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.91
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.9
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.89
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.89
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.88
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.88
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.86
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.85
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.84
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.84
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.84
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.8
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.78
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.77
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.77
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.75
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.74
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.72
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.71
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.71
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.7
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.7
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.69
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.69
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.68
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.67
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.66
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	95.61
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.6
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.58
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.58
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.55
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.54
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.54
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.52
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.51
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.51
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.5
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.5
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.5
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.49
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.47
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.45
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.44
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.43
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.42
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.42
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.42
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.37
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.36
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.35
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.34
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.34
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.34
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.31
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	95.28
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	95.27
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.24
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.23
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.22
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	95.22
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.21
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.21
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.21
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.2
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.2
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.17
3io5_A	333	Recombination and repair protein; storage dimer, i	95.17
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.12
2xxa_A	433	Signal recognition particle protein; protein trans	95.11
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.1
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.09
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.08
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.07
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.07
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.06
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.06
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.06
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.05
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.02
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.02
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.0
3l0o_A	427	Transcription termination factor RHO; helicase, RH	94.99
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.99
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.98
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.97
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.97
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.96
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.96
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.96
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.96
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.96
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.96
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	94.95
1xp8_A	366	RECA protein, recombinase A; recombination, radior	94.94
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.93
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.92
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.91
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.9
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.89
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.89
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.87
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.86
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.86
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.85
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.84
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.84
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.84
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.83
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.82
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.81
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.81
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.8
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.79
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.79
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.78
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.77
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.76
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.75
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.73
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.73
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.72
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	94.72
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.71
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.7
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.7
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.7
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.7
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.67
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.67
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.66
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.64
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.64
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.63
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.63
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.62
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.62
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.61
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.61
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.6
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.6
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.58
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.57
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.56
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.56
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.55
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.51
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.51
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.51
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	94.5
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.49
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.49
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.48
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	94.48
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.47
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.46
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	94.45
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.45
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.44
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	94.44
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.43
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.42
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.4
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.4
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.38
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.36
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.36
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	94.35
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.34
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.33
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	94.33
3end_A	307	Light-independent protochlorophyllide reductase ir	94.32
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.32
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.3
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.3
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	94.28
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.26
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.26
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	94.26
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.25
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.25
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.25
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.24
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	94.23
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.22
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.21
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.21
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.2
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.2
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.19
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.19
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	94.19
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.15
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.14
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.13
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.13
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.12
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.12
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.12
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.11
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.09
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.06
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.05
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.05
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.04
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.99
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.94
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.86
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.85
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.85
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.85
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	93.84
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	93.84
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.79
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.79
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.73
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	93.73
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.71
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	93.69
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.68
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	93.66
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	93.66
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	93.66
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	93.66
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	93.65
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.64
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	93.63
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	93.58
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	93.55
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	93.55
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	93.51
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.5
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	93.5
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	93.5
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.48
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.43
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.42
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	93.41
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	93.41
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	93.38
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.37
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	93.36
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	93.35
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	93.32
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.32
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	93.29
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	93.28
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.26
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.23
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	93.21
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	93.2
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	93.2
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	93.18
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	93.17
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	93.17
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	93.15
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	93.12

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=99.98  E-value=2.5e-31  Score=251.18  Aligned_cols=182  Identities=15%  Similarity=0.134  Sum_probs=146.6

Q ss_pred             CceeehhHHHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHhhC-------------------------hhHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-ERNRGIIGLYGTGGVGKTTLLKQRAN-------------------------LKKIQADI  131 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-~~~~~vi~I~G~~GiGKTtLa~~v~~-------------------------~~~i~~~i  131 (294)
                      +..|||+.++++|.++|... ....++|+|+||||+||||||+.+++                         ...++..|
T Consensus       128 ~~~~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~i  207 (549)
T 2a5y_B          128 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI  207 (549)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CccCCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHH
Confidence            33369999999999999765 34689999999999999999999974                         34567778


Q ss_pred             HHHhCCCCC-----CcccCChHHHHHHHHHHhccC-CeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHhhcc
Q 048597          132 GKKIGLSTK-----SWQENSFEDKALDIAGILSRK-RFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQM  205 (294)
Q Consensus       132 ~~~~~~~~~-----~~~~~~~~~~~~~l~~~l~~k-r~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~  205 (294)
                      +.+++....     .....+...+...+++.|.++ ||||||||||+...+ .+.    . ..||+||||||+..++..+
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~----~-~~gs~ilvTTR~~~v~~~~  281 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA----Q-ELRLRCLVTTRDVEISNAA  281 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH----H-HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc----c-cCCCEEEEEcCCHHHHHHc
Confidence            888765321     112234566788999999996 999999999997654 221    1 1689999999999999888


Q ss_pred             C-Cce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCC
Q 048597          206 E-ATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSI  267 (294)
Q Consensus       206 ~-~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~  267 (294)
                      + ... |+|++|+.++||+||.++++...  .++.+.+++++|+++|+|+||||+++|+.|+.+
T Consensus       282 ~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~  343 (549)
T 2a5y_B          282 SQTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK  343 (549)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS
T ss_pred             CCCCeEEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc
Confidence            6 334 99999999999999999987643  246788899999999999999999999999874

>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=99.95  E-value=2.3e-27  Score=242.56  Aligned_cols=196  Identities=18%  Similarity=0.338  Sum_probs=154.5

Q ss_pred             CcCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHH-------------------------HHH
Q 048597           76 VERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKI-------------------------QAD  130 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i-------------------------~~~  130 (294)
                      ....||||+.++++|.++|...+...++|+|+||||+||||||+++++..+.                         ...
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  201 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQN  201 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHH
Confidence            3466999999999999999876668899999999999999999998554321                         233


Q ss_pred             HHHHhCCCCC--CcccCChHHHHHHHHHHhccC--CeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHhhc-c
Q 048597          131 IGKKIGLSTK--SWQENSFEDKALDIAGILSRK--RFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQ-M  205 (294)
Q Consensus       131 i~~~~~~~~~--~~~~~~~~~~~~~l~~~l~~k--r~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~-~  205 (294)
                      +...+.....  .....+...+...++..+.++  |+||||||+|+...|..+       ..||+||+|||+..++.. +
T Consensus       202 ~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~  274 (1249)
T 3sfz_A          202 LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVM  274 (1249)
T ss_dssp             HHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCC
T ss_pred             HHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhc
Confidence            4444432211  112356778888888888877  999999999998777654       458999999999999854 3


Q ss_pred             CCce-eecCC-CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHHHhc
Q 048597          206 EATM-LNASP-LRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRY  283 (294)
Q Consensus       206 ~~~~-~~l~~-L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l~~~  283 (294)
                      .... +++.+ |+++++++||...++...    +.+.+.+++|+++|+|+||||+.+|++|+.+.  ..|+..++.+...
T Consensus       275 ~~~~~~~~~~~l~~~~a~~l~~~~~~~~~----~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~~  348 (1249)
T 3sfz_A          275 GPKHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQNK  348 (1249)
T ss_dssp             SCBCCEECCSSCCHHHHHHHHHHHHTSCS----TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHSC
T ss_pred             CCceEEEecCCCCHHHHHHHHHHhhCCCh----hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhhh
Confidence            4444 99996 999999999999885432    33446789999999999999999999999853  5799999999875


Q ss_pred             C
Q 048597          284 G  284 (294)
Q Consensus       284 ~  284 (294)
                      .
T Consensus       349 ~  349 (1249)
T 3sfz_A          349 Q  349 (1249)
T ss_dssp             C
T ss_pred             h
Confidence            4

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.93  E-value=5.3e-26  Score=216.55  Aligned_cols=196  Identities=19%  Similarity=0.327  Sum_probs=146.8

Q ss_pred             CcCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHH-HHHH-----------------------
Q 048597           76 VERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKI-QADI-----------------------  131 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i-~~~i-----------------------  131 (294)
                      ..+.||||+.++++|.++|.......++|+|+||||+||||||..+++..++ ...|                       
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~l~~  201 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQN  201 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHHHHH
Confidence            4567999999999999999865557899999999999999999998665433 2222                       


Q ss_pred             -HHHhCCC--CCCcccCChHHHHHHHHHHhcc--CCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHhhccC
Q 048597          132 -GKKIGLS--TKSWQENSFEDKALDIAGILSR--KRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQME  206 (294)
Q Consensus       132 -~~~~~~~--~~~~~~~~~~~~~~~l~~~l~~--kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~  206 (294)
                       ...++..  .......+.......+...+.+  +++||||||+|+...+..+       ..|++||+|||+..++..+.
T Consensus       202 l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~  274 (591)
T 1z6t_A          202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVM  274 (591)
T ss_dssp             HHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCC
T ss_pred             HHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcC
Confidence             1122210  0011234556677778887766  7899999999986655532       34789999999999887655


Q ss_pred             Cceeec---CCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHHHhc
Q 048597          207 ATMLNA---SPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKIILRY  283 (294)
Q Consensus       207 ~~~~~l---~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l~~~  283 (294)
                      ...+++   ++|+.+++++||...++...    +...+.+.+|+++|+|+|||+..+|+.|+.+  ..+|+.+++.+...
T Consensus       275 ~~~~~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~~  348 (591)
T 1z6t_A          275 GPKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNK  348 (591)
T ss_dssp             SCEEEEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHSC
T ss_pred             CCceEeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHHh
Confidence            443444   58999999999999886532    1123568999999999999999999999874  34799999998865


Q ss_pred             C
Q 048597          284 G  284 (294)
Q Consensus       284 ~  284 (294)
                      .
T Consensus       349 ~  349 (591)
T 1z6t_A          349 Q  349 (591)
T ss_dssp             C
T ss_pred             H
Confidence            4

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.93  E-value=4.7e-26  Score=222.16  Aligned_cols=178  Identities=17%  Similarity=0.197  Sum_probs=130.1

Q ss_pred             eeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHH-HhCCCCCC-----------------
Q 048597           80 VIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGK-KIGLSTKS-----------------  141 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~-~~~~~~~~-----------------  141 (294)
                      .|||+.++++|.++|...+ ..++|+|+||||+||||||+.+++..++...|.. .+|++...                 
T Consensus       130 ~VGRe~eLeeL~elL~~~d-~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~  208 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELR-PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ  208 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCC-SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccC-CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhh
Confidence            4999999999999998632 5789999999999999999999755444444432 22211100                 


Q ss_pred             --------cc-----cCChHHHHHHHHHHh---ccCCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHhhcc
Q 048597          142 --------WQ-----ENSFEDKALDIAGIL---SRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQM  205 (294)
Q Consensus       142 --------~~-----~~~~~~~~~~l~~~l---~~kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~  205 (294)
                              ..     ..+.+.+...+++.|   .++|+||||||+|+.+.|+.+.       .||+||||||+..++..+
T Consensus       209 i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~l  281 (1221)
T 1vt4_I          209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDFL  281 (1221)
T ss_dssp             HCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHHH
T ss_pred             cCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHhc
Confidence                    00     012234455666655   6799999999999988887652       589999999999988654


Q ss_pred             CCce-eecC------CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCC-CCHHHHHH
Q 048597          206 EATM-LNAS------PLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSI-SSIEEWEH  275 (294)
Q Consensus       206 ~~~~-~~l~------~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~-~~~~~w~~  275 (294)
                      .... |+++      +|++++||+||.+.+...    ..   ++..+|   |+|+||||.++|+.|+.+ .+.++|+.
T Consensus       282 ~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~----~e---eL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~  349 (1221)
T 1vt4_I          282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR----PQ---DLPREV---LTTNPRRLSIIAESIRDGLATWDNWKH  349 (1221)
T ss_dssp             HHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC----TT---THHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHH
T ss_pred             CCCeEEEecCccccCCcCHHHHHHHHHHHcCCC----HH---HHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhc
Confidence            4333 6677      999999999999985432    12   233443   999999999999999986 36788864

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.62  E-value=9.7e-15  Score=129.33  Aligned_cols=181  Identities=13%  Similarity=0.112  Sum_probs=118.0

Q ss_pred             CcCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC--------------------hhHHHHHHHHHh
Q 048597           76 VERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN--------------------LKKIQADIGKKI  135 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~--------------------~~~i~~~i~~~~  135 (294)
                      .+..++||+.+++.|.+++..+    +++.|+|++|+|||||++.+.+                    ...+...+...+
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l   85 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQSTI   85 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHSSEEEEEHHHHHHTTTCBCHHHHHHHHHHHS
T ss_pred             ChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHcCcEEEEeecccccccCCCHHHHHHHHHHHH
Confidence            4567899999999999998764    7999999999999999998732                    112233343333


Q ss_pred             CC--------------CCC--CcccCChHHHHHHHHHHhcc-CCeEEEEccccCccc---------hhhhcCCcCCCCCC
Q 048597          136 GL--------------STK--SWQENSFEDKALDIAGILSR-KRFVLLLDDIWEHIN---------LNKLGVPLQYLHLG  189 (294)
Q Consensus       136 ~~--------------~~~--~~~~~~~~~~~~~l~~~l~~-kr~LlvlDdv~~~~~---------~~~l~~~l~~~~~g  189 (294)
                      ..              ...  .....+...+...+.+.... ++++|||||++....         +..+...+. ...+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~-~~~~  164 (350)
T 2qen_A           86 SPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD-SLPN  164 (350)
T ss_dssp             CSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH-HCTT
T ss_pred             HHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH-hcCC
Confidence            21              000  00123455555666655543 499999999977432         222222111 1236


Q ss_pred             cEEEEecCChHH-hhc----------c-CCc-eeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          190 SKIVFTTNSRVV-CGQ----------M-EAT-MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       190 s~iivTtr~~~v-~~~----------~-~~~-~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      .++|+|++.... ...          . ... .+++.||+.+++.+++.+.+.......   -.+....|++.|+|+|++
T Consensus       165 ~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~---~~~~~~~i~~~tgG~P~~  241 (350)
T 2qen_A          165 LKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDV---PENEIEEAVELLDGIPGW  241 (350)
T ss_dssp             EEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCC---CHHHHHHHHHHHTTCHHH
T ss_pred             eEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHhCCCHHH
Confidence            789999887543 211          1 112 399999999999999987653322111   135678999999999999


Q ss_pred             HHHHHHHH
Q 048597          257 LKTVGRAM  264 (294)
Q Consensus       257 i~~i~~~L  264 (294)
                      +..++..+
T Consensus       242 l~~~~~~~  249 (350)
T 2qen_A          242 LVVFGVEY  249 (350)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988764

>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=99.59  E-value=1e-14  Score=129.46  Aligned_cols=179  Identities=16%  Similarity=0.153  Sum_probs=110.4

Q ss_pred             CcCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh---------------------hHHHHHHHHH
Q 048597           76 VERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL---------------------KKIQADIGKK  134 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~---------------------~~i~~~i~~~  134 (294)
                      .+..++||+.+++.|.+ +..     +++.|+|++|+|||||++.+.+.                     ..+...+...
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   84 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKE   84 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHHHHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCCCHHHHHHHHHHH
Confidence            45678999999999998 654     69999999999999999987211                     1222222222


Q ss_pred             hC------------------CCCCC----c-----ccCChHHHHHHHHHHhccCCeEEEEccccCcc-----chhhhcCC
Q 048597          135 IG------------------LSTKS----W-----QENSFEDKALDIAGILSRKRFVLLLDDIWEHI-----NLNKLGVP  182 (294)
Q Consensus       135 ~~------------------~~~~~----~-----~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-----~~~~l~~~  182 (294)
                      +.                  +....    .     .......+...+.+... ++++|||||++...     ++..+...
T Consensus        85 l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~~l~~  163 (357)
T 2fna_A           85 INKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLPALAY  163 (357)
T ss_dssp             HHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHHHHHH
T ss_pred             HHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHHHHHH
Confidence            10                  00000    0     01233444444443222 48999999997622     22222222


Q ss_pred             cCCCCCCcEEEEecCChHHhh-----------ccCC-ce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHh
Q 048597          183 LQYLHLGSKIVFTTNSRVVCG-----------QMEA-TM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEE  249 (294)
Q Consensus       183 l~~~~~gs~iivTtr~~~v~~-----------~~~~-~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~  249 (294)
                      +.....+.++|+|++......           ..+. .. +++.+|+.+++.+++...+....... ...    ..|++.
T Consensus       164 ~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~-~~~----~~i~~~  238 (357)
T 2fna_A          164 AYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-KDY----EVVYEK  238 (357)
T ss_dssp             HHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-CCH----HHHHHH
T ss_pred             HHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCC-CcH----HHHHHH
Confidence            212223678999999765311           1111 23 99999999999999987653211111 221    789999


Q ss_pred             CCCChHHHHHHHHHHcC
Q 048597          250 CCCLPLALKTVGRAMRS  266 (294)
Q Consensus       250 c~GlPlai~~i~~~L~~  266 (294)
                      |+|+|+++..++..+..
T Consensus       239 t~G~P~~l~~~~~~~~~  255 (357)
T 2fna_A          239 IGGIPGWLTYFGFIYLD  255 (357)
T ss_dssp             HCSCHHHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHcc
Confidence            99999999999887653

>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=99.49  E-value=2.8e-13  Score=122.78  Aligned_cols=183  Identities=13%  Similarity=0.064  Sum_probs=113.7

Q ss_pred             cCceeehhHHHHHHHHHH-hcC--C--CCceEEEE--EcCCCChHHHHHHHhhChh------------------------
Q 048597           77 ERTVIRQELLLDRVWRFV-TDQ--E--RNRGIIGL--YGTGGVGKTTLLKQRANLK------------------------  125 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L-~~~--~--~~~~vi~I--~G~~GiGKTtLa~~v~~~~------------------------  125 (294)
                      +..++||+.+++.+..++ ...  .  .....+.|  +|++|+|||||++.+.+..                        
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            467899999999999988 421  1  23456666  9999999999999874321                        


Q ss_pred             -HHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhc--cCCeEEEEccccCc--------cchhhhcCCcCCC---C--CC
Q 048597          126 -KIQADIGKKIGLSTKSWQENSFEDKALDIAGILS--RKRFVLLLDDIWEH--------INLNKLGVPLQYL---H--LG  189 (294)
Q Consensus       126 -~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~--------~~~~~l~~~l~~~---~--~g  189 (294)
                       .+...+...++..... ...+...+...+.+.+.  +++++|||||++..        ..+..+...+...   .  ..
T Consensus       101 ~~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~  179 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  179 (412)
T ss_dssp             HHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCce
Confidence             3444555555432211 12234555666666664  67899999999763        2222222222111   1  33


Q ss_pred             cEEEEecCChHHh-----------hccCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCC------C
Q 048597          190 SKIVFTTNSRVVC-----------GQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECC------C  252 (294)
Q Consensus       190 s~iivTtr~~~v~-----------~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~------G  252 (294)
                      ..+|+||+.....           ..... .+++.+|+.++++++|...+...... ..--.+....|++.|+      |
T Consensus       180 v~lI~~~~~~~~~~~l~~~~~~~~~~~~~-~i~l~~l~~~e~~~ll~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~~~~G  257 (412)
T 1w5s_A          180 IGFLLVASDVRALSYMREKIPQVESQIGF-KLHLPAYKSRELYTILEQRAELGLRD-TVWEPRHLELISDVYGEDKGGDG  257 (412)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTCSE-EEECCCCCHHHHHHHHHHHHHHHBCT-TSCCHHHHHHHHHHHCGGGTSCC
T ss_pred             EEEEEEeccccHHHHHhhhcchhhhhcCC-eeeeCCCCHHHHHHHHHHHHHhcCCC-CCCChHHHHHHHHHHHHhccCCC
Confidence            4577788654422           11211 29999999999999997654211100 1112356788999999      9


Q ss_pred             ChHHHHHHHH
Q 048597          253 LPLALKTVGR  262 (294)
Q Consensus       253 lPlai~~i~~  262 (294)
                      .|..+..+..
T Consensus       258 ~p~~~~~l~~  267 (412)
T 1w5s_A          258 SARRAIVALK  267 (412)
T ss_dssp             CHHHHHHHHH
T ss_pred             cHHHHHHHHH
Confidence            9976665543

>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=99.45  E-value=1.5e-12  Score=108.67  Aligned_cols=183  Identities=15%  Similarity=0.082  Sum_probs=113.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHH--------------HHHHHHHhCCCCCCc-
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKI--------------QADIGKKIGLSTKSW-  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i--------------~~~i~~~~~~~~~~~-  142 (294)
                      ..++|++..++.+..++.... ....+.|+|++|+|||||++.+.+....              ...+........... 
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID  101 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEEE
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEec
Confidence            468999999999999998752 2358999999999999999988432210              001111000000000 


Q ss_pred             -ccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChHHh-h-cc-CCceee
Q 048597          143 -QENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRVVC-G-QM-EATMLN  211 (294)
Q Consensus       143 -~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~v~-~-~~-~~~~~~  211 (294)
                       ...........+.+.+     .+++.+||+||++.  ...+..+...+.....+..+|+||+..... . .. ....++
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~  181 (250)
T 1njg_A          102 AASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFH  181 (250)
T ss_dssp             TTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             CcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhcc
Confidence             0001112222333332     34678999999976  345555554444444567888888764321 1 11 123399


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH
Q 048597          212 ASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM  264 (294)
Q Consensus       212 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L  264 (294)
                      +.+++.++..+++...+.......+   .+....|++.|+|.|..+..+...+
T Consensus       182 l~~l~~~e~~~~l~~~~~~~~~~~~---~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          182 LKALDVEQIRHQLEHILNEEHIAHE---PRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTTCCBC---HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            9999999999999987743321111   3567899999999999998876543

>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=99.41  E-value=1.3e-11  Score=110.81  Aligned_cols=198  Identities=15%  Similarity=0.066  Sum_probs=123.5

Q ss_pred             CceeehhHHHHHHHHHHhc--CCCCceEEEEEcCCCChHHHHHHHhhChh----------------------------HH
Q 048597           78 RTVIRQELLLDRVWRFVTD--QERNRGIIGLYGTGGVGKTTLLKQRANLK----------------------------KI  127 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~--~~~~~~vi~I~G~~GiGKTtLa~~v~~~~----------------------------~i  127 (294)
                      ..++||+.+++++..++..  .....+.+.|+|++|+||||||+.+.+..                            .+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            6789999999999988865  23356799999999999999999885321                            12


Q ss_pred             HHHHHHHh-CCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCccc---hhh-hcCCcCCCCCCcEEEEecCChHH-
Q 048597          128 QADIGKKI-GLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHIN---LNK-LGVPLQYLHLGSKIVFTTNSRVV-  201 (294)
Q Consensus       128 ~~~i~~~~-~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~---~~~-l~~~l~~~~~gs~iivTtr~~~v-  201 (294)
                      ...+...+ +.... ....+.......+...+..++.+|+|||++....   .+. +. .+.....+..+|+||+.... 
T Consensus       100 ~~~l~~~l~~~~~~-~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~-~l~~~~~~~~iI~~t~~~~~~  177 (384)
T 2qby_B          100 LSSLAGKLTGFSVP-KHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLY-QLLRSDANISVIMISNDINVR  177 (384)
T ss_dssp             HHHHHHHHHCSCCC-SSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHH-HHHTSSSCEEEEEECSSTTTT
T ss_pred             HHHHHHHhcCCCCC-CCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHH-HHhcCCcceEEEEEECCCchH
Confidence            22333333 21111 1223345566777777777777999999976321   222 11 11111156788888886532 


Q ss_pred             -------hhccCCceeecCCCCHHHHHHHHHHHhCC--CCCCCCCCHHHHHHHHHHhCC---CChHHH-HHHHHH--Hc-
Q 048597          202 -------CGQMEATMLNASPLRDEEAWRLFEEAVGR--YVLDSHPDIPELAKTMAEECC---CLPLAL-KTVGRA--MR-  265 (294)
Q Consensus       202 -------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~--~~~~~~~~~~~~~~~I~~~c~---GlPlai-~~i~~~--L~-  265 (294)
                             ....+. .+++.+++.++..++|...+..  .....++   +....|++.|+   |.|..+ ..+-..  +. 
T Consensus       178 ~~l~~~l~sr~~~-~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~  253 (384)
T 2qby_B          178 DYMEPRVLSSLGP-SVIFKPYDAEQLKFILSKYAEYGLIKGTYDD---EILSYIAAISAKEHGDARKAVNLLFRAAQLAS  253 (384)
T ss_dssp             TTSCHHHHHTCCC-EEEECCCCHHHHHHHHHHHHHHTSCTTSCCS---HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTT
T ss_pred             hhhCHHHHhcCCC-eEEECCCCHHHHHHHHHHHHHhhcccCCcCH---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhc
Confidence                   222222 5999999999999999987531  1112222   45677888887   988743 333322  22 


Q ss_pred             --CCCCHHHHHHHHHHHH
Q 048597          266 --SISSIEEWEHAIKIIL  281 (294)
Q Consensus       266 --~~~~~~~w~~~l~~l~  281 (294)
                        ..-+.+++..+++.+.
T Consensus       254 ~~~~i~~~~v~~~~~~~~  271 (384)
T 2qby_B          254 GGGIIRKEHVDKAIVDYE  271 (384)
T ss_dssp             SSSCCCHHHHHHHHHHHH
T ss_pred             CCCccCHHHHHHHHHHHh
Confidence              2256788888877664

>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=99.41  E-value=1.6e-12  Score=107.21  Aligned_cols=178  Identities=12%  Similarity=0.038  Sum_probs=110.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|++..++.+..++...  ..+.+.|+|++|+|||+||+.+.....-...-...+.+...  ...........+...
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~   92 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS--DERGIDVVRHKIKEF   92 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETT--CTTCHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccc--cccChHHHHHHHHHH
Confidence            46899999999999999876  44459999999999999998885421100000000111111  122333344444444


Q ss_pred             h------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChHHh--hcc-CCceeecCCCCHHHHHHHHHH
Q 048597          158 L------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRVVC--GQM-EATMLNASPLRDEEAWRLFEE  226 (294)
Q Consensus       158 l------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~v~--~~~-~~~~~~l~~L~~~~~~~Lf~~  226 (294)
                      .      ..++.+|++||++..  .....+...+.....+.++|+||+.....  ... ....+++.+++.++..+++.+
T Consensus        93 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~~l~~  172 (226)
T 2chg_A           93 ARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLE  172 (226)
T ss_dssp             HTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHH
T ss_pred             hcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHHHHHH
Confidence            3      257889999999763  33444444443334567888888765321  111 122489999999999999988


Q ss_pred             HhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHH
Q 048597          227 AVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGR  262 (294)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~  262 (294)
                      .+.......+   .+....+++.++|.|..+..+..
T Consensus       173 ~~~~~~~~~~---~~~~~~l~~~~~g~~r~l~~~l~  205 (226)
T 2chg_A          173 ICEKEGVKIT---EDGLEALIYISGGDFRKAINALQ  205 (226)
T ss_dssp             HHHHHTCCBC---HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHH
Confidence            7643221111   35668899999999997655443

>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=1.6e-11  Score=110.06  Aligned_cols=201  Identities=18%  Similarity=0.089  Sum_probs=122.4

Q ss_pred             cCceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHhhChh-------------------------HHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQRANLK-------------------------KIQA  129 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~-------------------------~i~~  129 (294)
                      +..++||+.+++.+..++...  ......+.|+|++|+||||||+.+.+..                         .+..
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            367899999999999998643  3356789999999999999999884321                         2344


Q ss_pred             HHHHHhCCCCCCcccCChHHHHHHHHHHh--ccCCeEEEEccccCcc----chhhhc---CCcCCC--CCCcEEEEecCC
Q 048597          130 DIGKKIGLSTKSWQENSFEDKALDIAGIL--SRKRFVLLLDDIWEHI----NLNKLG---VPLQYL--HLGSKIVFTTNS  198 (294)
Q Consensus       130 ~i~~~~~~~~~~~~~~~~~~~~~~l~~~l--~~kr~LlvlDdv~~~~----~~~~l~---~~l~~~--~~gs~iivTtr~  198 (294)
                      .+...++.... ....+.......+...+  .+++.+|+|||++...    ..+.+.   ......  ..+..+|+||+.
T Consensus        98 ~l~~~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~  176 (387)
T 2v1u_A           98 AIAEAVGVRVP-FTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNS  176 (387)
T ss_dssp             HHHHHHSCCCC-SSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSC
T ss_pred             HHHHHhCCCCC-CCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECC
Confidence            45555543211 12233555566666666  3557899999998632    112221   111111  335577777765


Q ss_pred             hH--------HhhccCCceeecCCCCHHHHHHHHHHHhCC--CCCCCCCCHHHHHHHHHHhCC---CChHHHH-HHHHHH
Q 048597          199 RV--------VCGQMEATMLNASPLRDEEAWRLFEEAVGR--YVLDSHPDIPELAKTMAEECC---CLPLALK-TVGRAM  264 (294)
Q Consensus       199 ~~--------v~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~--~~~~~~~~~~~~~~~I~~~c~---GlPlai~-~i~~~L  264 (294)
                      ..        +...+....+.+.+++.++..+++...+..  .....+++   ....+++.++   |.|..+. .+....
T Consensus       177 ~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~G~~r~~~~~l~~a~  253 (387)
T 2v1u_A          177 LGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPD---VVPLCAALAAREHGDARRALDLLRVAG  253 (387)
T ss_dssp             STTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSS---HHHHHHHHHHSSSCCHHHHHHHHHHHH
T ss_pred             CchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHH---HHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            52        233333334999999999999999887532  11122333   3566777777   9994333 322222


Q ss_pred             c-----C--CCCHHHHHHHHHHHH
Q 048597          265 R-----S--ISSIEEWEHAIKIIL  281 (294)
Q Consensus       265 ~-----~--~~~~~~w~~~l~~l~  281 (294)
                      .     +  .-+.++++.++..+.
T Consensus       254 ~~a~~~~~~~i~~~~v~~a~~~~~  277 (387)
T 2v1u_A          254 EIAERRREERVRREHVYSARAEIE  277 (387)
T ss_dssp             HHHHHTTCSCBCHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCcCHHHHHHHHHHHh
Confidence            1     1  235777877776654

>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=99.38  E-value=1e-11  Score=111.22  Aligned_cols=202  Identities=15%  Similarity=0.075  Sum_probs=120.0

Q ss_pred             cCceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHhhChh----------------------HHHHHHH
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQRANLK----------------------KIQADIG  132 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~----------------------~i~~~i~  132 (294)
                      +..++||+.+++.+.+++...  ......+.|+|++|+|||||++.+.+..                      .+...+.
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            467899999999999988752  3356799999999999999999884322                      1233333


Q ss_pred             HHhCCCCCCcccCChHHHHHHHHHHhc--cCCeEEEEccccCcc------chhhhcCCcCC-CCCCcEEEEecCChHHh-
Q 048597          133 KKIGLSTKSWQENSFEDKALDIAGILS--RKRFVLLLDDIWEHI------NLNKLGVPLQY-LHLGSKIVFTTNSRVVC-  202 (294)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~~------~~~~l~~~l~~-~~~gs~iivTtr~~~v~-  202 (294)
                      ..++..... ...+.......+...+.  +++.+|+|||++...      .+..+...+.. ...+..+|+||+..... 
T Consensus        99 ~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~  177 (386)
T 2qby_A           99 ESLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVD  177 (386)
T ss_dssp             TTTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGG
T ss_pred             HHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHh
Confidence            333322111 12234555566666664  458999999997621      22222222211 22345678888765432 


Q ss_pred             -------hccCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCC---CChHHHHHHHHHH-c-----C
Q 048597          203 -------GQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECC---CLPLALKTVGRAM-R-----S  266 (294)
Q Consensus       203 -------~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~---GlPlai~~i~~~L-~-----~  266 (294)
                             ..+....+++.+++.++..+++.+.+.... ....--.+....+++.++   |.|..+..+.... .     .
T Consensus       178 ~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~  256 (386)
T 2qby_A          178 LLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAF-KPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMK  256 (386)
T ss_dssp             GCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHB-CSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             hhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcC
Confidence                   222222499999999999999988653111 011122355677777777   9998544433221 1     1


Q ss_pred             --CCCHHHHHHHHHHH
Q 048597          267 --ISSIEEWEHAIKII  280 (294)
Q Consensus       267 --~~~~~~w~~~l~~l  280 (294)
                        .-+.++++.++..+
T Consensus       257 ~~~i~~~~v~~a~~~~  272 (386)
T 2qby_A          257 DTKVKEEYVYMAKEEI  272 (386)
T ss_dssp             CSSCCHHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHHH
Confidence              23556666655544

>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=99.30  E-value=1.8e-11  Score=107.10  Aligned_cols=177  Identities=14%  Similarity=0.118  Sum_probs=109.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|++..++.+..++..+  ..+.+.++|++|+||||+|+.+.....-...-...+.+...  ...........+...
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~--~~~~~~~i~~~~~~~   96 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNAS--DDRGIDVVRNQIKHF   96 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTT--SCCSHHHHHTHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCc--cccChHHHHHHHHHH
Confidence            46899999999999999876  44449999999999999999885432100000111112111  112334444434433


Q ss_pred             h-------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChHH-h-hc-cCCceeecCCCCHHHHHHHHH
Q 048597          158 L-------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRVV-C-GQ-MEATMLNASPLRDEEAWRLFE  225 (294)
Q Consensus       158 l-------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~v-~-~~-~~~~~~~l~~L~~~~~~~Lf~  225 (294)
                      .       .+++.++|+||++..  ..++.+...+.....++.+|++|+...- . .. -.+..+++.+++.++..+++.
T Consensus        97 ~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~  176 (323)
T 1sxj_B           97 AQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLL  176 (323)
T ss_dssp             HHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHH
T ss_pred             HhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHHHHHH
Confidence            3       345889999999862  3444444444333446778888765431 1 11 112249999999999999998


Q ss_pred             HHhCCCCCCCCCCHHHHHHHHHHhCCCChHH-HHHHH
Q 048597          226 EAVGRYVLDSHPDIPELAKTMAEECCCLPLA-LKTVG  261 (294)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla-i~~i~  261 (294)
                      ..+.......+   .+....|++.|+|.|.. +..+.
T Consensus       177 ~~~~~~~~~~~---~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          177 QIIKLEDVKYT---NDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             HHHHHHTCCBC---HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHcCCCCC---HHHHHHHHHHcCCCHHHHHHHHH
Confidence            87643221111   35668899999999955 44443

>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=99.28  E-value=1e-10  Score=105.00  Aligned_cols=182  Identities=14%  Similarity=0.123  Sum_probs=114.7

Q ss_pred             CceeehhHHHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHhhC--------------------hhHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTD----QERNRGIIGLYGTGGVGKTTLLKQRAN--------------------LKKIQADIGK  133 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~~GiGKTtLa~~v~~--------------------~~~i~~~i~~  133 (294)
                      +.++||+.+++.+..++..    .....+.+.|+|++|+|||||++.+.+                    ...+...+..
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~   96 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIAR   96 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHH
Confidence            6789999999999999876    211234899999999999999998821                    1234555555


Q ss_pred             HhCCCCCCcccCChHHHHHHHHHHhc--cCCeEEEEccccCc--cchhhhcCCcCC-CC---CCcEEEEecCChHHhh--
Q 048597          134 KIGLSTKSWQENSFEDKALDIAGILS--RKRFVLLLDDIWEH--INLNKLGVPLQY-LH---LGSKIVFTTNSRVVCG--  203 (294)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~--~~~~~l~~~l~~-~~---~gs~iivTtr~~~v~~--  203 (294)
                      .++..... ...+...+...+...+.  +++.+|+|||++..  .....+...+.. ..   .+..+|++|+......  
T Consensus        97 ~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l  175 (389)
T 1fnn_A           97 SLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  175 (389)
T ss_dssp             HTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HhCccCCC-CCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHh
Confidence            55432211 12345555566666554  56889999999763  333333322221 11   3567888877654322  


Q ss_pred             ------ccCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhC---------CCChHHHHHHH
Q 048597          204 ------QMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEEC---------CCLPLALKTVG  261 (294)
Q Consensus       204 ------~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c---------~GlPlai~~i~  261 (294)
                            .+....+++.+++.++..+++...+...... ..--.+....|++.+         +|.|..+..+.
T Consensus       176 ~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l  247 (389)
T 1fnn_A          176 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAE-GSYSEDILQMIADITGAQTPLDTNRGDARLAIDIL  247 (389)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCT-TSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHH
T ss_pred             CHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHH
Confidence                  2233249999999999999998876321100 111235678899998         78876555443

>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=99.16  E-value=1.2e-10  Score=102.02  Aligned_cols=178  Identities=15%  Similarity=0.090  Sum_probs=109.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|++..++.+..++..+  ..+.+.++|++|+||||+|+.+.....-.......+.+....  ..........+...
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~  100 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD--ERGINVIREKVKEF  100 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC--HHHHHTTHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccc--cCchHHHHHHHHHH
Confidence            45899999999999999876  445599999999999999998854321000000111111110  00011111222222


Q ss_pred             h------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChHH-----hhccCCceeecCCCCHHHHHHHH
Q 048597          158 L------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRVV-----CGQMEATMLNASPLRDEEAWRLF  224 (294)
Q Consensus       158 l------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~v-----~~~~~~~~~~l~~L~~~~~~~Lf  224 (294)
                      .      .+++.++++||++..  ..+..+...+.....++++|+||....-     ...  +..+.+.+++.++...++
T Consensus       101 ~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr--~~~~~~~~l~~~~~~~~l  178 (327)
T 1iqp_A          101 ARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR--CAIFRFRPLRDEDIAKRL  178 (327)
T ss_dssp             HHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT--EEEEECCCCCHHHHHHHH
T ss_pred             HhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhh--CcEEEecCCCHHHHHHHH
Confidence            2      256889999999863  3445554444333446788888866431     111  223899999999999999


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH
Q 048597          225 EEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM  264 (294)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L  264 (294)
                      ...+.......+   .+....|++.++|.|..+..+...+
T Consensus       179 ~~~~~~~~~~~~---~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          179 RYIAENEGLELT---EEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             HHHHHTTTCEEC---HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCC---HHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            887754332122   3566889999999998766554433

>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=99.04  E-value=1.7e-09  Score=94.30  Aligned_cols=179  Identities=12%  Similarity=0.029  Sum_probs=107.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc-ccCChHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW-QENSFEDKALDIAG  156 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~-~~~~~~~~~~~l~~  156 (294)
                      ..++|++..++.+..++..+  ..+.+.++|++|+||||+|+.+.....-...-...+.+..... ...........+..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFAR   94 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTT--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCC--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHHHHHh
Confidence            45899999999999888775  4445999999999999999988543100000001111111110 11122222222221


Q ss_pred             H--h-ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChHH-h-hc-cCCceeecCCCCHHHHHHHHHHHh
Q 048597          157 I--L-SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRVV-C-GQ-MEATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       157 ~--l-~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~v-~-~~-~~~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                      .  + .+++.++++|+++..  .....+...+.....++++|++|....- . .. -.+..+++.+++.++...++...+
T Consensus        95 ~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~  174 (319)
T 2chq_A           95 TAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEIC  174 (319)
T ss_dssp             SCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHH
T ss_pred             cCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHH
Confidence            1  1 256889999999763  3445555555444456778877765431 1 11 112249999999999999998877


Q ss_pred             CCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          229 GRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       229 ~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      .......+   .+....+++.++|.|..+..+.
T Consensus       175 ~~~~~~i~---~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          175 EKEGVKIT---EDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             HTTCCCBC---HHHHHHHHHTTTTCHHHHHHHH
T ss_pred             HHcCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            54332222   3556888899999998665543

>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=98.96  E-value=7.8e-09  Score=92.15  Aligned_cols=177  Identities=16%  Similarity=0.120  Sum_probs=105.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHh-----CCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKI-----GLS  138 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~-----~~~  138 (294)
                      ..++|++..++.+...+..+. ....+.|+|++|+||||+|+.+.....              ....+....     .+.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID   94 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEEEE
T ss_pred             hhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEEec
Confidence            458999999999999997652 235789999999999999998832110              001111100     000


Q ss_pred             CCCcccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChHH--hhc-cCCc
Q 048597          139 TKSWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRVV--CGQ-MEAT  208 (294)
Q Consensus       139 ~~~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~v--~~~-~~~~  208 (294)
                      ..  ........ ..+.+.+     .+++.++++||++.  ...++.+...+.....+..+|++|....-  ... ..+.
T Consensus        95 ~~--~~~~~~~~-~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  171 (373)
T 1jr3_A           95 AA--SRTKVEDT-RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCL  171 (373)
T ss_dssp             TT--CSCCSSCH-HHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSE
T ss_pred             cc--ccCCHHHH-HHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhhee
Confidence            00  00111111 2233332     35678999999976  33445554444333345667777764321  111 1223


Q ss_pred             eeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          209 MLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       209 ~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      .+++.+++.++...++.+.+.......+   .+....|++.++|.|..+..+.
T Consensus       172 ~i~~~~l~~~~~~~~l~~~~~~~~~~~~---~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          172 QFHLKALDVEQIRHQLEHILNEEHIAHE---PRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTCCBC---HHHHHHHHHHSSSCHHHHHHHH
T ss_pred             EeeCCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHCCCCHHHHHHHH
Confidence            3999999999999999876633221111   3556889999999998877654

>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=98.88  E-value=1.2e-08  Score=90.14  Aligned_cols=175  Identities=11%  Similarity=0.037  Sum_probs=104.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHH-HhCCCCCCcccCChHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGK-KIGLSTKSWQENSFEDKALDIAG  156 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~-~~~~~~~~~~~~~~~~~~~~l~~  156 (294)
                      ..++|++..++.+..++..+  ..+.+.|+|++|+||||+|+.+.....-...... ...+...  ...........+..
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~  112 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNAS--DERGISIVREKVKN  112 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSS--SCCCHHHHTTHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcC--CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccc--cccchHHHHHHHHH
Confidence            45899999999999998876  3344899999999999999988654321111100 0111111  11222222222222


Q ss_pred             Hh----------------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-----HhhccCCceeecC
Q 048597          157 IL----------------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-----VCGQMEATMLNAS  213 (294)
Q Consensus       157 ~l----------------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-----v~~~~~~~~~~l~  213 (294)
                      +.                ..+.-++++|++...  .....+...+.......++|++|....     +...  +..+.+.
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR--~~~i~~~  190 (353)
T 1sxj_D          113 FARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQ--CSKFRFK  190 (353)
T ss_dssp             HHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHH--SEEEECC
T ss_pred             HhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhcc--CceEEeC
Confidence            21                134569999998752  233344333333333466777765432     1222  1248899


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          214 PLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       214 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      +++.++....+...+.......+   .+....|++.++|.|-.+..+.
T Consensus       191 ~~~~~~~~~~l~~~~~~~~~~i~---~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          191 ALDASNAIDRLRFISEQENVKCD---DGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             CCCHHHHHHHHHHHHHTTTCCCC---HHHHHHHHHHTSSCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhCCCCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999999887644332222   3567899999999998755443

>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=98.85  E-value=3e-08  Score=86.67  Aligned_cols=187  Identities=17%  Similarity=0.116  Sum_probs=110.5

Q ss_pred             CceeehhHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHh-CCCCCCcccCChHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKI-GLSTKSWQENSFEDKALD  153 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~-~~~~~~~~~~~~~~~~~~  153 (294)
                      ..++|++..+..+..++...   ......+.|+|++|+||||||+.+.+...      ..+ .....  ......+    
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~------~~~~~~~~~--~~~~~~~----   79 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG------VNLRVTSGP--AIEKPGD----   79 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHT------CCEEEECTT--TCCSHHH----
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhC------CCEEEEecc--ccCChHH----
Confidence            46899999988888887631   22446789999999999999998854211      000 01111  1112222    


Q ss_pred             HHHHhc---cCCeEEEEccccCcc--chhhhcCCcCCC------------------CCCcEEEEecCChH-H----hhcc
Q 048597          154 IAGILS---RKRFVLLLDDIWEHI--NLNKLGVPLQYL------------------HLGSKIVFTTNSRV-V----CGQM  205 (294)
Q Consensus       154 l~~~l~---~kr~LlvlDdv~~~~--~~~~l~~~l~~~------------------~~gs~iivTtr~~~-v----~~~~  205 (294)
                      +...+.   .+..+|+|||+....  ....+...+...                  ..+.++|.+|.... +    ...+
T Consensus        80 l~~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~  159 (324)
T 1hqc_A           80 LAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRF  159 (324)
T ss_dssp             HHHHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTC
T ss_pred             HHHHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcc
Confidence            333333   366799999997632  222221111100                  02345666665432 1    1112


Q ss_pred             CCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcC--------CCCHHHHHHHH
Q 048597          206 EATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRS--------ISSIEEWEHAI  277 (294)
Q Consensus       206 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~--------~~~~~~w~~~l  277 (294)
                       ...+.+.+++.++...++.+.+.......+   .+....+++.|+|.|-.+..+...+..        .-+.+....++
T Consensus       160 -~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~---~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~  235 (324)
T 1hqc_A          160 -GIVEHLEYYTPEELAQGVMRDARLLGVRIT---EEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERALEAL  235 (324)
T ss_dssp             -SCEEECCCCCHHHHHHHHHHHHHTTTCCCC---HHHHHHHHHHSCSCHHHHHHHHHHHTTTSTTTSCSCCCHHHHHHHH
T ss_pred             -cEEEecCCCCHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence             123899999999999999887754332222   356788999999999988877655421        12445555555


Q ss_pred             HHH
Q 048597          278 KII  280 (294)
Q Consensus       278 ~~l  280 (294)
                      ..+
T Consensus       236 ~~~  238 (324)
T 1hqc_A          236 AAL  238 (324)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            544

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.83  E-value=2.5e-08  Score=86.93  Aligned_cols=148  Identities=10%  Similarity=0.025  Sum_probs=88.5

Q ss_pred             ceeehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHhhCh--------------------------hHHHHH
Q 048597           79 TVIRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQRANL--------------------------KKIQAD  130 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v~~~--------------------------~~i~~~  130 (294)
                      .+.||++++++|...|...  ......+.|+|++|+|||++++.+...                          ..+...
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHH
Confidence            3789999999999888652  346788999999999999999998321                          134555


Q ss_pred             HHHHhCCCCCCcccCChHHHHHHHHHHh---ccCCeEEEEccccCccchhhhcCCc--CCCCC-CcEEEEecCChH----
Q 048597          131 IGKKIGLSTKSWQENSFEDKALDIAGIL---SRKRFVLLLDDIWEHINLNKLGVPL--QYLHL-GSKIVFTTNSRV----  200 (294)
Q Consensus       131 i~~~~~~~~~~~~~~~~~~~~~~l~~~l---~~kr~LlvlDdv~~~~~~~~l~~~l--~~~~~-gs~iivTtr~~~----  200 (294)
                      +..++..... ....... ....+...+   .++.++++||+++....-+.+...+  +.... ...+|.++...+    
T Consensus       101 I~~~L~g~~~-~~~~~~~-~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~  178 (318)
T 3te6_A          101 IWFAISKENL-CGDISLE-ALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIRE  178 (318)
T ss_dssp             HHHHHSCCC---CCCCHH-HHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHH
T ss_pred             HHHHhcCCCC-CchHHHH-HHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchh
Confidence            6666632111 0112222 233333332   4567899999997643222221111  11111 123333343221    


Q ss_pred             -----HhhccCCceeecCCCCHHHHHHHHHHHh
Q 048597          201 -----VCGQMEATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       201 -----v~~~~~~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                           +...++...+.+.|++.++..+++.+++
T Consensus       179 ~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          179 QINIMPSLKAHFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             HHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hcchhhhccCCceEEEeCCCCHHHHHHHHHHHH
Confidence                 1234443449999999999999999876

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.82  E-value=7.5e-08  Score=82.65  Aligned_cols=197  Identities=15%  Similarity=0.109  Sum_probs=110.0

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC-
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN-  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~-  145 (294)
                      ..++|.+..++.|.+.+...           -.....+.|+|++|+|||+||+.+.+....     ..+.+........ 
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~-----~~~~v~~~~~~~~~   91 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNA-----TFIRVVGSELVKKF   91 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTC-----EEEEEEGGGGCCCS
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEehHHHHHhc
Confidence            56899999999998887541           124567999999999999999988432100     0000000100111 


Q ss_pred             --ChHHHHHHHH-HHhccCCeEEEEccccCc----------------cchhhhcCCcC--CCCCCcEEEEecCChHH---
Q 048597          146 --SFEDKALDIA-GILSRKRFVLLLDDIWEH----------------INLNKLGVPLQ--YLHLGSKIVFTTNSRVV---  201 (294)
Q Consensus       146 --~~~~~~~~l~-~~l~~kr~LlvlDdv~~~----------------~~~~~l~~~l~--~~~~gs~iivTtr~~~v---  201 (294)
                        ........+. .....+..+|+|||+...                ..+..+...+.  ....+..||.||.....   
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~  171 (285)
T 3h4m_A           92 IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDP  171 (285)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCH
T ss_pred             cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCH
Confidence              1112222222 223456689999999652                01111111111  12235567777765432   


Q ss_pred             --hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCC-ChHHHHHHHH------HHcCC--CC
Q 048597          202 --CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCC-LPLALKTVGR------AMRSI--SS  269 (294)
Q Consensus       202 --~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~G-lPlai~~i~~------~L~~~--~~  269 (294)
                        ........ +.+.+.+.++..++|...+..........    ...+++.+.| .|-.+..+..      ..+..  -+
T Consensus       172 ~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~----~~~l~~~~~g~~~~~i~~l~~~a~~~a~~~~~~~I~  247 (285)
T 3h4m_A          172 AILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVN----LEEIAKMTEGCVGAELKAICTEAGMNAIRELRDYVT  247 (285)
T ss_dssp             HHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHHCTTCCHHHHHHHHHHHHHHHHHTTCSSBC
T ss_pred             HHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCC----HHHHHHHcCCCCHHHHHHHHHHHHHHHHHhccCcCC
Confidence              11112233 89999999999999998875543233333    3667777777 4534443322      12221  45


Q ss_pred             HHHHHHHHHHHHhc
Q 048597          270 IEEWEHAIKIILRY  283 (294)
Q Consensus       270 ~~~w~~~l~~l~~~  283 (294)
                      .++.+.++..+...
T Consensus       248 ~~d~~~al~~~~~~  261 (285)
T 3h4m_A          248 MDDFRKAVEKIMEK  261 (285)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc
Confidence            67788887777653

>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=98.79  E-value=4.8e-08  Score=83.43  Aligned_cols=198  Identities=16%  Similarity=0.081  Sum_probs=107.7

Q ss_pred             CceeehhHHHHHHHH-------HHhc-CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC-CCcccCChH
Q 048597           78 RTVIRQELLLDRVWR-------FVTD-QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST-KSWQENSFE  148 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~-------~L~~-~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~-~~~~~~~~~  148 (294)
                      ..++|....++++..       .+.. .......+.|+|++|+|||+||+.+......     ..+.+.. .........
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~-----~~~~i~~~~~~~g~~~~  107 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF-----PFIKICSPDKMIGFSET  107 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC-----SEEEEECGGGCTTCCHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEeCHHHhcCCchH
Confidence            456787766666665       3322 1335678999999999999999988543100     0000000 001111222


Q ss_pred             HH----HHHHHHHhccCCeEEEEccccCc-----------cc-hhhhcCCcC---CCCCCcEEEEecCChHHhhc---cC
Q 048597          149 DK----ALDIAGILSRKRFVLLLDDIWEH-----------IN-LNKLGVPLQ---YLHLGSKIVFTTNSRVVCGQ---ME  206 (294)
Q Consensus       149 ~~----~~~l~~~l~~kr~LlvlDdv~~~-----------~~-~~~l~~~l~---~~~~gs~iivTtr~~~v~~~---~~  206 (294)
                      ..    ...+......+..+|+|||+...           .. ...+...+.   .......||.||........   ..
T Consensus       108 ~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~  187 (272)
T 1d2n_A          108 AKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLN  187 (272)
T ss_dssp             HHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhc
Confidence            22    22222233456789999998642           11 122222111   12223446677776643221   11


Q ss_pred             C-ce-eecCCCCH-HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCC------ChHHHHHHHHHHcCCCCHHHHHHHH
Q 048597          207 A-TM-LNASPLRD-EEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCC------LPLALKTVGRAMRSISSIEEWEHAI  277 (294)
Q Consensus       207 ~-~~-~~l~~L~~-~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~G------lPlai~~i~~~L~~~~~~~~w~~~l  277 (294)
                      . .. +++.+++. ++...++.+...     .+   .+....|++.+.|      ++-++..+-... .......++.++
T Consensus       188 rf~~~i~~p~l~~r~~i~~i~~~~~~-----~~---~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~-~~~~~~~~~~~~  258 (272)
T 1d2n_A          188 AFSTTIHVPNIATGEQLLEALELLGN-----FK---DKERTTIAQQVKGKKVWIGIKKLLMLIEMSL-QMDPEYRVRKFL  258 (272)
T ss_dssp             TSSEEEECCCEEEHHHHHHHHHHHTC-----SC---HHHHHHHHHHHTTSEEEECHHHHHHHHHHHT-TSCGGGHHHHHH
T ss_pred             ccceEEcCCCccHHHHHHHHHHhcCC-----CC---HHHHHHHHHHhcCCCccccHHHHHHHHHHHh-hhchHHHHHHHH
Confidence            1 23 88999987 666666655321     11   3456788888888      444444443333 334568899999


Q ss_pred             HHHHhcCCCCCc
Q 048597          278 KIILRYGRGVFA  289 (294)
Q Consensus       278 ~~l~~~~~~~~~  289 (294)
                      ..+.+.....++
T Consensus       259 ~~l~~~~~~~~~  270 (272)
T 1d2n_A          259 ALLREEGASPLD  270 (272)
T ss_dssp             HHHHHTSCCSCC
T ss_pred             HHHHHcCCcccC
Confidence            988887655544

>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=98.76  E-value=3.9e-08  Score=87.14  Aligned_cols=179  Identities=10%  Similarity=0.101  Sum_probs=99.0

Q ss_pred             CceeehhHHHHHHHHHH-hcCCCCceEEEEEcCCCChHHHHHHHhhC-hh-----HHHHH---HH------HHh------
Q 048597           78 RTVIRQELLLDRVWRFV-TDQERNRGIIGLYGTGGVGKTTLLKQRAN-LK-----KIQAD---IG------KKI------  135 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L-~~~~~~~~vi~I~G~~GiGKTtLa~~v~~-~~-----~i~~~---i~------~~~------  135 (294)
                      ..++|.+...+.+.+++ ..+  ..+.+.|+|++|+||||+++.+.. ..     .+.-.   +.      ..+      
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~--~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~   91 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPR--DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSP   91 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT--CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECS
T ss_pred             HHhcCCHHHHHHHHHHHhhCC--CCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeeccc
Confidence            45799999999888887 444  333399999999999999998743 10     00000   00      000      


Q ss_pred             ---CCCCCCcccCChHHHHHHHHHHh--------------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEec
Q 048597          136 ---GLSTKSWQENSFEDKALDIAGIL--------------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTT  196 (294)
Q Consensus       136 ---~~~~~~~~~~~~~~~~~~l~~~l--------------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTt  196 (294)
                         ..................+....              ..++-+++||++...  .....+...+.....++.+|++|
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il~t  171 (354)
T 1sxj_E           92 YHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVC  171 (354)
T ss_dssp             SEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEE
T ss_pred             ceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEEEEe
Confidence               00000000111111222222222              225569999999762  22333333332223356777777


Q ss_pred             CChH-Hhh-c-cCCceeecCCCCHHHHHHHHHHHhCCCCCCCC-CCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          197 NSRV-VCG-Q-MEATMLNASPLRDEEAWRLFEEAVGRYVLDSH-PDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       197 r~~~-v~~-~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~-~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      .... +.. . -.+..+++.+++.++....+.+.+.......+ +   +....|++.++|.+-.+..+.
T Consensus       172 ~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~---~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          172 DSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETK---DILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             SCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCS---HHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcH---HHHHHHHHHcCCCHHHHHHHH
Confidence            6532 111 1 12233999999999999999877643321222 2   456788899999887665544

>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=98.74  E-value=6.7e-09  Score=86.54  Aligned_cols=170  Identities=11%  Similarity=0.067  Sum_probs=92.7

Q ss_pred             ceeeh---hHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHH
Q 048597           79 TVIRQ---ELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIA  155 (294)
Q Consensus        79 ~~vGr---~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~  155 (294)
                      .++|.   +..++.+..++...  ....+.|+|++|+||||||+.+.....-..  .....+........- .    ...
T Consensus        29 ~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~--~~~~~~~~~~~~~~~-~----~~~   99 (242)
T 3bos_A           29 SYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANELE--RRSFYIPLGIHASIS-T----ALL   99 (242)
T ss_dssp             TSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEEGGGGGGSC-G----GGG
T ss_pred             hccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEHHHHHHHH-H----HHH
Confidence            45653   35566666666554  567899999999999999998854221100  000001111000000 0    001


Q ss_pred             HHhccCCeEEEEccccCcc--c--hhhhcCCcCC-CCCC-cEEEEecCChH---------HhhccCCce-eecCCCCHHH
Q 048597          156 GILSRKRFVLLLDDIWEHI--N--LNKLGVPLQY-LHLG-SKIVFTTNSRV---------VCGQMEATM-LNASPLRDEE  219 (294)
Q Consensus       156 ~~l~~kr~LlvlDdv~~~~--~--~~~l~~~l~~-~~~g-s~iivTtr~~~---------v~~~~~~~~-~~l~~L~~~~  219 (294)
                      +.+ .+..+|++||++...  .  ...+...+.. ...+ .++|+||+...         +...+.... +++.+++.++
T Consensus       100 ~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~  178 (242)
T 3bos_A          100 EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDE  178 (242)
T ss_dssp             TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGG
T ss_pred             Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHH
Confidence            111 456799999997631  1  2222222111 0112 24777776322         122221113 9999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          220 AWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       220 ~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      ..+++...+.......   -.+....+++.|+|.+-.+..+.
T Consensus       179 ~~~~l~~~~~~~~~~~---~~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          179 KLAALQRRAAMRGLQL---PEDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             HHHHHHHHHHHTTCCC---CHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCC---CHHHHHHHHHHccCCHHHHHHHH
Confidence            9999988774322112   23567889999999987766543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.74  E-value=9.1e-08  Score=84.24  Aligned_cols=168  Identities=15%  Similarity=0.072  Sum_probs=99.3

Q ss_pred             CceeehhHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC---CCcccCChHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST---KSWQENSFEDKA  151 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~---~~~~~~~~~~~~  151 (294)
                      ..++|++..+..+..++...   ......|.|+|++|+|||+||+.+...          ++...   ............
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~----------~~~~~~~~~~~~~~~~~~~~   98 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYE----------MSANIKTTAAPMIEKSGDLA   98 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHH----------TTCCEEEEEGGGCCSHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHH----------hCCCeEEecchhccchhHHH
Confidence            46899999999998888752   335567899999999999999887322          11110   000111222222


Q ss_pred             HHHHHHhccCCeEEEEccccCc--cchhhhcCCcCCC------------------CCCcEEEEecCChH-----HhhccC
Q 048597          152 LDIAGILSRKRFVLLLDDIWEH--INLNKLGVPLQYL------------------HLGSKIVFTTNSRV-----VCGQME  206 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~--~~~~~l~~~l~~~------------------~~gs~iivTtr~~~-----v~~~~~  206 (294)
                      ..+..  ..+..+|+||++...  .....+...+...                  ..+..+|.+|....     ....+ 
T Consensus        99 ~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~-  175 (338)
T 3pfi_A           99 AILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRF-  175 (338)
T ss_dssp             HHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTC-
T ss_pred             HHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhc-
Confidence            22221  246689999999863  2222221111110                  11245666665432     22222 


Q ss_pred             CceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          207 ATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       207 ~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      ...+++.+++.++...++.+.+.......   -.+....|++.+.|.|-.+..+.
T Consensus       176 ~~~i~l~~~~~~e~~~il~~~~~~~~~~~---~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          176 GMQFRLEFYKDSELALILQKAALKLNKTC---EEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHTTCEE---CHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             CEEeeCCCcCHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHCcCHHHHHHHH
Confidence            12399999999999999987764322111   13566888999999996555443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.72  E-value=2.9e-09  Score=85.31  Aligned_cols=44  Identities=25%  Similarity=0.354  Sum_probs=37.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|++..++++.+.+...  ....+.|+|++|+||||||+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~~~~   65 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQ   65 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHH
Confidence            45799999999999998875  556789999999999999988744

>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=98.72  E-value=1.5e-07  Score=86.05  Aligned_cols=187  Identities=16%  Similarity=0.119  Sum_probs=103.9

Q ss_pred             ee-ehhH--HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh---------------HHHHHHHHHhCCCCCC
Q 048597           80 VI-RQEL--LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK---------------KIQADIGKKIGLSTKS  141 (294)
Q Consensus        80 ~v-Gr~~--~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i~~~i~~~~~~~~~~  141 (294)
                      |+ |...  ....+........ ....+.|+|++|+||||||+.+.+..               .+...+...+..    
T Consensus       107 fv~g~~n~~a~~~~~~~a~~~~-~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~----  181 (440)
T 2z4s_A          107 FVVGPGNSFAYHAALEVAKHPG-RYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKE----  181 (440)
T ss_dssp             CCCCTTTHHHHHHHHHHHHSTT-SSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHT----
T ss_pred             cCCCCchHHHHHHHHHHHhCCC-CCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHc----
Confidence            44 6443  3334444444332 26789999999999999999885422               111111111100    


Q ss_pred             cccCChHHHHHHHHHHhccCCeEEEEccccCcc----chhhhcCCcCC-CCCCcEEEEecCCh---------HHhhccCC
Q 048597          142 WQENSFEDKALDIAGILSRKRFVLLLDDIWEHI----NLNKLGVPLQY-LHLGSKIVFTTNSR---------VVCGQMEA  207 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~----~~~~l~~~l~~-~~~gs~iivTtr~~---------~v~~~~~~  207 (294)
                         ..    ...+...+..+..+|+|||++...    ..+.+...+.. ...|..||+||.+.         .+...+..
T Consensus       182 ---~~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~  254 (440)
T 2z4s_A          182 ---GK----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQM  254 (440)
T ss_dssp             ---TC----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHS
T ss_pred             ---cc----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccC
Confidence               00    112223333367899999997632    22233222211 23467888888752         22333333


Q ss_pred             ce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH------HcCC-CCHHHHHHHHHH
Q 048597          208 TM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRA------MRSI-SSIEEWEHAIKI  279 (294)
Q Consensus       208 ~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~------L~~~-~~~~~w~~~l~~  279 (294)
                      .. +.+.+++.++...++.+.+.......++   ++...|++.++|.+-.+..+...      +.++ -+.+.++.++..
T Consensus       255 g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~---e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~  331 (440)
T 2z4s_A          255 GLVAKLEPPDEETRKSIARKMLEIEHGELPE---EVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKD  331 (440)
T ss_dssp             SBCCBCCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTST
T ss_pred             CeEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            33 8899999999999998877432222333   34678889999988655433221      1222 456777776654


Q ss_pred             HH
Q 048597          280 IL  281 (294)
Q Consensus       280 l~  281 (294)
                      +.
T Consensus       332 ~~  333 (440)
T 2z4s_A          332 FI  333 (440)
T ss_dssp             TT
T ss_pred             Hh
Confidence            43

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=98.72  E-value=7.3e-09  Score=76.70  Aligned_cols=41  Identities=20%  Similarity=0.264  Sum_probs=34.4

Q ss_pred             ccccCCCCCCcHHHHHHHHHHHHHHHHHHHhhhchhhhhhh
Q 048597            2 AAEQQPRTRRTVRVKLWFKRVDNKVTEVAKLKQEGDLQIDR   42 (294)
Q Consensus         2 dae~~~~~~~~~~v~~Wl~~l~~~~~d~ed~ld~~~~~~~~   42 (294)
                      |||+++....++.++.|+++||+++||+|||||+|.++...
T Consensus        44 da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~~~   84 (115)
T 3qfl_A           44 KIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQVDG   84 (115)
T ss_dssp             HHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            56766311468999999999999999999999999998764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.65  E-value=9.4e-08  Score=87.47  Aligned_cols=172  Identities=16%  Similarity=0.106  Sum_probs=97.8

Q ss_pred             CceeehhHHH---HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLL---DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~---~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..++|.+..+   ..+...+..+  ..+.+.|+|++|+||||||+.+.+....     ....+..   ...........+
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~-----~f~~l~a---~~~~~~~ir~~~   95 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANA-----DVERISA---VTSGVKEIREAI   95 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEEET---TTCCHHHHHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCC-----CeEEEEe---ccCCHHHHHHHH
Confidence            4579998888   7788888777  5678999999999999999988432210     0000000   112222222222


Q ss_pred             HH----HhccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEE-ecCChHH---hhcc-CCceeecCCCCHHHHHHH
Q 048597          155 AG----ILSRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVF-TTNSRVV---CGQM-EATMLNASPLRDEEAWRL  223 (294)
Q Consensus       155 ~~----~l~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iiv-Ttr~~~v---~~~~-~~~~~~l~~L~~~~~~~L  223 (294)
                      ..    ...+++.+|+||+++..  ...+.+...+..+  ...+|. ||.+...   .... ....+.+.+++.++...+
T Consensus        96 ~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~--~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~i  173 (447)
T 3pvs_A           96 ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDG--TITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQV  173 (447)
T ss_dssp             HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTT--SCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHHH
T ss_pred             HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcC--ceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHHH
Confidence            21    12467889999999763  2333333333321  233443 4444321   1111 122388999999999999


Q ss_pred             HHHHhCCCCC----CCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          224 FEEAVGRYVL----DSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       224 f~~~~~~~~~----~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                      +.+.+.....    ....--.+....+++.++|.+-.+..+.
T Consensus       174 l~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~L  215 (447)
T 3pvs_A          174 LTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTL  215 (447)
T ss_dssp             HHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHH
T ss_pred             HHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHH
Confidence            9887643110    0011123566788888999886655443

>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=98.65  E-value=2.9e-07  Score=81.24  Aligned_cols=175  Identities=17%  Similarity=0.144  Sum_probs=99.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|.+..++.|..++..+  ..+.+.++|++|+||||+|+.+.....-...-...+.....  ...........+..+
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~--~~~~~~~ir~~i~~~  100 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS--DDRGIDVVRNQIKDF  100 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT--SCCSHHHHHTHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCc--ccccHHHHHHHHHHH
Confidence            45789988899888888876  44448999999999999999884432100000011111111  112233333333333


Q ss_pred             h------ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhh--ccCCceeecCCCCHHHHHHHHHH
Q 048597          158 L------SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCG--QMEATMLNASPLRDEEAWRLFEE  226 (294)
Q Consensus       158 l------~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~--~~~~~~~~l~~L~~~~~~~Lf~~  226 (294)
                      .      .+.+-++++|+++.  ....+.+...+......++++++|.... +..  .-.+..+.+.+++.++..+.+.+
T Consensus       101 ~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~~l~~  180 (340)
T 1sxj_C          101 ASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIAN  180 (340)
T ss_dssp             HHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHH
T ss_pred             HhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHHHHHH
Confidence            2      13467899999965  2333344333322233456777665432 110  11122488999999998888877


Q ss_pred             HhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          227 AVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      .+.......+   .+..+.|++.++|.+--+..
T Consensus       181 ~~~~~~~~i~---~~~~~~i~~~s~G~~r~~~~  210 (340)
T 1sxj_C          181 VLVHEKLKLS---PNAEKALIELSNGDMRRVLN  210 (340)
T ss_dssp             HHHTTTCCBC---HHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHcCCCCC---HHHHHHHHHHcCCCHHHHHH
Confidence            6633221111   24567788888887765433

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.63  E-value=5.4e-07  Score=80.11  Aligned_cols=44  Identities=16%  Similarity=0.190  Sum_probs=34.2

Q ss_pred             CceeehhHHHHH---HHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDR---VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~---l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|++..++.   +...+..+....+.+.|+|++|+|||+||+.+
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~l   90 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGM   90 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHH
Confidence            468999988665   45555555333468999999999999999998

>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=98.61  E-value=1.7e-07  Score=87.44  Aligned_cols=172  Identities=13%  Similarity=0.096  Sum_probs=96.0

Q ss_pred             CceeehhHHHHHHHHHHhcCC---------------CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc
Q 048597           78 RTVIRQELLLDRVWRFVTDQE---------------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~---------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~  142 (294)
                      ..++|++..++.+.+++....               ...+.+.|+|++|+||||||+.+.+....     ..+.+...  
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~-----~~i~in~s--  111 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY-----DILEQNAS--  111 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEECTT--
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCC-----CEEEEeCC--
Confidence            468999999999999997510               13478999999999999999988322100     00000000  


Q ss_pred             ccCChHHHHHHHHH------------------HhccCCeEEEEccccCcc-----chhhhcCCcCCCCCCcEEEEecCCh
Q 048597          143 QENSFEDKALDIAG------------------ILSRKRFVLLLDDIWEHI-----NLNKLGVPLQYLHLGSKIVFTTNSR  199 (294)
Q Consensus       143 ~~~~~~~~~~~l~~------------------~l~~kr~LlvlDdv~~~~-----~~~~l~~~l~~~~~gs~iivTtr~~  199 (294)
                      ...........+..                  ...+++.+|++|++....     .+..+...+...  +..+|+++...
T Consensus       112 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~--~~~iIli~~~~  189 (516)
T 1sxj_A          112 DVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICNER  189 (516)
T ss_dssp             SCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEESCT
T ss_pred             CcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc--CCCEEEEEcCC
Confidence            00000000000000                  013567899999997631     123332222221  23455555432


Q ss_pred             H---HhhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHHHH
Q 048597          200 V---VCGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKTVG  261 (294)
Q Consensus       200 ~---v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~i~  261 (294)
                      .   +........ +.+.+++.++..+++...+.......++   +....|++.|+|.+ -++..+.
T Consensus       190 ~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~---~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          190 NLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             TSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHHHHHT
T ss_pred             CCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHcCCcHHHHHHHHH
Confidence            2   222222223 9999999999999988766433322333   34678899999944 4555443

>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=7.3e-07  Score=75.29  Aligned_cols=177  Identities=17%  Similarity=0.101  Sum_probs=93.6

Q ss_pred             CceeehhHHHHHHHHHHh---cCC-------CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc----c
Q 048597           78 RTVIRQELLLDRVWRFVT---DQE-------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW----Q  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~---~~~-------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~----~  143 (294)
                      ..++|.+..++.+.+++.   ...       ...+.+.|+|++|+|||+||+.+.+....     ..+.+.....    .
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~~~~~~~~~~~~   80 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQV-----PFLAMAGAEFVEVIG   80 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----CEEEEETTTTSSSST
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEechHHHHhhcc
Confidence            457898887777766543   211       24467889999999999999988542110     0000111110    0


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCcc-----------------chhhhcCCcCC--CCCCcEEEEecCChHHh--
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEHI-----------------NLNKLGVPLQY--LHLGSKIVFTTNSRVVC--  202 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-----------------~~~~l~~~l~~--~~~gs~iivTtr~~~v~--  202 (294)
                      ......+...+.........+|+|||++...                 .+..+...+..  ...+..+|.||......  
T Consensus        81 ~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~  160 (262)
T 2qz4_A           81 GLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDG  160 (262)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGS
T ss_pred             ChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCH
Confidence            1111122222233334557899999997530                 11112111111  12345666666554321  


Q ss_pred             hcc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH-HHHHHH
Q 048597          203 GQM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL-ALKTVG  261 (294)
Q Consensus       203 ~~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl-ai~~i~  261 (294)
                      ...   .... +.+.+.+.++-.+++...+.....  ..........+++.+.|.+- .+..+.
T Consensus       161 ~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--~~~~~~~~~~l~~~~~g~~~~~l~~l~  222 (262)
T 2qz4_A          161 ALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKL--TQSSTFYSQRLAELTPGFSGADIANIC  222 (262)
T ss_dssp             GGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTC--CBTHHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             HHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCC--CcchhhHHHHHHHHCCCCCHHHHHHHH
Confidence            111   2223 889999999999999877643221  12222234789999999764 554444

>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=98.59  E-value=1.1e-06  Score=76.90  Aligned_cols=171  Identities=18%  Similarity=0.097  Sum_probs=97.4

Q ss_pred             CceeehhHHHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHhhChhH-----HH-HHHHHHhCCCCCC
Q 048597           78 RTVIRQELLLDRVWRFVTD----------QERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ-ADIGKKIGLSTKS  141 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~-~~i~~~~~~~~~~  141 (294)
                      ..++|.+..++.|.+.+..          .....+-+.++|++|+|||+||+.+.+...     +. ..+..       .
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~-------~   90 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVS-------K   90 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHT-------T
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhh-------c
Confidence            4689999999999888731          112346799999999999999999843211     00 00000       0


Q ss_pred             cccCChHHHHHHHHHHh-ccCCeEEEEccccCccc-------------hhhhcCC---cCCCCCCcEEEEecCChHH---
Q 048597          142 WQENSFEDKALDIAGIL-SRKRFVLLLDDIWEHIN-------------LNKLGVP---LQYLHLGSKIVFTTNSRVV---  201 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~~-------------~~~l~~~---l~~~~~gs~iivTtr~~~v---  201 (294)
                      ... ........+.... ..+..+|+||++.....             ...+...   +.....+..||.||.....   
T Consensus        91 ~~g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~  169 (322)
T 3eie_A           91 WMG-ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDS  169 (322)
T ss_dssp             TGG-GHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCH
T ss_pred             ccc-hHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCH
Confidence            001 1122222333322 45668999999975211             1222111   1122334566667765322   


Q ss_pred             --hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCC-hHHHHHHH
Q 048597          202 --CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCL-PLALKTVG  261 (294)
Q Consensus       202 --~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~Gl-Plai~~i~  261 (294)
                        ..  .... +.+...+.++-.++|...+.......   -......|++.+.|. +-.|..+.
T Consensus       170 al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~---~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          170 AIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVL---TKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             HHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCCC---CHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             HHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence              22  2223 78888999999999998876432111   124557899999884 44444443

>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=98.58  E-value=6.6e-07  Score=79.52  Aligned_cols=177  Identities=14%  Similarity=0.056  Sum_probs=97.2

Q ss_pred             CceeehhHHHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC--
Q 048597           78 RTVIRQELLLDRVWRFVTD----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN--  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~--  145 (294)
                      ..++|.+..++.|.+.+..          .....+.|.|+|++|+|||+||+.+......     ..+.+........  
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~~~~~  158 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSISASSLTSKWV  158 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEEEGGGGCCSST
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEEehHHhhcccc
Confidence            4589999999998888753          1124578999999999999999988432100     0000111110111  


Q ss_pred             -ChHHHHHHHHHHh-ccCCeEEEEccccCcc-------------chhhhcCCcC----CCCCCcEEEEecCChHH---hh
Q 048597          146 -SFEDKALDIAGIL-SRKRFVLLLDDIWEHI-------------NLNKLGVPLQ----YLHLGSKIVFTTNSRVV---CG  203 (294)
Q Consensus       146 -~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~-------------~~~~l~~~l~----~~~~gs~iivTtr~~~v---~~  203 (294)
                       ........+.... ..+..+|+||++....             ....+...+.    ....+..||.||.....   +-
T Consensus       159 g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l  238 (357)
T 3d8b_A          159 GEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAA  238 (357)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHH
T ss_pred             chHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHH
Confidence             1122222233222 3567899999995420             1112211111    11224455666654321   11


Q ss_pred             ccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCC-ChHHHHHHHH
Q 048597          204 QMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCC-LPLALKTVGR  262 (294)
Q Consensus       204 ~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~G-lPlai~~i~~  262 (294)
                      .-.... +.+...+.++..+++...+.......   -......|++.+.| .|-.+..+..
T Consensus       239 ~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l---~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          239 RRRLVKRLYIPLPEASARKQIVINLMSKEQCCL---SEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             HTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCC---CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCc---cHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            112233 78888999999898887764322111   13556889999999 4555555543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.57  E-value=7.6e-07  Score=78.00  Aligned_cols=174  Identities=14%  Similarity=0.092  Sum_probs=97.4

Q ss_pred             CceeehhHHHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCC----cc
Q 048597           78 RTVIRQELLLDRVWRFVTD----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKS----WQ  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~----~~  143 (294)
                      ..++|.+..++.|.+.+..          .....+.|.|+|++|+|||+||+.+.+...  .  ...+.+....    ..
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~--~--~~~~~i~~~~l~~~~~   87 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN--N--STFFSISSSDLVSKWL   87 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT--S--CEEEEEECCSSCCSSC
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC--C--CcEEEEEhHHHHhhhh
Confidence            4678999888888777632          112347899999999999999998854220  0  0000011111    11


Q ss_pred             cCChHHHHHHHHHHh-ccCCeEEEEccccCcc---------ch----hhhcCCc---CCCCCCcEEEEecCChH-----H
Q 048597          144 ENSFEDKALDIAGIL-SRKRFVLLLDDIWEHI---------NL----NKLGVPL---QYLHLGSKIVFTTNSRV-----V  201 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~---------~~----~~l~~~l---~~~~~gs~iivTtr~~~-----v  201 (294)
                      ... ......+.... ..+..+|+||++....         ..    ..+...+   .....+..||.||....     +
T Consensus        88 g~~-~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al  166 (322)
T 1xwi_A           88 GES-EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAI  166 (322)
T ss_dssp             CSC-HHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHH
T ss_pred             hHH-HHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHH
Confidence            122 23333333333 4677899999997531         00    1111111   11223445565665432     2


Q ss_pred             hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCC-hHHHHHHH
Q 048597          202 CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCL-PLALKTVG  261 (294)
Q Consensus       202 ~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~Gl-Plai~~i~  261 (294)
                      ..  .... +.+...+.++-.++|...+.......   -......|++.+.|. +-.+..+.
T Consensus       167 ~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l---~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          167 RR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSL---TEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             HH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCC---CHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             Hh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            22  3334 88888999999999988775432111   124568899999997 44455444

>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=98.56  E-value=2.8e-06  Score=75.44  Aligned_cols=170  Identities=18%  Similarity=0.113  Sum_probs=95.5

Q ss_pred             CceeehhHHHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----H-HHHHHHHhCCCCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----I-QADIGKKIGLSTKS  141 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i-~~~i~~~~~~~~~~  141 (294)
                      ..++|.+..++.|...+...          ....+-|.|+|++|+|||+||+.+.+...     + ...+...       
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~-------  123 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK-------  123 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSC-------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhh-------
Confidence            45899999999888877321          12345689999999999999999843221     0 0011000       


Q ss_pred             cccCChHHHHHHHHHH-hccCCeEEEEccccCccc-------------hhhhcCCc---CCCCCCcEEEEecCChH----
Q 048597          142 WQENSFEDKALDIAGI-LSRKRFVLLLDDIWEHIN-------------LNKLGVPL---QYLHLGSKIVFTTNSRV----  200 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~-l~~kr~LlvlDdv~~~~~-------------~~~l~~~l---~~~~~gs~iivTtr~~~----  200 (294)
                      +..... .....+... -..+..+|+||++.....             ...+...+   .....+..||.||....    
T Consensus       124 ~~g~~~-~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~  202 (355)
T 2qp9_X          124 WMGESE-KLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDS  202 (355)
T ss_dssp             C---CH-HHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCH
T ss_pred             hcchHH-HHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCH
Confidence            011122 222233332 245788999999975210             11221111   11223455666665442    


Q ss_pred             -HhhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCC-hHHHHHH
Q 048597          201 -VCGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCL-PLALKTV  260 (294)
Q Consensus       201 -v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~Gl-Plai~~i  260 (294)
                       +..  .... +.+...+.++-.++|...+........   ......|++.+.|. |-.|..+
T Consensus       203 al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~---~~~l~~la~~t~G~sg~dl~~l  260 (355)
T 2qp9_X          203 AIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLT---KEDYRTLGAMTEGYSGSDIAVV  260 (355)
T ss_dssp             HHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCC---HHHHHHHHHHTTTCCHHHHHHH
T ss_pred             HHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCC---HHHHHHHHHHcCCCCHHHHHHH
Confidence             222  3334 888999999999999887754321111   24457899999984 4344443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.55  E-value=9.7e-08  Score=82.90  Aligned_cols=151  Identities=14%  Similarity=0.137  Sum_probs=82.5

Q ss_pred             ceeehhHHHHHHHHHHhcC-------------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHH--HHhCCCCCCcc
Q 048597           79 TVIRQELLLDRVWRFVTDQ-------------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIG--KKIGLSTKSWQ  143 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~--~~~~~~~~~~~  143 (294)
                      .++|.+..++.+.+++...             ......+.|+|++|+|||+||+.+.+...-.....  ..+.+......
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            5799998888887766421             23455799999999999999987743221100000  00000001000


Q ss_pred             cCChHHHHHHHHHHh-ccCCeEEEEccccCc-----------cchhhhcCCcCCCCCCcEEEEecCChHH----------
Q 048597          144 ENSFEDKALDIAGIL-SRKRFVLLLDDIWEH-----------INLNKLGVPLQYLHLGSKIVFTTNSRVV----------  201 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~-----------~~~~~l~~~l~~~~~gs~iivTtr~~~v----------  201 (294)
                      ..-.......+...+ ..+..+|+||++...           .....+...+.....+..+|+||.....          
T Consensus       112 ~~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l  191 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGF  191 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTH
T ss_pred             hhcccccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHH
Confidence            000000111122222 124569999999732           2233443333334445677888764321          


Q ss_pred             hhccCCceeecCCCCHHHHHHHHHHHhCC
Q 048597          202 CGQMEATMLNASPLRDEEAWRLFEEAVGR  230 (294)
Q Consensus       202 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~  230 (294)
                      ...+. ..+++.+++.++...++...+..
T Consensus       192 ~~R~~-~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          192 RSRIA-HHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             HHHEE-EEEEECCCCHHHHHHHHHHHHHH
T ss_pred             HHhCC-eEEEcCCcCHHHHHHHHHHHHHH
Confidence            22221 22999999999999999887643

>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=98.53  E-value=2.7e-07  Score=80.72  Aligned_cols=171  Identities=11%  Similarity=0.036  Sum_probs=98.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|.+..+..+..++..+. ...++.+.|++|+||||+|+.+.+...     ...+.+..   ...........+.+.
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~l~-----~~~~~i~~---~~~~~~~i~~~~~~~   96 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHDVN-----ADMMFVNG---SDCKIDFVRGPLTNF   96 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHHTT-----EEEEEEET---TTCCHHHHHTHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhC-----CCEEEEcc---cccCHHHHHHHHHHH
Confidence            568999999999999998652 346788889999999999988843210     00011111   112234444444443


Q ss_pred             hc-----cCCeEEEEccccCcc---chhhhcCCcCCCCCCcEEEEecCChH-----HhhccCCceeecCCCCHHHHHHHH
Q 048597          158 LS-----RKRFVLLLDDIWEHI---NLNKLGVPLQYLHLGSKIVFTTNSRV-----VCGQMEATMLNASPLRDEEAWRLF  224 (294)
Q Consensus       158 l~-----~kr~LlvlDdv~~~~---~~~~l~~~l~~~~~gs~iivTtr~~~-----v~~~~~~~~~~l~~L~~~~~~~Lf  224 (294)
                      ..     ++..++++||++...   ..+.+...+.....+.++|+||....     +...+  ..+++.+++.++-.+++
T Consensus        97 ~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~--~~i~~~~~~~~e~~~il  174 (324)
T 3u61_B           97 ASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRC--RVITFGQPTDEDKIEMM  174 (324)
T ss_dssp             HHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHS--EEEECCCCCHHHHHHHH
T ss_pred             HhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhC--cEEEeCCCCHHHHHHHH
Confidence            32     367899999997643   33333333322223467888876543     12222  23899999988743332


Q ss_pred             -------HHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHH
Q 048597          225 -------EEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVG  261 (294)
Q Consensus       225 -------~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~  261 (294)
                             ...+.......++  .+....|++.++|.+-.+....
T Consensus       175 ~~~~~~l~~~~~~~~~~~~~--~~~~~~l~~~~~gd~R~a~~~L  216 (324)
T 3u61_B          175 KQMIRRLTEICKHEGIAIAD--MKVVAALVKKNFPDFRKTIGEL  216 (324)
T ss_dssp             HHHHHHHHHHHHHHTCCBSC--HHHHHHHHHHTCSCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCCc--HHHHHHHHHhCCCCHHHHHHHH
Confidence                   2222222211111  2566889999998776544433

>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=98.52  E-value=5.7e-06  Score=71.63  Aligned_cols=164  Identities=15%  Similarity=0.081  Sum_probs=93.8

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChh----------HHHHHHHHHhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLK----------KIQADIGKKIG  136 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~----------~i~~~i~~~~~  136 (294)
                      ..++|.+..++.|.+++...           -.....|.|+|++|+||||||+.+.+..          .+..   ..++
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~---~~~g   91 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLT---MWFG   91 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHH---HHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHh---hhcC
Confidence            45889998888888776531           1245789999999999999999984321          1111   1111


Q ss_pred             CCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCcc----------------chhhhcCCcC--CCCCCcEEEEecCC
Q 048597          137 LSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHI----------------NLNKLGVPLQ--YLHLGSKIVFTTNS  198 (294)
Q Consensus       137 ~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~----------------~~~~l~~~l~--~~~~gs~iivTtr~  198 (294)
                      .        ........+.........+|++|++....                ....+...+.  ....+..||.||..
T Consensus        92 ~--------~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~  163 (301)
T 3cf0_A           92 E--------SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR  163 (301)
T ss_dssp             T--------CTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESC
T ss_pred             c--------hHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCC
Confidence            1        11122222333334567899999997411                0122211111  12234567777765


Q ss_pred             hHHh-h-cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          199 RVVC-G-QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       199 ~~v~-~-~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      .... . ..   .... +.+...+.++-.+++...+.........++    ..+++.+.|.|-+
T Consensus       164 ~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~----~~la~~~~g~sg~  223 (301)
T 3cf0_A          164 PDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDL----EFLAKMTNGFSGA  223 (301)
T ss_dssp             GGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCH----HHHHHTCSSCCHH
T ss_pred             ccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchH----HHHHHHcCCCCHH
Confidence            4321 1 11   2333 889999999999998877754332222333    4566678887643

>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=98.50  E-value=1.6e-06  Score=75.76  Aligned_cols=153  Identities=15%  Similarity=0.217  Sum_probs=84.4

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh-------------HHHHHHHHHhCCCCCCcccCChHHHHHH
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK-------------KIQADIGKKIGLSTKSWQENSFEDKALD  153 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-------------~i~~~i~~~~~~~~~~~~~~~~~~~~~~  153 (294)
                      ...+..++.........+.|+|++|+||||||+.+.+..             .+...+...+.       ....    ..
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~-------~~~~----~~   91 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLK-------KGTI----NE   91 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHH-------HTCH----HH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHH-------cCcH----HH
Confidence            344445444443345789999999999999999885422             11111111110       0000    11


Q ss_pred             HHHHhccCCeEEEEccccCcc---c-hhhhcCCcCC-CCCCcEEEEecCChH---------HhhccCCce-eecCCCCHH
Q 048597          154 IAGILSRKRFVLLLDDIWEHI---N-LNKLGVPLQY-LHLGSKIVFTTNSRV---------VCGQMEATM-LNASPLRDE  218 (294)
Q Consensus       154 l~~~l~~kr~LlvlDdv~~~~---~-~~~l~~~l~~-~~~gs~iivTtr~~~---------v~~~~~~~~-~~l~~L~~~  218 (294)
                      +...+ .+..+|+|||+....   . ...+...+.. ...|..+|+||.+..         +...+.... +++.+ +.+
T Consensus        92 ~~~~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~  169 (324)
T 1l8q_A           92 FRNMY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNK  169 (324)
T ss_dssp             HHHHH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHH
T ss_pred             HHHHh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHH
Confidence            12222 246799999997632   1 2223222211 123557888776431         222333323 89999 999


Q ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          219 EAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       219 ~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      +...++...+.......+   .+....|++.+ |.+-.
T Consensus       170 e~~~il~~~~~~~~~~l~---~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          170 TRFKIIKEKLKEFNLELR---KEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHHHHHHHHHHHTTCCCC---HHHHHHHHHHC-SSHHH
T ss_pred             HHHHHHHHHHHhcCCCCC---HHHHHHHHHhC-CCHHH
Confidence            999999887743222222   35667888888 76643

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.46  E-value=3.9e-06  Score=75.35  Aligned_cols=177  Identities=14%  Similarity=0.045  Sum_probs=96.3

Q ss_pred             CceeehhHHHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCccc---
Q 048597           78 RTVIRQELLLDRVWRFVTDQ----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQE---  144 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~---  144 (294)
                      ..++|.+..+..|..++...          ....+.|.|+|++|+|||+||+.+......     ..+.+.......   
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~-----~~~~v~~~~l~~~~~  189 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA-----TFFNISAASLTSKYV  189 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEECSCCC-----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC-----cEEEeeHHHhhcccc
Confidence            46899999999998887321          113478999999999999999988332100     000111111110   


Q ss_pred             CChHHHHHHHHHHh-ccCCeEEEEccccCcc-------------chhhhcCCc---CC-CCCCcEEEEecCChHH---hh
Q 048597          145 NSFEDKALDIAGIL-SRKRFVLLLDDIWEHI-------------NLNKLGVPL---QY-LHLGSKIVFTTNSRVV---CG  203 (294)
Q Consensus       145 ~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~-------------~~~~l~~~l---~~-~~~gs~iivTtr~~~v---~~  203 (294)
                      .........+.... .....+|+||+++...             ....+...+   .. ......||.||.....   +-
T Consensus       190 g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l  269 (389)
T 3vfd_A          190 GEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAV  269 (389)
T ss_dssp             --CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHH
T ss_pred             chHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHH
Confidence            01122222333322 3456899999996420             011111111   11 1223455656654221   11


Q ss_pred             ccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH-HHHHHHH
Q 048597          204 QMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL-ALKTVGR  262 (294)
Q Consensus       204 ~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl-ai~~i~~  262 (294)
                      .-.... +.+...+.++..+++...+......   -..+....|++.+.|..- ++..+..
T Consensus       270 ~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~---l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          270 LRRFIKRVYVSLPNEETRLLLLKNLLCKQGSP---LTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             HTTCCEEEECCCCCHHHHHHHHHHHHTTSCCC---SCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HcCcceEEEcCCcCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            112333 8888899999999998877543311   123456889999998654 5555443

>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=98.40  E-value=5.9e-06  Score=76.38  Aligned_cols=172  Identities=15%  Similarity=0.072  Sum_probs=97.1

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----H-HHHHHHHhCCCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----I-QADIGKKIGLSTK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i-~~~i~~~~~~~~~  140 (294)
                      ..++|.+..+.+|.+++...           .....-|.|+|++|+|||+||+.+.+...     + ...+...      
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~------  277 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK------  277 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTS------
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhh------
Confidence            35899999999888877532           23556799999999999999999833210     0 0011100      


Q ss_pred             CcccCChHHHHHHHHHHhccCCeEEEEccccCc--------c-----chhhhcCCcC--CCCCCcEEEEecCChHH----
Q 048597          141 SWQENSFEDKALDIAGILSRKRFVLLLDDIWEH--------I-----NLNKLGVPLQ--YLHLGSKIVFTTNSRVV----  201 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~--------~-----~~~~l~~~l~--~~~~gs~iivTtr~~~v----  201 (294)
                       ............+.....++..+|+||++...        .     ....+...+.  ....+..||.||.....    
T Consensus       278 -~~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~a  356 (489)
T 3hu3_A          278 -LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPA  356 (489)
T ss_dssp             -CTTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGG
T ss_pred             -hcchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHH
Confidence             01111222233334444567789999999531        0     1111211111  12234466666665422    


Q ss_pred             -hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCC-hHHHHHH
Q 048597          202 -CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCL-PLALKTV  260 (294)
Q Consensus       202 -~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~Gl-Plai~~i  260 (294)
                       ........ +.+...+.++-.++|..++..........+    .++++.+.|. +-.+..+
T Consensus       357 l~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l----~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          357 LRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDL----EQVANETHGHVGADLAAL  414 (489)
T ss_dssp             GGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCH----HHHHHTCTTCCHHHHHHH
T ss_pred             HhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhH----HHHHHHccCCcHHHHHHH
Confidence             11122333 889999999999999888754432333333    5567778775 4444443

>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=98.38  E-value=1.8e-06  Score=79.04  Aligned_cols=175  Identities=14%  Similarity=0.036  Sum_probs=95.8

Q ss_pred             CceeehhHHHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHhhChh-HHHHHHHHHhCCCCCCc----
Q 048597           78 RTVIRQELLLDRVWRFVTD----------QERNRGIIGLYGTGGVGKTTLLKQRANLK-KIQADIGKKIGLSTKSW----  142 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-~i~~~i~~~~~~~~~~~----  142 (294)
                      ..++|.+..++.|.+.+..          .....+.|.|+|++|+|||+||+.+.+.. ..     ..+.+.....    
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~-----~~~~v~~~~l~~~~  208 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS-----TFFSISSSDLVSKW  208 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSS-----EEEEECCC------
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCC-----CEEEEeHHHHHhhh
Confidence            4589999988888887631          11245789999999999999999885422 00     0000010000    


Q ss_pred             ccCChHHHHHHHHHH-hccCCeEEEEccccCcc-------------chhhhcCCcCC---CCCCcEEEEecCChHH---h
Q 048597          143 QENSFEDKALDIAGI-LSRKRFVLLLDDIWEHI-------------NLNKLGVPLQY---LHLGSKIVFTTNSRVV---C  202 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~-l~~kr~LlvlDdv~~~~-------------~~~~l~~~l~~---~~~gs~iivTtr~~~v---~  202 (294)
                      ...... ....+... -..+..+|+||++....             ....+...+..   ...+..||.||.....   +
T Consensus       209 ~g~~~~-~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~a  287 (444)
T 2zan_A          209 LGESEK-LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSA  287 (444)
T ss_dssp             ---CCC-THHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHH
T ss_pred             cchHHH-HHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHH
Confidence            000111 11222222 24567899999997530             01122222211   2335566767755422   1


Q ss_pred             hccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCC-hHHHHHHH
Q 048597          203 GQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCL-PLALKTVG  261 (294)
Q Consensus       203 ~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~Gl-Plai~~i~  261 (294)
                      -.-.... +.+...+.++-..+|..++........   ......|++.+.|. +-.|..+.
T Consensus       288 l~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~---~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          288 IRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLT---EADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             HHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECC---HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHcCCCCHHHHHHHH
Confidence            1113333 778888888888999887754321111   24457899999995 43444443

>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=98.38  E-value=9.4e-06  Score=71.34  Aligned_cols=167  Identities=10%  Similarity=0.010  Sum_probs=96.4

Q ss_pred             hHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhC-----CCCCC-cc
Q 048597           84 ELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIG-----LSTKS-WQ  143 (294)
Q Consensus        84 ~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~-----~~~~~-~~  143 (294)
                      ++..+.+...+..+ .-.+.+.++|+.|+||||+|+.+....              ..-..+...-.     +.... ..
T Consensus         8 ~~~~~~l~~~i~~~-~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   86 (334)
T 1a5t_A            8 RPDFEKLVASYQAG-RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKN   86 (334)
T ss_dssp             HHHHHHHHHHHHTT-CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCS
T ss_pred             HHHHHHHHHHHHcC-CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCC
Confidence            44566777777655 134579999999999999998872110              01111111100     10000 01


Q ss_pred             cCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhh-c-cCCceeecC
Q 048597          144 ENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCG-Q-MEATMLNAS  213 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~-~-~~~~~~~l~  213 (294)
                      ....++. ..+.+.+     .+++.++|+|+++..  ...+.+...+.....++.+|++|.+.. +.. . -.+..+++.
T Consensus        87 ~~~i~~i-r~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~  165 (334)
T 1a5t_A           87 TLGVDAV-REVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLA  165 (334)
T ss_dssp             SBCHHHH-HHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             CCCHHHH-HHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCC
Confidence            1223333 2344443     356789999999763  334445444444444567777766543 211 1 122349999


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHH
Q 048597          214 PLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTV  260 (294)
Q Consensus       214 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i  260 (294)
                      ++++++..+.+.+...     .+   .+....+++.++|.|..+..+
T Consensus       166 ~~~~~~~~~~L~~~~~-----~~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          166 PPPEQYAVTWLSREVT-----MS---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             CCCHHHHHHHHHHHCC-----CC---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             CCCHHHHHHHHHHhcC-----CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            9999999998887751     11   245578999999999766543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.35  E-value=1.4e-05  Score=68.70  Aligned_cols=175  Identities=13%  Similarity=0.042  Sum_probs=95.9

Q ss_pred             CceeehhHHHHHHHHHHhcC----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc---cc
Q 048597           78 RTVIRQELLLDRVWRFVTDQ----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW---QE  144 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~---~~  144 (294)
                      ..++|.+..++.+.+++...          ......+.|+|++|+||||||+.+......     ..+.+.....   ..
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~-----~~~~i~~~~l~~~~~   95 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSA-----TFLNISAASLTSKYV   95 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTC-----EEEEEESTTTSSSSC
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCC-----CeEEeeHHHHhhccc
Confidence            46899999999988877431          113578999999999999999988432110     0000111110   01


Q ss_pred             CChHHHHHHHHHH-hccCCeEEEEccccCccc-------------hhhhc---CCcCCC--CCCcEEEEecCChH-----
Q 048597          145 NSFEDKALDIAGI-LSRKRFVLLLDDIWEHIN-------------LNKLG---VPLQYL--HLGSKIVFTTNSRV-----  200 (294)
Q Consensus       145 ~~~~~~~~~l~~~-l~~kr~LlvlDdv~~~~~-------------~~~l~---~~l~~~--~~gs~iivTtr~~~-----  200 (294)
                      .........+... ...+..+|+||++.....             ...+.   ..++..  ..+..||.||....     
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~  175 (297)
T 3b9p_A           96 GDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEA  175 (297)
T ss_dssp             SCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHH
T ss_pred             chHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHH
Confidence            1222333333332 245678999999965210             00111   111111  12345666666532     


Q ss_pred             HhhccCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH-HHHHHH
Q 048597          201 VCGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL-ALKTVG  261 (294)
Q Consensus       201 v~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl-ai~~i~  261 (294)
                      +...+. ..+.+...+.++...++...+.......   -......+++.+.|.+- ++..+.
T Consensus       176 l~~R~~-~~i~~~~p~~~~r~~il~~~~~~~~~~~---~~~~~~~la~~~~g~~~~~l~~l~  233 (297)
T 3b9p_A          176 ALRRFT-KRVYVSLPDEQTRELLLNRLLQKQGSPL---DTEALRRLAKITDGYSGSDLTALA  233 (297)
T ss_dssp             HHHHCC-EEEECCCCCHHHHHHHHHHHHGGGSCCS---CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HHhhCC-eEEEeCCcCHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            222222 1277778888888888877664322111   13456789999999886 554443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.32  E-value=7.2e-06  Score=73.38  Aligned_cols=196  Identities=16%  Similarity=0.120  Sum_probs=107.4

Q ss_pred             CceeehhHHHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTD-----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~  146 (294)
                      ..+.|.++.+++|.+.+.-           +-..++-|.++||+|+|||.||+.+.+....     ..+.+........-
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~-----~f~~v~~s~l~sk~  222 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDC-----KFIRVSGAELVQKY  222 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTC-----EEEEEEGGGGSCSS
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCC-----CceEEEhHHhhccc
Confidence            3467888888777766542           1235678999999999999999988432110     00011111111111


Q ss_pred             ---hHHHHHHHHHH-hccCCeEEEEccccCcc----------c------hhhhcCCcC--CCCCCcEEEEecCChHH---
Q 048597          147 ---FEDKALDIAGI-LSRKRFVLLLDDIWEHI----------N------LNKLGVPLQ--YLHLGSKIVFTTNSRVV---  201 (294)
Q Consensus       147 ---~~~~~~~l~~~-l~~kr~LlvlDdv~~~~----------~------~~~l~~~l~--~~~~gs~iivTtr~~~v---  201 (294)
                         .+.....++.. -...+++|++|++....          +      ...+...+.  ....+..||.||...+.   
T Consensus       223 vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDp  302 (405)
T 4b4t_J          223 IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDP  302 (405)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCH
T ss_pred             cchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCH
Confidence               12222233322 24678999999997520          0      111111111  12334456677764432   


Q ss_pred             --hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH-HHHH---HHH--HcCC---CC
Q 048597          202 --CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA-LKTV---GRA--MRSI---SS  269 (294)
Q Consensus       202 --~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla-i~~i---~~~--L~~~---~~  269 (294)
                        ........ +++...+.++-.++|+.+.........-++    ..+++.|.|+-=| |..+   |.+  ++.+   -+
T Consensus       303 AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl----~~lA~~t~G~SGADi~~l~~eA~~~Air~~~~~vt  378 (405)
T 4b4t_J          303 ALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINL----RKVAEKMNGCSGADVKGVCTEAGMYALRERRIHVT  378 (405)
T ss_dssp             HHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCH----HHHHHHCCSCCHHHHHHHHHHHHHHHHHTTCSBCC
T ss_pred             hHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCH----HHHHHHCCCCCHHHHHHHHHHHHHHHHHcCCCCcC
Confidence              22123334 889888999989999877754432333343    5677888886532 2222   222  3332   35


Q ss_pred             HHHHHHHHHHHHh
Q 048597          270 IEEWEHAIKIILR  282 (294)
Q Consensus       270 ~~~w~~~l~~l~~  282 (294)
                      .++++.+++.+..
T Consensus       379 ~~Df~~Al~~v~~  391 (405)
T 4b4t_J          379 QEDFELAVGKVMN  391 (405)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC
Confidence            6788888776644

>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=98.26  E-value=1.3e-05  Score=70.36  Aligned_cols=190  Identities=17%  Similarity=0.095  Sum_probs=102.0

Q ss_pred             CceeehhHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDI  154 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l  154 (294)
                      ..++|.+..++.+...+...   ......+.++|++|+|||||++.+.+....      .+...... ......++.. +
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~------~~~~~sg~-~~~~~~~l~~-~   96 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT------NIHVTSGP-VLVKQGDMAA-I   96 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC------CEEEEETT-TCCSHHHHHH-H
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCC------CEEEEech-HhcCHHHHHH-H
Confidence            45688887777777666532   234578999999999999999988553210      00000000 0111222222 2


Q ss_pred             HHHhccCCeEEEEccccCcc--chhhhcCCcCCC--------C----------CCcEEE-EecCChHH----hhccCCce
Q 048597          155 AGILSRKRFVLLLDDIWEHI--NLNKLGVPLQYL--------H----------LGSKIV-FTTNSRVV----CGQMEATM  209 (294)
Q Consensus       155 ~~~l~~kr~LlvlDdv~~~~--~~~~l~~~l~~~--------~----------~gs~ii-vTtr~~~v----~~~~~~~~  209 (294)
                      ...+ .++.++++|++....  ..+.+...+...        .          ....++ .|++...+    ...+  ..
T Consensus        97 ~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~sR~--~l  173 (334)
T 1in4_A           97 LTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRF--GI  173 (334)
T ss_dssp             HHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTC--SE
T ss_pred             HHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcccCCHHHHHhc--Cc
Confidence            2222 345688889886521  222221111000        0          011222 34443322    2222  22


Q ss_pred             -eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHH------HcC--CCCHHHHHHHHHHH
Q 048597          210 -LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRA------MRS--ISSIEEWEHAIKII  280 (294)
Q Consensus       210 -~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~------L~~--~~~~~~w~~~l~~l  280 (294)
                       +.+++.+.++..+++.+.+.....   ..-.+.+..|++.+.|.|-.+..+...      +..  .-+.+.-+.+++.+
T Consensus       174 ~~~Ld~~~~~~l~~iL~~~~~~~~~---~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~~~~~It~~~v~~al~~~  250 (334)
T 1in4_A          174 ILELDFYTVKELKEIIKRAASLMDV---EIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTMEVL  250 (334)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHH
T ss_pred             eeeCCCCCHHHHHHHHHHHHHHcCC---CcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHh
Confidence             889999999999999887632221   122466899999999999765544322      222  23456666666655


Q ss_pred             H
Q 048597          281 L  281 (294)
Q Consensus       281 ~  281 (294)
                      .
T Consensus       251 ~  251 (334)
T 1in4_A          251 N  251 (334)
T ss_dssp             T
T ss_pred             C
Confidence            3

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.26  E-value=3.9e-05  Score=69.66  Aligned_cols=196  Identities=16%  Similarity=0.098  Sum_probs=105.4

Q ss_pred             ceeehhHHHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCC-
Q 048597           79 TVIRQELLLDRVWRFVTD-----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENS-  146 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~-----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~-  146 (294)
                      .+.|.++.+++|.+.+.-           +-..++-|.++||+|+|||+||+.+.+....     ..+.++.......- 
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~-----~fi~vs~s~L~sk~v  284 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDA-----TFIRVIGSELVQKYV  284 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTC-----EEEEEEGGGGCCCSS
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCC-----CeEEEEhHHhhcccC
Confidence            467888888877766532           1236788999999999999999988432111     00011111111111 


Q ss_pred             --hHHHHHHHH-HHhccCCeEEEEccccCcc--------c--------hhhhcCCcC--CCCCCcEEEEecCChHH---h
Q 048597          147 --FEDKALDIA-GILSRKRFVLLLDDIWEHI--------N--------LNKLGVPLQ--YLHLGSKIVFTTNSRVV---C  202 (294)
Q Consensus       147 --~~~~~~~l~-~~l~~kr~LlvlDdv~~~~--------~--------~~~l~~~l~--~~~~gs~iivTtr~~~v---~  202 (294)
                        .......++ ..-...+++|++|++....        .        ...+...+.  ....+..||.||.....   |
T Consensus       285 Gesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpA  364 (467)
T 4b4t_H          285 GEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPA  364 (467)
T ss_dssp             SHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHH
T ss_pred             CHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChh
Confidence              122222333 2335678999999987420        0        011111111  12234455666654332   1


Q ss_pred             --hccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH-HHHH---HHH--HcCC---CCH
Q 048597          203 --GQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA-LKTV---GRA--MRSI---SSI  270 (294)
Q Consensus       203 --~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla-i~~i---~~~--L~~~---~~~  270 (294)
                        ....... +++...+.++-.++|+.++........-++    ..|++.|.|+--| |..+   |.+  ++..   -+.
T Consensus       365 LlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl----~~LA~~T~GfSGADI~~l~~eAa~~Air~~~~~it~  440 (467)
T 4b4t_H          365 LLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRW----ELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATE  440 (467)
T ss_dssp             HHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCH----HHHHHHCCSCCHHHHHHHHHHHHHHHHHHTCSSBCH
T ss_pred             hhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCH----HHHHHHCCCCCHHHHHHHHHHHHHHHHHcCCCccCH
Confidence              1113344 888888999889999877754332333333    5678888886422 1111   222  2222   356


Q ss_pred             HHHHHHHHHHHhc
Q 048597          271 EEWEHAIKIILRY  283 (294)
Q Consensus       271 ~~w~~~l~~l~~~  283 (294)
                      ++...+++.+...
T Consensus       441 ~Df~~Al~kV~~g  453 (467)
T 4b4t_H          441 KDFLKAVDKVISG  453 (467)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC
Confidence            7788887776543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.24  E-value=9.7e-06  Score=74.63  Aligned_cols=145  Identities=14%  Similarity=0.100  Sum_probs=76.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHH------HhCCCCC-CcccCChHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGK------KIGLSTK-SWQENSFEDK  150 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~------~~~~~~~-~~~~~~~~~~  150 (294)
                      +.++|++.++..+...|...  ...-+.|+|++|+|||+||+.+.....- ..+..      .+.+... .+.......+
T Consensus       180 d~iiGr~~~i~~l~~~l~r~--~~~~~LL~G~pG~GKT~la~~la~~l~~-~~~p~~l~~~~~~~l~~~~~~~g~~e~~~  256 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIIN-NEVPEILRDKRVMTLDMGTKYRGEFEDRL  256 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHS-SCSCTTTSSCCEECC----------CTTH
T ss_pred             CCccCcHHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHHh-CCCChhhcCCeEEEeeCCccccchHHHHH
Confidence            35899999999999999765  4456789999999999999887432100 00000      0000000 0000001111


Q ss_pred             HHHHHHHhccCCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHh---hc-----cCCceeecCCCCHHHHHH
Q 048597          151 ALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVC---GQ-----MEATMLNASPLRDEEAWR  222 (294)
Q Consensus       151 ~~~l~~~l~~kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~---~~-----~~~~~~~l~~L~~~~~~~  222 (294)
                      ...+...-..+..+|++|  ........+...+..+  ..++|.+|......   ..     -....+.+.+.+.++...
T Consensus       257 ~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~~g--~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~p~~e~~~~  332 (468)
T 3pxg_A          257 KKVMDEIRQAGNIILFID--AAIDASNILKPSLARG--ELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQ  332 (468)
T ss_dssp             HHHHHHHHTCCCCEEEEC--C--------CCCTTSS--SCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHH
T ss_pred             HHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhcCC--CEEEEecCCHHHHHHHhhcCHHHHHhCccceeCCCCHHHHHH
Confidence            222222224567899999  2222223333333322  34566666544310   00     011238899999999999


Q ss_pred             HHHHHhC
Q 048597          223 LFEEAVG  229 (294)
Q Consensus       223 Lf~~~~~  229 (294)
                      ++.....
T Consensus       333 iL~~~~~  339 (468)
T 3pxg_A          333 ILQGLRD  339 (468)
T ss_dssp             HHHHTTT
T ss_pred             HHHHHHH
Confidence            9987653

>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=98.20  E-value=1.3e-06  Score=74.23  Aligned_cols=169  Identities=14%  Similarity=0.048  Sum_probs=87.1

Q ss_pred             CceeehhHHHHHHHHHHhc----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc----c
Q 048597           78 RTVIRQELLLDRVWRFVTD----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW----Q  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~----~  143 (294)
                      ..++|.+..++.+.+.+..          .....+-+.|+|++|+|||+||+.+.+....     ..+.+.....    .
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~v~~~~~~~~~~   85 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV-----PFFSMGGSSFIEMFV   85 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC-----CCCCCCSCTTTTSCS
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC-----CEEEechHHHHHhhc
Confidence            4578988777777665541          1112345889999999999999988542110     0000110000    0


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCcc-----------------chhhhcCCcCC---CCCCcEEEEecCChHH--
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEHI-----------------NLNKLGVPLQY---LHLGSKIVFTTNSRVV--  201 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~-----------------~~~~l~~~l~~---~~~gs~iivTtr~~~v--  201 (294)
                      ..........+......+..+|+|||+....                 ....+...+..   ......+|.||.....  
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~~ld  165 (268)
T 2r62_A           86 GLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILD  165 (268)
T ss_dssp             SSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCTTSC
T ss_pred             chHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCchhcC
Confidence            0000001111222223466899999996421                 12222222211   1122456667665432  


Q ss_pred             ---hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          202 ---CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       202 ---~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                         ........ +.+.+.+.++-.+++...+..........+    ..|++.+.|.|-
T Consensus       166 ~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~----~~la~~~~g~~g  219 (268)
T 2r62_A          166 PALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNL----QEVAKLTAGLAG  219 (268)
T ss_dssp             GGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCT----TTTTSSSCSSCH
T ss_pred             HhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCH----HHHHHHcCCCCH
Confidence               11112223 888889999988988877643221122222    346777888764

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.20  E-value=2.2e-05  Score=71.25  Aligned_cols=198  Identities=12%  Similarity=0.055  Sum_probs=107.6

Q ss_pred             CceeehhHHHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTD-----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~  146 (294)
                      ..+.|.++.+++|.+.+.-           +-..++-|.++||+|+|||+||+.+.+....     ..+.++.......-
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~-----~~~~v~~s~l~sk~  255 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGA-----NFIFSPASGIVDKY  255 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----EEEEEEGGGTCCSS
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEehhhhcccc
Confidence            3467888877777766642           1235688999999999999999988432210     00001111111111


Q ss_pred             ---hHHHHHHHHHH-hccCCeEEEEccccCcc--------c--------hhhhcCCcC--CCCCCcEEEEecCChHHhh-
Q 048597          147 ---FEDKALDIAGI-LSRKRFVLLLDDIWEHI--------N--------LNKLGVPLQ--YLHLGSKIVFTTNSRVVCG-  203 (294)
Q Consensus       147 ---~~~~~~~l~~~-l~~kr~LlvlDdv~~~~--------~--------~~~l~~~l~--~~~~gs~iivTtr~~~v~~-  203 (294)
                         .......++.. -...+++|++|++....        .        ...+...+.  ....+..||.||....... 
T Consensus       256 ~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDp  335 (437)
T 4b4t_L          256 IGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDP  335 (437)
T ss_dssp             SSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCT
T ss_pred             chHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCH
Confidence               12222233332 24678999999997410        0        111111111  1233456777776544311 


Q ss_pred             -c--c-CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH-HHHH---HHH--HcCC---CC
Q 048597          204 -Q--M-EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA-LKTV---GRA--MRSI---SS  269 (294)
Q Consensus       204 -~--~-~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla-i~~i---~~~--L~~~---~~  269 (294)
                       .  . .... +++...+.+.-.++|+.+..........++    ..+++.+.|+-=| |..+   |.+  ++..   -+
T Consensus       336 AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl----~~lA~~t~G~sGADi~~l~~eA~~~air~~~~~i~  411 (437)
T 4b4t_L          336 ALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDF----EAAVKMSDGFNGADIRNCATEAGFFAIRDDRDHIN  411 (437)
T ss_dssp             TTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCH----HHHHHTCCSCCHHHHHHHHHHHHHHHHHTTCSSBC
T ss_pred             HHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCH----HHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCCC
Confidence             1  1 1233 888888888888888877644332233343    5677888886532 2222   222  2322   35


Q ss_pred             HHHHHHHHHHHHhcC
Q 048597          270 IEEWEHAIKIILRYG  284 (294)
Q Consensus       270 ~~~w~~~l~~l~~~~  284 (294)
                      .++...+++.+....
T Consensus       412 ~~d~~~Al~~v~~~~  426 (437)
T 4b4t_L          412 PDDLMKAVRKVAEVK  426 (437)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcc
Confidence            677888887776643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.16  E-value=3.2e-07  Score=70.68  Aligned_cols=45  Identities=18%  Similarity=0.240  Sum_probs=35.0

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .++|+...+.++.+.+..-.....-|.|+|++|+|||++|+.+.+
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~   46 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQ   46 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHH
Confidence            478999999999888865333445688999999999999998854

>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=98.16  E-value=2.7e-06  Score=73.51  Aligned_cols=47  Identities=26%  Similarity=0.275  Sum_probs=36.8

Q ss_pred             cCceeehhHHHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           77 ERTVIRQELLLDRVWRFVTDQ------------ERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...++|.+..++.+...+...            ......+.++|++|+|||+||+.+..
T Consensus        14 ~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           14 DQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hhhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            356899999999988877641            12356788999999999999998843

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.13  E-value=1.2e-05  Score=72.92  Aligned_cols=199  Identities=14%  Similarity=0.075  Sum_probs=102.9

Q ss_pred             CceeehhHHHHHHHHHHhc----C-------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTD----Q-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~  146 (294)
                      ..+.|.++.+++|.+.+..    +       -..++-|.++||+|+|||+||+.+.+....     ..+.++.......-
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~-----~f~~v~~s~l~~~~  255 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNA-----TFLKLAAPQLVQMY  255 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC-----EEEEEEGGGGCSSC
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCC-----CEEEEehhhhhhcc
Confidence            3477888888888776532    1       235678999999999999999988432110     00001111111111


Q ss_pred             ---hHHHHHHHHH-HhccCCeEEEEccccCc-------c-----c----hhhhcCCcC--CCCCCcEEEEecCChHH---
Q 048597          147 ---FEDKALDIAG-ILSRKRFVLLLDDIWEH-------I-----N----LNKLGVPLQ--YLHLGSKIVFTTNSRVV---  201 (294)
Q Consensus       147 ---~~~~~~~l~~-~l~~kr~LlvlDdv~~~-------~-----~----~~~l~~~l~--~~~~gs~iivTtr~~~v---  201 (294)
                         .......++. .-...+++|++|++...       .     .    ...+...+.  ....+..||.||.....   
T Consensus       256 vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~  335 (434)
T 4b4t_M          256 IGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDP  335 (434)
T ss_dssp             SSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCT
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCH
Confidence               1222333332 22467899999998641       0     0    011111111  12234456667765432   


Q ss_pred             hh--ccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH-HHHH---HHH--HcCC---CC
Q 048597          202 CG--QMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA-LKTV---GRA--MRSI---SS  269 (294)
Q Consensus       202 ~~--~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla-i~~i---~~~--L~~~---~~  269 (294)
                      |-  ...... +++...+.+.-.++|+.+.........-++    ..|++.|.|+-=| |..+   |.+  ++..   -+
T Consensus       336 AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl----~~lA~~t~G~sGADi~~l~~eA~~~a~r~~~~~i~  411 (434)
T 4b4t_M          336 ALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINW----QELARSTDEFNGAQLKAVTVEAGMIALRNGQSSVK  411 (434)
T ss_dssp             TTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCH----HHHHHHCSSCCHHHHHHHHHHHHHHHHHHTCSSBC
T ss_pred             hHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCH----HHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCCcC
Confidence            11  112233 888888888888888766533221222333    5677888885422 2222   222  2222   24


Q ss_pred             HHHHHHHHHHHHhcCC
Q 048597          270 IEEWEHAIKIILRYGR  285 (294)
Q Consensus       270 ~~~w~~~l~~l~~~~~  285 (294)
                      .++...+++.++...+
T Consensus       412 ~~Df~~Al~~v~~~~~  427 (434)
T 4b4t_M          412 HEDFVEGISEVQARKS  427 (434)
T ss_dssp             HHHHHHHHHSCSSSCC
T ss_pred             HHHHHHHHHHHhCCCC
Confidence            5666666655544433

>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=98.13  E-value=4.7e-06  Score=66.32  Aligned_cols=41  Identities=27%  Similarity=0.296  Sum_probs=28.7

Q ss_pred             hhHHHHHHHHHHhcCC-CCceEEEEEcCCCChHHHHHHHhhC
Q 048597           83 QELLLDRVWRFVTDQE-RNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~-~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....++.+.+++.+-. .....+.|+|++|+|||||++.+.+
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLK   60 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4445555555554321 1357899999999999999998844

>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=98.13  E-value=3.7e-05  Score=70.62  Aligned_cols=195  Identities=17%  Similarity=0.142  Sum_probs=101.8

Q ss_pred             CceeehhHHHHHHHHHHhc---C-------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC--
Q 048597           78 RTVIRQELLLDRVWRFVTD---Q-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN--  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~---~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~--  145 (294)
                      ..++|.+..++++.+.+..   .       -...+-|.|+|++|+||||||+.+.+....     ..+.++.......  
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~-----~f~~is~~~~~~~~~   90 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANV-----PFFHISGSDFVELFV   90 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTC-----CEEEEEGGGTTTCCT
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCC-----CeeeCCHHHHHHHHh
Confidence            4578988877666665432   1       112345889999999999999998542210     0000111111111  


Q ss_pred             --ChHHHHHHHHHHhccCCeEEEEccccCcc----------------chhhhcCCcC--CCCCCcEEEEecCChHHhh--
Q 048597          146 --SFEDKALDIAGILSRKRFVLLLDDIWEHI----------------NLNKLGVPLQ--YLHLGSKIVFTTNSRVVCG--  203 (294)
Q Consensus       146 --~~~~~~~~l~~~l~~kr~LlvlDdv~~~~----------------~~~~l~~~l~--~~~~gs~iivTtr~~~v~~--  203 (294)
                        ........+.......+++|+||++....                ....+...+.  ....+..||.||.......  
T Consensus        91 g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~a  170 (476)
T 2ce7_A           91 GVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPA  170 (476)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGG
T ss_pred             cccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchh
Confidence              11122223333345678999999996520                1122221111  1123556777776654321  


Q ss_pred             cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH-HHHHHH---HHH--cC---CCCH
Q 048597          204 QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL-ALKTVG---RAM--RS---ISSI  270 (294)
Q Consensus       204 ~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl-ai~~i~---~~L--~~---~~~~  270 (294)
                      ..   .... +.+.+.+.++-.+++..++.........++    ..+++.+.|..- -+..+.   .++  +.   .-+.
T Consensus       171 llR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l----~~la~~t~G~sgadL~~lv~~Aal~A~~~~~~~I~~  246 (476)
T 2ce7_A          171 LLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNL----EIIAKRTPGFVGADLENLVNEAALLAAREGRDKITM  246 (476)
T ss_dssp             GGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCH----HHHHHTCTTCCHHHHHHHHHHHHHHHHHTTCSSBCH
T ss_pred             hcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhH----HHHHHhcCCCcHHHHHHHHHHHHHHHHHcCCCeecH
Confidence            11   2233 788888888888888776644332222222    457888999772 222221   111  11   1345


Q ss_pred             HHHHHHHHHHH
Q 048597          271 EEWEHAIKIIL  281 (294)
Q Consensus       271 ~~w~~~l~~l~  281 (294)
                      ++...+++.+.
T Consensus       247 ~dl~~al~~v~  257 (476)
T 2ce7_A          247 KDFEEAIDRVI  257 (476)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHh
Confidence            66777666553

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.12  E-value=3.4e-05  Score=75.22  Aligned_cols=146  Identities=15%  Similarity=0.124  Sum_probs=77.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH---HHHHH-HHHh-CCCC-CCcccCChHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK---IQADI-GKKI-GLST-KSWQENSFEDKA  151 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---i~~~i-~~~~-~~~~-~~~~~~~~~~~~  151 (294)
                      ..++|++.++.++...|...  ...-+.++|++|+|||++|+.+.....   +-..+ ...+ .+.. ..+.......+.
T Consensus       180 d~iiG~~~~i~~l~~~l~~~--~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~~e~~l~  257 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDRLK  257 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTTHH
T ss_pred             CCccCchHHHHHHHHHHhCC--CCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccchHHHHHH
Confidence            35899999999999999875  445678999999999999988743210   00000 0000 0000 000011111222


Q ss_pred             HHHHHHhccCCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHH--------hhccCCceeecCCCCHHHHHHH
Q 048597          152 LDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVV--------CGQMEATMLNASPLRDEEAWRL  223 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v--------~~~~~~~~~~l~~L~~~~~~~L  223 (294)
                      ..+......++.+|++|  ........+...+.  ....++|.+|.....        +-.-....+.+.+.+.++..++
T Consensus       258 ~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~p~~~~~~~i  333 (758)
T 3pxi_A          258 KVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQI  333 (758)
T ss_dssp             HHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHHH
T ss_pred             HHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHH
Confidence            23333334678899999  22222222333332  223466666654431        0001122389999999999999


Q ss_pred             HHHHhC
Q 048597          224 FEEAVG  229 (294)
Q Consensus       224 f~~~~~  229 (294)
                      +.....
T Consensus       334 l~~~~~  339 (758)
T 3pxi_A          334 LQGLRD  339 (758)
T ss_dssp             HHHTTT
T ss_pred             HHHHHH
Confidence            986553

>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=98.12  E-value=3.7e-05  Score=74.95  Aligned_cols=147  Identities=16%  Similarity=0.129  Sum_probs=83.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHH---H-HHHH-hCCCCC-----CcccCCh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQA---D-IGKK-IGLSTK-----SWQENSF  147 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~---~-i~~~-~~~~~~-----~~~~~~~  147 (294)
                      ..++||+.++..+.+.|...  ...-+.|+|++|+||||+|+.+.....-..   . .... +.....     .......
T Consensus       186 d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~  263 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF  263 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchH
Confidence            35899999999999999876  456678999999999999998754210000   0 0000 000000     0011123


Q ss_pred             HHHHHHHHHHh-ccCCeEEEEccccCc--------cc---hhhhcCCcCCCCCCcEEEEecCChHHhhcc--------CC
Q 048597          148 EDKALDIAGIL-SRKRFVLLLDDIWEH--------IN---LNKLGVPLQYLHLGSKIVFTTNSRVVCGQM--------EA  207 (294)
Q Consensus       148 ~~~~~~l~~~l-~~kr~LlvlDdv~~~--------~~---~~~l~~~l~~~~~gs~iivTtr~~~v~~~~--------~~  207 (294)
                      ......+.+.+ ..+..+|++||++..        ..   ...+...+..  .+..+|.+|.........        ..
T Consensus       264 e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~--~~~~~I~at~~~~~~~~~~~d~aL~~Rf  341 (758)
T 1r6b_X          264 EKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQEFSNIFEKDRALARRF  341 (758)
T ss_dssp             HHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEEECHHHHHCCCCCTTSSGGGE
T ss_pred             HHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC--CCeEEEEEeCchHHhhhhhcCHHHHhCc
Confidence            33334444444 345789999999753        11   1223333322  235666666654432111        11


Q ss_pred             ceeecCCCCHHHHHHHHHHHh
Q 048597          208 TMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       208 ~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                      ..+.+.+.+.++..+++....
T Consensus       342 ~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          342 QKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             EEEECCCCCHHHHHHHHHHHH
T ss_pred             eEEEcCCCCHHHHHHHHHHHH
Confidence            128899999999888887544

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.12  E-value=2.1e-05  Score=70.81  Aligned_cols=195  Identities=15%  Similarity=0.113  Sum_probs=104.9

Q ss_pred             ceeehhHHHHHHHHHHhc----C-------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC--
Q 048597           79 TVIRQELLLDRVWRFVTD----Q-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN--  145 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~--  145 (294)
                      .+.|.++.+++|.+.+.-    .       -...+-|.++||+|+|||.||+.+.+....     ..+.++.......  
T Consensus       183 DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~-----~fi~v~~s~l~sk~v  257 (437)
T 4b4t_I          183 DIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSA-----TFLRIVGSELIQKYL  257 (437)
T ss_dssp             GTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTC-----EEEEEESGGGCCSSS
T ss_pred             ecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCC-----CEEEEEHHHhhhccC
Confidence            467888877777766532    1       235678999999999999999988432210     0001111111111  


Q ss_pred             -ChHHHHHHHHHHh-ccCCeEEEEccccCcc------------c----hhhhcCCcC--CCCCCcEEEEecCChHHhh--
Q 048597          146 -SFEDKALDIAGIL-SRKRFVLLLDDIWEHI------------N----LNKLGVPLQ--YLHLGSKIVFTTNSRVVCG--  203 (294)
Q Consensus       146 -~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~------------~----~~~l~~~l~--~~~~gs~iivTtr~~~v~~--  203 (294)
                       ..+.....++... ...+++|++|++....            .    ...+...+.  ....+..||.||...+...  
T Consensus       258 Gesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpA  337 (437)
T 4b4t_I          258 GDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPA  337 (437)
T ss_dssp             SHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTT
T ss_pred             chHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHH
Confidence             1222333333332 4668999999987410            0    111111111  1223445667776544311  


Q ss_pred             cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH-HHHH---HH--HHcCC---CCH
Q 048597          204 QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA-LKTV---GR--AMRSI---SSI  270 (294)
Q Consensus       204 ~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla-i~~i---~~--~L~~~---~~~  270 (294)
                      ..   .... +++..-+.++-.++|+.+.........-++    ..|++.+.|+-=| |..+   |.  .++..   -+.
T Consensus       338 LlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl----~~LA~~T~GfSGADI~~l~~eA~~~Air~~~~~It~  413 (437)
T 4b4t_I          338 LIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNL----ETLVTTKDDLSGADIQAMCTEAGLLALRERRMQVTA  413 (437)
T ss_dssp             SSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCH----HHHHHHCCSCCHHHHHHHHHHHHHHHHHTTCSCBCH
T ss_pred             HhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCH----HHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCccCH
Confidence            11   2223 788888888888888877754432333344    5677788876422 2211   22  23332   246


Q ss_pred             HHHHHHHHHHHh
Q 048597          271 EEWEHAIKIILR  282 (294)
Q Consensus       271 ~~w~~~l~~l~~  282 (294)
                      ++.+.+++.+..
T Consensus       414 eDf~~Al~rv~~  425 (437)
T 4b4t_I          414 EDFKQAKERVMK  425 (437)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            778888777654

>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=98.07  E-value=3.1e-06  Score=71.77  Aligned_cols=44  Identities=14%  Similarity=0.130  Sum_probs=33.0

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .++|.+..+.++.+.+..-......|.|+|++|+|||+||+.+.
T Consensus         7 ~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~   50 (265)
T 2bjv_A            7 NLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLH   50 (265)
T ss_dssp             ---CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHH
T ss_pred             cceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHH
Confidence            47899988888887776532234678899999999999999983

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.07  E-value=1.3e-05  Score=69.25  Aligned_cols=45  Identities=31%  Similarity=0.376  Sum_probs=35.7

Q ss_pred             CceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|.+..++.+...+...       ......+.++|++|+||||+|+.+.
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la   68 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLA   68 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHH
Confidence            45789999888888887653       1123589999999999999999883

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.06  E-value=1.3e-06  Score=66.99  Aligned_cols=107  Identities=10%  Similarity=0.067  Sum_probs=58.8

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHh
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGIL  158 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l  158 (294)
                      .++|++..+.++.+.+..-.....-|.|+|++|+|||++|+.+.+...      ..+.+.....    .......+.+. 
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~------~~~~~~~~~~----~~~~~~~~~~~-   73 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT------PWVSPARVEY----LIDMPMELLQK-   73 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS------CEECCSSTTH----HHHCHHHHHHH-
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC------CeEEechhhC----ChHhhhhHHHh-
Confidence            578998888888888764222335688999999999999999976543      1121211110    01111222222 


Q ss_pred             ccCCeEEEEccccCc--cchhhhcCCcCCC-CCCcEEEEecC
Q 048597          159 SRKRFVLLLDDIWEH--INLNKLGVPLQYL-HLGSKIVFTTN  197 (294)
Q Consensus       159 ~~kr~LlvlDdv~~~--~~~~~l~~~l~~~-~~gs~iivTtr  197 (294)
                       .+.-.++||++...  .....+...+... ..+.++|+||.
T Consensus        74 -a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn  114 (143)
T 3co5_A           74 -AEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCS  114 (143)
T ss_dssp             -TTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEE
T ss_pred             -CCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecC
Confidence             23458899999763  2222232222211 23467887775

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.05  E-value=3.3e-06  Score=73.32  Aligned_cols=45  Identities=11%  Similarity=0.172  Sum_probs=36.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.++|+...+.++.+.+..-......|.|+|++|+|||++|+.+.
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~   46 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALH   46 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHH
Confidence            357899999999888887643345678899999999999999983

>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=98.04  E-value=1.3e-05  Score=79.27  Aligned_cols=145  Identities=16%  Similarity=0.182  Sum_probs=76.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHH------HHHHHHHhCCCCCCc-----ccCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKI------QADIGKKIGLSTKSW-----QENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i------~~~i~~~~~~~~~~~-----~~~~  146 (294)
                      ..++||+.++.+++..|...  ....+.++|++|+||||||+.+.....-      ... ...+.+.....     ....
T Consensus       170 d~viGr~~~i~~l~~~l~~~--~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~-~~~~~l~~~~l~~g~~~~g~  246 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKG-KRIVSLQMGSLLAGAKYRGE  246 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTT-CEEEEECC-----------C
T ss_pred             cccCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcC-CeEEEeehHHhhccCccchH
Confidence            34799999999999999775  4456789999999999999887542100      000 00000000000     0011


Q ss_pred             hHHHHHHHHHHhc--cCCeEEEEccccCcc-------chh---hhcCCcCCCCCCcEEEEecCChHH-----hhcc--CC
Q 048597          147 FEDKALDIAGILS--RKRFVLLLDDIWEHI-------NLN---KLGVPLQYLHLGSKIVFTTNSRVV-----CGQM--EA  207 (294)
Q Consensus       147 ~~~~~~~l~~~l~--~kr~LlvlDdv~~~~-------~~~---~l~~~l~~~~~gs~iivTtr~~~v-----~~~~--~~  207 (294)
                      .......+...+.  +++.+|++|+++...       .++   .+...+..  .+..+|.+|.....     ....  ..
T Consensus       247 ~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at~~~~~~~~~~d~aL~rRf  324 (854)
T 1qvr_A          247 FEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYREIEKDPALERRF  324 (854)
T ss_dssp             HHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHHHTTCTTTCSCC
T ss_pred             HHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEecCchHHhhhccCHHHHhCC
Confidence            2222233333332  367899999997631       121   12212211  23456655554432     1111  11


Q ss_pred             ceeecCCCCHHHHHHHHHHH
Q 048597          208 TMLNASPLRDEEAWRLFEEA  227 (294)
Q Consensus       208 ~~~~l~~L~~~~~~~Lf~~~  227 (294)
                      ..+.+.+++.++..+++...
T Consensus       325 ~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          325 QPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             CCEEECCCCHHHHHHHHHHH
T ss_pred             ceEEeCCCCHHHHHHHHHhh
Confidence            22889999999999988643

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.01  E-value=8.5e-05  Score=62.46  Aligned_cols=195  Identities=17%  Similarity=0.102  Sum_probs=100.5

Q ss_pred             CceeehhHHHHHHHHHHh---cC-------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCc----c
Q 048597           78 RTVIRQELLLDRVWRFVT---DQ-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSW----Q  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~---~~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~----~  143 (294)
                      ..++|.+..++++.+.+.   ..       .....-+.|+|++|+||||||+.+.+....     ..+.+.....    .
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~-----~~~~i~~~~~~~~~~   86 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV-----PFFTISGSDFVEMFV   86 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC-----CEEEECSCSSTTSCC
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCC-----CEEEEeHHHHHHHhh
Confidence            467898877776655442   21       012346889999999999999998543210     0011111111    1


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCcc----------------chhhhcCCcC--CCCCCcEEEEecCChHH-hh-
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEHI----------------NLNKLGVPLQ--YLHLGSKIVFTTNSRVV-CG-  203 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~----------------~~~~l~~~l~--~~~~gs~iivTtr~~~v-~~-  203 (294)
                      ..........+.........++++|++....                ....+...+.  ....+..||.||..... .. 
T Consensus        87 ~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~~~  166 (257)
T 1lv7_A           87 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPA  166 (257)
T ss_dssp             CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGG
T ss_pred             hhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCCHH
Confidence            1222333333333334556799999985310                0111111111  11234456666655431 11 


Q ss_pred             cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCC-ChHHHHHHHH-----HH-cC--CCCH
Q 048597          204 QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCC-LPLALKTVGR-----AM-RS--ISSI  270 (294)
Q Consensus       204 ~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~G-lPlai~~i~~-----~L-~~--~~~~  270 (294)
                      ..   .... +.+...+.++-.+++...+..........    ...++..+.| .+--+..+..     .. ++  .-+.
T Consensus       167 l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~----~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~~~~i~~  242 (257)
T 1lv7_A          167 LLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSM  242 (257)
T ss_dssp             GGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTCSSBCH
T ss_pred             HcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcccc----HHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCCCcccH
Confidence            11   1223 77888888888888877664332222222    2457788888 6654443321     11 11  1356


Q ss_pred             HHHHHHHHHHH
Q 048597          271 EEWEHAIKIIL  281 (294)
Q Consensus       271 ~~w~~~l~~l~  281 (294)
                      ++++.+++.+.
T Consensus       243 ~~~~~a~~~~~  253 (257)
T 1lv7_A          243 VEFEKAKDKIM  253 (257)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            77777766553

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.97  E-value=7.5e-05  Score=69.00  Aligned_cols=168  Identities=17%  Similarity=0.109  Sum_probs=88.7

Q ss_pred             CceeehhHHHHHHHHHHh---cCC-------CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCCh
Q 048597           78 RTVIRQELLLDRVWRFVT---DQE-------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSF  147 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~---~~~-------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~  147 (294)
                      ..++|.+..+.++.+...   ...       .-.+-+.|+|++|+||||||+.+.+...     ...+.++.........
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~-----~~~i~i~g~~~~~~~~  105 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGSDFVEMFV  105 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT-----CCEEEEEGGGGTSSCT
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEehhHHHHhhh
Confidence            457898877666655543   210       1123499999999999999999854321     0011111111112222


Q ss_pred             HHHHHHHHHHhcc----CCeEEEEccccCcc------------c----hhhhcCCcCC--CCCCcEEEEecCChHHhh--
Q 048597          148 EDKALDIAGILSR----KRFVLLLDDIWEHI------------N----LNKLGVPLQY--LHLGSKIVFTTNSRVVCG--  203 (294)
Q Consensus       148 ~~~~~~l~~~l~~----kr~LlvlDdv~~~~------------~----~~~l~~~l~~--~~~gs~iivTtr~~~v~~--  203 (294)
                      ......+...++.    ...++++|++....            .    ...+...+..  ...+..++.+|.......  
T Consensus       106 g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~a  185 (499)
T 2dhr_A          106 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPA  185 (499)
T ss_dssp             THHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTT
T ss_pred             hhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcc
Confidence            2233344444432    34799999995410            1    1122222221  123345566666554421  


Q ss_pred             cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          204 QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       204 ~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                      ..   .... +.+...+.++-.+++..++..........    ...|+..+.|+.
T Consensus       186 Llr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~----l~~lA~~t~G~~  236 (499)
T 2dhr_A          186 LLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  236 (499)
T ss_dssp             TSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSST----THHHHTTSCSCC
T ss_pred             cccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHH----HHHHHHhcCCCC
Confidence            11   2223 78888888888888877653322111112    245777788866

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.96  E-value=5.4e-06  Score=65.73  Aligned_cols=44  Identities=25%  Similarity=0.354  Sum_probs=37.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|++.+++.+.+.+...  ....+.|+|++|+||||||+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~--~~~~vll~G~~G~GKT~la~~~~~   65 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRR--TKNNPILLGDPGVGKTAIVEGLAI   65 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSS--SSCEEEEESCGGGCHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCC--CCCceEEECCCCCCHHHHHHHHHH
Confidence            45799999999999998775  456789999999999999988743

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.95  E-value=8.9e-05  Score=67.07  Aligned_cols=168  Identities=17%  Similarity=0.148  Sum_probs=86.5

Q ss_pred             CceeehhHHHHHHHHHHhc-----------CCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTD-----------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~-----------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~  146 (294)
                      ..+.|.++.+++|.+.+..           +-..++-|.++||+|+|||+||+.+.+....     ..+.++.......-
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~-----~~~~v~~~~l~~~~  246 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKA-----AFIRVNGSEFVHKY  246 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTC-----EEEEEEGGGTCCSS
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CeEEEecchhhccc
Confidence            3577888888887776642           1235678999999999999999988432110     00001111111111


Q ss_pred             ---hHHHHHHHH-HHhccCCeEEEEccccCcc------------c----hhhhcCCcC--CCCCCcEEEEecCChHH---
Q 048597          147 ---FEDKALDIA-GILSRKRFVLLLDDIWEHI------------N----LNKLGVPLQ--YLHLGSKIVFTTNSRVV---  201 (294)
Q Consensus       147 ---~~~~~~~l~-~~l~~kr~LlvlDdv~~~~------------~----~~~l~~~l~--~~~~gs~iivTtr~~~v---  201 (294)
                         .......++ ..-...++++++|++....            .    ...+...+.  ....+..||.||.....   
T Consensus       247 ~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~LD~  326 (428)
T 4b4t_K          247 LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDP  326 (428)
T ss_dssp             CSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSCCH
T ss_pred             cchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhcCh
Confidence               122222232 2234678999999986310            0    111111111  12334456777764432   


Q ss_pred             --hhccCCce-eecCCCC-HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          202 --CGQMEATM-LNASPLR-DEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       202 --~~~~~~~~-~~l~~L~-~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                        ........ +++..++ .++-..+|..+.........-++    ..+++.|.|+-
T Consensus       327 AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl----~~lA~~t~G~s  379 (428)
T 4b4t_K          327 ALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADL----DSLIIRNDSLS  379 (428)
T ss_dssp             HHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCH----HHHHHHTTTCC
T ss_pred             hhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCH----HHHHHHCCCCC
Confidence              21122333 7776564 45555666655533222223334    56777888764

>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=97.91  E-value=3.9e-05  Score=64.47  Aligned_cols=168  Identities=17%  Similarity=0.107  Sum_probs=83.1

Q ss_pred             CceeehhHHHHHHHHHHhc---C-------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC--
Q 048597           78 RTVIRQELLLDRVWRFVTD---Q-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN--  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~---~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~--  145 (294)
                      ..++|.+..+.++.+....   .       -.-.+-+.|+|++|+|||||++.+......     ..+.+........  
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~-----~~i~~~~~~~~~~~~   90 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGSDFVEMFV   90 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHHHHHHSCT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----CEEEeeHHHHHHHHh
Confidence            4578887666555544321   1       001223899999999999999998543210     0000000000000  


Q ss_pred             -ChHHHHHHHHHHh-ccCCeEEEEccccCcc------------c----hhhhcCCcCCC--CCCcEEEEecCChHHhh--
Q 048597          146 -SFEDKALDIAGIL-SRKRFVLLLDDIWEHI------------N----LNKLGVPLQYL--HLGSKIVFTTNSRVVCG--  203 (294)
Q Consensus       146 -~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~------------~----~~~l~~~l~~~--~~gs~iivTtr~~~v~~--  203 (294)
                       ........+.+.. .....++++|++....            .    ...+...+...  .....++.+|.......  
T Consensus        91 ~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~  170 (254)
T 1ixz_A           91 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPA  170 (254)
T ss_dssp             THHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGG
T ss_pred             hHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHH
Confidence             0111112222222 2346899999995310            1    11221122211  12234455665554321  


Q ss_pred             ---ccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          204 ---QMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       204 ---~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                         ...... +.+...+.++-.+++...+..........+    ..+++.+.|.-
T Consensus       171 l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~----~~la~~~~G~~  221 (254)
T 1ixz_A          171 LLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDL----ALLAKRTPGFV  221 (254)
T ss_dssp             GGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCH----HHHHHTCTTCC
T ss_pred             HcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCH----HHHHHHcCCCC
Confidence               112333 888888988888888776643221222222    46788888864

>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=97.88  E-value=0.0001  Score=67.52  Aligned_cols=93  Identities=10%  Similarity=0.011  Sum_probs=55.7

Q ss_pred             eEEEEccccC--ccchhhhcCCcCCCCCCcEEEEec---------CC----h-----HHhhccCCceeecCCCCHHHHHH
Q 048597          163 FVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTT---------NS----R-----VVCGQMEATMLNASPLRDEEAWR  222 (294)
Q Consensus       163 ~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTt---------r~----~-----~v~~~~~~~~~~l~~L~~~~~~~  222 (294)
                      -++++|+++.  .+..+.+...+...... .+|+.|         .+    .     .+...  +..+.+.+++.++..+
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR--~~~~~~~~~~~~e~~~  373 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDR--VMIIRTMLYTPQEMKQ  373 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTT--EEEEECCCCCHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhh--cceeeCCCCCHHHHHH
Confidence            3899999976  34556665555443333 344344         11    0     01111  1228999999999999


Q ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHhC-CCChHHHHHHH
Q 048597          223 LFEEAVGRYVLDSHPDIPELAKTMAEEC-CCLPLALKTVG  261 (294)
Q Consensus       223 Lf~~~~~~~~~~~~~~~~~~~~~I~~~c-~GlPlai~~i~  261 (294)
                      ++..++.......   -.+....|++.+ .|.|..+..+.
T Consensus       374 iL~~~~~~~~~~~---~~~~~~~i~~~a~~g~~r~a~~ll  410 (456)
T 2c9o_A          374 IIKIRAQTEGINI---SEEALNHLGEIGTKTTLRYSVQLL  410 (456)
T ss_dssp             HHHHHHHHHTCCB---CHHHHHHHHHHHHHSCHHHHHHTH
T ss_pred             HHHHHHHHhCCCC---CHHHHHHHHHHccCCCHHHHHHHH
Confidence            9988763222111   135567888888 88887665543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.85  E-value=1.1e-05  Score=78.74  Aligned_cols=147  Identities=19%  Similarity=0.163  Sum_probs=76.1

Q ss_pred             CceeehhHHHHHHHHHHhcCC-------CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQE-------RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDK  150 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~-------~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~  150 (294)
                      ..++|.+..++.+...+....       .....+.++|++|+|||+||+.+.....-...-...+.+  ..+....... 
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~--s~~~~~~~~~-  567 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDM--SEYMEKHSTS-  567 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEG--GGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEec--hhcccccccc-
Confidence            458999998888888886421       123379999999999999999884422000000000000  0000000000 


Q ss_pred             HHHHHHHhc-cCCeEEEEccccCc--cchhhhcCCcCC-----------CCCCcEEEEecCC-----------------h
Q 048597          151 ALDIAGILS-RKRFVLLLDDIWEH--INLNKLGVPLQY-----------LHLGSKIVFTTNS-----------------R  199 (294)
Q Consensus       151 ~~~l~~~l~-~kr~LlvlDdv~~~--~~~~~l~~~l~~-----------~~~gs~iivTtr~-----------------~  199 (294)
                      ...+...+. ....+|+||++...  .....+...+..           .....+||+||..                 .
T Consensus       568 ~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p  647 (758)
T 3pxi_A          568 GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRP  647 (758)
T ss_dssp             ---CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCH
T ss_pred             cchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCH
Confidence            111222222 33458999999762  222222222111           1134578888873                 1


Q ss_pred             HHhhccCCceeecCCCCHHHHHHHHHHHh
Q 048597          200 VVCGQMEATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       200 ~v~~~~~~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                      .....+. ..+.+.++++++...++...+
T Consensus       648 ~l~~Rl~-~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          648 EFINRID-EIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             HHHTTSS-EEEECC--CHHHHHHHHHHHH
T ss_pred             HHHhhCC-eEEecCCCCHHHHHHHHHHHH
Confidence            1122221 238899999999888876544

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.80  E-value=0.00018  Score=62.23  Aligned_cols=142  Identities=12%  Similarity=0.039  Sum_probs=82.1

Q ss_pred             ehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHH-HHHHhCCCCCCcccCChHHHHHHHHHHh--
Q 048597           82 RQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQAD-IGKKIGLSTKSWQENSFEDKALDIAGIL--  158 (294)
Q Consensus        82 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~-i~~~~~~~~~~~~~~~~~~~~~~l~~~l--  158 (294)
                      |-++.++.|...+..+  +.+.+.++|+.|+||||+|..+......... -...+.+.... .....++... +.+.+  
T Consensus         1 g~~~~~~~L~~~i~~~--~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~-~~~~id~ir~-li~~~~~   76 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG-ENIGIDDIRT-IKDFLNY   76 (305)
T ss_dssp             ---CHHHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS-SCBCHHHHHH-HHHHHTS
T ss_pred             ChHHHHHHHHHHHHCC--CCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc-CCCCHHHHHH-HHHHHhh
Confidence            4456677788888776  3779999999999999999887542000000 00000011000 1223333333 43433  


Q ss_pred             ---ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hh-hccCCceeecCCCCHHHHHHHHHHHh
Q 048597          159 ---SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VC-GQMEATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       159 ---~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~-~~~~~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                         .+++-++|+|+++.  ....+.+...+......+.+|++|.+.. +. ....- .+++.++++++..+.+.+.+
T Consensus        77 ~p~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           77 SPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             CCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCHHHHHHHHHHH
T ss_pred             ccccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHHHHHHHHHHHh
Confidence               24567999999976  3445556555544445667777765432 21 11112 69999999999999888765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.79  E-value=0.00018  Score=61.25  Aligned_cols=147  Identities=14%  Similarity=0.057  Sum_probs=76.0

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENS  146 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~  146 (294)
                      ..+.|.++.++.|.+.+...           -.-.+-+.|+|++|+|||||++.+.+....     ..+.+.........
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~~~   84 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLNMY   84 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCSST
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHhhh
Confidence            34678777777776654211           011233999999999999999988543221     01111111111111


Q ss_pred             hHHHHH---HHHHHh-ccCCeEEEEccccCccc-------------hhhhcCCcCC--CCCCcEEEEecCChHHhh----
Q 048597          147 FEDKAL---DIAGIL-SRKRFVLLLDDIWEHIN-------------LNKLGVPLQY--LHLGSKIVFTTNSRVVCG----  203 (294)
Q Consensus       147 ~~~~~~---~l~~~l-~~kr~LlvlDdv~~~~~-------------~~~l~~~l~~--~~~gs~iivTtr~~~v~~----  203 (294)
                      ......   .+.+.. ....+++++|++.....             ...+...+..  .....-++.+|....+..    
T Consensus        85 ~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~  164 (274)
T 2x8a_A           85 VGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAIL  164 (274)
T ss_dssp             THHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHH
T ss_pred             hhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhc
Confidence            222222   222222 34578999999965210             0111111111  122334556666554311    


Q ss_pred             c-cCCce-eecCCCCHHHHHHHHHHHhC
Q 048597          204 Q-MEATM-LNASPLRDEEAWRLFEEAVG  229 (294)
Q Consensus       204 ~-~~~~~-~~l~~L~~~~~~~Lf~~~~~  229 (294)
                      . ..... +.+...+.++-.++|+....
T Consensus       165 r~gRfd~~i~~~~P~~~~r~~il~~~~~  192 (274)
T 2x8a_A          165 RPGRLDKTLFVGLPPPADRLAILKTITK  192 (274)
T ss_dssp             STTSSCEEEECCSCCHHHHHHHHHHHTT
T ss_pred             CcccCCeEEEeCCcCHHHHHHHHHHHHh
Confidence            1 13334 88888899888888887653

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.78  E-value=6.7e-05  Score=63.97  Aligned_cols=168  Identities=16%  Similarity=0.082  Sum_probs=83.5

Q ss_pred             CceeehhHHHHHHHHHHhcC---------C-CCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccC--
Q 048597           78 RTVIRQELLLDRVWRFVTDQ---------E-RNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQEN--  145 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~---------~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~--  145 (294)
                      ..++|.+..+.++.+....-         . .-.+-+.|+|++|+|||||++.+......     ..+.+........  
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~-----~~i~~~~~~~~~~~~  114 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGSDFVEMFV  114 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHHHHHHSTT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCC-----CEEEecHHHHHHHHh
Confidence            46788887666665544321         0 01223899999999999999998543210     0000000000000  


Q ss_pred             -ChHHHHHHHHHHh-ccCCeEEEEccccCc------------cch----hhhcCCcCCCC--CCcEEEEecCChHH----
Q 048597          146 -SFEDKALDIAGIL-SRKRFVLLLDDIWEH------------INL----NKLGVPLQYLH--LGSKIVFTTNSRVV----  201 (294)
Q Consensus       146 -~~~~~~~~l~~~l-~~kr~LlvlDdv~~~------------~~~----~~l~~~l~~~~--~gs~iivTtr~~~v----  201 (294)
                       ........+.+.. .....++++|++...            ..+    ..+...+....  ....++.+|.....    
T Consensus       115 ~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~  194 (278)
T 1iy2_A          115 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPA  194 (278)
T ss_dssp             THHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHH
T ss_pred             hHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHh
Confidence             0111112222222 245689999999531            011    11211222221  22334455554433    


Q ss_pred             -hhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh
Q 048597          202 -CGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP  254 (294)
Q Consensus       202 -~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP  254 (294)
                       ........ +++...+.++-.+++...+..........    ...++..+.|..
T Consensus       195 l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~----~~~la~~~~G~~  245 (278)
T 1iy2_A          195 LLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  245 (278)
T ss_dssp             HHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             HcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccC----HHHHHHHcCCCC
Confidence             11112333 88888898888888887664322122222    246788888865

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.74  E-value=0.0001  Score=59.51  Aligned_cols=38  Identities=37%  Similarity=0.314  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHhcCCCC--ceEEEEEcCCCChHHHHHHHhh
Q 048597           85 LLLDRVWRFVTDQERN--RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        85 ~~~~~l~~~L~~~~~~--~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++.+..++......  ...+.|+|++|+||||||+.++
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~   75 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIA   75 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHH
Confidence            3555666666654222  2789999999999999999884

>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=97.72  E-value=0.00023  Score=69.25  Aligned_cols=168  Identities=13%  Similarity=0.042  Sum_probs=90.9

Q ss_pred             ceeehhHHHHHHHHHHhc----C-------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC----CCcc
Q 048597           79 TVIRQELLLDRVWRFVTD----Q-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST----KSWQ  143 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~----~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~----~~~~  143 (294)
                      .+.|.++.+++|.+++.-    .       -..++-|.++||+|+|||+||+.+.+.....     .+.+..    ..+.
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~-----~~~v~~~~l~sk~~  279 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPEIMSKLA  279 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE-----EEEEEHHHHHSSCT
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe-----EEEEEhHHhhcccc
Confidence            467887777777666532    1       1356789999999999999999985432110     000000    0001


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCcc--------c-----hhhhcCCcC--CCCCCcEEEEecCChHH-hh---c
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEHI--------N-----LNKLGVPLQ--YLHLGSKIVFTTNSRVV-CG---Q  204 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~--------~-----~~~l~~~l~--~~~~gs~iivTtr~~~v-~~---~  204 (294)
                      ..+...+...+.......+++|+||++....        .     ...+...+.  ....+..||.||...+. -.   .
T Consensus       280 gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR  359 (806)
T 3cf2_A          280 GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR  359 (806)
T ss_dssp             THHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTS
T ss_pred             hHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhC
Confidence            1122223333333345678999999997521        1     111111111  11223345555554332 11   1


Q ss_pred             -cCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          205 -MEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       205 -~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                       ..... +++...+.++-.++|..+..........++    ..|++.+.|+--
T Consensus       360 ~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl----~~lA~~T~Gfsg  408 (806)
T 3cf2_A          360 FGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDL----EQVANETHGHVG  408 (806)
T ss_dssp             TTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCH----HHHHHHCCSCCH
T ss_pred             CcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCH----HHHHHhcCCCCH
Confidence             12334 888888998888888876644332233333    567888888753

>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=97.61  E-value=7.6e-05  Score=66.50  Aligned_cols=45  Identities=31%  Similarity=0.227  Sum_probs=33.7

Q ss_pred             CceeehhHHHHHHHHHHhc----------------------------CCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTD----------------------------QERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----------------------------~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|.+..++.|...+..                            .......+.++|++|+|||++|+.+.
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la   93 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLA   93 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHH
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHH
Confidence            4578988888888777621                            01134578999999999999999884

>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=97.60  E-value=0.00019  Score=67.23  Aligned_cols=45  Identities=29%  Similarity=0.364  Sum_probs=33.5

Q ss_pred             CceeehhHHHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTD----QERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|.+.....+.+.+.-    ......++.++|++|+||||||+.+.
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia  129 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIA  129 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHH
Confidence            4578888777777655432    12245689999999999999999983

>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=97.50  E-value=6.4e-05  Score=73.30  Aligned_cols=46  Identities=22%  Similarity=0.250  Sum_probs=35.6

Q ss_pred             CceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|.+..++.+...+...       ......+.++|++|+|||++|+.+..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~  510 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSK  510 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHH
Confidence            45789998888888777532       12334799999999999999998843

>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=97.38  E-value=0.00082  Score=52.30  Aligned_cols=20  Identities=30%  Similarity=0.400  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|++|+||||+++.+
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            47999999999999999988

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.35  E-value=0.00016  Score=58.84  Aligned_cols=39  Identities=28%  Similarity=0.382  Sum_probs=28.3

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ..++|.+.+........+|+|+|++|+|||||++.+...
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344555555433335689999999999999999988443

>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=97.33  E-value=0.00039  Score=68.70  Aligned_cols=44  Identities=32%  Similarity=0.364  Sum_probs=34.6

Q ss_pred             ceeehhHHHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHhh
Q 048597           79 TVIRQELLLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .++|.+..+..+...+...       ......+.|+|++|+|||++|+.+.
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la  609 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLA  609 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHH
Confidence            4789998888888777542       1123589999999999999999884

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.32  E-value=0.00055  Score=56.07  Aligned_cols=21  Identities=33%  Similarity=0.325  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.++.|+|++|+|||||++.+
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l   43 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHF   43 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHH
Confidence            369999999999999999998

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.32  E-value=7.3e-05  Score=64.38  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+..+.++|++|+|||+||+.+.+
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457889999999999999998843

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.27  E-value=0.0014  Score=54.41  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l   51 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSAL   51 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999998

>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=97.24  E-value=0.00031  Score=60.88  Aligned_cols=66  Identities=24%  Similarity=0.313  Sum_probs=42.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC--C---CcccCChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST--K---SWQENSFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~--~---~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      .+++.|+|++|+||||||.++...   ...  ..+.++.  .   .....+.+.....+.+.+...+ +||+|++..
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~---~G~--~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~-LLVIDsI~a  193 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA---LGG--KDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR-VIVIDSLKN  193 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH---HHT--TSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS-EEEEECCTT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh---CCC--CEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC-EEEEecccc
Confidence            357789999999999999998542   100  1111111  0   0011345666666777777666 999999965

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.18  E-value=0.00047  Score=55.72  Aligned_cols=41  Identities=24%  Similarity=0.284  Sum_probs=31.7

Q ss_pred             hhHHHHHHHHHHhcC-CCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           83 QELLLDRVWRFVTDQ-ERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        83 r~~~~~~l~~~L~~~-~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      |+..++.+.+.+... .....+|+|.|++|+|||||++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            455677777777653 23567999999999999999988743

>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=97.18  E-value=0.00014  Score=59.91  Aligned_cols=96  Identities=18%  Similarity=0.040  Sum_probs=52.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC---------------h-hHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCe
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN---------------L-KKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRF  163 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~---------------~-~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~  163 (294)
                      .-.++.++|+.|+||||++..+..               . .+-...+..++++...........++...+.+.+...++
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~~   90 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDET   90 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTC
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCCC
Confidence            347999999999999998877611               0 011112333333322222223334454555544444444


Q ss_pred             -EEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCC
Q 048597          164 -VLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNS  198 (294)
Q Consensus       164 -LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~  198 (294)
                       +|++|++...  +..+.+. .+.+  .|..||+|.+.
T Consensus        91 dvViIDEaQ~l~~~~ve~l~-~L~~--~gi~Vil~Gl~  125 (223)
T 2b8t_A           91 KVIGIDEVQFFDDRICEVAN-ILAE--NGFVVIISGLD  125 (223)
T ss_dssp             CEEEECSGGGSCTHHHHHHH-HHHH--TTCEEEEECCS
T ss_pred             CEEEEecCccCcHHHHHHHH-HHHh--CCCeEEEEecc
Confidence             9999999752  2333332 2222  26789999983

>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=97.13  E-value=0.00069  Score=59.89  Aligned_cols=22  Identities=36%  Similarity=0.635  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i   74 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCV   74 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCchHHHHHHHH
Confidence            3479999999999999999998

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.01  E-value=0.00043  Score=60.37  Aligned_cols=41  Identities=27%  Similarity=0.359  Sum_probs=35.3

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|++..+..+...+..+    .-+.++|++|+|||+||+.+.
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la   67 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLA   67 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHH
Confidence            46799999999988888765    578999999999999998873

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=97.00  E-value=0.00079  Score=57.79  Aligned_cols=25  Identities=24%  Similarity=0.127  Sum_probs=21.8

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHhh
Q 048597           98 ERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        98 ~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .....+|+|+|++|+|||||++.+.
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~   52 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIY   52 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHH
Confidence            4467899999999999999998873

>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=97.00  E-value=0.003  Score=55.14  Aligned_cols=22  Identities=32%  Similarity=0.395  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++|+|++|+||||+++.+
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~L  149 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKL  149 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            5689999999999999999998

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.98  E-value=0.00018  Score=60.85  Aligned_cols=99  Identities=16%  Similarity=0.136  Sum_probs=55.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHH--HHHH---HHhCCCCCC----c-c---cCChHHHHHHHHHHhccCCeEEE
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQ--ADIG---KKIGLSTKS----W-Q---ENSFEDKALDIAGILSRKRFVLL  166 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~--~~i~---~~~~~~~~~----~-~---~~~~~~~~~~l~~~l~~kr~Llv  166 (294)
                      .-.+++|+|+.|+|||||++.+.......  ..+.   ..+......    . +   ..+...+...+...|..++-+|+
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~~p~ill  103 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIF  103 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHHCCSEEE
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhhCCCEEE
Confidence            44799999999999999999885443221  0000   000000000    0 0   00112345567777777788999


Q ss_pred             EccccCccchhhhcCCcCCCCCCcEEEEecCChHH
Q 048597          167 LDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       167 lDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v  201 (294)
                      +|+..+.+....+...   ...|.-|++||...+.
T Consensus       104 lDEp~D~~~~~~~l~~---~~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A          104 VGEMRDLETVETALRA---AETGHLVFGTLHTNTA  135 (261)
T ss_dssp             ESCCCSHHHHHHHHHH---HHTTCEEEEEECCSSH
T ss_pred             eCCCCCHHHHHHHHHH---HccCCEEEEEeCcchH
Confidence            9999754433332221   1236678888876554

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.94  E-value=0.00041  Score=55.04  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -.+++|+|++|+|||||++.+.
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~   26 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLI   26 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3689999999999999999884

>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=96.93  E-value=0.00048  Score=54.86  Aligned_cols=24  Identities=38%  Similarity=0.487  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+++|+|++|+|||||++.+..
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~   31 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALAN   31 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHh
Confidence            347899999999999999999843

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.92  E-value=0.00074  Score=62.38  Aligned_cols=42  Identities=10%  Similarity=0.107  Sum_probs=36.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|.+..++.+...+..+    .-|.++|++|+|||+||+.+..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~   63 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKF   63 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGG
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHH
Confidence            56799999999888888776    5789999999999999999854

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.92  E-value=0.0015  Score=57.66  Aligned_cols=21  Identities=43%  Similarity=0.752  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        41 Ge~~~llGpnGsGKSTLLr~i   61 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLI   61 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHH
Confidence            479999999999999999998

>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=96.92  E-value=0.00095  Score=57.70  Aligned_cols=22  Identities=32%  Similarity=0.546  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll  100 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLL  100 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCchHHHHHHHH
Confidence            4579999999999999999998

>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=96.91  E-value=0.001  Score=59.18  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~i   49 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMI   49 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCchHHHHHHHH
Confidence            3479999999999999999999

>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=96.90  E-value=0.00076  Score=59.68  Aligned_cols=45  Identities=33%  Similarity=0.236  Sum_probs=34.8

Q ss_pred             CceeehhHHHHHHHHHHhc-------------CCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTD-------------QERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~-------------~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|.+..++.+...+..             .......+.++|++|+|||++|+.+.
T Consensus        15 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia   72 (363)
T 3hws_A           15 DYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA   72 (363)
T ss_dssp             HHCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHH
Confidence            3478999988888887731             11134679999999999999999884

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.86  E-value=0.0019  Score=57.07  Aligned_cols=22  Identities=36%  Similarity=0.582  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~i   49 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTI   49 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCchHHHHHHHH
Confidence            3479999999999999999998

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.85  E-value=0.00052  Score=55.26  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..+++|+|++|+|||||++.+..
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            36899999999999999998844

>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=96.85  E-value=0.0021  Score=56.56  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~i   46 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELI   46 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHH
Confidence            3469999999999999999999

>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=96.85  E-value=0.002  Score=56.88  Aligned_cols=99  Identities=14%  Similarity=0.123  Sum_probs=59.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhChhHHH--HHHHH-----HhCCCCC-----C-cccCChHHHHHHHHHHhccCCeEEEE
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANLKKIQ--ADIGK-----KIGLSTK-----S-WQENSFEDKALDIAGILSRKRFVLLL  167 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~~~i~--~~i~~-----~~~~~~~-----~-~~~~~~~~~~~~l~~~l~~kr~Llvl  167 (294)
                      ..+++|+|+.|+|||||++.+.+.....  ..+..     .+.....     . ............+...|...+=+|++
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~Pdvill  202 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILV  202 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEec
Confidence            3599999999999999999884433221  00000     0000000     0 00111233555788888999999999


Q ss_pred             ccccCccchhhhcCCcCCCCCCcEEEEecCChHHh
Q 048597          168 DDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVC  202 (294)
Q Consensus       168 Ddv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~  202 (294)
                      |++.+.+.+..+...   ...|..+++|+...+.+
T Consensus       203 DEp~d~e~~~~~~~~---~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          203 GEMRDLETIRLALTA---AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             SCCCSHHHHHHHHHH---HHTTCEEEEEESCSSHH
T ss_pred             CCCCCHHHHHHHHHH---HhcCCEEEEEEccChHH
Confidence            999876665544332   22366788888876654

>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=96.82  E-value=0.0006  Score=54.11  Aligned_cols=23  Identities=43%  Similarity=0.476  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHhhChh
Q 048597          103 IIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      .++|+|++|+|||||++.+....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999985443

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.78  E-value=0.00056  Score=53.52  Aligned_cols=20  Identities=40%  Similarity=0.388  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|+|++|+|||||++.+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~L   24 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQL   24 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            57999999999999999988

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.78  E-value=0.00069  Score=53.24  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=18.8

Q ss_pred             CceEEEEEcCCCChHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQ  120 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~  120 (294)
                      ...+++|+|++|+|||||++.
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHH
Confidence            347999999999999999994

>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=96.78  E-value=0.00067  Score=52.87  Aligned_cols=20  Identities=25%  Similarity=0.149  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|++|+||||+++.+
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L   21 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKL   21 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999877

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.76  E-value=0.00058  Score=55.09  Aligned_cols=23  Identities=39%  Similarity=0.492  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .++++|+|++|+|||||++.+..
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            36899999999999999988844

>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=96.76  E-value=0.0008  Score=54.20  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|.|+|++|+|||||++.+..
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            458999999999999999998844

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.76  E-value=0.00075  Score=54.71  Aligned_cols=24  Identities=38%  Similarity=0.450  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|+|+|+.|+|||||++.+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998844

>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=96.76  E-value=0.00075  Score=53.03  Aligned_cols=20  Identities=25%  Similarity=0.383  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|++|+||||+++.+
T Consensus         4 ~~i~l~G~~GsGKST~a~~L   23 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCL   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999998

>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=96.75  E-value=0.00071  Score=54.86  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3479999999999999999988543

>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=96.71  E-value=0.00086  Score=54.46  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+|+|+||+|+|||||++.+.
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~   29 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVF   29 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHHHHH
Confidence            45799999999999999999883

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.71  E-value=0.00085  Score=53.39  Aligned_cols=21  Identities=38%  Similarity=0.485  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+++|+|++|+|||||++.+.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~   23 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLA   23 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHh
Confidence            578999999999999999983

>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=96.70  E-value=0.0011  Score=52.03  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|+|++|+||||+++.+
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l   28 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEV   28 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHH
Confidence            3578999999999999999987

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.69  E-value=0.00086  Score=54.02  Aligned_cols=22  Identities=27%  Similarity=0.361  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|+|++|+|||||++.+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L   49 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGV   49 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.69  E-value=0.0016  Score=56.68  Aligned_cols=41  Identities=22%  Similarity=0.226  Sum_probs=28.5

Q ss_pred             eehhHHHHHHHHHHhcC--CCCceEEEEEcCCCChHHHHHHHh
Q 048597           81 IRQELLLDRVWRFVTDQ--ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~--~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|-...+..+...+...  ...+.+|+|.|++|+|||||++.+
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L  112 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVL  112 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHH
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHH
Confidence            44444444444444433  345679999999999999999888

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.69  E-value=0.00091  Score=52.50  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+|.|.|++|+||||+++.+..
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            5899999999999999998854

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.68  E-value=0.0009  Score=53.85  Aligned_cols=22  Identities=45%  Similarity=0.234  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|+|++|+||||+++.+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~L   45 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAF   45 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHH
Confidence            3469999999999999999998

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.65  E-value=0.001  Score=53.52  Aligned_cols=22  Identities=41%  Similarity=0.427  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..+|+|+|++|+|||||++.+.
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~   27 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIF   27 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999883

>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=96.63  E-value=0.0011  Score=51.56  Aligned_cols=24  Identities=33%  Similarity=0.360  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-.+++|+|+.|+|||||++.+..
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g   55 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999988743

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.61  E-value=0.00085  Score=54.99  Aligned_cols=23  Identities=39%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -.+++|+|++|+|||||++.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            47899999999999999998854

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.57  E-value=0.0023  Score=53.27  Aligned_cols=38  Identities=24%  Similarity=0.144  Sum_probs=27.2

Q ss_pred             hHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           84 ELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        84 ~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+.++.............|.|.|++|+||||+++.+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L   49 (243)
T 3tlx_A           12 IDLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNL   49 (243)
T ss_dssp             HHHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHH
Confidence            33444444444433335679999999999999999988

>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=96.56  E-value=0.0011  Score=55.02  Aligned_cols=22  Identities=27%  Similarity=0.546  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l   51 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNII   51 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999998

>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=96.56  E-value=0.011  Score=51.10  Aligned_cols=38  Identities=24%  Similarity=0.233  Sum_probs=27.7

Q ss_pred             hHHHHHHHHHHhcC------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           84 ELLLDRVWRFVTDQ------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        84 ~~~~~~l~~~L~~~------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +...+++.+.+...      .....+|.|+|++|+||||++..+
T Consensus        81 ~~~~~~l~~~l~~~~~~~~~~~~~~vi~ivG~~GsGKTTl~~~L  124 (306)
T 1vma_A           81 ESLKEIILEILNFDTKLNVPPEPPFVIMVVGVNGTGKTTSCGKL  124 (306)
T ss_dssp             HHHHHHHHHHTCSCCCCCCCSSSCEEEEEECCTTSSHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCcccCCCCeEEEEEcCCCChHHHHHHHH
Confidence            33455566665432      124679999999999999999988

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.56  E-value=0.00096  Score=53.72  Aligned_cols=21  Identities=29%  Similarity=0.439  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|++|+||||+++.+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L   38 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAI   38 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

>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=96.56  E-value=0.0013  Score=57.12  Aligned_cols=23  Identities=35%  Similarity=0.349  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....+|+|+|++|+|||||++.+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L  110 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVL  110 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHH
Confidence            35679999999999999999988

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.55  E-value=0.0011  Score=54.33  Aligned_cols=23  Identities=17%  Similarity=0.310  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+||+|+|||||++.+.
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~   37 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALL   37 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHh
Confidence            34799999999999999999883

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.55  E-value=0.0012  Score=54.98  Aligned_cols=22  Identities=27%  Similarity=0.227  Sum_probs=20.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..+|+|+|++|+|||||++.+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            5799999999999999999985

>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=96.54  E-value=0.0096  Score=51.14  Aligned_cols=21  Identities=38%  Similarity=0.387  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+++++|++|+||||++..+
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~l  118 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKL  118 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            579999999999999999888

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.54  E-value=0.0014  Score=54.67  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|+|.|+.|+|||||++.+..
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998843

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.54  E-value=0.0013  Score=54.81  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      . .+++|+|++|+|||||++.+
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l   44 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELI   44 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHH
T ss_pred             C-EEEEEECCCCCCHHHHHHHH
Confidence            5 89999999999999999999

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.53  E-value=0.0013  Score=52.10  Aligned_cols=21  Identities=38%  Similarity=0.279  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.|.|+|++|+||||+++.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~L   25 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQL   25 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.51  E-value=0.0011  Score=53.47  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+|.|+|++|+|||||++.+.
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~   33 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVL   33 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHH
Confidence            45789999999999999998873

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.51  E-value=0.0026  Score=54.40  Aligned_cols=22  Identities=32%  Similarity=0.280  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|++|+||||+++.+
T Consensus        32 ~~~livl~G~sGsGKSTla~~L   53 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAI   53 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            5679999999999999999988

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.51  E-value=0.0016  Score=53.03  Aligned_cols=23  Identities=35%  Similarity=0.322  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCChHHHHHHHhhCh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .+++|+|++|+|||||++.+...
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999655

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.50  E-value=0.0012  Score=54.32  Aligned_cols=21  Identities=33%  Similarity=0.534  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l   50 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYIL   50 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999998

>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=96.50  E-value=0.0015  Score=51.86  Aligned_cols=22  Identities=32%  Similarity=0.354  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|++|+||||+++.+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L   25 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQAL   25 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3578999999999999999988

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.49  E-value=0.0013  Score=53.77  Aligned_cols=20  Identities=40%  Similarity=0.554  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|+|++|+||||+++.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L   25 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAM   25 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999998

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.48  E-value=0.0015  Score=52.61  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..++|.|+||+|+|||||++.+.
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~   40 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALL   40 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHH
Confidence            45789999999999999998874

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.46  E-value=0.0017  Score=52.49  Aligned_cols=24  Identities=42%  Similarity=0.497  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|+|+|++|+|||||++.+..
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999843

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.44  E-value=0.0016  Score=52.56  Aligned_cols=20  Identities=45%  Similarity=0.514  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|+|+.|+||||+++.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~L   22 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLF   22 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999998

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.44  E-value=0.0015  Score=51.71  Aligned_cols=20  Identities=40%  Similarity=0.449  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|++|+||||+++.+
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L   21 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKV   21 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999988

>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=96.44  E-value=0.0012  Score=57.76  Aligned_cols=44  Identities=23%  Similarity=0.305  Sum_probs=31.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|.+..+..+...+...  ...-+.|+|++|+|||+||+.+.+
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~--~~~~vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhCC--CCceEEEECCCCccHHHHHHHHHH
Confidence            35899988666554444432  234599999999999999998843

>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=96.42  E-value=0.0014  Score=52.41  Aligned_cols=20  Identities=45%  Similarity=0.601  Sum_probs=17.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|.|+||+|+|||||++.+
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L   21 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKL   21 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            45889999999999999776

>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=96.41  E-value=0.0015  Score=55.53  Aligned_cols=21  Identities=33%  Similarity=0.615  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l   54 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNF   54 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            479999999999999999998

>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=96.41  E-value=0.0045  Score=54.54  Aligned_cols=73  Identities=19%  Similarity=0.259  Sum_probs=43.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhH--------------HHHHHHHHhCCCCCCc---ccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKK--------------IQADIGKKIGLSTKSW---QENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~--------------i~~~i~~~~~~~~~~~---~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-.++.|.|++|+|||||+..+.....              .....+.+++......   ...+.++....+...++ .+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~~  139 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVRSGV  139 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhcC
Confidence            347999999999999999998821110              1112445555432211   12345555555555443 45


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      .-++|+|.+..
T Consensus       140 ~dlvVIDSi~~  150 (356)
T 3hr8_A          140 VDLIVVDSVAA  150 (356)
T ss_dssp             CSEEEEECTTT
T ss_pred             CCeEEehHhhh
Confidence            66899998754

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.41  E-value=0.0015  Score=52.51  Aligned_cols=20  Identities=40%  Similarity=0.502  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|+|+.|+||||+++.+
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L   21 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMF   21 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHH
Confidence            47999999999999999987

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.41  E-value=0.0018  Score=51.84  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +..+|+|.|+.|+||||+++.+
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~L   28 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALL   28 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHH
Confidence            5679999999999999999987

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.41  E-value=0.0016  Score=55.07  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l   52 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCI   52 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

>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=96.40  E-value=0.0016  Score=51.53  Aligned_cols=21  Identities=29%  Similarity=0.363  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+|.|.|++|+||||+++.+.
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~   24 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAM   24 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999999983

>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=96.40  E-value=0.0018  Score=55.87  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++|+|++|+|||||++.+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~L  122 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKL  122 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHH
Confidence            4579999999999999999998

>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=96.39  E-value=0.0016  Score=51.39  Aligned_cols=22  Identities=55%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|+|++|+||||+++.+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l   31 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKEL   31 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHH
Confidence            3467899999999999999988

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.38  E-value=0.0011  Score=50.95  Aligned_cols=26  Identities=27%  Similarity=0.450  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      ....+.|+|++|+|||||++.+.+..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            44689999999999999999986543

>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=96.38  E-value=0.0017  Score=54.69  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l   53 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVI   53 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999998

>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=96.36  E-value=0.0017  Score=54.96  Aligned_cols=22  Identities=32%  Similarity=0.634  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l   57 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLL   57 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999999

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.35  E-value=0.0031  Score=51.26  Aligned_cols=38  Identities=18%  Similarity=0.323  Sum_probs=27.8

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .++..+.+...+...  ...+|.|+|.+|+|||||+..+.
T Consensus        14 ~~~~~~~~~~~~~~~--~~~~i~i~G~~g~GKTTl~~~l~   51 (221)
T 2wsm_A           14 NKRLAEKNREALRES--GTVAVNIMGAIGSGKTLLIERTI   51 (221)
T ss_dssp             HHHHHHHHHHHHHHH--TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             cHHHHHHHHHhhccc--CceEEEEEcCCCCCHHHHHHHHH
Confidence            344455555555444  67899999999999999988774

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.35  E-value=0.0011  Score=54.55  Aligned_cols=22  Identities=32%  Similarity=0.351  Sum_probs=16.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -.+++|+|++|+|||||++.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999998886

>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=96.35  E-value=0.0018  Score=53.93  Aligned_cols=21  Identities=43%  Similarity=0.582  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l   52 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAI   52 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999999

>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=96.35  E-value=0.0018  Score=52.87  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l   45 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTL   45 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999988

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.34  E-value=0.0042  Score=50.65  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....|.|+|.+|+|||||+..+
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l   58 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKL   58 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHH
Confidence            6789999999999999999887

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.33  E-value=0.0019  Score=51.77  Aligned_cols=20  Identities=35%  Similarity=0.622  Sum_probs=18.2

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .|.|.|+.|+||||+++.+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~   21 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEIS   21 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHH
Confidence            68999999999999998873

>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=96.33  E-value=0.0018  Score=54.64  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l   70 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCL   70 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCCcHHHHHHHH
Confidence            4479999999999999999999

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.32  E-value=0.002  Score=54.08  Aligned_cols=20  Identities=30%  Similarity=0.287  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|++|+||||||+.+
T Consensus         2 ~li~I~G~~GSGKSTla~~L   21 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQI   21 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHH
Confidence            47899999999999999987

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.32  E-value=0.0017  Score=52.07  Aligned_cols=25  Identities=40%  Similarity=0.533  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhH
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKK  126 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~  126 (294)
                      .+++|+|++|+|||||++.+.....
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            3689999999999999999866544

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.32  E-value=0.0021  Score=51.02  Aligned_cols=21  Identities=24%  Similarity=0.238  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|++|+||||+++.+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L   23 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARI   23 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999987

>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=96.32  E-value=0.0019  Score=53.33  Aligned_cols=21  Identities=33%  Similarity=0.547  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l   54 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMI   54 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999998

>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=96.31  E-value=0.0017  Score=53.12  Aligned_cols=21  Identities=43%  Similarity=0.733  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l   55 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTI   55 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999998

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.31  E-value=0.0017  Score=50.92  Aligned_cols=20  Identities=35%  Similarity=0.360  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..|.|.|++|+||||+++.+
T Consensus         5 ~~i~i~G~~GsGKsTla~~L   24 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARAL   24 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHH
Confidence            46899999999999999998

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.30  E-value=0.0048  Score=54.17  Aligned_cols=44  Identities=23%  Similarity=0.424  Sum_probs=31.5

Q ss_pred             eehhHHHHHHHHHHhc--CCCCceEEEEEcCCCChHHHHHHHhhCh
Q 048597           81 IRQELLLDRVWRFVTD--QERNRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~--~~~~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      +..+.-.+.++..+..  .+.....|.|+|++|+||||+++.+...
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~   47 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQI   47 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHH
Confidence            4455566667666643  2235667999999999999999988443

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.30  E-value=0.0025  Score=51.16  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|+.|+||||+++.+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L   35 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKL   35 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            5679999999999999999888

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.29  E-value=0.0029  Score=59.94  Aligned_cols=40  Identities=25%  Similarity=0.269  Sum_probs=34.9

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.+..++.+...+..+    ..+.|+|++|+||||||+.+
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~i   80 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAM   80 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHH
T ss_pred             ceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHH
Confidence            45799998888888777766    68999999999999999998

>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=96.29  E-value=0.002  Score=53.96  Aligned_cols=23  Identities=39%  Similarity=0.472  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -.+++|+|++|+|||||++.+..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46999999999999999999844

>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=96.29  E-value=0.0021  Score=53.58  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l   48 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLL   48 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

>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=96.29  E-value=0.002  Score=53.85  Aligned_cols=21  Identities=43%  Similarity=0.662  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l   55 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLI   55 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999999

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.28  E-value=0.0023  Score=50.75  Aligned_cols=23  Identities=35%  Similarity=0.330  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ....|.|+|+.|+||||+++.+.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La   31 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIA   31 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999874

>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=96.28  E-value=0.019  Score=50.05  Aligned_cols=162  Identities=12%  Similarity=-0.004  Sum_probs=93.9

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH-hccCCeEEEEc
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI-LSRKRFVLLLD  168 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~-l~~kr~LlvlD  168 (294)
                      +.+.+..  .-.++..++|+.|.||++.+..+.....-. .+.........  ...+..++.+.+... +-+.+-++++|
T Consensus         9 l~~~l~~--~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~--~~~~~~~l~~~~~~~plf~~~kvvii~   83 (343)
T 1jr3_D            9 LRAQLNE--GLRAAYLLLGNDPLLLQESQDAVRQVAAAQ-GFEEHHTFSID--PNTDWNAIFSLCQAMSLFASRQTLLLL   83 (343)
T ss_dssp             HHHHHHH--CCCSEEEEEESCHHHHHHHHHHHHHHHHHH-TCCEEEEEECC--TTCCHHHHHHHHHHHHHCCSCEEEEEE
T ss_pred             HHHHHhc--CCCcEEEEECCcHHHHHHHHHHHHHHHHhC-CCCeeEEEEec--CCCCHHHHHHHhcCcCCccCCeEEEEE
Confidence            4444542  256799999999999999987774321100 00000001011  124455555444322 34667788999


Q ss_pred             cccC---ccchhhhcCCcCCCCCCcEEEEecCC-------hHHhhc-cC-CceeecCCCCHHHHHHHHHHHhCCCCCCCC
Q 048597          169 DIWE---HINLNKLGVPLQYLHLGSKIVFTTNS-------RVVCGQ-ME-ATMLNASPLRDEEAWRLFEEAVGRYVLDSH  236 (294)
Q Consensus       169 dv~~---~~~~~~l~~~l~~~~~gs~iivTtr~-------~~v~~~-~~-~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~  236 (294)
                      +++.   ...++.+...+.....++.+|+++..       ..+... .. +..++..+++.++....+.+.+...+...+
T Consensus        84 ~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~g~~i~  163 (343)
T 1jr3_D           84 LPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLNLELD  163 (343)
T ss_dssp             CCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHTTCEEC
T ss_pred             CCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHcCCCCC
Confidence            9865   34556665555444446667666543       123222 22 233899999999998888877643332222


Q ss_pred             CCHHHHHHHHHHhCCCChHHHHH
Q 048597          237 PDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       237 ~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                         .+....+++.++|.+..+..
T Consensus       164 ---~~a~~~l~~~~~gdl~~~~~  183 (343)
T 1jr3_D          164 ---DAANQVLCYCYEGNLLALAQ  183 (343)
T ss_dssp             ---HHHHHHHHHSSTTCHHHHHH
T ss_pred             ---HHHHHHHHHHhchHHHHHHH
Confidence               25568889999998877765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.27  E-value=0.0023  Score=53.63  Aligned_cols=23  Identities=39%  Similarity=0.446  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+|+|+|++|+|||||++.+.
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            34699999999999999999984

>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=96.27  E-value=0.0021  Score=54.10  Aligned_cols=22  Identities=45%  Similarity=0.662  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l   61 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRII   61 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999999

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.27  E-value=0.0023  Score=50.90  Aligned_cols=22  Identities=32%  Similarity=0.341  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|+.|+||||+++.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L   29 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKI   29 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999988

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.27  E-value=0.0024  Score=50.43  Aligned_cols=21  Identities=24%  Similarity=0.278  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|++|+||||+++.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~L   24 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRL   24 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999988

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.25  E-value=0.0035  Score=52.44  Aligned_cols=36  Identities=33%  Similarity=0.363  Sum_probs=25.8

Q ss_pred             HHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+++...+..+   .....+|.|+|++|+||||+++.+
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~i~l~G~~GsGKSTla~~L   52 (253)
T 2p5t_B           14 ALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIK   52 (253)
T ss_dssp             HHHHHHHHHHTTCCCCSSCEEEEEESCGGGTTHHHHHHH
T ss_pred             HHHHHHHHHHccCCcccCCeEEEEECCCCCCHHHHHHHH
Confidence            344444444432   234679999999999999999987

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.25  E-value=0.0018  Score=51.12  Aligned_cols=20  Identities=30%  Similarity=0.311  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|++|+||||+++.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~L   22 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRL   22 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            46999999999999999988

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.24  E-value=0.0024  Score=50.09  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...++.|+|+.|+|||||+..+.
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~   25 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWV   25 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            46799999999999999987763

>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=96.24  E-value=0.0022  Score=53.68  Aligned_cols=21  Identities=43%  Similarity=0.659  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l   46 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARM   46 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHH
Confidence            368999999999999999998

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.24  E-value=0.0022  Score=54.30  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+|++|+|||||++.+.
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~   67 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLA   67 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34699999999999999999983

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.23  E-value=0.0023  Score=54.00  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l   66 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLL   66 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999999

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.22  E-value=0.0023  Score=54.33  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l   65 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALL   65 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999999

>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=96.22  E-value=0.0025  Score=55.06  Aligned_cols=24  Identities=29%  Similarity=0.277  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|+|+|+.|+|||||++.+..
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            557999999999999999998843

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.21  E-value=0.0026  Score=54.84  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++|+|++|+||||+++.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~L  120 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKL  120 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHH
Confidence            4579999999999999999998

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.20  E-value=0.0023  Score=54.51  Aligned_cols=22  Identities=45%  Similarity=0.534  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l   67 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNIL   67 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999998

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.20  E-value=0.0015  Score=51.42  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+++|+|++|+|||||++.+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~   24 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMP   24 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999988744

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.19  E-value=0.0024  Score=54.03  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i   53 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIV   53 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999998

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.18  E-value=0.0024  Score=53.59  Aligned_cols=21  Identities=38%  Similarity=0.640  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l   51 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLL   51 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999998

>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=96.17  E-value=0.023  Score=51.36  Aligned_cols=22  Identities=41%  Similarity=0.305  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.++|++|+||||++..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kL  117 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKL  117 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4689999999999999998887

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.17  E-value=0.0023  Score=49.90  Aligned_cols=20  Identities=30%  Similarity=0.330  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|+.|+||||+++.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~L   22 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGREL   22 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHH
Confidence            47999999999999999988

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.17  E-value=0.0029  Score=50.95  Aligned_cols=21  Identities=24%  Similarity=0.324  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|+.|+||||+++.+
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L   24 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLL   24 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHH
Confidence            368999999999999999988

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.17  E-value=0.0032  Score=50.58  Aligned_cols=22  Identities=27%  Similarity=0.246  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|++|+||||+++.+
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~L   40 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKL   40 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4568999999999999999988

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.16  E-value=0.0026  Score=50.75  Aligned_cols=21  Identities=33%  Similarity=0.314  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|++|+||||+++.+
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L   32 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKL   32 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999988

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.15  E-value=0.0032  Score=49.90  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+|.|.|++|+||||+++.+.
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~   34 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLA   34 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHH
Confidence            45789999999999999999883

>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=96.15  E-value=0.011  Score=55.63  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l  389 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLF  389 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.14  E-value=0.0028  Score=49.24  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=19.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|+.|+||||+++.+
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~L   27 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQEL   27 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>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=96.13  E-value=0.0064  Score=53.60  Aligned_cols=35  Identities=23%  Similarity=0.344  Sum_probs=27.0

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+...+.....+..+|+|+|.+|+|||||+..+
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L   99 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEAL   99 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHH
Confidence            44555555544447789999999999999999887

>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=96.13  E-value=0.003  Score=53.14  Aligned_cols=22  Identities=45%  Similarity=0.455  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..+|.|.|++|+||||+++.+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La   25 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLA   25 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Confidence            4689999999999999999874

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.13  E-value=0.0058  Score=52.78  Aligned_cols=41  Identities=27%  Similarity=0.385  Sum_probs=29.3

Q ss_pred             hhHHHHHHHHHHhcCCC-CceEEEEEcCCCChHHHHHHHhhC
Q 048597           83 QELLLDRVWRFVTDQER-NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~-~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +......+.+++..... ....+.|+|++|+|||+||..+.+
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHH
Confidence            34455566666665322 247889999999999999988854

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=96.12  E-value=0.0053  Score=57.85  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       366 ~G~~~~ivG~sGsGKSTll~~l  387 (578)
T 4a82_A          366 KGETVAFVGMSGGGKSTLINLI  387 (578)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            4579999999999999999998

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.10  E-value=0.0031  Score=49.92  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|+.|+||||+++.+
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L   26 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANI   26 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999988

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=96.10  E-value=0.0032  Score=56.66  Aligned_cols=24  Identities=17%  Similarity=0.310  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+++|+|++|+|||||.+.+..
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            457999999999999999999854

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.08  E-value=0.002  Score=50.72  Aligned_cols=21  Identities=38%  Similarity=0.366  Sum_probs=15.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|+.|+||||+++.+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~L   25 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTL   25 (183)
T ss_dssp             CCEEEEECCC----CHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.07  E-value=0.0034  Score=52.47  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|.|+.|+||||+++.+
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L   42 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKI   42 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHH
Confidence            5679999999999999999887

>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=96.07  E-value=0.0048  Score=55.94  Aligned_cols=44  Identities=25%  Similarity=0.249  Sum_probs=34.1

Q ss_pred             CceeehhHHHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ------------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.+..+..+...+...            +...+-|.++|++|+||||+|+.+
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~l   70 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRL   70 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHH
Confidence            46789888888887766331            113467999999999999999988

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.06  E-value=0.0032  Score=48.79  Aligned_cols=19  Identities=32%  Similarity=0.113  Sum_probs=18.0

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|+.|+||||+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLL   20 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            6899999999999999988

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.06  E-value=0.0033  Score=51.28  Aligned_cols=22  Identities=27%  Similarity=0.220  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....|.|.|+.|+||||+++.+
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~L   24 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNL   24 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999988

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.06  E-value=0.019  Score=54.14  Aligned_cols=22  Identities=27%  Similarity=0.533  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       368 ~Ge~~~ivG~sGsGKSTll~~l  389 (587)
T 3qf4_A          368 PGSLVAVLGETGSGKSTLMNLI  389 (587)
T ss_dssp             TTCEEEEECSSSSSHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.06  E-value=0.0037  Score=51.17  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.|.|++|+||||.|+.+
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L   49 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKL   49 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            6789999999999999999988

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.06  E-value=0.0032  Score=49.92  Aligned_cols=19  Identities=42%  Similarity=0.576  Sum_probs=17.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|+|.|+.|+||||+++.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L   20 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKL   20 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999888

>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=96.04  E-value=0.0058  Score=59.48  Aligned_cols=87  Identities=22%  Similarity=0.213  Sum_probs=52.0

Q ss_pred             CceeehhHHHHHHHHHHhcC-----------CCCceEEEEEcCCCChHHHHHHHhhChhH-----HH-HHHHHHhCCCCC
Q 048597           78 RTVIRQELLLDRVWRFVTDQ-----------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ-ADIGKKIGLSTK  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~-~~i~~~~~~~~~  140 (294)
                      ..+.|.++.+++|.+.+.-.           -...+-|.++||+|+|||.||+.+.+...     +. ..+...      
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~------  550 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM------  550 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTT------
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhcc------
Confidence            34678888777777665432           12456788999999999999999832221     11 011110      


Q ss_pred             CcccCChHHHHHHHHHHh-ccCCeEEEEccccC
Q 048597          141 SWQENSFEDKALDIAGIL-SRKRFVLLLDDIWE  172 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~  172 (294)
                       +...+.. ....+++.- +..+++|++|++..
T Consensus       551 -~vGese~-~vr~lF~~Ar~~~P~IifiDEiDs  581 (806)
T 3cf2_A          551 -WFGESEA-NVREIFDKARQAAPCVLFFDELDS  581 (806)
T ss_dssp             -TCSSCHH-HHHHHHHHHHTTCSEEEECSCGGG
T ss_pred             -ccchHHH-HHHHHHHHHHHcCCceeechhhhH
Confidence             1122333 333444433 46789999999865

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.03  E-value=0.0069  Score=53.84  Aligned_cols=35  Identities=17%  Similarity=0.080  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           89 RVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        89 ~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+++-+.-.-....+++|+|++|+|||||++.+..
T Consensus       157 ~~l~~~~~~i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          157 DFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             HHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHhcccccCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            33443433333557999999999999999998864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.01  E-value=0.0035  Score=50.56  Aligned_cols=22  Identities=27%  Similarity=0.193  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|+.|+||||+++.+
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L   30 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLL   30 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHH
Confidence            3468999999999999999988

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.01  E-value=0.0037  Score=50.48  Aligned_cols=21  Identities=29%  Similarity=0.354  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|+.|+||||+++.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L   29 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKL   29 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

>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=96.01  E-value=0.0092  Score=47.84  Aligned_cols=47  Identities=13%  Similarity=0.069  Sum_probs=27.4

Q ss_pred             HHHHhccCC-eEEEEccccCc-----cchhhhcCCcCCCCCCcEEEEecCChH
Q 048597          154 IAGILSRKR-FVLLLDDIWEH-----INLNKLGVPLQYLHLGSKIVFTTNSRV  200 (294)
Q Consensus       154 l~~~l~~kr-~LlvlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtr~~~  200 (294)
                      .++.+...+ =|||||++...     ...+.+...+...-....+|+|+|...
T Consensus       112 a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          112 GKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCc
Confidence            444454444 49999998542     233333333333334568999999863

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.00  E-value=0.0034  Score=53.02  Aligned_cols=20  Identities=40%  Similarity=0.569  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+++|+|++|+|||||++.+
T Consensus        31 e~~~i~G~NGsGKSTLlk~l   50 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAI   50 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999998

>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=96.00  E-value=0.0096  Score=52.86  Aligned_cols=22  Identities=23%  Similarity=0.096  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus       173 rGQr~~IvG~sG~GKTtLl~~I  194 (422)
T 3ice_A          173 RGQRGLIVAPPKAGKTMLLQNI  194 (422)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHH
T ss_pred             CCcEEEEecCCCCChhHHHHHH
Confidence            3468999999999999999887

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.99  E-value=0.0041  Score=50.57  Aligned_cols=21  Identities=38%  Similarity=0.458  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|+|.|+.|+||||+++.+
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L   24 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAF   24 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.99  E-value=0.004  Score=53.04  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|.|+.|+||||+++.+
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~L   95 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRL   95 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4679999999999999999987

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.98  E-value=0.0033  Score=53.29  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHhhChh
Q 048597          103 IIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      .++|+|++|+|||||++.+++..
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            68999999999999999995544

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.97  E-value=0.0039  Score=55.04  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++|+|++|+|||||++.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~L  177 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKL  177 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHH
Confidence            4579999999999999999998

>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=95.97  E-value=0.0042  Score=48.83  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|.|.|+.|+||||+++.+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998843

>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=95.96  E-value=0.0018  Score=52.44  Aligned_cols=20  Identities=35%  Similarity=0.596  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|.|+.|+||||+++.+
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L   20 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKL   20 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHH
Confidence            37899999999999999887

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.96  E-value=0.0094  Score=51.79  Aligned_cols=22  Identities=41%  Similarity=0.495  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|+|++|+||||++..+
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~L  125 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKM  125 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4679999999999999999888

>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=95.96  E-value=0.0041  Score=49.89  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+|+|+|+.|+||||+++.+
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L   32 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEIL   32 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999988

>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=95.95  E-value=0.017  Score=52.03  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++.++|++|+||||++..+
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~L  118 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKL  118 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3579999999999999999988

>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=95.95  E-value=0.0066  Score=52.30  Aligned_cols=25  Identities=16%  Similarity=0.365  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .-.+++|+|++|+|||||++.+...
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            4579999999999999999988543

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.95  E-value=0.0037  Score=51.29  Aligned_cols=22  Identities=23%  Similarity=0.170  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....|.|.|+.|+||||+++.+
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~L   27 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRI   27 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHH
Confidence            3478999999999999999988

>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=95.95  E-value=0.0035  Score=55.32  Aligned_cols=22  Identities=41%  Similarity=0.548  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~i   50 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCL   50 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCchHHHHHHHH
Confidence            3479999999999999999999

>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=0.011  Score=51.88  Aligned_cols=73  Identities=21%  Similarity=0.291  Sum_probs=42.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCCCCCc---ccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLSTKSW---QENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~~~~~---~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-.++.|.|++|+|||||+.++....              .........++......   ...+.++....+..... .+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~~  139 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGA  139 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcCC
Confidence            34799999999999999998872100              01111244454332211   12244454444444443 44


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      .-+||+|.+..
T Consensus       140 ~~lIVIDsl~~  150 (349)
T 2zr9_A          140 LDIIVIDSVAA  150 (349)
T ss_dssp             CSEEEEECGGG
T ss_pred             CCEEEEcChHh
Confidence            67999999854

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.92  E-value=0.004  Score=50.53  Aligned_cols=19  Identities=42%  Similarity=0.387  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQI   20 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5889999999999999988

>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=95.91  E-value=0.0042  Score=48.96  Aligned_cols=24  Identities=33%  Similarity=0.380  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..+++.|+|++|+|||||++.+..
T Consensus         5 ~~~~i~i~G~sGsGKTTl~~~l~~   28 (174)
T 1np6_A            5 MIPLLAFAAWSGTGKTTLLKKLIP   28 (174)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCHHHHHHHHHH
Confidence            357999999999999999987743

>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=95.90  E-value=0.0046  Score=49.51  Aligned_cols=21  Identities=29%  Similarity=0.227  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|+.|+||||+++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L   24 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNI   24 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHH
Confidence            468999999999999999988

>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=95.89  E-value=0.0039  Score=53.42  Aligned_cols=22  Identities=32%  Similarity=0.526  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l   84 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMI   84 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999998

>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=95.89  E-value=0.0041  Score=49.46  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ....|+|+|++|+|||||++.+.
T Consensus        28 ~~~kv~lvG~~g~GKSTLl~~l~   50 (191)
T 1oix_A           28 YLFKVVLIGDSGVGKSNLLSRFT   50 (191)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHh
Confidence            35689999999999999999873

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.88  E-value=0.0079  Score=52.64  Aligned_cols=33  Identities=27%  Similarity=0.332  Sum_probs=25.0

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +++-+.-.-....+++|+|++|+|||||++.+.
T Consensus        44 ~l~~i~~~~~~g~~v~i~G~~GaGKSTLl~~l~   76 (337)
T 2qm8_A           44 LIDAVLPQTGRAIRVGITGVPGVGKSTTIDALG   76 (337)
T ss_dssp             HHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHH
T ss_pred             HHHhCCcccCCCeEEEEECCCCCCHHHHHHHHH
Confidence            444444333366899999999999999999884

>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=95.88  E-value=0.005  Score=49.87  Aligned_cols=24  Identities=29%  Similarity=0.241  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|.|.|+.|+||||+++.+..
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998743

>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=95.86  E-value=0.007  Score=48.97  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|+|++|+|||||+..+
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l   40 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQT   40 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999987

>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=95.85  E-value=0.0048  Score=53.03  Aligned_cols=22  Identities=41%  Similarity=0.593  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++++|++|+||||++..+
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~L  125 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKL  125 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999888

>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=95.84  E-value=0.0045  Score=50.25  Aligned_cols=19  Identities=32%  Similarity=0.289  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERI   20 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999988

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.84  E-value=0.0042  Score=50.74  Aligned_cols=22  Identities=18%  Similarity=0.089  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....|.|.|++|+||||+++.+
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~L   25 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELI   25 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999988

>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=95.80  E-value=0.005  Score=50.71  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ...+|+|.|+.|+|||||++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            4579999999999999999998654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.78  E-value=0.0041  Score=52.06  Aligned_cols=21  Identities=38%  Similarity=0.279  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+|.|+|+.|+||||+++.+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~L   68 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIM   68 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999998

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.77  E-value=0.0046  Score=49.37  Aligned_cols=23  Identities=35%  Similarity=0.431  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...|+|+|++|+|||||++.+..
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~   27 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTR   27 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHhc
Confidence            45789999999999999998843

>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=95.77  E-value=0.0047  Score=54.53  Aligned_cols=22  Identities=36%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~i   49 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLML   49 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCchHHHHHHHH
Confidence            3479999999999999999999

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.75  E-value=0.006  Score=47.09  Aligned_cols=22  Identities=32%  Similarity=0.431  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..|+|+|++|+|||||++.+.+
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            5789999999999999999854

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.74  E-value=0.0079  Score=51.77  Aligned_cols=31  Identities=29%  Similarity=0.489  Sum_probs=23.6

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ++++.+.+..     .+++++|++|+|||||++.+.
T Consensus       156 i~~L~~~l~G-----~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLEG-----FICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTTT-----CEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhccC-----cEEEEECCCCCCHHHHHHHHH
Confidence            4455555442     589999999999999987765

>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=95.72  E-value=0.051  Score=49.19  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.+|.++|++|+||||++..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kL  120 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKL  120 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHH
Confidence            4689999999999999998877

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.71  E-value=0.0055  Score=50.69  Aligned_cols=21  Identities=19%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|++|+||||+++.+
T Consensus         9 ~~~i~i~G~~GsGKsTla~~l   29 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGL   29 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

>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=95.71  E-value=0.0051  Score=54.59  Aligned_cols=21  Identities=38%  Similarity=0.504  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        29 Ge~~~llGpnGsGKSTLLr~i   49 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMI   49 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCcHHHHHHHHH
Confidence            469999999999999999998

>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=95.70  E-value=0.0059  Score=56.03  Aligned_cols=22  Identities=36%  Similarity=0.448  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++|+|++|+|||||++.+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~L  313 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKL  313 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHH
Confidence            4579999999999999999998

>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=95.70  E-value=0.0056  Score=49.12  Aligned_cols=19  Identities=21%  Similarity=0.496  Sum_probs=18.4

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|+|.|+.|+||||+++.+
T Consensus         4 ~i~i~G~~GsGKst~~~~l   22 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRV   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            8999999999999999998

>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=95.69  E-value=0.0066  Score=49.94  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|+|++|+|||||+..+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l   44 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTL   44 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999887

>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=95.69  E-value=0.0052  Score=54.52  Aligned_cols=22  Identities=36%  Similarity=0.537  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~i   57 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMI   57 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3479999999999999999998

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=95.68  E-value=0.0053  Score=48.35  Aligned_cols=22  Identities=41%  Similarity=0.517  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHhhCh
Q 048597          103 IIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5889999999999999999764

>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=95.67  E-value=0.012  Score=53.55  Aligned_cols=20  Identities=55%  Similarity=1.004  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|+|++|+|||||++.+
T Consensus       152 q~~~i~G~sGvGKTtL~~~l  171 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQEL  171 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHH
Confidence            46899999999999999977

>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=95.66  E-value=0.0062  Score=52.76  Aligned_cols=22  Identities=32%  Similarity=0.681  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.++|+|.|-||+||||.+-.+
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNL   68 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNL   68 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CceEEEEECCCccCHHHHHHHH
Confidence            6799999999999999998877

>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=95.61  E-value=0.007  Score=59.82  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+||+|.|||||.+.+.
T Consensus       672 ~g~i~~ItGPNGaGKSTlLr~i~  694 (918)
T 3thx_B          672 SERVMIITGPNMGGKSSYIKQVA  694 (918)
T ss_dssp             SCCEEEEESCCCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCchHHHHHHHH
Confidence            45799999999999999999884

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.60  E-value=0.0097  Score=48.08  Aligned_cols=37  Identities=14%  Similarity=0.240  Sum_probs=26.1

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -+..+..++..-+ ....+.|+||+|+||||+|..+.+
T Consensus        44 f~~~l~~~~~~iP-kkn~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           44 FLGALKSFLKGTP-KKNCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             HHHHHHHHHHTCT-TCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-cccEEEEECCCCCCHHHHHHHHHH
Confidence            3555566655421 235799999999999999877644

>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=95.58  E-value=0.043  Score=48.01  Aligned_cols=22  Identities=27%  Similarity=0.291  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|++|+|||||+..+
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~l  142 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTL  142 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999876

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.58  E-value=0.0052  Score=53.34  Aligned_cols=23  Identities=39%  Similarity=0.395  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..+++.|+|+.|+|||||++.+.
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~   25 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHIL   25 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHH
T ss_pred             cccEEEEEecCCCCHHHHHHHHH
Confidence            46899999999999999998874

>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=95.55  E-value=0.0041  Score=54.83  Aligned_cols=22  Identities=36%  Similarity=0.634  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~i   51 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRII   51 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999998

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.54  E-value=0.0067  Score=47.68  Aligned_cols=20  Identities=25%  Similarity=0.509  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.+|+|+.|+|||||+..+
T Consensus        27 g~~~i~G~NGsGKStll~ai   46 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAI   46 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHH
Confidence            48999999999999998776

>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=95.54  E-value=0.01  Score=46.58  Aligned_cols=25  Identities=48%  Similarity=0.460  Sum_probs=21.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHhhC
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .....|.|+|.+|+|||||++.+.+
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~   38 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLAS   38 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhc
Confidence            3567899999999999999999843

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.52  E-value=0.0034  Score=53.79  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=17.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +..+|+|.|+.|+||||+++.+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~   26 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFD   26 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999873

>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=95.51  E-value=0.014  Score=57.76  Aligned_cols=99  Identities=17%  Similarity=0.231  Sum_probs=53.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC---------------------CCcc-cCChHHHHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST---------------------KSWQ-ENSFEDKALDIAGI  157 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~---------------------~~~~-~~~~~~~~~~l~~~  157 (294)
                      ...+++|+||+|.||||+++.+.-.     .+..+.+...                     .... ......-...+...
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~ial~-----~~~aq~G~~vpa~~~~~~~~d~i~~~ig~~d~l~~~lStf~~e~~~~a~i  735 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQTGVI-----VLMAQIGCFVPCESAEVSIVDCILARVGAGDSQLKGVSTFMAEMLETASI  735 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHHHHH-----HHHHHHTCCBSEEEEEEECCSEEEEECC---------CHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH-----HHHHhcCCccccccccchHHHHHHHhcCchhhHHHhHhhhHHHHHHHHHH
Confidence            4579999999999999999987211     1122222110                     0000 00111112223333


Q ss_pred             h--ccCCeEEEEccccCccc---h----hhhcCCcCCCCCCcEEEEecCChHHhhc
Q 048597          158 L--SRKRFVLLLDDIWEHIN---L----NKLGVPLQYLHLGSKIVFTTNSRVVCGQ  204 (294)
Q Consensus       158 l--~~kr~LlvlDdv~~~~~---~----~~l~~~l~~~~~gs~iivTtr~~~v~~~  204 (294)
                      +  ..++-|++||+.-..-+   -    ..+...+. ...|+.+|++|....++..
T Consensus       736 l~~a~~~sLlLLDEp~~GlD~~~~~~i~~~il~~l~-~~~g~~vl~aTH~~el~~l  790 (934)
T 3thx_A          736 LRSATKDSLIIIDELGRGTSTYDGFGLAWAISEYIA-TKIGAFCMFATHFHELTAL  790 (934)
T ss_dssp             HHHCCTTCEEEEESCSCSSCHHHHHHHHHHHHHHHH-HTTCCEEEEEESCGGGGGG
T ss_pred             HHhccCCcEEEEeCCCCCCCHHHHHHHHHHHHHHHH-hcCCCEEEEEcCcHHHHHH
Confidence            3  46778999999865211   1    11122221 1247899999998776543

>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=95.51  E-value=0.0066  Score=51.49  Aligned_cols=21  Identities=33%  Similarity=0.408  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.++.|+|++|+|||||+..+
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l   50 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQL   50 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHH
Confidence            479999999999999999887

>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=95.50  E-value=0.0065  Score=54.23  Aligned_cols=22  Identities=41%  Similarity=0.573  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~i   67 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAF   67 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            4479999999999999999998

>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=95.50  E-value=0.0067  Score=51.84  Aligned_cols=22  Identities=27%  Similarity=0.524  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|.|++|+|||||++.+
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~i   55 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQ   55 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHH
Confidence            3479999999999999999988

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.50  E-value=0.011  Score=50.74  Aligned_cols=34  Identities=24%  Similarity=0.387  Sum_probs=25.3

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      ++++...+..     .+++|+|++|+|||||++.+....
T Consensus       160 v~~lf~~l~g-----eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLKG-----KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhcC-----CeEEEECCCCCcHHHHHHHhcccc
Confidence            4445554442     589999999999999999886543

>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=95.49  E-value=0.0065  Score=48.78  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      ....|+|+|++|+|||||++.+....
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999996654

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.47  E-value=0.0074  Score=49.40  Aligned_cols=19  Identities=32%  Similarity=0.349  Sum_probs=17.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|+.|+||||+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLV   20 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999988

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.45  E-value=0.0077  Score=52.61  Aligned_cols=20  Identities=30%  Similarity=0.282  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|.|+.|+||||||..+
T Consensus         8 ~lI~I~GptgSGKTtla~~L   27 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEV   27 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHH
Confidence            58999999999999999887

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.44  E-value=0.0089  Score=46.91  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...|+|+|++|+|||||++.+.+
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            46799999999999999999854

>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=95.43  E-value=0.0077  Score=53.25  Aligned_cols=21  Identities=19%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|+|++|+|||||++.+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L  190 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKL  190 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHH
Confidence            478999999999999999998

>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=95.42  E-value=0.0077  Score=48.83  Aligned_cols=19  Identities=32%  Similarity=0.149  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|+.|+||||+++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFI   20 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4799999999999999988

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.42  E-value=0.0081  Score=51.37  Aligned_cols=21  Identities=33%  Similarity=0.365  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+|.|.|++|+||||+++.+.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~   23 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFI   23 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999999884

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.42  E-value=0.0089  Score=49.31  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|+|.|+.|+||||+++.+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l   36 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKII   36 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            5679999999999999999987

>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=95.37  E-value=0.015  Score=50.89  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=21.3

Q ss_pred             CCceEEEEEcCCCChHHHHHHHhh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+..+|+|+|++|+|||||+..+.
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~   77 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFG   77 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHH
Confidence            467899999999999999998873

>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=95.36  E-value=0.015  Score=52.33  Aligned_cols=23  Identities=39%  Similarity=0.479  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+|+.|+|||||++.+.
T Consensus       166 ~ggii~I~GpnGSGKTTlL~all  188 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGL  188 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHH
T ss_pred             cCCeEEEECCCCCCHHHHHHHHH
Confidence            45799999999999999999873

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.35  E-value=0.0096  Score=49.01  Aligned_cols=22  Identities=27%  Similarity=0.197  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....|.|.|+.|+||||+++.+
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~L   36 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKL   36 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999998

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.34  E-value=0.0089  Score=48.45  Aligned_cols=19  Identities=37%  Similarity=0.496  Sum_probs=17.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|.|.|++|+||||.|+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~L   20 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRL   20 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6889999999999999998

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.34  E-value=0.01  Score=45.16  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-|.++|.+|+|||||++.+.+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~   23 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLK   23 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999843

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.34  E-value=0.0084  Score=48.77  Aligned_cols=21  Identities=29%  Similarity=0.249  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...|.|.|++|+||||+++.+
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~L   25 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFI   25 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            357899999999999999998

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=95.28  E-value=0.023  Score=45.76  Aligned_cols=21  Identities=24%  Similarity=0.170  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|+.|+||||+++.+
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~l   26 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKL   26 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHH
Confidence            369999999999999999988

>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=95.27  E-value=0.019  Score=48.30  Aligned_cols=36  Identities=25%  Similarity=0.347  Sum_probs=26.3

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .-+..|+.........|.++||+|+|||++|..+.+
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~  126 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHh
Confidence            345556655423456899999999999999987643

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.24  E-value=0.011  Score=51.09  Aligned_cols=21  Identities=24%  Similarity=0.335  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.||.|+|||||+..+
T Consensus         3 ~~~i~i~GptgsGKt~la~~L   23 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVML   23 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHH
T ss_pred             CcEEEEECCCcCCHHHHHHHH
Confidence            368999999999999999988

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.23  E-value=0.011  Score=52.00  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +..+|+|+|++|+|||||.+.+..
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999998843

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.22  E-value=0.0097  Score=45.54  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus         4 ~~~~i~v~G~~~~GKssl~~~l~   26 (168)
T 1z2a_A            4 VAIKMVVVGNGAVGKSSMIQRYC   26 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             eeEEEEEECcCCCCHHHHHHHHH
Confidence            34568999999999999998874

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=95.22  E-value=0.0076  Score=56.94  Aligned_cols=47  Identities=13%  Similarity=0.047  Sum_probs=33.8

Q ss_pred             cCceeehhHHHHHHHHHHhcCCC---------CceEEEEEcCCCChHHHHHHHhhC
Q 048597           77 ERTVIRQELLLDRVWRFVTDQER---------NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~---------~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+.++|.+..+..+.-.|..+..         ...-|.++|++|+|||+||+.+..
T Consensus       294 ~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~  349 (595)
T 3f9v_A          294 APSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISR  349 (595)
T ss_dssp             SSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSST
T ss_pred             cchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHH
Confidence            35688998877766655554410         011689999999999999999954

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=95.21  E-value=0.0095  Score=45.31  Aligned_cols=20  Identities=40%  Similarity=0.569  Sum_probs=18.0

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.++|.+|+|||||++.+.
T Consensus         5 ~i~v~G~~~~GKssl~~~l~   24 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLI   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58899999999999998873

>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=95.21  E-value=0.011  Score=53.35  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|.|+|++|+||||+++.+..
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999999998754

>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=95.21  E-value=0.011  Score=49.26  Aligned_cols=23  Identities=39%  Similarity=0.455  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...++.+.|.||+|||||+..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHH
Confidence            46799999999999999998873

>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=95.20  E-value=0.022  Score=58.81  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|+.|+|||||++.+
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll  464 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLL  464 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHH
T ss_pred             CCcEEEEEecCCCcHHHHHHHh
Confidence            3479999999999999999998

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.20  E-value=0.01  Score=51.45  Aligned_cols=21  Identities=33%  Similarity=0.268  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|+|+.|+|||||++.+
T Consensus         5 ~~~i~i~GptGsGKTtla~~L   25 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMAL   25 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            358999999999999999887

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=95.17  E-value=0.0098  Score=46.34  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..|+|+|.+|+|||||++.+..
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~   26 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAG   26 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5689999999999999999854

>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=95.17  E-value=0.03  Score=48.37  Aligned_cols=19  Identities=16%  Similarity=0.032  Sum_probs=17.6

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++-|.|++|+|||||+.++
T Consensus        30 iteI~G~pGsGKTtL~Lq~   48 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTM   48 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            7899999999999998776

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.12  E-value=0.011  Score=45.35  Aligned_cols=21  Identities=33%  Similarity=0.468  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -|.|+|.+|+|||||++.+.+
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            588999999999999999854

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.11  E-value=0.023  Score=51.41  Aligned_cols=36  Identities=17%  Similarity=0.277  Sum_probs=26.5

Q ss_pred             HHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+++.+++...       ....++|.++|.+|+||||++..+
T Consensus        78 ~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~L  120 (433)
T 2xxa_A           78 VRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKL  120 (433)
T ss_dssp             HHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHH
T ss_pred             HHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHH
Confidence            445566655432       134689999999999999998887

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.10  E-value=0.015  Score=45.09  Aligned_cols=24  Identities=29%  Similarity=0.389  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +...|.|+|.+|+|||||++.+.+
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            467899999999999999988743

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.09  E-value=0.015  Score=45.75  Aligned_cols=24  Identities=29%  Similarity=0.295  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....|.|+|.+|+|||||+..+.+
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~   70 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTT   70 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999998843

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.08  E-value=0.013  Score=51.01  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|+||.|+|||||+..+
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~L   60 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDL   60 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHH
Confidence            3469999999999999999988

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.07  E-value=0.011  Score=52.01  Aligned_cols=22  Identities=41%  Similarity=0.582  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I   91 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMI   91 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.07  E-value=0.014  Score=50.18  Aligned_cols=22  Identities=32%  Similarity=0.229  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.||.|+|||||+..+
T Consensus         9 ~~~~i~i~GptgsGKt~la~~L   30 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIEL   30 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHH
Confidence            4578999999999999999988

>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=95.06  E-value=0.015  Score=44.88  Aligned_cols=25  Identities=36%  Similarity=0.302  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ...-|.|+|.+|+|||||++.+.+.
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcC
Confidence            3457999999999999999998543

>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=95.06  E-value=0.013  Score=52.06  Aligned_cols=99  Identities=16%  Similarity=0.134  Sum_probs=55.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHH--HHHH---HH--hCCCCC-C--cc---cCChHHHHHHHHHHhccCCeEEE
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQ--ADIG---KK--IGLSTK-S--WQ---ENSFEDKALDIAGILSRKRFVLL  166 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~--~~i~---~~--~~~~~~-~--~~---~~~~~~~~~~l~~~l~~kr~Llv  166 (294)
                      .-.+++|+|+.|+|||||++.+.......  ..+.   ..  ...... .  .+   ..+...+...+...|...+-+|+
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~~~~~~~~~l~~~L~~~pd~il  214 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIF  214 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCSHHHHHHHTTSCCSEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCCCHHHHHHHHHHHhhhCcCEEE
Confidence            45799999999999999999885433221  0000   00  000000 0  00   00112334567777777888999


Q ss_pred             EccccCccchhhhcCCcCCCCCCcEEEEecCChHH
Q 048597          167 LDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVV  201 (294)
Q Consensus       167 lDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v  201 (294)
                      +|++.+.+....+...   ...|..++.|+...++
T Consensus       215 ldE~~d~e~~~~~l~~---~~~g~~vi~t~H~~~~  246 (372)
T 2ewv_A          215 VGEMRDLETVETALRA---AETGHLVFGTLHTNTA  246 (372)
T ss_dssp             ESCCCSHHHHHHHHHH---HTTTCEEEECCCCCSH
T ss_pred             ECCCCCHHHHHHHHHH---HhcCCEEEEEECcchH
Confidence            9999765444332222   1235667777776543

>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=95.06  E-value=0.012  Score=45.26  Aligned_cols=21  Identities=38%  Similarity=0.396  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|.|+|.+|+|||||++.+.
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            458999999999999999884

>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=95.05  E-value=0.014  Score=48.04  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...+|.|.|+.|+||||+++.+.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~   47 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVY   47 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHH
Confidence            45799999999999999998873

>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=95.02  E-value=0.015  Score=45.23  Aligned_cols=23  Identities=35%  Similarity=0.400  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~   39 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQ   39 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CccEEEEECCCCCCHHHHHHHHh
Confidence            56789999999999999999884

>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=95.02  E-value=0.012  Score=44.86  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.++|.+|+|||||++.+.
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~   25 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFM   25 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHH
Confidence            3568999999999999998884

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.00  E-value=0.012  Score=54.87  Aligned_cols=22  Identities=55%  Similarity=0.833  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL   45 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKIL   45 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            4479999999999999999998

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=94.99  E-value=0.032  Score=49.54  Aligned_cols=34  Identities=26%  Similarity=0.218  Sum_probs=24.9

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           89 RVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        89 ~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ++++.+..-- .-..++|+|++|+|||+|+.++.+
T Consensus       164 raID~l~Pig-rGQR~lIfg~~g~GKT~Ll~~Ia~  197 (427)
T 3l0o_A          164 RLIDLFAPIG-KGQRGMIVAPPKAGKTTILKEIAN  197 (427)
T ss_dssp             HHHHHHSCCB-TTCEEEEEECTTCCHHHHHHHHHH
T ss_pred             hhhhhccccc-CCceEEEecCCCCChhHHHHHHHH
Confidence            5556665421 346889999999999999987744

>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=94.99  E-value=0.021  Score=49.81  Aligned_cols=95  Identities=17%  Similarity=0.084  Sum_probs=50.2

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhHHHHHHHH-----HhCCC-CCCc-ccC--ChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKKIQADIGK-----KIGLS-TKSW-QEN--SFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~-----~~~~~-~~~~-~~~--~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      .+++|+|+.|+|||||++.+............     .+... .... .-.  .-......+...|..++-++++|+...
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~ilildE~~~  251 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELRS  251 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEECCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhCCCEEEEcCCCh
Confidence            68999999999999999998433211100000     00000 0000 000  112334456667777888899999877


Q ss_pred             ccchhhhcCCcCCCCCCcEEEEecCCh
Q 048597          173 HINLNKLGVPLQYLHLGSKIVFTTNSR  199 (294)
Q Consensus       173 ~~~~~~l~~~l~~~~~gs~iivTtr~~  199 (294)
                      .+.++.+. .+..+  +.-+++||...
T Consensus       252 ~e~~~~l~-~~~~g--~~tvi~t~H~~  275 (330)
T 2pt7_A          252 SEAYDFYN-VLCSG--HKGTLTTLHAG  275 (330)
T ss_dssp             THHHHHHH-HHHTT--CCCEEEEEECS
T ss_pred             HHHHHHHH-HHhcC--CCEEEEEEccc
Confidence            55444332 22222  22356666543

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.98  E-value=0.012  Score=48.34  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=19.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|++|+|||||+.++
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~   43 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQF   43 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3469999999999999998776

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.97  E-value=0.03  Score=46.89  Aligned_cols=37  Identities=22%  Similarity=0.364  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +.++...+.........|+|+|..|+|||||+..+..
T Consensus        22 l~~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~   58 (262)
T 3def_A           22 LIEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIG   58 (262)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3344444444434567899999999999999999843

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.97  E-value=0.013  Score=45.02  Aligned_cols=22  Identities=32%  Similarity=0.661  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      --|.|+|.+|+|||||++.+.+
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4688999999999999998843

>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=94.96  E-value=0.013  Score=44.79  Aligned_cols=21  Identities=38%  Similarity=0.515  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|.|+|.+|+|||||++.+.
T Consensus         4 ~ki~v~G~~~~GKssli~~l~   24 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFV   24 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            458999999999999998883

>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=94.96  E-value=0.013  Score=44.69  Aligned_cols=21  Identities=38%  Similarity=0.520  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|.|+|.+|+|||||++.+.
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~   24 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFV   24 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            468999999999999998873

>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=94.96  E-value=0.012  Score=46.80  Aligned_cols=23  Identities=35%  Similarity=0.333  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999984

>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=94.96  E-value=0.012  Score=51.74  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCChHHHHHHHhhCh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .+++|+|++|+|||||++.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            58999999999999999887543

>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=94.96  E-value=0.013  Score=46.17  Aligned_cols=21  Identities=38%  Similarity=0.479  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|.++|.+|+|||||+..+.
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~   42 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLI   42 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHH
Confidence            578899999999999998884

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.96  E-value=0.01  Score=52.48  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=20.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -..++|+|+.|+|||||++.+..
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~  197 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQ  197 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            36999999999999999988843

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=94.95  E-value=0.034  Score=57.29  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|+.|+|||||++.+
T Consensus       415 ~G~~~~ivG~sGsGKSTl~~ll  436 (1284)
T 3g5u_A          415 SGQTVALVGNSGCGKSTTVQLM  436 (1284)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

>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=94.94  E-value=0.039  Score=48.76  Aligned_cols=73  Identities=19%  Similarity=0.203  Sum_probs=41.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh--------------HHHHHHHHHhCCCCCC---cccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK--------------KIQADIGKKIGLSTKS---WQENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~--------------~i~~~i~~~~~~~~~~---~~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-.++.|.|++|+|||||+..+....              .........++.....   ....+.++....+...++ .+
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~  152 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGA  152 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCC
Confidence            34689999999999999998872110              0001123444432211   012345555555555554 34


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      --+||+|.+..
T Consensus       153 ~~lVVIDsl~~  163 (366)
T 1xp8_A          153 IDVVVVDSVAA  163 (366)
T ss_dssp             CSEEEEECTTT
T ss_pred             CCEEEEeChHH
Confidence            56899998854

>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=94.93  E-value=0.015  Score=49.87  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+++++|++|+||||++..+
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~l  118 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKL  118 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3579999999999999999988

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.92  E-value=0.032  Score=46.94  Aligned_cols=38  Identities=24%  Similarity=0.309  Sum_probs=27.2

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+.++...+.........|.++|.+|+|||||++.+++
T Consensus        24 ~l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~   61 (270)
T 1h65_A           24 KLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIG   61 (270)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhC
Confidence            33444444444433567899999999999999998854

>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=94.91  E-value=0.01  Score=51.03  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHhhCh
Q 048597          103 IIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      -|+|+|++|+|||||++.++..
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4599999999999999998653

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.90  E-value=0.013  Score=44.89  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~   27 (170)
T 1z08_A            5 YSFKVVLLGEGCVGKTSLVLRYC   27 (170)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHH
Confidence            34578999999999999998874

>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=94.89  E-value=0.016  Score=46.73  Aligned_cols=23  Identities=30%  Similarity=0.300  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ....|.|+|++|+|||||+..+.
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~   33 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLT   33 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            56789999999999999998873

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.89  E-value=0.014  Score=44.69  Aligned_cols=21  Identities=24%  Similarity=0.343  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|.|+|.+|+|||||++.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~   24 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFV   24 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            358899999999999998873

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.87  E-value=0.014  Score=44.74  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|.|+|.+|+|||||++.+.
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~   27 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFV   27 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHH
Confidence            3468999999999999998873

>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=94.86  E-value=0.018  Score=50.55  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|+|++|+|||||++.+
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l  151 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTL  151 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999987

>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=94.86  E-value=0.015  Score=53.37  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+++|+|++|+|||||++.+..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            8999999999999999988844

>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=94.85  E-value=0.017  Score=52.24  Aligned_cols=36  Identities=22%  Similarity=0.442  Sum_probs=26.0

Q ss_pred             HHHHHHHHHhcC------C-CCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQ------E-RNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~------~-~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.+++...      . ....+|.|+|++|+||||++..+
T Consensus        77 ~~~~l~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTla~~L  119 (432)
T 2v3c_C           77 VYEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKL  119 (432)
T ss_dssp             HHHHHHHHHCCSCCCCCCCSSSCCCEEEECCSSSSTTHHHHHH
T ss_pred             HHHHHHHHhCCCCcCccccCCCCeEEEEECCCCCCHHHHHHHH
Confidence            344555555432      1 23569999999999999999887

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.84  E-value=0.011  Score=53.89  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      .-.+++|+|+.|+|||||++.+.+..
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            44799999999999999999985544

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.84  E-value=0.014  Score=45.12  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~   28 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYV   28 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHH
Confidence            34578999999999999999884

>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=94.84  E-value=0.017  Score=45.58  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ....|.|+|.+|+|||||++.+.+.
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            5678999999999999999998654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.83  E-value=0.013  Score=54.56  Aligned_cols=22  Identities=32%  Similarity=0.578  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l   67 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKIL   67 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999998

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.82  E-value=0.015  Score=44.40  Aligned_cols=20  Identities=35%  Similarity=0.390  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.|+|.+|+|||||++.+.
T Consensus         2 ki~~~G~~~~GKssl~~~l~   21 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLK   21 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            37899999999999998884

>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=94.81  E-value=0.011  Score=53.25  Aligned_cols=21  Identities=38%  Similarity=0.475  Sum_probs=19.5

Q ss_pred             EEEEcCCCChHHHHHHHhhCh
Q 048597          104 IGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ++|+|++|+|||||++.++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            999999999999999999665

>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=94.81  E-value=0.029  Score=57.88  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..|+|+|+.|+|||||++.+
T Consensus      1104 ~Ge~vaIVG~SGsGKSTL~~lL 1125 (1321)
T 4f4c_A         1104 PGQTLALVGPSGCGKSTVVALL 1125 (1321)
T ss_dssp             TTCEEEEECSTTSSTTSHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3468999999999999999998

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.80  E-value=0.017  Score=44.68  Aligned_cols=24  Identities=33%  Similarity=0.429  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...-|.|+|.+|+|||||++.+.+
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCS
T ss_pred             cceEEEEECCCCCCHHHHHHHHhc
Confidence            456789999999999999998854

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.79  E-value=0.015  Score=44.61  Aligned_cols=22  Identities=41%  Similarity=0.416  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|.|+|.+|+|||||++.+.
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~   24 (170)
T 1g16_A            3 IMKILLIGDSGVGKSCLLVRFV   24 (170)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHH
Confidence            3568999999999999999884

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.79  E-value=0.031  Score=43.82  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~   37 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFS   37 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHh
Confidence            56789999999999999999885

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.78  E-value=0.03  Score=51.65  Aligned_cols=36  Identities=22%  Similarity=0.362  Sum_probs=25.3

Q ss_pred             HHHHHHHHHhcC-------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQ-------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.+++...       .....+|.|+|.+|+||||++..+
T Consensus        79 v~~eL~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTl~~kL  121 (504)
T 2j37_W           79 VFKELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKL  121 (504)
T ss_dssp             HHHHHHHHHCCCCCCCCCCSS--EEEEEECSTTSSHHHHHHHH
T ss_pred             HHHHHHHHhccccchhccccCCCeEEEEECCCCCCHHHHHHHH
Confidence            344555555432       134679999999999999999888

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.77  E-value=0.018  Score=45.21  Aligned_cols=24  Identities=33%  Similarity=0.548  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....|.|+|..|+|||||++.+.+
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~   45 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFN   45 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHc
Confidence            456789999999999999998843

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.76  E-value=0.014  Score=55.15  Aligned_cols=22  Identities=45%  Similarity=0.718  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL  123 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKIL  123 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3479999999999999999998

>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=94.75  E-value=0.015  Score=45.62  Aligned_cols=23  Identities=35%  Similarity=0.335  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~   28 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFA   28 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEEEECCCCCCHHHHHHHHh
Confidence            34578899999999999998873

>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=94.73  E-value=0.015  Score=45.73  Aligned_cols=22  Identities=23%  Similarity=0.372  Sum_probs=19.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..--|.|+|.+|+|||||++.+
T Consensus        19 ~~~ki~ivG~~~vGKSsL~~~~   40 (184)
T 3ihw_A           19 PELKVGIVGNLSSGKSALVHRY   40 (184)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHH
T ss_pred             CeeEEEEECCCCCCHHHHHHHH
Confidence            4468899999999999999876

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.73  E-value=0.079  Score=46.21  Aligned_cols=22  Identities=18%  Similarity=0.294  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|.+|+|||||+..+
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~i   66 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNM   66 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHH
Confidence            3479999999999999999887

>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=94.72  E-value=0.013  Score=46.77  Aligned_cols=24  Identities=33%  Similarity=0.414  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhCh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ..-|.++|.+|+|||||++.+.+.
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            356899999999999999998653

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=94.72  E-value=0.015  Score=49.94  Aligned_cols=24  Identities=38%  Similarity=0.555  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....|+|+|.+|+|||||++.+..
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g   30 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLG   30 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHC
Confidence            456899999999999999999843

>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=94.71  E-value=0.016  Score=44.28  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|.|+|.+|+|||||++.+.
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~   27 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFV   27 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHH
Confidence            3568999999999999998873

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.70  E-value=0.015  Score=54.19  Aligned_cols=21  Identities=43%  Similarity=0.740  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus       294 Gei~~i~G~nGsGKSTLl~~l  314 (538)
T 3ozx_A          294 GEIIGILGPNGIGKTTFARIL  314 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            358999999999999999999

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.70  E-value=0.02  Score=44.42  Aligned_cols=23  Identities=35%  Similarity=0.498  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~   29 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYV   29 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHH
Confidence            45679999999999999998874

>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=94.70  E-value=0.016  Score=46.60  Aligned_cols=21  Identities=24%  Similarity=0.205  Sum_probs=18.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..|.|.|++|+||||||..+
T Consensus        34 g~~ilI~GpsGsGKStLA~~L   54 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALEL   54 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            467999999999999999877

>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=94.70  E-value=0.018  Score=46.13  Aligned_cols=22  Identities=36%  Similarity=0.350  Sum_probs=18.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.--|.|+|.+|+|||||+..+
T Consensus        29 ~~~ki~vvG~~~~GKSsLi~~l   50 (204)
T 4gzl_A           29 QAIKCVVVGDGAVGKTCLLISY   50 (204)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHH
T ss_pred             CeEEEEEECcCCCCHHHHHHHH
Confidence            4567899999999999999776

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.67  E-value=0.015  Score=48.76  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +...|.|.|+.|+||||+++.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~   45 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILK   45 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            45799999999999999999884

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.67  E-value=0.019  Score=47.48  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...|.|.|+.|+||||+++.+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~   23 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLT   23 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHH
Confidence            4689999999999999998873

>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=94.66  E-value=0.015  Score=45.48  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.5

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -|.|+|.+|+|||||++.+.+
T Consensus         3 ki~v~G~~~~GKSsli~~l~~   23 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTG   23 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998843

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=94.64  E-value=0.022  Score=43.52  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=18.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+..|+|+.|.|||||+..+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai   43 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAI   43 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            368899999999999998776

>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=94.64  E-value=0.017  Score=45.86  Aligned_cols=22  Identities=41%  Similarity=0.381  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~   27 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFA   27 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            4569999999999999998874

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.63  E-value=0.017  Score=44.69  Aligned_cols=25  Identities=32%  Similarity=0.292  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ..--|.|+|.+|+|||||++.+.+.
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhC
Confidence            3457899999999999999998543

>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=94.63  E-value=0.016  Score=45.78  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=18.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...|.++|.+|+|||||++.+.
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~   44 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLK   44 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHh
Confidence            3578999999999999998874

>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=94.62  E-value=0.023  Score=43.59  Aligned_cols=23  Identities=35%  Similarity=0.405  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~   28 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQ   28 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHh
Confidence            34678999999999999998883

>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=94.62  E-value=0.022  Score=44.08  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|..|+|||||++.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~   30 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFI   30 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999998874

>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=94.61  E-value=0.017  Score=45.10  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|.|+|.+|+|||||++.+.
T Consensus         4 ~~ki~v~G~~~~GKSsli~~l~   25 (189)
T 4dsu_A            4 EYKLVVVGADGVGKSALTIQLI   25 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHH
Confidence            3468999999999999998883

>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=94.61  E-value=0.018  Score=44.55  Aligned_cols=23  Identities=35%  Similarity=0.268  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~   36 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFT   36 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999883

>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=94.60  E-value=0.017  Score=45.38  Aligned_cols=21  Identities=48%  Similarity=0.371  Sum_probs=18.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .--|.|+|.+|+|||||++.+
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l   34 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWI   34 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHH
Confidence            457899999999999999766

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.60  E-value=0.017  Score=53.95  Aligned_cols=21  Identities=43%  Similarity=0.778  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus       312 Ge~~~i~G~NGsGKSTLlk~l  332 (538)
T 1yqt_A          312 GEVIGIVGPNGIGKTTFVKML  332 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999998

>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=94.58  E-value=0.018  Score=45.14  Aligned_cols=23  Identities=35%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~   32 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYT   32 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             eeEEEEEECCCCCCHHHHHHHHh
Confidence            35678999999999999998884

>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=94.57  E-value=0.018  Score=44.56  Aligned_cols=21  Identities=29%  Similarity=0.347  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|.|+|..|+|||||++.+.
T Consensus        15 ~~i~v~G~~~~GKssli~~l~   35 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFM   35 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            468999999999999998873

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.56  E-value=0.017  Score=52.41  Aligned_cols=22  Identities=36%  Similarity=0.597  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~I  177 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMM  177 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

>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=94.56  E-value=0.018  Score=44.84  Aligned_cols=23  Identities=35%  Similarity=0.377  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~   39 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFF   39 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999998874

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=94.55  E-value=0.0088  Score=51.61  Aligned_cols=24  Identities=29%  Similarity=0.356  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      .+++|+|++|+|||||++.+....
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CEEEEECCCCCCHHHHHHHhcccc
Confidence            699999999999999999886644

>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=94.51  E-value=0.019  Score=45.28  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~   42 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFL   42 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHH
Confidence            34578999999999999998873

>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=94.51  E-value=0.018  Score=54.53  Aligned_cols=22  Identities=36%  Similarity=0.613  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       116 ~Ge~~~LiG~NGsGKSTLlkiL  137 (607)
T 3bk7_A          116 DGMVVGIVGPNGTGKTTAVKIL  137 (607)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3469999999999999999998

>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=94.51  E-value=0.018  Score=44.91  Aligned_cols=23  Identities=30%  Similarity=0.254  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~   31 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFI   31 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHH
Confidence            34678999999999999998873

>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=94.50  E-value=0.019  Score=44.56  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~   33 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFV   33 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHH
Confidence            4578999999999999998873

>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=94.49  E-value=0.018  Score=54.49  Aligned_cols=21  Identities=43%  Similarity=0.778  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus       382 Gei~~i~G~NGsGKSTLlk~l  402 (607)
T 3bk7_A          382 GEVIGIVGPNGIGKTTFVKML  402 (607)
T ss_dssp             TCEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999998

>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=94.49  E-value=0.019  Score=45.24  Aligned_cols=23  Identities=39%  Similarity=0.398  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|..|+|||||++.+.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~   46 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFT   46 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHh
Confidence            45679999999999999998873

>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=94.48  E-value=0.019  Score=45.63  Aligned_cols=23  Identities=35%  Similarity=0.440  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~   35 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFM   35 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHH
Confidence            45679999999999999998883

>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=94.48  E-value=0.019  Score=44.65  Aligned_cols=23  Identities=35%  Similarity=0.440  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        17 ~~~ki~v~G~~~~GKSsli~~l~   39 (187)
T 2a9k_A           17 ALHKVIMVGSGGVGKSALTLQFM   39 (187)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHh
Confidence            34678999999999999998884

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.47  E-value=0.018  Score=46.65  Aligned_cols=20  Identities=35%  Similarity=0.406  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|+.|+||||+++.+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l   23 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRV   23 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            57999999999999999987

>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=94.46  E-value=0.019  Score=44.63  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~   27 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFV   27 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHH
T ss_pred             ceEEEEEECcCCCCHHHHHHHHH
Confidence            34678999999999999998874

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.45  E-value=0.018  Score=51.89  Aligned_cols=20  Identities=30%  Similarity=0.491  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHHHHhhC
Q 048597          104 IGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~~  123 (294)
                      |+|+|++|+|||||++.++.
T Consensus        34 I~lvG~sGaGKSTLln~L~g   53 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFL   53 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCcHHHHHHHHhC
Confidence            59999999999999999854

>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=94.45  E-value=0.02  Score=44.58  Aligned_cols=21  Identities=38%  Similarity=0.355  Sum_probs=18.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .--|.|+|.+|+|||||++.+
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l   25 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISY   25 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHH
Confidence            346899999999999999877

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=94.44  E-value=0.023  Score=46.77  Aligned_cols=24  Identities=25%  Similarity=0.217  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....|+|+|.+|+|||||++.+..
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g   51 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILG   51 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHcC
Confidence            567899999999999999999843

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=94.44  E-value=0.022  Score=49.09  Aligned_cols=24  Identities=33%  Similarity=0.516  Sum_probs=21.5

Q ss_pred             CCceEEEEEcCCCChHHHHHHHhh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .....|+|+|.+|+|||||.+.+.
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~   31 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLL   31 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHh
Confidence            367899999999999999999883

>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=94.43  E-value=0.021  Score=50.94  Aligned_cols=20  Identities=45%  Similarity=0.549  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.||.|+|||||+..+
T Consensus         3 ~~i~i~GptgsGKttla~~L   22 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQL   22 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHH
Confidence            58999999999999999887

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=94.42  E-value=0.022  Score=47.98  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...|+++|.+|+|||||.+.+.
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~   24 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALT   24 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHh
Confidence            4679999999999999999983

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.40  E-value=0.016  Score=54.05  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|.|+|++|+|||||++.+..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~  391 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAA  391 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHH
Confidence            347999999999999999998843

>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=94.40  E-value=0.021  Score=44.34  Aligned_cols=23  Identities=35%  Similarity=0.255  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~~~   29 (182)
T 3bwd_D            7 RFIKCVTVGDGAVGKTCLLISYT   29 (182)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHh
Confidence            34568899999999999998884

>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=94.38  E-value=0.021  Score=44.22  Aligned_cols=23  Identities=39%  Similarity=0.369  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus         9 ~~~~i~v~G~~~~GKssli~~l~   31 (180)
T 2g6b_A            9 VAFKVMLVGDSGVGKTCLLVRFK   31 (180)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHH
Confidence            34578999999999999998873

>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=94.36  E-value=0.025  Score=44.97  Aligned_cols=23  Identities=35%  Similarity=0.434  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~   29 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYV   29 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHH
Confidence            45689999999999999998873

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.36  E-value=0.02  Score=54.13  Aligned_cols=20  Identities=45%  Similarity=0.664  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+++|+|++|+|||||++.+
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l  398 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLL  398 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHH
Confidence            57999999999999999998

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=94.35  E-value=0.05  Score=49.28  Aligned_cols=44  Identities=20%  Similarity=0.339  Sum_probs=32.5

Q ss_pred             eehhHHHHHHHHHHhcC---------CCCceEEEEEcCCCChHHHHHHHhhCh
Q 048597           81 IRQELLLDRVWRFVTDQ---------ERNRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~---------~~~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .|.++-++.+...+...         ......|+|+|++|+|||||++.+...
T Consensus       151 ~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          151 INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCC
Confidence            46677777777776532         123468999999999999999998543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.34  E-value=0.021  Score=45.01  Aligned_cols=22  Identities=23%  Similarity=0.305  Sum_probs=19.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..--|.|+|.+|+|||||++.+
T Consensus         6 ~~~ki~v~G~~~~GKSsli~~l   27 (208)
T 3clv_A            6 SSYKTVLLGESSVGKSSIVLRL   27 (208)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHH
Confidence            3456899999999999999888

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=94.33  E-value=0.029  Score=45.76  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....|.|+|.+|+|||||+..+.+
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~   51 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSR   51 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            457899999999999999999843

>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=94.33  E-value=0.016  Score=45.01  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|.++|.+|+|||||++.+.
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~   28 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFL   28 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            3568999999999999999883

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.32  E-value=0.035  Score=51.34  Aligned_cols=22  Identities=27%  Similarity=0.095  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|+|+.|+|||||++.+..
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~  282 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMM  282 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4699999999999999998843

>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=94.30  E-value=0.022  Score=45.09  Aligned_cols=23  Identities=26%  Similarity=0.521  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~   49 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFL   49 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            44678999999999999998883

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.30  E-value=0.027  Score=44.48  Aligned_cols=25  Identities=24%  Similarity=0.311  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ....|.|+|.+|+|||||++.+.+.
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            5678999999999999999998543

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=94.28  E-value=0.023  Score=44.44  Aligned_cols=24  Identities=29%  Similarity=0.337  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...-|.|+|.+|+|||||++.+.+
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~   40 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNG   40 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTT
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhc
Confidence            557899999999999999998854

>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=94.26  E-value=0.044  Score=49.91  Aligned_cols=36  Identities=25%  Similarity=0.359  Sum_probs=26.2

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....+..+...+..+.   ..+.|.|++|+||||++..+
T Consensus        30 Q~~av~~~~~~i~~~~---~~~li~G~aGTGKT~ll~~~   65 (459)
T 3upu_A           30 QKNAFNIVMKAIKEKK---HHVTINGPAGTGATTLTKFI   65 (459)
T ss_dssp             HHHHHHHHHHHHHSSS---CEEEEECCTTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC---CEEEEEeCCCCCHHHHHHHH
Confidence            3344555555555542   49999999999999998776

>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=94.26  E-value=0.023  Score=45.19  Aligned_cols=22  Identities=36%  Similarity=0.344  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~   29 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYA   29 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHh
Confidence            4578999999999999998884

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=94.26  E-value=0.022  Score=45.07  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~   50 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLK   50 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHC
T ss_pred             CccEEEEECCCCCCHHHHHHHHH
Confidence            45679999999999999999984

>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=94.25  E-value=0.022  Score=44.85  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus        22 ~~~ki~v~G~~~~GKSsli~~l~   44 (191)
T 3dz8_A           22 YMFKLLIIGNSSVGKTSFLFRYA   44 (191)
T ss_dssp             ECEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeeEEEEECCCCcCHHHHHHHHh
Confidence            34578999999999999998874

>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=94.25  E-value=0.023  Score=44.63  Aligned_cols=23  Identities=35%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        21 ~~~ki~vvG~~~~GKSsli~~l~   43 (189)
T 2gf9_A           21 YMFKLLLIGNSSVGKTSFLFRYA   43 (189)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHH
Confidence            34689999999999999998873

>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=94.25  E-value=0.022  Score=45.60  Aligned_cols=23  Identities=39%  Similarity=0.410  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~   47 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFT   47 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHH
Confidence            45678999999999999998873

>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=94.24  E-value=0.022  Score=44.95  Aligned_cols=23  Identities=35%  Similarity=0.616  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~   29 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFV   29 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHH
Confidence            34678999999999999998883

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=94.23  E-value=0.041  Score=43.09  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...-|.|+|.+|+|||||++.+..
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHc
Confidence            456799999999999999998843

>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=94.22  E-value=0.023  Score=44.91  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|..|+|||||++.+.
T Consensus        22 ~~~ki~vvG~~~~GKSsli~~l~   44 (192)
T 2fg5_A           22 RELKVCLLGDTGVGKSSIVCRFV   44 (192)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHH
T ss_pred             CceEEEEECcCCCCHHHHHHHHh
Confidence            34579999999999999998884

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.21  E-value=0.024  Score=44.65  Aligned_cols=23  Identities=39%  Similarity=0.366  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|..|+|||||++.+.
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~   37 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFA   37 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHH
Confidence            45679999999999999998873

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=94.21  E-value=0.024  Score=53.38  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l  389 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLI  389 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999998

>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=94.20  E-value=0.024  Score=44.57  Aligned_cols=22  Identities=32%  Similarity=0.244  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~   43 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIA   43 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHH
Confidence            4578999999999999998883

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.20  E-value=0.023  Score=45.21  Aligned_cols=23  Identities=30%  Similarity=0.290  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~   45 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFV   45 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEEECCCCcCHHHHHHHHH
Confidence            45679999999999999998873

>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=94.19  E-value=0.023  Score=45.63  Aligned_cols=23  Identities=35%  Similarity=0.335  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~   49 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFA   49 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeeEEEEECCCCCCHHHHHHHHh
Confidence            45678999999999999998873

>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=94.19  E-value=0.028  Score=50.34  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|+|++|+|||||+..+
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~l  198 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTL  198 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHH
Confidence            3479999999999999999955

>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=94.19  E-value=0.024  Score=45.99  Aligned_cols=23  Identities=39%  Similarity=0.372  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~   58 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFA   58 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            34579999999999999998874

>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=94.15  E-value=0.025  Score=44.55  Aligned_cols=22  Identities=36%  Similarity=0.300  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|.|+|..|+|||||++.+.
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~   42 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFT   42 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHh
Confidence            4578999999999999998884

>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=94.14  E-value=0.025  Score=44.63  Aligned_cols=23  Identities=39%  Similarity=0.401  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~   44 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFS   44 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             eeeEEEEECcCCCCHHHHHHHHh
Confidence            34678999999999999998873

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.13  E-value=0.025  Score=44.65  Aligned_cols=24  Identities=29%  Similarity=0.461  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhCh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ..-|.|+|..|+|||||++.+.+.
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999998653

>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=94.13  E-value=0.025  Score=44.41  Aligned_cols=23  Identities=30%  Similarity=0.193  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|..|+|||||++.+.
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~   41 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFC   41 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999998873

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=94.12  E-value=0.025  Score=45.11  Aligned_cols=24  Identities=29%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..--|.|+|.+|+|||||++.+.+
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHh
Confidence            456789999999999999999854

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=94.12  E-value=0.025  Score=44.53  Aligned_cols=26  Identities=19%  Similarity=0.202  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      ...-|.|+|..|+|||||++.+.+..
T Consensus        20 ~~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           20 KEVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             -CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC
Confidence            34678999999999999999986543

>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=94.12  E-value=0.025  Score=45.39  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=19.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ....|.|+|.+|+|||||+..+.
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~   28 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLL   28 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            45678999999999999999883

>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=94.11  E-value=0.03  Score=51.72  Aligned_cols=41  Identities=10%  Similarity=-0.080  Sum_probs=27.3

Q ss_pred             eehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           81 IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.+.+..+.+.+.......+..+|.+.|++|+||||+++.+
T Consensus       375 f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~L  415 (511)
T 1g8f_A          375 FSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIAL  415 (511)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHH
T ss_pred             ccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHH
Confidence            44444444444443222224579999999999999999876

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=94.09  E-value=0.025  Score=44.83  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...-|.|+|.+|+|||||++.+.+
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~   42 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFH   42 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHh
Confidence            456899999999999999987744

>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=94.06  E-value=0.027  Score=44.26  Aligned_cols=22  Identities=36%  Similarity=0.448  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~   36 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFT   36 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999998883

>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=94.05  E-value=0.026  Score=45.04  Aligned_cols=23  Identities=35%  Similarity=0.355  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~   29 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFS   29 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHh
Confidence            34678999999999999998873

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.05  E-value=0.027  Score=44.69  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ..--|.|+|.+|+|||||++.+.+.
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567899999999999999988654

>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=94.04  E-value=0.027  Score=44.73  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~   49 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLC   49 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHH
Confidence            45789999999999999999984

>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=93.99  E-value=0.026  Score=52.49  Aligned_cols=21  Identities=33%  Similarity=0.254  Sum_probs=19.3

Q ss_pred             CceEEEEEcCCCChHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQ  120 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~  120 (294)
                      .-.+++|+|++|+|||||++.
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~   58 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQ   58 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHH
Confidence            347999999999999999999

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=93.94  E-value=0.027  Score=45.39  Aligned_cols=24  Identities=42%  Similarity=0.522  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..--|.|+|.+|+|||||++.+.+
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHc
Confidence            345789999999999999998864

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=93.86  E-value=0.026  Score=44.07  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...-|.|+|..|+|||||++.+.+
T Consensus        20 ~~~~i~v~G~~~~GKSsli~~l~~   43 (181)
T 2h17_A           20 QEHKVIIVGLDNAGKTTILYQFSM   43 (181)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhc
Confidence            346789999999999999998854

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.85  E-value=0.029  Score=44.87  Aligned_cols=22  Identities=36%  Similarity=0.448  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~   46 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFS   46 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHh
Confidence            3579999999999999998884

>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=93.85  E-value=0.031  Score=44.71  Aligned_cols=23  Identities=39%  Similarity=0.411  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||+..+.
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~   41 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFV   41 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHH
Confidence            34678999999999999998874

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.85  E-value=0.033  Score=44.10  Aligned_cols=20  Identities=30%  Similarity=0.132  Sum_probs=17.4

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++.|+|+.|+||||++..+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~   23 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSF   23 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58889999999999998554

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=93.84  E-value=0.02  Score=44.67  Aligned_cols=24  Identities=33%  Similarity=0.313  Sum_probs=11.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...-|.|+|.+|+|||||++.+.+
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~   30 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSE   30 (183)
T ss_dssp             EEEEEEEECCCCC-----------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            346799999999999999998854

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=93.84  E-value=0.031  Score=45.80  Aligned_cols=20  Identities=35%  Similarity=0.217  Sum_probs=17.3

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.|.+.|.||+||||++-.+
T Consensus         7 l~I~~~~kgGvGKTt~a~~l   26 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQA   26 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHH
Confidence            45889999999999997766

>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=93.79  E-value=0.036  Score=51.45  Aligned_cols=22  Identities=27%  Similarity=0.308  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.++|++|+||||+++.+
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~L   55 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKL   55 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999998

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.79  E-value=0.054  Score=44.33  Aligned_cols=37  Identities=19%  Similarity=0.109  Sum_probs=27.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHh--------hChhHHHHHHHHHhCCC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR--------ANLKKIQADIGKKIGLS  138 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v--------~~~~~i~~~i~~~~~~~  138 (294)
                      ..+|.|.|+.|+||||+++.+        ++ .++...++...+++
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg~~~~d-~~~~~~~a~~~g~~   58 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELGIHFYD-DDILKLASEKSAVG   58 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTCEEEC-HHHHHHHHHCC---
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcCCcEEc-HHHHHHHHHHcCCC
Confidence            469999999999999999988        33 55666666666554

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.73  E-value=0.032  Score=43.96  Aligned_cols=22  Identities=41%  Similarity=0.371  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~   39 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYA   39 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            4578999999999999998884

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=93.73  E-value=0.026  Score=45.63  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      ....|.|+|..|+|||||++.+.+.
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4578999999999999999998553

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=93.71  E-value=0.037  Score=46.75  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhC
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...|+++|.+|+|||||.+.+.+
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g   25 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITG   25 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHC
Confidence            45799999999999999999854

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=93.69  E-value=0.033  Score=44.44  Aligned_cols=23  Identities=26%  Similarity=0.226  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...-|.|+|.+|+|||||++.+.
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~   50 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFK   50 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHh
Confidence            45689999999999999999984

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.68  E-value=0.036  Score=46.36  Aligned_cols=20  Identities=35%  Similarity=0.758  Sum_probs=17.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++|+|.|.||+||||++..+
T Consensus         2 ~vI~vs~KGGvGKTT~a~nL   21 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNL   21 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHH
Confidence            57888899999999999887

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=93.66  E-value=0.034  Score=44.71  Aligned_cols=23  Identities=35%  Similarity=0.335  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|..|+|||||++.+.
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~   46 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYT   46 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHH
T ss_pred             eeEEEEEECcCCCCHHHHHHHHh
Confidence            45679999999999999999884

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=93.66  E-value=0.034  Score=44.28  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=19.1

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..-|.|+|.+|+|||||++.+.
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~   46 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFS   46 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999998874

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=93.66  E-value=0.039  Score=45.98  Aligned_cols=23  Identities=26%  Similarity=0.187  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ....|+|+|.+|+|||||...+.
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~   43 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSIL   43 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHh
Confidence            45689999999999999999884

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=93.66  E-value=0.033  Score=44.58  Aligned_cols=23  Identities=30%  Similarity=0.208  Sum_probs=19.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||+..+.
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~   30 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYT   30 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHh
Confidence            34578999999999999998873

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=93.65  E-value=0.035  Score=49.09  Aligned_cols=26  Identities=35%  Similarity=0.475  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      +.++|+|+|++|+|||||.+.+.+..
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            46679999999999999999996654

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.64  E-value=0.034  Score=45.71  Aligned_cols=21  Identities=29%  Similarity=0.216  Sum_probs=18.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..++|.|++|+||||+++.+
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L   28 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFI   28 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHH
Confidence            357899999999999999988

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=93.63  E-value=0.035  Score=47.64  Aligned_cols=23  Identities=35%  Similarity=0.582  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ....|+|+|.+|+|||||++.+.
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~   28 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLL   28 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHh
Confidence            45689999999999999999984

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=93.58  E-value=0.036  Score=44.72  Aligned_cols=22  Identities=36%  Similarity=0.383  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|.|+|.+|+|||||++.+.
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~   48 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLA   48 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHh
Confidence            4578899999999999998873

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.55  E-value=0.027  Score=53.18  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus       380 ~G~~~~ivG~sGsGKSTll~~l  401 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVNLL  401 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            4579999999999999999998

>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=93.55  E-value=0.051  Score=43.72  Aligned_cols=84  Identities=12%  Similarity=0.101  Sum_probs=47.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC-----------hhHHHH-HHHHHhCCCCCCc------ccC---ChHHHHHHHHHH-
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN-----------LKKIQA-DIGKKIGLSTKSW------QEN---SFEDKALDIAGI-  157 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~-----------~~~i~~-~i~~~~~~~~~~~------~~~---~~~~~~~~l~~~-  157 (294)
                      ...+|+|+|++|+||+|+|..+-+           +....+ ..+...++.....      ...   ........++.. 
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~g~~~~~vv~msD~iK~~~a~~~gl~~~~~l~~~~ykE~~R~~m~~~g~~~R~~d   89 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRLGADVCAVLRLSGPLKEQYAQEHGLNFQRLLDTSTYKEAFRKDMIRWGEEKRQAD   89 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHHCTTTEEEECTHHHHHHHHHHTTTCCCC-------CCSSHHHHHHHHHHHHHHHC
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHcCCCCceEEEccHHHHHHHHHHcCCCchhhcchhhhHHHHHHHHHHHHHHHHhcC
Confidence            557999999999999999988632           223333 3555555432211      000   112222222221 


Q ss_pred             --------hc-cCCeEEEEccccCccchhhhcCCc
Q 048597          158 --------LS-RKRFVLLLDDIWEHINLNKLGVPL  183 (294)
Q Consensus       158 --------l~-~kr~LlvlDdv~~~~~~~~l~~~l  183 (294)
                              +. -..-.+|+||+....+.+.+...+
T Consensus        90 ~~~~~~~~~~~~~~~~vII~dvR~~~Ev~~fr~~~  124 (202)
T 3ch4_B           90 PGFFCRKIVEGISQPIWLVSDTRRVSDIQWFREAY  124 (202)
T ss_dssp             TTTTHHHHSBTCCCSEEEECCCCSHHHHHHHHHHH
T ss_pred             chHHHHHHHHhcCCCcEEEeCCCCHHHHHHHHHhC
Confidence                    11 112278999999888877776554

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=93.51  E-value=0.039  Score=46.15  Aligned_cols=21  Identities=33%  Similarity=0.327  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.|+++|.+|+|||||.+.+.
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~   22 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALT   22 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            468999999999999999984

>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=93.50  E-value=0.044  Score=44.52  Aligned_cols=21  Identities=29%  Similarity=0.267  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+|.|.|+.|+||||+++.+
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l   26 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHH
Confidence            468999999999999999887

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=93.50  E-value=0.046  Score=48.26  Aligned_cols=22  Identities=45%  Similarity=0.490  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...-|.|.|.||+||||+++++
T Consensus        32 ~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           32 RLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CccEEEEECCCCCcHHHHHHHH
Confidence            5678899999999999999998

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=93.50  E-value=0.047  Score=43.94  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=18.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+..|+|+.|.||||+...+
T Consensus        23 ~~~~~I~G~NgsGKStil~ai   43 (203)
T 3qks_A           23 EGINLIIGQNGSGKSSLLDAI   43 (203)
T ss_dssp             SEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHH
Confidence            368999999999999998765

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.48  E-value=0.039  Score=43.24  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=18.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.-|.|.|++|+||||||..+
T Consensus        16 G~gvli~G~SGaGKStlal~L   36 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLAL   36 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHH
Confidence            367899999999999999876

>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=93.43  E-value=0.04  Score=44.86  Aligned_cols=19  Identities=32%  Similarity=0.487  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||+|+..+
T Consensus        15 KivlvGd~~VGKTsLi~r~   33 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRF   33 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHH
Confidence            5789999999999999987

>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=93.42  E-value=0.044  Score=45.29  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.|.|+.|+||||+++.+
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l   47 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVV   47 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999887

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=93.41  E-value=0.048  Score=47.96  Aligned_cols=24  Identities=33%  Similarity=0.403  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....|+++|.+|+|||||++.+..
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~  189 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTT  189 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            567999999999999999999843

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=93.41  E-value=0.086  Score=44.67  Aligned_cols=35  Identities=17%  Similarity=0.279  Sum_probs=25.7

Q ss_pred             HHHHHHHHhcC----CCCceEEEEEcCCCChHHHHHHHh
Q 048597           87 LDRVWRFVTDQ----ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        87 ~~~l~~~L~~~----~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++++.+.|...    ......|+|+|.+|+|||||+..+
T Consensus         8 ~~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l   46 (299)
T 2aka_B            8 VNRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENF   46 (299)
T ss_dssp             HHHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHH
Confidence            34455555431    235678999999999999999998

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=93.38  E-value=0.04  Score=46.49  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHhhCh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .--|.|+|.+|+|||||++.++..
T Consensus         8 ~~~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A            8 EFTLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCC
Confidence            346899999999999999997543

>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=93.37  E-value=0.046  Score=46.37  Aligned_cols=21  Identities=33%  Similarity=0.629  Sum_probs=18.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++|+|.|.||+||||++..+
T Consensus         2 MkvIavs~KGGvGKTT~a~nL   22 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHH
Confidence            367888999999999999887

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=93.36  E-value=0.036  Score=47.51  Aligned_cols=24  Identities=21%  Similarity=0.285  Sum_probs=21.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHhh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .....|+|+|..|+|||||...+.
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~   45 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIV   45 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHH
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHH
Confidence            357899999999999999999983

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=93.32  E-value=0.04  Score=49.11  Aligned_cols=24  Identities=29%  Similarity=0.456  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....++|+|++|+|||||.+.+.+
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg   42 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITK   42 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC
Confidence            346899999999999999998843

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.32  E-value=0.056  Score=44.28  Aligned_cols=24  Identities=33%  Similarity=0.318  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ...+|.|.|+.|+||||+++.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999987743

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=93.29  E-value=0.044  Score=51.88  Aligned_cols=25  Identities=20%  Similarity=0.353  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      .++.++|+|+.|+|||||++.+...
T Consensus        44 ~lp~iaIvG~nGsGKSTLL~~I~Gl   68 (608)
T 3szr_A           44 ALPAIAVIGDQSSGKSSVLEALSGV   68 (608)
T ss_dssp             CCCCEECCCCTTSCHHHHHHHHHSC
T ss_pred             cCCeEEEECCCCChHHHHHHHHhCC
Confidence            5678999999999999999999443

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=93.28  E-value=0.0068  Score=49.93  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=18.0

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+++|+|++|+|||||++.+.
T Consensus        28 ~~~~i~GpnGsGKSTll~~i~   48 (227)
T 1qhl_A           28 LVTTLSGGNGAGKSTTMAAFV   48 (227)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHh
Confidence            366799999999999998873

>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=93.26  E-value=0.047  Score=49.89  Aligned_cols=22  Identities=27%  Similarity=0.262  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.++|++|+||||+++.+
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~L   59 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKL   59 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHH
Confidence            4568999999999999999998

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.23  E-value=0.19  Score=53.56  Aligned_cols=72  Identities=22%  Similarity=0.264  Sum_probs=42.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh-------------hChhHH-HHHHHHHhCCCCCCc---ccCChHHHHHHHHHHh-ccC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR-------------ANLKKI-QADIGKKIGLSTKSW---QENSFEDKALDIAGIL-SRK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v-------------~~~~~i-~~~i~~~~~~~~~~~---~~~~~~~~~~~l~~~l-~~k  161 (294)
                      ..+.|.|+||+|+|||+||.++             ++.... ....+..++......   .....++....++... ..+
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~~~ 1505 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGA 1505 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHhcCC
Confidence            4589999999999999999888             111110 011144444321111   1223344455555444 356


Q ss_pred             CeEEEEcccc
Q 048597          162 RFVLLLDDIW  171 (294)
Q Consensus       162 r~LlvlDdv~  171 (294)
                      ..+||+|++.
T Consensus      1506 ~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1506 VDVIVVDSVA 1515 (2050)
T ss_dssp             CSEEEESCGG
T ss_pred             CCEEEEcChh
Confidence            7899999995

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=93.21  E-value=0.033  Score=45.05  Aligned_cols=22  Identities=41%  Similarity=0.578  Sum_probs=19.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..--|.|+|.+|+|||||++.+
T Consensus        14 ~~~ki~v~G~~~~GKSsli~~~   35 (221)
T 3gj0_A           14 VQFKLVLVGDGGTGKTTFVKRH   35 (221)
T ss_dssp             CEEEEEEEECTTSSHHHHHTTB
T ss_pred             cceEEEEECCCCCCHHHHHHHH
Confidence            3457899999999999999885

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=93.20  E-value=0.051  Score=47.88  Aligned_cols=22  Identities=45%  Similarity=0.847  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCChHHHHHHHhhC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .+.+|+|++|.|||||...++.
T Consensus        27 g~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           27 GVTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCChhHHHHHHHH
Confidence            4999999999999999988753

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=93.20  E-value=0.042  Score=54.55  Aligned_cols=23  Identities=35%  Similarity=0.599  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-.+++|+|++|+|||||++.+.
T Consensus       460 ~Ge~v~LiGpNGsGKSTLLk~La  482 (986)
T 2iw3_A          460 RARRYGICGPNGCGKSTLMRAIA  482 (986)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34689999999999999999984

>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=93.18  E-value=0.079  Score=49.76  Aligned_cols=33  Identities=24%  Similarity=0.226  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           85 LLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        85 ~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+..+.+..+...    +++.|.|++|+||||++..+
T Consensus       192 ~~Q~~Av~~~~~~----~~~~I~G~pGTGKTt~i~~l  224 (574)
T 3e1s_A          192 EEQASVLDQLAGH----RLVVLTGGPGTGKSTTTKAV  224 (574)
T ss_dssp             HHHHHHHHHHTTC----SEEEEECCTTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC----CEEEEEcCCCCCHHHHHHHH
Confidence            3444555554433    78999999999999998887

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=93.17  E-value=0.051  Score=47.97  Aligned_cols=21  Identities=33%  Similarity=0.605  Sum_probs=18.2

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+..|+|+.|.|||||...++
T Consensus        24 g~~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           24 GITVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            478899999999999987763

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=93.17  E-value=0.035  Score=53.17  Aligned_cols=21  Identities=29%  Similarity=0.558  Sum_probs=18.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus       348 Ge~vaIiGpnGsGKSTLl~~i  368 (670)
T 3ux8_A          348 GTFVAVTGVSGSGKSTLVNEV  368 (670)
T ss_dssp             TSEEEEECSTTSSHHHHHTTT
T ss_pred             CCEEEEEeeCCCCHHHHHHHH
Confidence            368999999999999999754

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=93.15  E-value=0.046  Score=44.29  Aligned_cols=23  Identities=39%  Similarity=0.397  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..--|.|+|.+|+|||||++.+.
T Consensus        12 ~~~ki~v~G~~~vGKSsli~~l~   34 (223)
T 3cpj_B           12 LLFKIVLIGDSGVGKSNLLSRFT   34 (223)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHH
T ss_pred             eeeEEEEECcCCCCHHHHHHHHh
Confidence            34578999999999999999883

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=93.12  E-value=0.053  Score=47.29  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=19.0

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+..|+|+.|.|||||+..+
T Consensus        23 ~~~~~i~G~NGsGKS~lleAi   43 (339)
T 3qkt_A           23 EGINLIIGQNGSGKSSLLDAI   43 (339)
T ss_dssp             SEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            478899999999999998877

---

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	294
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-20

>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 = 86.0 bits (212), Expect = 3e-20
 Identities = 30/236 (12%), Positives = 68/236 (28%), Gaps = 43/236 (18%)

Query: 74  LPVERTVIRQELLLDRVWRFVTD-QERNRGIIGLYGTGGVGKTTLLKQRAN--------- 123
           +P + T   +E  +DRV + + +  + +   + L+G  G GK+ +  Q  +         
Sbjct: 16  VPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGIN 75

Query: 124 --------------LKKIQADIGKKIGLSTKSWQEN--------SFEDKALDIAGILSRK 161
                                    + L ++    N        S   K +    ++ R 
Sbjct: 76  YDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRP 135

Query: 162 RFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM--LNASPLRDEE 219
             + + DD+ +               L  + + TT    +      T   +  + L  +E
Sbjct: 136 NTLFVFDDVVQ------EETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 189

Query: 220 AWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEH 275
            +   E       +       ++     E     P  L    ++     + E+   
Sbjct: 190 CYDFLEAYGMPMPVGEKE--EDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQ 242

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	294
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.41
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.05
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.03
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.01
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.94
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.92
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.91
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.87
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.84
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.74
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.72
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.71
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.69
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.68
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.68
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.65
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.62
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.56
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.47
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.46
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.29
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.25
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.73
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.61
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.59
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.57
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.53
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.52
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.52
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.51
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.49
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.48
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.47
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.46
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.45
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.44
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.43
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.42
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.42
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.37
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.35
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.33
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.32
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.31
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.31
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.29
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.28
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.27
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.24
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.21
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.18
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.18
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.16
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.14
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.12
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.11
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.07
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.04
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.02
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.01
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.99
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.99
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.99
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.99
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.92
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.91
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.89
d1okkd2	207	GTPase domain of the signal recognition particle r	96.85
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.85
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.82
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.82
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.8
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.75
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.75
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.73
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.69
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.68
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.68
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.65
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.63
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.6
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.58
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.58
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.53
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.49
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.45
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.45
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.45
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.43
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.39
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.38
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.36
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.36
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.35
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.34
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.32
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.25
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.25
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.23
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.22
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.22
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.2
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.19
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.17
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.16
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.12
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.09
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.06
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.02
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.01
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.0
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.96
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.94
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.91
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.9
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.88
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.87
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.87
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.87
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.76
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.76
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.75
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.52
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.51
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.5
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.46
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.45
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.44
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.42
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.41
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.4
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.4
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.38
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.37
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.37
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.37
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	95.36
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.35
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.28
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.25
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.25
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.24
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.17
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.15
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.13
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.11
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.08
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.05
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.05
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.05
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.05
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.04
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.03
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.02
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.02
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	95.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.99
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.98
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.98
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.98
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.98
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.98
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.97
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.92
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.89
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.89
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.88
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.88
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.88
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.87
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.86
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.83
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.83
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.81
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.79
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.76
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.75
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.74
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.73
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.73
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.67
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.66
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.62
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.61
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.61
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.61
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.57
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.56
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.54
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.54
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.52
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.51
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.47
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.46
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	94.43
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	94.38
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.34
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.31
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.29
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.28
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.24
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.21
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.13
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.12
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.09
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.02
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.02
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.02
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.93
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.92
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.76
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.67
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.39
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.39
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.34
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.16
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.1
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	92.99
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.94
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	92.91
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.85
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.84
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	92.69
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.58
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	92.25
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	92.25
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.15
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	92.11
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	92.04
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.83
d1tuea_	205	Replication protein E1 helicase domain {Human papi	91.8
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.5
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	91.38
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	91.37
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	90.25
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	90.23
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.98
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	89.94
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	89.7
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	89.67
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.46
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	89.43
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	88.9
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	88.64
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	87.79
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	87.76
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	87.71
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	86.8
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	85.0
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	83.36
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	81.92
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	81.59
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	81.53
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	81.32
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	80.69
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	80.07

>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=2e-35  Score=253.80  Aligned_cols=200  Identities=14%  Similarity=0.106  Sum_probs=153.7

Q ss_pred             CCcCceeehhHHHHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHhhCh-----------------------hHHHHH
Q 048597           75 PVERTVIRQELLLDRVWRFVTD-QERNRGIIGLYGTGGVGKTTLLKQRANL-----------------------KKIQAD  130 (294)
Q Consensus        75 ~~~~~~vGr~~~~~~l~~~L~~-~~~~~~vi~I~G~~GiGKTtLa~~v~~~-----------------------~~i~~~  130 (294)
                      |..+.++||+.++++|+++|.. .+.+..+|+|+||||+||||||+.+++.                       ..+...
T Consensus        17 p~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~   96 (277)
T d2a5yb3          17 PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLF   96 (277)
T ss_dssp             BCCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHH
T ss_pred             CCCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHH
Confidence            4466789999999999999975 3446789999999999999999998432                       222222


Q ss_pred             H---HHHhCCCCCC-----cccCChHHHHHHHHHHhccCCeEEEEccccCccchhhhcCCcCCCCCCcEEEEecCChHHh
Q 048597          131 I---GKKIGLSTKS-----WQENSFEDKALDIAGILSRKRFVLLLDDIWEHINLNKLGVPLQYLHLGSKIVFTTNSRVVC  202 (294)
Q Consensus       131 i---~~~~~~~~~~-----~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~~~~l~~~l~~~~~gs~iivTtr~~~v~  202 (294)
                      +   ...++.....     ............+.+.+.++|+|+||||+|+...|..+..      .||+||||||+..++
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~  170 (277)
T d2a5yb3          97 TDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEIS  170 (277)
T ss_dssp             HHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGG
T ss_pred             HHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHH
Confidence            2   2222211110     0112223334457788899999999999999888876532      379999999999999


Q ss_pred             hccCCc-e-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHHcCCCCHHHHHHHHHHH
Q 048597          203 GQMEAT-M-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAMRSISSIEEWEHAIKII  280 (294)
Q Consensus       203 ~~~~~~-~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L~~~~~~~~w~~~l~~l  280 (294)
                      ..+... + |++++|+.++||+||.++++...  ..+...+++++|+++|+|+|||++++|+.|+. ++.++|.+..+.|
T Consensus       171 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L  247 (277)
T d2a5yb3         171 NAASQTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKL  247 (277)
T ss_dssp             GGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHH
T ss_pred             HhcCCCCceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHH
Confidence            887665 4 99999999999999999887543  34556789999999999999999999999987 6889999999999


Q ss_pred             Hhc
Q 048597          281 LRY  283 (294)
Q Consensus       281 ~~~  283 (294)
                      .+.
T Consensus       248 ~~~  250 (277)
T d2a5yb3         248 ESR  250 (277)
T ss_dssp             HHH
T ss_pred             hcC
Confidence            764

>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=1.7e-12  Score=108.81  Aligned_cols=181  Identities=17%  Similarity=0.171  Sum_probs=104.1

Q ss_pred             cCceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC---------------------hhHHHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN---------------------LKKIQADIGKKI  135 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~---------------------~~~i~~~i~~~~  135 (294)
                      ...|+||++++++|.+.      ..+++.|+|++|+|||||++.+..                     ...+...+....
T Consensus        11 ~~~f~GR~~el~~l~~~------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~   84 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL------RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEI   84 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT------CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHHHHHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEeccccccccccHHHHHHHHHHHh
Confidence            56799999999988753      347899999999999999998711                     111222222111


Q ss_pred             C--------------CC-------------CCCcccCChHHHHHHHHHHhccCCeEEEEccccCccc------hhhhcCC
Q 048597          136 G--------------LS-------------TKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEHIN------LNKLGVP  182 (294)
Q Consensus       136 ~--------------~~-------------~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~~------~~~l~~~  182 (294)
                      .              ..             .......+...+...+. ...++++++++|++.....      +..+...
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~~  163 (283)
T d2fnaa2          85 NKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRGVNLLPALAYA  163 (283)
T ss_dssp             HHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTTCCCHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccchHHHHHHHHHH
Confidence            0              00             00001122233332222 2357889999999854211      1111111


Q ss_pred             cCCCCCCcEEEEecCChHHhh----cc--------CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHh
Q 048597          183 LQYLHLGSKIVFTTNSRVVCG----QM--------EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEE  249 (294)
Q Consensus       183 l~~~~~gs~iivTtr~~~v~~----~~--------~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~  249 (294)
                      . ........+++++......    ..        .... +.|.+++.+++.+++.+.+....... +.    ..+|++.
T Consensus       164 ~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~-~~----~~~i~~~  237 (283)
T d2fnaa2         164 Y-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-KD----YEVVYEK  237 (283)
T ss_dssp             H-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-CC----HHHHHHH
T ss_pred             H-HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCH-HH----HHHHHHH
Confidence            1 1122344555555433211    10        1123 88999999999999987664322111 22    4689999


Q ss_pred             CCCChHHHHHHHHHHcCCCCH
Q 048597          250 CCCLPLALKTVGRAMRSISSI  270 (294)
Q Consensus       250 c~GlPlai~~i~~~L~~~~~~  270 (294)
                      ++|.|..+..++..+....+.
T Consensus       238 ~~G~P~~L~~~~~~~~~~~~~  258 (283)
T d2fnaa2         238 IGGIPGWLTYFGFIYLDNKNL  258 (283)
T ss_dssp             HCSCHHHHHHHHHHHHHHCCH
T ss_pred             hCCCHHHHHHHHHHHHhcccH
Confidence            999999999998766554443

>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=99.05  E-value=6.8e-10  Score=90.31  Aligned_cols=175  Identities=14%  Similarity=0.114  Sum_probs=104.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|.++.++.|..|+..+  ..+.+.++||+|+||||+|+.+.........-.........  ...........+...
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~--~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~--~~~~~~~i~~~~~~~   90 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNAS--DDRGIDVVRNQIKHF   90 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTT--SCCSHHHHHTHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcC--CCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccccc--ccCCceehhhHHHHH
Confidence            56899999999999999877  55668899999999999998874321100000001111111  122233333333333


Q ss_pred             h-------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hh-hc-cCCceeecCCCCHHHHHHHHH
Q 048597          158 L-------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VC-GQ-MEATMLNASPLRDEEAWRLFE  225 (294)
Q Consensus       158 l-------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~-~~-~~~~~~~l~~L~~~~~~~Lf~  225 (294)
                      .       ..+..++++|++...  .....+...+......++++++|.+.. +. .. -.+..+++.+++.++....+.
T Consensus        91 ~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~~~l~  170 (224)
T d1sxjb2          91 AQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLL  170 (224)
T ss_dssp             HHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHH
T ss_pred             HHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhhHHHHH
Confidence            3       234568899999763  223333333333334556666665432 21 11 122339999999999999998


Q ss_pred             HHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHH
Q 048597          226 EAVGRYVLDSHPDIPELAKTMAEECCCLPLALKT  259 (294)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~  259 (294)
                      +.+..+....+   .+....|++.|+|-+-.+..
T Consensus       171 ~i~~~e~~~i~---~~~l~~I~~~s~Gd~R~ai~  201 (224)
T d1sxjb2         171 QIIKLEDVKYT---NDGLEAIIFTAEGDMRQAIN  201 (224)
T ss_dssp             HHHHHHTCCBC---HHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHhcccCCC---HHHHHHHHHHcCCcHHHHHH
Confidence            77754332222   25678999999998765443

>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=99.03  E-value=1.3e-08  Score=84.25  Aligned_cols=152  Identities=17%  Similarity=0.237  Sum_probs=92.8

Q ss_pred             CcCceeehhHHHHHHHHHHhc----CCCCceEEEEEcCCCChHHHHHHHhhC--------------------hhHHHHHH
Q 048597           76 VERTVIRQELLLDRVWRFVTD----QERNRGIIGLYGTGGVGKTTLLKQRAN--------------------LKKIQADI  131 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~----~~~~~~vi~I~G~~GiGKTtLa~~v~~--------------------~~~i~~~i  131 (294)
                      .+..++||+.++++|.++|..    .....+.+.|+|++|+||||+++.+..                    .......+
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhh
Confidence            345689999999999999864    234567899999999999999998821                    22344555


Q ss_pred             HHHhCCCCCCcccCChHHHHHHHHHHhc--cCCeEEEEccccCcc-----chhhhcCCcCC-CCCCcEEEEecCChHHh-
Q 048597          132 GKKIGLSTKSWQENSFEDKALDIAGILS--RKRFVLLLDDIWEHI-----NLNKLGVPLQY-LHLGSKIVFTTNSRVVC-  202 (294)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~--~kr~LlvlDdv~~~~-----~~~~l~~~l~~-~~~gs~iivTtr~~~v~-  202 (294)
                      ....+.... ............+.+.+.  ....++++|+++...     ....+...... ......+|.++...... 
T Consensus        94 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  172 (276)
T d1fnna2          94 ARSLNIPFP-RRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLN  172 (276)
T ss_dssp             HHHTTCCCC-SSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHH
T ss_pred             HHhhhhhhh-hhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhh
Confidence            555544322 123345555555655553  346677778776521     11222222211 22223445555543322 


Q ss_pred             -------hccCCceeecCCCCHHHHHHHHHHHh
Q 048597          203 -------GQMEATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       203 -------~~~~~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                             ..+....+.+.+++.++.++++.+++
T Consensus       173 ~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         173 NLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             TSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence                   22333348899999999999998765

>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=99.01  E-value=1.7e-09  Score=88.00  Aligned_cols=171  Identities=17%  Similarity=0.151  Sum_probs=101.8

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|.++.++.|..|+..+  ..+.+.++||+|+||||+|+.+.+...-.......+.....  ...............
T Consensus        14 ~divg~~~~~~~L~~~i~~~--~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~--~~~~~~~~~~~~~~~   89 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS--DDRGIDVVRNQIKDF   89 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT--SCCSHHHHHTHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEeccc--ccCCeeeeecchhhc
Confidence            46899999999999999876  45557899999999999999885421100000000111111  111222222222211


Q ss_pred             h------ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hhh-cc-CCceeecCCCCHHHHHHHHHH
Q 048597          158 L------SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VCG-QM-EATMLNASPLRDEEAWRLFEE  226 (294)
Q Consensus       158 l------~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~-~~-~~~~~~l~~L~~~~~~~Lf~~  226 (294)
                      .      .++..++|+|++...  ..-..+...+......+.++++|.... +.. .. .+..+.+.+++.++...++.+
T Consensus        90 ~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~  169 (227)
T d1sxjc2          90 ASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIAN  169 (227)
T ss_dssp             HHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHH
T ss_pred             cccccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccccccccccccccc
Confidence            1      234568999999763  223334434444445677777776543 211 11 223399999999999999988


Q ss_pred             HhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          227 AVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                      .+..+....+   .+....|++.|+|-.-
T Consensus       170 I~~~e~i~i~---~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         170 VLVHEKLKLS---PNAEKALIELSNGDMR  195 (227)
T ss_dssp             HHHTTTCCBC---HHHHHHHHHHHTTCHH
T ss_pred             ccccccccCC---HHHHHHHHHHcCCcHH
Confidence            7755442222   3556889999998653

>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=98.94  E-value=3.1e-09  Score=86.73  Aligned_cols=171  Identities=11%  Similarity=0.025  Sum_probs=99.5

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhC-CCCCCcccCChHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIG-LSTKSWQENSFEDKALDIAG  156 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~-~~~~~~~~~~~~~~~~~l~~  156 (294)
                      ..++|.++.++.|..++...  ..+.+.++||+|+||||+++.+....  ......... .................+..
T Consensus        12 ~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtl~~~i~~~l--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKEL--YGPDLMKSRILELNASDERGISIVREKVKN   87 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHH--HHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChHHHHHHHHHHH--cCCcccccchhheeccccccchHHHHHHHH
Confidence            45799999999999999876  55668899999999999999985421  111110100 00000011111111111211


Q ss_pred             ----------------HhccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChH-Hh-hcc-CCceeecCCC
Q 048597          157 ----------------ILSRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRV-VC-GQM-EATMLNASPL  215 (294)
Q Consensus       157 ----------------~l~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~-v~-~~~-~~~~~~l~~L  215 (294)
                                      ....+.-++|+|++...  ..+..+...+......+.+++++.... +. ... .+..+++.++
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~~  167 (237)
T d1sxjd2          88 FARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKAL  167 (237)
T ss_dssp             HHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCC
T ss_pred             HhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhccccc
Confidence                            11233447999999762  333333333333334556666665432 11 111 1223999999


Q ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          216 RDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       216 ~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                      +.++...++.+.+.......+   .+..+.|++.++|-+-
T Consensus       168 ~~~~~~~~L~~i~~~e~i~i~---~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         168 DASNAIDRLRFISEQENVKCD---DGVLERILDISAGDLR  204 (237)
T ss_dssp             CHHHHHHHHHHHHHTTTCCCC---HHHHHHHHHHTSSCHH
T ss_pred             cccccchhhhhhhhhhcCcCC---HHHHHHHHHHcCCCHH
Confidence            999999999887765443222   3667899999988653

>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=98.92  E-value=2.1e-09  Score=87.70  Aligned_cols=173  Identities=14%  Similarity=0.097  Sum_probs=100.7

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGI  157 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~  157 (294)
                      ..++|.+..++.|..|+...  ..+.+.++||+|+||||+|+.+.....-...-...+.+....  ..........+...
T Consensus        24 ~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~--~~~~~~~~~~~~~~   99 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD--ERGINVIREKVKEF   99 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC--HHHHHTTHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCc--ccchhHHHHHHHHH
Confidence            56899999999999999887  667788999999999999998744211000000001111110  00011111111111


Q ss_pred             ------hccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhhc-c-CCceeecCCCCHHHHHHHHHH
Q 048597          158 ------LSRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCGQ-M-EATMLNASPLRDEEAWRLFEE  226 (294)
Q Consensus       158 ------l~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~~-~-~~~~~~l~~L~~~~~~~Lf~~  226 (294)
                            ...+..++++||+..  ...+..+...+........+|++|.... +... . ....+.+.+.+.++....+.+
T Consensus       100 ~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~  179 (231)
T d1iqpa2         100 ARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRY  179 (231)
T ss_dssp             HHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHH
T ss_pred             HhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhHHHHHHH
Confidence                  134667899999875  2344444433333333455666665432 2111 1 122399999999999999988


Q ss_pred             HhCCCCCCCCCCHHHHHHHHHHhCCCChHHH
Q 048597          227 AVGRYVLDSHPDIPELAKTMAEECCCLPLAL  257 (294)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai  257 (294)
                      .+......-+   .+....|++.|+|-+-.+
T Consensus       180 ~~~~e~i~i~---~~~l~~I~~~~~gdiR~a  207 (231)
T d1iqpa2         180 IAENEGLELT---EEGLQAILYIAEGDMRRA  207 (231)
T ss_dssp             HHHTTTCEEC---HHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhCCCCC---HHHHHHHHHHcCCCHHHH
Confidence            7755442211   356688999999865443

>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=98.91  E-value=1.3e-08  Score=84.41  Aligned_cols=147  Identities=18%  Similarity=0.194  Sum_probs=91.4

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhH---HHHHH-HHHhC-CCCC-----CcccCChH
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKK---IQADI-GKKIG-LSTK-----SWQENSFE  148 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---i~~~i-~~~~~-~~~~-----~~~~~~~~  148 (294)
                      .++||+++++++...|...  ...-+.++|++|+|||+|+..+.....   +-..+ ...++ ++..     .......+
T Consensus        19 ~~igRd~Ei~~l~~iL~r~--~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e   96 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE   96 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHH
T ss_pred             cccChHHHHHHHHHHHhcC--ccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHH
Confidence            4699999999999999876  345667999999999999877622100   00000 00111 1100     01123455


Q ss_pred             HHHHHHHHHh-ccCCeEEEEccccCc----------cchhhhcCCcCCCCCCcEEEEecCChHHhhccCCc--------e
Q 048597          149 DKALDIAGIL-SRKRFVLLLDDIWEH----------INLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEAT--------M  209 (294)
Q Consensus       149 ~~~~~l~~~l-~~kr~LlvlDdv~~~----------~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~--------~  209 (294)
                      .....+.+.+ ..+..++++|+++..          .+...+..|+-. ...-++|.+|............        .
T Consensus        97 ~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~~~e~d~al~rrF~~  175 (268)
T d1r6bx2          97 KRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNIFEKDRALARRFQK  175 (268)
T ss_dssp             HHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHCCCCCTTSSGGGEEE
T ss_pred             HHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHHHHHhhcHHHHhhhcc
Confidence            5555555555 456789999998762          123444333322 2246889899888775543321        2


Q ss_pred             eecCCCCHHHHHHHHHHHh
Q 048597          210 LNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       210 ~~l~~L~~~~~~~Lf~~~~  228 (294)
                      +++.+.+.+++..++....
T Consensus       176 I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         176 IDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             EECCCCCHHHHHHHHHHHH
T ss_pred             cccCCCCHHHHHHHHHHhh
Confidence            8999999999999987543

>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=98.87  E-value=5.7e-09  Score=85.94  Aligned_cols=176  Identities=11%  Similarity=0.104  Sum_probs=96.0

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh--------HHH-------HHHHHHhCCC----
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK--------KIQ-------ADIGKKIGLS----  138 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~--------~i~-------~~i~~~~~~~----  138 (294)
                      ..++|.++..+.|..++.... ...-+.++||+|+||||+|+.+.+..        ...       ......+...    
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPY   89 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSS
T ss_pred             HHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCc
Confidence            468999988888887776542 34457799999999999999883211        000       0000000000    


Q ss_pred             -----CCCcccCChHHHHHHHHHHh--------------ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecC
Q 048597          139 -----TKSWQENSFEDKALDIAGIL--------------SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTN  197 (294)
Q Consensus       139 -----~~~~~~~~~~~~~~~l~~~l--------------~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr  197 (294)
                           ...............+....              ..+.-++++|++..  ...+..+...+......+++|+||.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn  169 (252)
T d1sxje2          90 HLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCD  169 (252)
T ss_dssp             EEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEES
T ss_pred             cceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccccceeeec
Confidence                 00000111111122222111              23345888999876  2344444444433344567777776


Q ss_pred             ChH-H--hhccCCceeecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          198 SRV-V--CGQMEATMLNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       198 ~~~-v--~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      +.. +  .-...+..+++.+++.++..+++.+.+..+......  .+....|++.|.|.+-.
T Consensus       170 ~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~--~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         170 SMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLET--KDILKRIAQASNGNLRV  229 (252)
T ss_dssp             CSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECC--SHHHHHHHHHHTTCHHH
T ss_pred             cccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCc--HHHHHHHHHHcCCcHHH
Confidence            542 1  111123348999999999999887766332211111  25567899999998754

>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=98.84  E-value=2e-08  Score=82.23  Aligned_cols=176  Identities=16%  Similarity=0.090  Sum_probs=104.6

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh--------------hHHHHHHHHHhCCCC---C
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL--------------KKIQADIGKKIGLST---K  140 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~--------------~~i~~~i~~~~~~~~---~  140 (294)
                      ..++|.++.++.+..++..+. -.+.+.++|++|+||||+|+.+.+.              ......+...-....   .
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   90 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID   90 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEEE
T ss_pred             HHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEEec
Confidence            467999999999999998762 2456889999999999999987221              111112222111000   0


Q ss_pred             CcccCChHHHHHHHHHHh-----ccCCeEEEEccccCc--cchhhhcCCcCCCCCCcEEEEecCChHH---hhccCCcee
Q 048597          141 SWQENSFEDKALDIAGIL-----SRKRFVLLLDDIWEH--INLNKLGVPLQYLHLGSKIVFTTNSRVV---CGQMEATML  210 (294)
Q Consensus       141 ~~~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtr~~~v---~~~~~~~~~  210 (294)
                      .......+... .+.+.+     .++..++|||+++..  ..-..+...+.....++++|++|.+..-   +-.-.+..+
T Consensus        91 ~~~~~~i~~ir-~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i  169 (239)
T d1njfa_          91 AASRTKVEDTR-DLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQF  169 (239)
T ss_dssp             TTCSSSHHHHH-HHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             chhcCCHHHHH-HHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhccc
Confidence            00112222222 233332     245669999999863  3333444444444456778777765432   111123339


Q ss_pred             ecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          211 NASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       211 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      .+.+++.++....+.+.+.......+   .+....|++.++|.+--+.
T Consensus       170 ~~~~~~~~~i~~~l~~i~~~e~~~~~---~~~l~~i~~~s~Gd~R~ai  214 (239)
T d1njfa_         170 HLKALDVEQIRHQLEHILNEEHIAHE---PRALQLLARAAEGSLRDAL  214 (239)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCCBC---HHHHHHHHHHTTTCHHHHH
T ss_pred             ccccCcHHHhhhHHHHHHhhhccCCC---HHHHHHHHHHcCCCHHHHH
Confidence            99999999998888877643332221   3556889999999885433

>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=98.74  E-value=8.9e-09  Score=81.00  Aligned_cols=139  Identities=16%  Similarity=0.178  Sum_probs=79.1

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh------HHHHHHHHHhC-CCCCC--cccC---C
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK------KIQADIGKKIG-LSTKS--WQEN---S  146 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~------~i~~~i~~~~~-~~~~~--~~~~---~  146 (294)
                      .++||+++++++...|...  .-.-+.++|++|+|||+++..+....      ..+..  ..++ ++...  ....   .
T Consensus        23 ~~igRd~Ei~~l~~iL~r~--~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~--~~i~~ld~~~LiAg~~~rG~   98 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKG--RRVLALDMGALVAGAKYRGE   98 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTT--CEEEEECHHHHHTTTCSHHH
T ss_pred             CCcCcHHHHHHHHHHHhcc--CCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcC--ceEEEeeHHHHhccCCccHH
Confidence            4699999999999999876  34567899999999999987662100      00000  0000 00000  0011   1


Q ss_pred             hHHHHHHHHHHh-c-cCCeEEEEccccCcc---------chhhh-cCCcCCCCCCcEEEEecCChHHhhccCC-------
Q 048597          147 FEDKALDIAGIL-S-RKRFVLLLDDIWEHI---------NLNKL-GVPLQYLHLGSKIVFTTNSRVVCGQMEA-------  207 (294)
Q Consensus       147 ~~~~~~~l~~~l-~-~kr~LlvlDdv~~~~---------~~~~l-~~~l~~~~~gs~iivTtr~~~v~~~~~~-------  207 (294)
                      .++....+.+.+ . ..+.+|++||++..-         +...+ ...+..  ..-++|.+|..+........       
T Consensus        99 ~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~eey~~~~e~d~aL~rr  176 (195)
T d1jbka_          99 FEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQYIEKDAALERR  176 (195)
T ss_dssp             HHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHHTTTCHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHHHHHHHHHcCHHHHhc
Confidence            223333333333 2 347899999998631         22222 222222  23578888887766443322       


Q ss_pred             -ceeecCCCCHHHHHHH
Q 048597          208 -TMLNASPLRDEEAWRL  223 (294)
Q Consensus       208 -~~~~l~~L~~~~~~~L  223 (294)
                       ..+++.+.+.+++..+
T Consensus       177 F~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         177 FQKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             EEEEECCCCCHHHHHTT
T ss_pred             CCEeecCCCCHHHHHHH
Confidence             2288888888887654

>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=98.72  E-value=5.4e-08  Score=80.00  Aligned_cols=173  Identities=12%  Similarity=0.040  Sum_probs=93.4

Q ss_pred             CceeehhHHHHHHHHHHhc---------------CCCCceEEEEEcCCCChHHHHHHHhhChh---------------HH
Q 048597           78 RTVIRQELLLDRVWRFVTD---------------QERNRGIIGLYGTGGVGKTTLLKQRANLK---------------KI  127 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~---------------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---------------~i  127 (294)
                      ..++|.++.+++|.+++..               +....+.+.++||+|+||||+|+.+.+..               ..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~~~~   93 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTL   93 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCHHH
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchhhHH
Confidence            5689999999999999854               12345789999999999999999983211               11


Q ss_pred             HHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccCc-----cchhhhcCCcCCCCCCcEEEEecC--Ch-
Q 048597          128 QADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWEH-----INLNKLGVPLQYLHLGSKIVFTTN--SR-  199 (294)
Q Consensus       128 ~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtr--~~-  199 (294)
                      ........-...........    ........++..++++|++...     ..+..+........  ..+++|+.  +. 
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~--~~ii~i~~~~~~~  167 (253)
T d1sxja2          94 LNAGVKNALDNMSVVGYFKH----NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTS--TPLILICNERNLP  167 (253)
T ss_dssp             HHHTGGGGTTBCCSTTTTTC--------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCS--SCEEEEESCTTSS
T ss_pred             HHHHHHHHhhcchhhhhhhh----hhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccc--ccccccccccccc
Confidence            11111111000000000000    0011112456778999998652     12222222111111  23444433  22 


Q ss_pred             HHhhccCCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCCh-HHHHH
Q 048597          200 VVCGQMEATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLP-LALKT  259 (294)
Q Consensus       200 ~v~~~~~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlP-lai~~  259 (294)
                      .+........ +++.+++.++....+...+..+....++   +....|++.|+|-. -|+..
T Consensus       168 ~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~---~~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         168 KMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             TTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHHHH
T ss_pred             ccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCH---HHHHHHHHhCCCcHHHHHHH
Confidence            1222222233 9999999999988888766433322333   34588999999976 44433

>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=98.71  E-value=2.1e-07  Score=74.35  Aligned_cols=166  Identities=10%  Similarity=-0.013  Sum_probs=99.8

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhCh--------------hHHHHHHHHHhCCC-----C-CCc
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANL--------------KKIQADIGKKIGLS-----T-KSW  142 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~--------------~~i~~~i~~~~~~~-----~-~~~  142 (294)
                      .+...+++...+..+. -...+.++|+.|+||||+|+.+...              ..-...+.......     . ...
T Consensus         7 ~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   85 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK   85 (207)
T ss_dssp             GHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC
T ss_pred             cHHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcc
Confidence            3456777877777651 2456999999999999999977221              01111222111100     0 100


Q ss_pred             ccCChHHHHHHHHHHh-----ccCCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH-Hhh-c-cCCceeec
Q 048597          143 QENSFEDKALDIAGIL-----SRKRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV-VCG-Q-MEATMLNA  212 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l-----~~kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~-v~~-~-~~~~~~~l  212 (294)
                      .....++ ...+.+.+     .+++-++|+||++.  ......+...+.....++.+|+||++.. +.. . -.+..+++
T Consensus        86 ~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~  164 (207)
T d1a5ta2          86 NTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYL  164 (207)
T ss_dssp             SSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             cccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEec
Confidence            1122233 33344443     35667999999986  3445556555555555678887777653 322 1 12333999


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHH
Q 048597          213 SPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALK  258 (294)
Q Consensus       213 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~  258 (294)
                      .+++.++....+.+....        -.+....|++.++|.|-.+.
T Consensus       165 ~~~~~~~~~~~L~~~~~~--------~~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         165 APPPEQYAVTWLSREVTM--------SQDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             CCCCHHHHHHHHHHHCCC--------CHHHHHHHHHHTTTCHHHHH
T ss_pred             CCCCHHHHHHHHHHcCCC--------CHHHHHHHHHHcCCCHHHHH
Confidence            999999999888765421        13567889999999986654

>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=98.69  E-value=2.3e-07  Score=75.53  Aligned_cols=190  Identities=16%  Similarity=0.088  Sum_probs=107.6

Q ss_pred             CceeehhHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC---CCcccCChHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST---KSWQENSFEDKA  151 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~---~~~~~~~~~~~~  151 (294)
                      +.+||.++.++++..++...   ....+-+.++||+|+||||+|+.+.+          .++.+.   ............
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~----------~~~~~~~~~~~~~~~~~~~~~   78 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAH----------ELGVNLRVTSGPAIEKPGDLA   78 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHH----------HHTCCEEEEETTTCCSHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHH----------HhCCCeEeccCCccccchhhH
Confidence            46799999999888887642   23467788999999999999987743          222211   101122233333


Q ss_pred             HHHHHHhccCCeEEEEccccCcc-----c----hhhh-cCCc----------CCCCCCcEEEEecCCh-HH--hhccCCc
Q 048597          152 LDIAGILSRKRFVLLLDDIWEHI-----N----LNKL-GVPL----------QYLHLGSKIVFTTNSR-VV--CGQMEAT  208 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~~-----~----~~~l-~~~l----------~~~~~gs~iivTtr~~-~v--~~~~~~~  208 (294)
                      ..+.+.+ +...++++|++....     .    .+.. ....          ........++.+|.+. ..  .......
T Consensus        79 ~~~~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~  157 (239)
T d1ixsb2          79 AILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFG  157 (239)
T ss_dssp             HHHHTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCS
T ss_pred             HHHHhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhcccc
Confidence            3333333 345577789887521     0    1110 0000          0011123344444332 21  2222223


Q ss_pred             e-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH----c--C--CCCHHHHHHHHHH
Q 048597          209 M-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM----R--S--ISSIEEWEHAIKI  279 (294)
Q Consensus       209 ~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L----~--~--~~~~~~w~~~l~~  279 (294)
                      . +.+.+.+.++...++.+.+.......   -.+....|++.+.|.+-.+..+...+    .  +  +-+.+.+.+++..
T Consensus       158 ~~~~~~~~~~~~~~~i~~~~~~~~~i~~---~~~~l~~ia~~s~gd~R~a~~~l~~~~~~a~~~~~~~It~~~~~~~l~~  234 (239)
T d1ixsb2         158 IVEHLEYYTPEELAQGVMRDARLLGVRI---TEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALAA  234 (239)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHGGGCCCB---CHHHHHHHHHHTTSSHHHHHHHHHHHHHHHTTSCCSCBCHHHHHHHHHH
T ss_pred             eeeEeeccChhhhhHHHHHHHHHhCCcc---chHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHhh
Confidence            3 88999999999998887775444222   24577899999999886665444322    1  1  1356777777765


Q ss_pred             HH
Q 048597          280 IL  281 (294)
Q Consensus       280 l~  281 (294)
                      |.
T Consensus       235 l~  236 (239)
T d1ixsb2         235 LG  236 (239)
T ss_dssp             HT
T ss_pred             hC
Confidence            53

>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=98.68  E-value=4.4e-07  Score=75.19  Aligned_cols=152  Identities=15%  Similarity=0.190  Sum_probs=84.4

Q ss_pred             CcCceeehhHHHHHHHHHHhc----CC---CCceEEEEEcCCCChHHHHHHHhhCh------------------------
Q 048597           76 VERTVIRQELLLDRVWRFVTD----QE---RNRGIIGLYGTGGVGKTTLLKQRANL------------------------  124 (294)
Q Consensus        76 ~~~~~vGr~~~~~~l~~~L~~----~~---~~~~vi~I~G~~GiGKTtLa~~v~~~------------------------  124 (294)
                      .++.++||+.++++|.+++..    +.   ....++.++|++|+||||+++.+.+.                        
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            356789999999999887742    21   12235667899999999999998432                        


Q ss_pred             -hHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHh--ccCCeEEEEccccCcc--------c---hhhhc---CCcCCCC
Q 048597          125 -KKIQADIGKKIGLSTKSWQENSFEDKALDIAGIL--SRKRFVLLLDDIWEHI--------N---LNKLG---VPLQYLH  187 (294)
Q Consensus       125 -~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l--~~kr~LlvlDdv~~~~--------~---~~~l~---~~l~~~~  187 (294)
                       ..+.......++.... ............+....  .+...++++|.+....        .   +..+.   ..+....
T Consensus        94 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~  172 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQ-VRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVN  172 (287)
T ss_dssp             HHHHHHHHHHHHTCCCC-CTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCC
T ss_pred             hhhHHHHHhhhcccccc-cccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhccc
Confidence             1222333333332221 12344455555555544  3456677788775311        1   11111   1111122


Q ss_pred             CCcEEEEecCChHHh-------h-ccCCce-eecCCCCHHHHHHHHHHHh
Q 048597          188 LGSKIVFTTNSRVVC-------G-QMEATM-LNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       188 ~gs~iivTtr~~~v~-------~-~~~~~~-~~l~~L~~~~~~~Lf~~~~  228 (294)
                      .-..|++++......       . ...... +.+.+++.++..+++..++
T Consensus       173 ~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         173 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             ceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            222344444443221       1 111223 8899999999999999776

>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=98.68  E-value=3.2e-07  Score=74.59  Aligned_cols=188  Identities=14%  Similarity=0.060  Sum_probs=108.1

Q ss_pred             CceeehhHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCC---CCcccCChHHHH
Q 048597           78 RTVIRQELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLST---KSWQENSFEDKA  151 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~---~~~~~~~~~~~~  151 (294)
                      ..++|.++.++.|..++...   ....+.+.++||+|+||||+|+.+.+          .++...   .........+..
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~----------~~~~~~~~~~~~~~~~~~~~~   78 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIAS----------ELQTNIHVTSGPVLVKQGDMA   78 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHH----------HHTCCEEEEETTTCCSHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHh----------ccCCCcccccCcccccHHHHH
Confidence            46899999999999888642   23456788999999999999987632          222111   011122233333


Q ss_pred             HHHHHHhccCCeEEEEccccCccc-----h-hhhcC---Cc-----------CCCCCCcEEEEecCChH-H--hhccCCc
Q 048597          152 LDIAGILSRKRFVLLLDDIWEHIN-----L-NKLGV---PL-----------QYLHLGSKIVFTTNSRV-V--CGQMEAT  208 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~~~-----~-~~l~~---~l-----------~~~~~gs~iivTtr~~~-v--~~~~~~~  208 (294)
                      ..+..  ..++..+++|++.....     . ..+..   ..           ........+|.+|.+.. .  +......
T Consensus        79 ~~~~~--~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~  156 (238)
T d1in4a2          79 AILTS--LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFG  156 (238)
T ss_dssp             HHHHH--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCS
T ss_pred             HHHHh--hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeee
Confidence            33322  45677888898865210     0 00000   00           00112345555555443 2  2233344


Q ss_pred             e-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH------cC--CCCHHHHHHHHHH
Q 048597          209 M-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM------RS--ISSIEEWEHAIKI  279 (294)
Q Consensus       209 ~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L------~~--~~~~~~w~~~l~~  279 (294)
                      . +.+.+.+.++...++...........   -.+....|++.++|.+-.+..+...+      ..  +-+.+...++++.
T Consensus       157 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~~~~l~~i~~~s~gd~R~ai~~l~~~~~~~~~~~~~~it~~~~~~al~~  233 (238)
T d1in4a2         157 IILELDFYTVKELKEIIKRAASLMDVEI---EDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTMEV  233 (238)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHTTCCB---CHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHH
T ss_pred             EEEEecCCCHHHHHHHHHHhhhhccchh---hHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHh
Confidence            4 78999999999999987765433222   23567899999999887665433221      11  1246666666665


Q ss_pred             H
Q 048597          280 I  280 (294)
Q Consensus       280 l  280 (294)
                      |
T Consensus       234 l  234 (238)
T d1in4a2         234 L  234 (238)
T ss_dssp             H
T ss_pred             h
Confidence            4

>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=98.65  E-value=1.9e-06  Score=70.86  Aligned_cols=170  Identities=15%  Similarity=0.060  Sum_probs=95.1

Q ss_pred             CceeehhHHHHHHHHH---HhcC-------CCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCC----cc
Q 048597           78 RTVIRQELLLDRVWRF---VTDQ-------ERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKS----WQ  143 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~---L~~~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~----~~  143 (294)
                      ..++|.+..+++|.+.   +...       ....+.+.++||+|+|||+||+.+.+....     ..+.++...    +.
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~-----~~~~i~~~~l~~~~~   86 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV-----PFFTISGSDFVEMFV   86 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC-----CEEEECSCSSTTSCC
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC-----CEEEEEhHHhhhcch
Confidence            4678988777777554   3321       124567899999999999999887532210     000111111    11


Q ss_pred             cCChHHHHHHHHHHhccCCeEEEEccccCc------------cch----hhhcCCcC--CCCCCcEEEEecCChHHh-h-
Q 048597          144 ENSFEDKALDIAGILSRKRFVLLLDDIWEH------------INL----NKLGVPLQ--YLHLGSKIVFTTNSRVVC-G-  203 (294)
Q Consensus       144 ~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~------------~~~----~~l~~~l~--~~~~gs~iivTtr~~~v~-~-  203 (294)
                      ..+...+...+...-+..+++|++||+...            ...    ..+...+.  ....+.-+|.||...... . 
T Consensus        87 g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~a  166 (256)
T d1lv7a_          87 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPA  166 (256)
T ss_dssp             CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGG
T ss_pred             hHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHh
Confidence            233343434344444567799999999641            011    11211111  123344556577654321 1 


Q ss_pred             cc---CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          204 QM---EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       204 ~~---~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      ..   .... +++.+.+.++-.++|+............++    ..+++.+.|+.-+
T Consensus       167 l~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~----~~la~~t~G~s~a  219 (256)
T d1lv7a_         167 LLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDA----AIIARGTPGFSGA  219 (256)
T ss_dssp             GGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCH----HHHHHTCTTCCHH
T ss_pred             HcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCH----HHHHHhCCCCCHH
Confidence            11   2344 999999999999999887754432333333    5678889887533

>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=98.62  E-value=3.2e-07  Score=75.77  Aligned_cols=171  Identities=15%  Similarity=0.047  Sum_probs=94.7

Q ss_pred             ceeehhHHHHHHHHHHh----c-------CCCCceEEEEEcCCCChHHHHHHHhhChhHHH--HHHHHHhCCCCCCcccC
Q 048597           79 TVIRQELLLDRVWRFVT----D-------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQ--ADIGKKIGLSTKSWQEN  145 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~----~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~--~~i~~~~~~~~~~~~~~  145 (294)
                      .++|.+..+++|.+.+.    .       +-...+-+.++||+|+|||+|++.+.......  .--...+..   .....
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~---~~~g~   81 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS---KLAGE   81 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTT---SCTTH
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcc---ccccc
Confidence            46888888888877643    1       11245679999999999999998773211000  000000000   00111


Q ss_pred             ChHHHHHHHHHHhccCCeEEEEccccCcc---------chh----hhcCCc--CCCCCCcEEEEecCChHH---h-hcc-
Q 048597          146 SFEDKALDIAGILSRKRFVLLLDDIWEHI---------NLN----KLGVPL--QYLHLGSKIVFTTNSRVV---C-GQM-  205 (294)
Q Consensus       146 ~~~~~~~~l~~~l~~kr~LlvlDdv~~~~---------~~~----~l~~~l--~~~~~gs~iivTtr~~~v---~-~~~-  205 (294)
                      ....+...+...-..++++|++||+....         ...    .+...+  .....+.-||.||....-   + ... 
T Consensus        82 ~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~g  161 (258)
T d1e32a2          82 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  161 (258)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTT
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcc
Confidence            12223333333346788999999997621         111    111111  122234455667776543   1 111 


Q ss_pred             CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          206 EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       206 ~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      .... +++...+.++-.++|.............+    ...|++.|.|+--|
T Consensus       162 Rfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~a  209 (258)
T d1e32a2         162 RFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVGA  209 (258)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC----HHHHHHHCTTCCHH
T ss_pred             cccceeECCCCCHHHHHHHhhhhccCcccccccc----hhhhhhcccCCCHH
Confidence            2344 99999999999999987765433223223    36789999996433

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.56  E-value=6.5e-07  Score=73.35  Aligned_cols=166  Identities=16%  Similarity=0.106  Sum_probs=90.2

Q ss_pred             CceeehhHHHHHHHHHH---hcC-------CCCceEEEEEcCCCChHHHHHHHhhChhH-----HH-HHHHHHhCCCCCC
Q 048597           78 RTVIRQELLLDRVWRFV---TDQ-------ERNRGIIGLYGTGGVGKTTLLKQRANLKK-----IQ-ADIGKKIGLSTKS  141 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L---~~~-------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----i~-~~i~~~~~~~~~~  141 (294)
                      ..++|.++.++.|.+.+   ...       ....+-|.++||+|+|||+||+.+.+...     +. ..+...       
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~-------   81 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM-------   81 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHS-------
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhc-------
Confidence            36789887766655433   221       22356799999999999999998842110     00 000000       


Q ss_pred             cccCChHHHHHHHHHHh-ccCCeEEEEccccCcc----------------chhhhcCCcC--CCCCCcEEEEecCChHH-
Q 048597          142 WQENSFEDKALDIAGIL-SRKRFVLLLDDIWEHI----------------NLNKLGVPLQ--YLHLGSKIVFTTNSRVV-  201 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l-~~kr~LlvlDdv~~~~----------------~~~~l~~~l~--~~~~gs~iivTtr~~~v-  201 (294)
                      +... .......+.+.. ...+++|++||+....                .+..+...+.  ....+.-+|.||....- 
T Consensus        82 ~~g~-~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~l  160 (247)
T d1ixza_          82 FVGV-GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDIL  160 (247)
T ss_dssp             CTTH-HHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGS
T ss_pred             cccH-HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccc
Confidence            0011 122223333333 4678999999986310                0111111111  12223233446654332 


Q ss_pred             hhcc----CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChH
Q 048597          202 CGQM----EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPL  255 (294)
Q Consensus       202 ~~~~----~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPl  255 (294)
                      ...+    .... +++.+.+.++-.++|+............++    ..+++.|.|+.-
T Consensus       161 d~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~----~~la~~t~g~s~  215 (247)
T d1ixza_         161 DPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDL----ALLAKRTPGFVG  215 (247)
T ss_dssp             CGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCH----HHHHHTCTTCCH
T ss_pred             CHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCH----HHHHHHCCCCCH
Confidence            1111    2344 999999999999999888755433333333    567888988644

>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=98.47  E-value=1.5e-06  Score=69.53  Aligned_cols=158  Identities=16%  Similarity=0.233  Sum_probs=82.7

Q ss_pred             cCceeehhHH--HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh-------------HHHHHHHHHhCCCCCC
Q 048597           77 ERTVIRQELL--LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK-------------KIQADIGKKIGLSTKS  141 (294)
Q Consensus        77 ~~~~vGr~~~--~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-------------~i~~~i~~~~~~~~~~  141 (294)
                      +..++|-...  ...+..+..........+.|+|++|+|||.|++.+.+..             +....+...+.     
T Consensus        10 dnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----   84 (213)
T d1l8qa2          10 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLK-----   84 (213)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHH-----
T ss_pred             hhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHH-----
Confidence            4556675332  333344444433334558899999999999999885432             11222222110     


Q ss_pred             cccCChHHHHHHHHHHhccCCeEEEEccccCc---cchhhh-cCCcCC-CCCCcEEEEecCChH---------HhhccCC
Q 048597          142 WQENSFEDKALDIAGILSRKRFVLLLDDIWEH---INLNKL-GVPLQY-LHLGSKIVFTTNSRV---------VCGQMEA  207 (294)
Q Consensus       142 ~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~~---~~~~~l-~~~l~~-~~~gs~iivTtr~~~---------v~~~~~~  207 (294)
                        ....    ..+.+.++ .--+|+|||+...   ..|+.. ...+.. ...|..||+|++...         ...+...
T Consensus        85 --~~~~----~~~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~  157 (213)
T d1l8qa2          85 --KGTI----NEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEG  157 (213)
T ss_dssp             --HTCH----HHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHT
T ss_pred             --ccch----hhHHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhC
Confidence              0011    11222222 3468999999752   345432 222221 234678999998643         2333334


Q ss_pred             ce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhC
Q 048597          208 TM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEEC  250 (294)
Q Consensus       208 ~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c  250 (294)
                      .. +.++ +++++-..++++.+.......+   .++..-|++.+
T Consensus       158 g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~---~~v~~yl~~~~  197 (213)
T d1l8qa2         158 GILVEIE-LDNKTRFKIIKEKLKEFNLELR---KEVIDYLLENT  197 (213)
T ss_dssp             SEEEECC-CCHHHHHHHHHHHHHHTTCCCC---HHHHHHHHHHC
T ss_pred             ceEEEEC-CCcHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhc
Confidence            44 7775 4777777777777643332222   24455555544

>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=98.46  E-value=3.7e-07  Score=79.53  Aligned_cols=140  Identities=18%  Similarity=0.198  Sum_probs=78.8

Q ss_pred             ceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHH----------hC-CCCCCc-----
Q 048597           79 TVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKK----------IG-LSTKSW-----  142 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~----------~~-~~~~~~-----  142 (294)
                      .++||+.+++++++.|...  .-.-+.++|++|+|||+|+..+..      .|...          ++ +.....     
T Consensus        23 ~~~gr~~ei~~~~~~L~r~--~k~n~llvG~~GvGKtaiv~~la~------~i~~~~vp~~l~~~~i~~ld~~~l~ag~~   94 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQ------RIVKGDVPEGLKGKRIVSLQMGSLLAGAK   94 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHH------HHHHTCSCTTSTTCEEEEECC--------
T ss_pred             CCcCcHHHHHHHHHHHhcC--CCCCCeEECCCCCCHHHHHHHHHH------HHHhCCCCHHHcCceEEEeeHhhhhcccC
Confidence            4699999999999999876  334457889999999999865421      11110          00 000000     


Q ss_pred             ccCChHHHHHHHHHHh-c-cCCeEEEEccccCcc---------chhhh-cCCcCCCCCCcEEEEecCChHHhhcc-----
Q 048597          143 QENSFEDKALDIAGIL-S-RKRFVLLLDDIWEHI---------NLNKL-GVPLQYLHLGSKIVFTTNSRVVCGQM-----  205 (294)
Q Consensus       143 ~~~~~~~~~~~l~~~l-~-~kr~LlvlDdv~~~~---------~~~~l-~~~l~~~~~gs~iivTtr~~~v~~~~-----  205 (294)
                      .....+.....+...+ . ...++|++|+++..-         +...+ ..+|..+  .-++|.+|........-     
T Consensus        95 ~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~~ey~~~e~d~al  172 (387)
T d1qvra2          95 YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTLDEYREIEKDPAL  172 (387)
T ss_dssp             ---CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECHHHHHHHTTCTTT
T ss_pred             cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCHHHHHHhcccHHH
Confidence            0113334444444444 3 347899999998631         22222 2222222  34677777766653321     


Q ss_pred             --CCceeecCCCCHHHHHHHHHHHh
Q 048597          206 --EATMLNASPLRDEEAWRLFEEAV  228 (294)
Q Consensus       206 --~~~~~~l~~L~~~~~~~Lf~~~~  228 (294)
                        ....+.+.+.+.+++..++....
T Consensus       173 ~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         173 ERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             CSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHhcccccCCCCcHHHHHHHHHHHH
Confidence              11228999999999999987543

>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=98.29  E-value=2.4e-06  Score=70.67  Aligned_cols=170  Identities=14%  Similarity=0.083  Sum_probs=89.2

Q ss_pred             ceeehhHHHHHHHHHHh----c-------CCCCceEEEEEcCCCChHHHHHHHhhChhHHH---HHHHHHhCCCCCCccc
Q 048597           79 TVIRQELLLDRVWRFVT----D-------QERNRGIIGLYGTGGVGKTTLLKQRANLKKIQ---ADIGKKIGLSTKSWQE  144 (294)
Q Consensus        79 ~~vGr~~~~~~l~~~L~----~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~---~~i~~~~~~~~~~~~~  144 (294)
                      .++|.++.+++|.+.+.    .       +-...+.|.++|++|+|||+||+.+.+.....   -....-..    ....
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~----~~~~   83 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLT----MWFG   83 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHT----SCTT
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhh----cccc
Confidence            46677766555555442    1       12245679999999999999999883221100   00000000    0011


Q ss_pred             CChHHHHHHHHHHhccCCeEEEEccccCcc--------c--------hhhhcCCcC--CCCCCcEEEEecCChHH-h---
Q 048597          145 NSFEDKALDIAGILSRKRFVLLLDDIWEHI--------N--------LNKLGVPLQ--YLHLGSKIVFTTNSRVV-C---  202 (294)
Q Consensus       145 ~~~~~~~~~l~~~l~~kr~LlvlDdv~~~~--------~--------~~~l~~~l~--~~~~gs~iivTtr~~~v-~---  202 (294)
                      .....+...+...-...+++|++||+....        .        ...+...+.  ....+--+|.||....- -   
T Consensus        84 ~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al  163 (265)
T d1r7ra3          84 ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAI  163 (265)
T ss_dssp             THHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGG
T ss_pred             chHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHH
Confidence            222333333333345778999999997411        1        111222221  12234456667665432 1   


Q ss_pred             hcc-CCce-eecCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHhCCCChHH
Q 048597          203 GQM-EATM-LNASPLRDEEAWRLFEEAVGRYVLDSHPDIPELAKTMAEECCCLPLA  256 (294)
Q Consensus       203 ~~~-~~~~-~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPla  256 (294)
                      ... .... +++.+.+.++-.++|+..+........-++    .++++++.|+..+
T Consensus       164 ~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l----~~la~~t~g~s~~  215 (265)
T d1r7ra3         164 LRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDL----EFLAKMTNGFSGA  215 (265)
T ss_dssp             GSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCC----HHHHHHHCSSCCH
T ss_pred             hCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhH----HHHHhcCCCCCHH
Confidence            111 2344 999999999999999876644322222233    6777888886644

>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=98.25  E-value=3.9e-06  Score=68.55  Aligned_cols=46  Identities=22%  Similarity=0.111  Sum_probs=32.6

Q ss_pred             CceeehhHHHHHHHHHHh-------cC-CCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVT-------DQ-ERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~-------~~-~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|..+.++.+++-+.       .. ....+-|.++||+|+|||++|+.+.+
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhh
Confidence            457887766665555543       21 22456799999999999999998853

>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=97.73  E-value=5.8e-05  Score=60.47  Aligned_cols=49  Identities=20%  Similarity=0.110  Sum_probs=31.3

Q ss_pred             HHHHHhccCCeEEEEccccCc-------cchhhhcCCcCCCCCCcEEEEecCChHHhh
Q 048597          153 DIAGILSRKRFVLLLDDIWEH-------INLNKLGVPLQYLHLGSKIVFTTNSRVVCG  203 (294)
Q Consensus       153 ~l~~~l~~kr~LlvlDdv~~~-------~~~~~l~~~l~~~~~gs~iivTtr~~~v~~  203 (294)
                      .|...|-.++-+|++|+--..       .-|+.+...  ....|..||++|.+.+++.
T Consensus       155 aIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l--~~~~g~tii~vTHd~~~a~  210 (230)
T d1l2ta_         155 AIARALANNPPIILADQPTGALDSKTGEKIMQLLKKL--NEEDGKTVVVVTHDINVAR  210 (230)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHH--HHTTCCEEEEECSCHHHHT
T ss_pred             HHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHH--HHhhCCEEEEECCCHHHHH
Confidence            455566678889999987542       122322221  1234778999999988875

>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=97.61  E-value=0.00015  Score=56.79  Aligned_cols=110  Identities=13%  Similarity=0.053  Sum_probs=63.8

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChhHHHHHH-HHHhCCCCCCcccCChHHHHHHHHHHh-----cc
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLKKIQADI-GKKIGLSTKSWQENSFEDKALDIAGIL-----SR  160 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i-~~~~~~~~~~~~~~~~~~~~~~l~~~l-----~~  160 (294)
                      ++.+.+++...  ..+.+.++|++|+||||+|..+.+.......- ...+.+..+. .....++... +.+++     .+
T Consensus         3 ~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~-~~I~Id~IR~-i~~~~~~~~~~~   78 (198)
T d2gnoa2           3 LETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG-ENIGIDDIRT-IKDFLNYSPELY   78 (198)
T ss_dssp             HHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS-SCBCHHHHHH-HHHHHTSCCSSS
T ss_pred             HHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCc-CCCCHHHHHH-HHHHHhhCcccC
Confidence            34555566655  68899999999999999998765321000000 0000011110 1223444443 55554     25


Q ss_pred             CCeEEEEccccC--ccchhhhcCCcCCCCCCcEEEEecCChH
Q 048597          161 KRFVLLLDDIWE--HINLNKLGVPLQYLHLGSKIVFTTNSRV  200 (294)
Q Consensus       161 kr~LlvlDdv~~--~~~~~~l~~~l~~~~~gs~iivTtr~~~  200 (294)
                      ++-++++|+++.  ......+...+.....++.+|++|.+..
T Consensus        79 ~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~  120 (198)
T d2gnoa2          79 TRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWH  120 (198)
T ss_dssp             SSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGG
T ss_pred             CCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChh
Confidence            556999999986  4566677666655555677777776654

>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=97.59  E-value=9.1e-05  Score=59.71  Aligned_cols=22  Identities=45%  Similarity=0.662  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-.+++|+|++|+|||||.+.+
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l   48 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRII   48 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            4479999999999999999999

>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=97.57  E-value=6.1e-05  Score=60.63  Aligned_cols=54  Identities=20%  Similarity=0.242  Sum_probs=33.3

Q ss_pred             HHHHHHhccCCeEEEEccccCc-------cchhhhcCCcCCCCCCcEEEEecCChHHhhccCC
Q 048597          152 LDIAGILSRKRFVLLLDDIWEH-------INLNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEA  207 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~-------~~~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~  207 (294)
                      -.|...|-.++-+|++|+--..       .-|+.+.. +. ...|..||++|.+-..+..++.
T Consensus       145 vaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~-l~-~~~g~tii~vTHd~~~a~~~~d  205 (239)
T d1v43a3         145 VAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKK-LQ-QKLKVTTIYVTHDQVEAMTMGD  205 (239)
T ss_dssp             HHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHH-HH-HHHTCEEEEEESCHHHHHHHCS
T ss_pred             HHHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHH-HH-HhcCCeEEEEeCCHHHHHHhCC
Confidence            3466667788899999987542       12222222 11 1236789999998877655443

>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=97.53  E-value=3.7e-05  Score=62.73  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll   64 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLI   64 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999998

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.52  E-value=1.2e-05  Score=67.91  Aligned_cols=46  Identities=26%  Similarity=0.259  Sum_probs=34.4

Q ss_pred             CceeehhHHHHHHHHHHhc------------CCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           78 RTVIRQELLLDRVWRFVTD------------QERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~------------~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..++|.++.++.+...+..            .....+.+.++||+|+|||.||+.+..
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhh
Confidence            4578999888888766521            012457788999999999999998843

>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=97.52  E-value=5.2e-05  Score=61.77  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll   61 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLI   61 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3469999999999999999999

>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=97.51  E-value=5.3e-05  Score=61.24  Aligned_cols=21  Identities=43%  Similarity=0.662  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..++|+|++|+|||||++.+
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll   49 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLI   49 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            479999999999999999999

>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=97.49  E-value=4.2e-05  Score=61.33  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-.+++|+|++|+|||||++.+
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i   46 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMI   46 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3479999999999999999999

>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=97.48  E-value=0.00013  Score=58.84  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..++|+|++|+|||||++.+
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll   48 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLL   48 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

>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=97.47  E-value=0.0003  Score=56.50  Aligned_cols=22  Identities=36%  Similarity=0.635  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i   51 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCV   51 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999999

>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=97.46  E-value=2.7e-05  Score=58.90  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .++++|+|+.|+|||||++.+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~   23 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLI   23 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHH
Confidence            4799999999999999998874

>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=97.45  E-value=9.1e-05  Score=59.63  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-.+++|+|++|+|||||++.+
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i   49 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMI   49 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3479999999999999999999

>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=97.44  E-value=8.5e-05  Score=59.83  Aligned_cols=22  Identities=36%  Similarity=0.634  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i   51 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRII   51 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999999

>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=97.43  E-value=0.00019  Score=57.27  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l   46 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELI   46 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3469999999999999999999

>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=97.42  E-value=3.3e-05  Score=59.08  Aligned_cols=22  Identities=18%  Similarity=0.339  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+.|.|.|++|+||||||+.+
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~L   27 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKL   27 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHH
Confidence            4688999999999999999998

>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=97.42  E-value=7.9e-05  Score=57.60  Aligned_cols=36  Identities=28%  Similarity=0.416  Sum_probs=26.2

Q ss_pred             HHHHHHHHhc-CCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           87 LDRVWRFVTD-QERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        87 ~~~l~~~L~~-~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ++.|+..... ...+.-+|+|.|++|+||||||+.+.
T Consensus         7 ~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~   43 (198)
T d1rz3a_           7 IDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLS   43 (198)
T ss_dssp             HHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            4444444433 23366799999999999999999883

>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=97.37  E-value=7.7e-05  Score=59.98  Aligned_cols=20  Identities=30%  Similarity=0.431  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+++|+|++|+|||||++.+
T Consensus        25 e~~~liGpnGaGKSTll~~i   44 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELI   44 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEECCCCChHHHHHHHH
Confidence            48889999999999999999

>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=97.35  E-value=4.7e-05  Score=56.55  Aligned_cols=20  Identities=35%  Similarity=0.396  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|.|++|+||||||+.+
T Consensus         3 klIii~G~pGsGKTTla~~L   22 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREF   22 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            57889999999999999987

>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=97.33  E-value=3.9e-05  Score=57.35  Aligned_cols=20  Identities=40%  Similarity=0.388  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|.|+||+|+||||+|+.+
T Consensus         3 k~I~l~G~~GsGKSTvak~L   22 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQL   22 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            46888899999999999988

>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=97.32  E-value=5.3e-05  Score=57.21  Aligned_cols=20  Identities=35%  Similarity=0.469  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++|.|.|++|+||||+|+.+
T Consensus         3 klI~i~G~~GsGKTTva~~L   22 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRL   22 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            68999999999999999888

>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=97.31  E-value=0.00024  Score=57.67  Aligned_cols=22  Identities=27%  Similarity=0.397  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li   60 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALL   60 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            4479999999999999999999

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.31  E-value=0.00011  Score=61.76  Aligned_cols=44  Identities=30%  Similarity=0.366  Sum_probs=34.1

Q ss_pred             CceeehhHHHHHHHHHHhc-------CCCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTD-------QERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.++.++.+...+..       +.....++.++||.|+|||.||+.+
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~l   73 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTL   73 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHH
Confidence            4678999888888776642       1223458899999999999999887

>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=97.29  E-value=0.00034  Score=56.32  Aligned_cols=22  Identities=41%  Similarity=0.560  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i   52 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAI   52 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            3479999999999999999999

>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=97.28  E-value=7.2e-05  Score=56.83  Aligned_cols=23  Identities=22%  Similarity=0.111  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +..+|.|+|++|+||||+|+.+.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La   27 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQ   27 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            45789999999999999998883

>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=97.27  E-value=5e-05  Score=57.94  Aligned_cols=21  Identities=43%  Similarity=0.574  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.|.|+|++|+|||||++.+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~   22 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKAS   22 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHH
Confidence            569999999999999999884

>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=97.24  E-value=0.00051  Score=56.61  Aligned_cols=22  Identities=32%  Similarity=0.527  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i   82 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLI   82 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            4578999999999999999998

>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=97.21  E-value=6.7e-05  Score=56.70  Aligned_cols=20  Identities=60%  Similarity=0.532  Sum_probs=18.2

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|.|.|++|+||||+|+.+
T Consensus         5 ~~I~i~G~pGsGKTTia~~L   24 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKEL   24 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            56789999999999999988

>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=97.18  E-value=7.6e-05  Score=56.86  Aligned_cols=19  Identities=53%  Similarity=0.634  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|+|+|++|+|||||++.+
T Consensus         2 ki~I~G~~G~GKSTLl~~i   20 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKI   20 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHH
Confidence            3899999999999999998

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.18  E-value=0.00017  Score=58.78  Aligned_cols=38  Identities=24%  Similarity=0.142  Sum_probs=27.8

Q ss_pred             hHHHHHHHHHHhcC---CCCceEEEEEcCCCChHHHHHHHh
Q 048597           84 ELLLDRVWRFVTDQ---ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        84 ~~~~~~l~~~L~~~---~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++.+.+.+..+..+   ...+..|.++||+|+||||||+.+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~l   52 (273)
T d1gvnb_          12 ENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAI   52 (273)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHH
Confidence            34455555555432   335678999999999999999988

>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=97.16  E-value=0.00011  Score=55.40  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+++.|.|++|+||||+|+.+
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~L   26 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEV   26 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            6789999999999999999987

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.14  E-value=0.00012  Score=56.82  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=20.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.+|.|+|++|+||||+|+.+
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~L   26 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANI   26 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            6789999999999999999998

>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=97.12  E-value=0.00072  Score=53.09  Aligned_cols=72  Identities=18%  Similarity=0.123  Sum_probs=42.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh------------------hCh--hHHHHHHHHHhCCCCCCc-ccCChHHHHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR------------------ANL--KKIQADIGKKIGLSTKSW-QENSFEDKALDIAGIL  158 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v------------------~~~--~~i~~~i~~~~~~~~~~~-~~~~~~~~~~~l~~~l  158 (294)
                      .+.||.++|+.|+||||.+-++                  |..  .+.++.+...++++.... ...+............
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a   87 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAA   87 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHH
Confidence            5789999999999999877666                  222  245566777777654321 2233333333333322


Q ss_pred             ccC-CeEEEEcccc
Q 048597          159 SRK-RFVLLLDDIW  171 (294)
Q Consensus       159 ~~k-r~LlvlDdv~  171 (294)
                      +.+ .=++++|-.-
T Consensus        88 ~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          88 KARNIDVLIADTAG  101 (211)
T ss_dssp             HHTTCSEEEECCCC
T ss_pred             HHcCCCEEEeccCC
Confidence            222 3367777653

>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=97.11  E-value=0.00063  Score=54.37  Aligned_cols=21  Identities=43%  Similarity=0.659  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||.+.+
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l   45 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARM   45 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHH
Confidence            479999999999999999998

>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=97.07  E-value=8.7e-05  Score=57.32  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.++|++|+||||+|+.+
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~L   39 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMAL   39 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4568999999999999999988

>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=97.04  E-value=0.00015  Score=54.78  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++|.|.|++|+||||+|+.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L   23 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCL   23 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            478999999999999999998

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.02  E-value=0.00018  Score=55.82  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=21.4

Q ss_pred             CCceEEEEEcCCCChHHHHHHHh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++|.|.|++|+||||+|+.+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~L   28 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKL   28 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHH
Confidence            36889999999999999999999

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.01  E-value=0.00016  Score=54.78  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.|.|++|+||||+|+.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~L   24 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEAL   24 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3479999999999999999988

>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=96.99  E-value=0.0002  Score=54.07  Aligned_cols=22  Identities=32%  Similarity=0.309  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....|.|.|++|+||||+++.+
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~L   25 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMI   25 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHH
Confidence            4567999999999999999998

>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=96.99  E-value=0.0002  Score=54.70  Aligned_cols=63  Identities=14%  Similarity=0.227  Sum_probs=38.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCCcccCChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKSWQENSFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      .+.+|.++|++|+||||+|+.+.....       ...++.+  .......+...+...|..++ .+|+|+...
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~~~-------~~~i~~D--~~~~~~~~~~~~~~~l~~g~-~vIiD~t~~   75 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVSAG-------YVHVNRD--TLGSWQRCVSSCQAALRQGK-RVVIDNTNP   75 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGGGT-------CEEEEHH--HHCSHHHHHHHHHHHHHTTC-CEEEESCCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcC-------CEEEchH--HHHHHHHHHHHHHHHHHCCC-CceeeCcCC
Confidence            678999999999999999988743211       0001111  11223445555666665544 577888754

>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=96.99  E-value=0.00017  Score=54.49  Aligned_cols=20  Identities=30%  Similarity=0.423  Sum_probs=18.2

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++++|+|..|+|||||+..+
T Consensus         2 kii~I~G~~gSGKTTli~~l   21 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKW   21 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHH
Confidence            68999999999999998766

>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=0.00016  Score=55.06  Aligned_cols=20  Identities=30%  Similarity=0.393  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++|.|.|+.|+||||+++.+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L   21 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLA   21 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            68999999999999999988

>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=96.92  E-value=0.00022  Score=55.73  Aligned_cols=22  Identities=27%  Similarity=0.299  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.+|.++|.+|+||||||+++.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~   23 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLT   23 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999883

>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=96.91  E-value=0.0011  Score=52.01  Aligned_cols=24  Identities=29%  Similarity=0.282  Sum_probs=20.0

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHh
Q 048597           98 ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        98 ~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+.+|.++|+.|+||||.+-++
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKL   31 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKL   31 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHH
Confidence            346789999999999999876665

>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=96.89  E-value=0.00079  Score=52.92  Aligned_cols=23  Identities=30%  Similarity=0.325  Sum_probs=15.7

Q ss_pred             CCceEEEEEcCCCChHHHHHHHh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+.||.++|+.|+||||.+-++
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKL   32 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKL   32 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHH
Confidence            36789999999999999876665

>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=96.85  E-value=0.0012  Score=51.59  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.++|.++|+.|+||||.+-++
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKL   26 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKL   26 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            5689999999999999876666

>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=96.85  E-value=0.00028  Score=55.51  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-+|+|.|+.|+||||||+.+
T Consensus         2 P~iIgI~G~~gSGKSTla~~L   22 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKI   22 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            568999999999999999877

>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=96.82  E-value=0.00025  Score=53.32  Aligned_cols=18  Identities=39%  Similarity=0.471  Sum_probs=16.8

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.|+||+|+||||+++.+
T Consensus         3 I~liG~~GsGKsTi~k~L   20 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARAL   20 (161)
T ss_dssp             EEEECCTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            678899999999999998

>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=96.82  E-value=0.00026  Score=53.40  Aligned_cols=18  Identities=33%  Similarity=0.414  Sum_probs=15.7

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.++||+|+||||+++.+
T Consensus         4 IvliG~~G~GKSTig~~L   21 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRL   21 (165)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            445599999999999998

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.80  E-value=0.00064  Score=57.00  Aligned_cols=46  Identities=22%  Similarity=0.266  Sum_probs=36.0

Q ss_pred             cCceeehhHHHHHHHHHHhc-------CCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           77 ERTVIRQELLLDRVWRFVTD-------QERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...++|.++.++.+...+..       .+....++.++||.|+|||.||+.+.
T Consensus        21 ~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la   73 (315)
T d1r6bx3          21 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLS   73 (315)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHH
Confidence            34679999999988877642       23345589999999999999999883

>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=96.75  E-value=0.00028  Score=53.44  Aligned_cols=20  Identities=30%  Similarity=0.330  Sum_probs=17.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..|.++|++|+||||+++.+
T Consensus         3 ~~Iil~G~~GsGKSTia~~L   22 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGREL   22 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHH
Confidence            34668899999999999998

>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=96.75  E-value=0.00036  Score=53.90  Aligned_cols=21  Identities=24%  Similarity=0.238  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.+|.|.|++|+||||+|+.+
T Consensus         1 p~iI~i~GppGSGKsT~a~~L   21 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARI   21 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999998

>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=96.73  E-value=0.00084  Score=56.40  Aligned_cols=36  Identities=25%  Similarity=0.300  Sum_probs=28.5

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...++++.+.....+..+|+|.|++|+|||||...+
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l   71 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDAL   71 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHH
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHH
Confidence            345556666555568899999999999999998776

>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=96.69  E-value=0.0004  Score=58.21  Aligned_cols=64  Identities=23%  Similarity=0.327  Sum_probs=36.9

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhHHHHHHHHH---hCCCCCCccc---CChHHHHHHHHHHhccCCeEEEEccccC
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKKIQADIGKK---IGLSTKSWQE---NSFEDKALDIAGILSRKRFVLLLDDIWE  172 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~---~~~~~~~~~~---~~~~~~~~~l~~~l~~kr~LlvlDdv~~  172 (294)
                      .++.++|++|+|||.||+.+...      +...   +.+.......   -+.+.....+.+..+ +.++|++|+++.
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~------~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~-~~~ilf~DEid~  193 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA------LGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAML-QHRVIVIDSLKN  193 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH------HHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHH-HCSEEEEECCTT
T ss_pred             ceEEEECCCCccHHHHHHHHHHH------hcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHh-hccEEEeehhhh
Confidence            45666899999999999887432      1111   1111121111   133444444544444 367999999976

>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=96.68  E-value=0.00089  Score=56.34  Aligned_cols=35  Identities=26%  Similarity=0.305  Sum_probs=28.0

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+++..+.....+..+|+|+|++|+|||||...+
T Consensus        40 ~~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l   74 (327)
T d2p67a1          40 STQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAF   74 (327)
T ss_dssp             HHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHH
Confidence            34566666555567899999999999999999877

>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=96.68  E-value=0.00038  Score=53.65  Aligned_cols=22  Identities=18%  Similarity=0.089  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++..|.|.||+|+||||+|+.+
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~L   23 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELI   23 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3466889999999999999998

>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=96.65  E-value=0.00043  Score=54.45  Aligned_cols=21  Identities=38%  Similarity=0.518  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++|.|-||+|+||||+|+.+
T Consensus         3 ~piI~I~GppGSGKgT~ak~L   23 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAM   23 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999999

>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=96.63  E-value=0.0028  Score=49.54  Aligned_cols=22  Identities=36%  Similarity=0.412  Sum_probs=19.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.++|.++|+.|+||||.+.++
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKL   30 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKL   30 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4589999999999999877776

>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=96.60  E-value=0.0005  Score=52.44  Aligned_cols=20  Identities=40%  Similarity=0.449  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++|.|.|++|+||||+++.+
T Consensus         2 kiivi~G~~GsGKTT~~~~L   21 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKV   21 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            68899999999999999988

>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=96.58  E-value=0.00044  Score=54.07  Aligned_cols=22  Identities=41%  Similarity=0.712  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||.+.+
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i   47 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTI   47 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHH
Confidence            3479999999999999999999

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.58  E-value=0.00059  Score=52.56  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+-+|+|.|+.|+||||+|+.+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4679999999999999999887

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.53  E-value=0.00059  Score=52.22  Aligned_cols=20  Identities=30%  Similarity=0.509  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++|.|+||+|+|||||++.+
T Consensus         3 ~iivl~GpsG~GK~tl~~~L   22 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCL   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            57889999999999999776

>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=96.49  E-value=0.00065  Score=52.50  Aligned_cols=22  Identities=32%  Similarity=0.318  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.|.|++|+||||+|+.+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~L   28 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKI   28 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4589999999999999999998

>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=96.45  E-value=0.00059  Score=52.75  Aligned_cols=19  Identities=47%  Similarity=0.656  Sum_probs=16.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|+||+|+|||||++.+
T Consensus         2 pIvl~GPsGsGK~tl~~~L   20 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKL   20 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            4779999999999998775

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.45  E-value=0.0008  Score=51.71  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=18.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.++| |+|++|+||||+|+.+
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~L   23 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKL   23 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHH
Confidence            45566 7899999999999998

>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=96.45  E-value=0.00055  Score=57.75  Aligned_cols=43  Identities=23%  Similarity=0.314  Sum_probs=32.0

Q ss_pred             CceeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           78 RTVIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.++|.+..+..+.-.+...  +..-|.+.|++|+||||||+.+.
T Consensus         7 ~~I~Gq~~~kral~laa~~~--~~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhcc--CCCeEEEECCCCccHHHHHHHHH
Confidence            46799998777655444422  23568999999999999999873

>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=96.43  E-value=0.00063  Score=52.35  Aligned_cols=20  Identities=45%  Similarity=0.601  Sum_probs=17.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|.|+||+|+|||||++.+
T Consensus         2 rpIvl~GpsG~GK~tl~~~L   21 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKL   21 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            45789999999999999876

>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=96.39  E-value=0.00073  Score=51.36  Aligned_cols=19  Identities=32%  Similarity=0.345  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+|+.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~L   20 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKI   20 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3779999999999999988

>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=96.38  E-value=0.0008  Score=52.94  Aligned_cols=20  Identities=30%  Similarity=0.302  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -+|+|-||+|+||||+|+.+
T Consensus         4 i~IaIdGp~GsGKgT~ak~L   23 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKII   23 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            46889999999999999999

>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=96.36  E-value=0.001  Score=52.15  Aligned_cols=23  Identities=30%  Similarity=0.234  Sum_probs=20.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +..+|.+.|++|+||||||+.+.
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~   45 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELE   45 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            66899999999999999998873

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.36  E-value=0.0057  Score=50.68  Aligned_cols=23  Identities=35%  Similarity=0.364  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCChHHHHHHHh
Q 048597           99 RNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        99 ~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+-+|+|.|.+|+||||+|+.+
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L  100 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVL  100 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHH
Confidence            35679999999999999999988

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.35  E-value=0.0021  Score=52.71  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=17.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.++|+|.|.+|+||||+++.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l   24 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTF   24 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            4579999999999999999876

>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=96.34  E-value=0.00086  Score=54.44  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.+++|+|++|+|||||++.+
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i   48 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCI   48 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHH
Confidence            4479999999999999999999

>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=96.32  E-value=0.0011  Score=51.20  Aligned_cols=22  Identities=23%  Similarity=0.228  Sum_probs=18.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....|.|.||+|+||||+++.+
T Consensus         5 r~mrIiliG~PGSGKtT~a~~L   26 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRI   26 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHH
Confidence            4456678899999999999998

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.25  E-value=0.0011  Score=50.70  Aligned_cols=20  Identities=25%  Similarity=0.429  Sum_probs=17.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|.|+||+|+|||||++.+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L   23 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTL   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHH
Confidence            67999999999999998765

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.25  E-value=0.001  Score=52.89  Aligned_cols=19  Identities=47%  Similarity=0.611  Sum_probs=18.0

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      ||+|.|+.|+|||||.+.+
T Consensus         2 vi~v~G~~GsGKTTLl~~l   20 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEF   20 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHH
Confidence            7999999999999999887

>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=96.23  E-value=0.0018  Score=52.72  Aligned_cols=33  Identities=36%  Similarity=0.549  Sum_probs=26.4

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +..+.+.+...  ..++|.+.|-||+||||++-.+
T Consensus         8 ~~~~~~~~~~~--~~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2           8 LSALVDDIARN--EHGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             HHHHHHHHHTT--SCEEEEEECSTTSSHHHHHHHH
T ss_pred             HHHHHHHhhcC--CCEEEEEECCCCCCHHHHHHHH
Confidence            45566666655  7899999999999999987766

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.22  E-value=0.001  Score=50.64  Aligned_cols=19  Identities=32%  Similarity=0.319  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+|+.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~L   20 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKL   20 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4788899999999999998

>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=96.22  E-value=0.0012  Score=50.82  Aligned_cols=23  Identities=30%  Similarity=0.271  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+.+|+|-|..|+||||+++.+.
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~   30 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFE   30 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            56799999999999999999983

>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=96.20  E-value=0.0032  Score=51.13  Aligned_cols=73  Identities=21%  Similarity=0.240  Sum_probs=44.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC--------------hhHHHHHHHHHhCCCCCCc---ccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN--------------LKKIQADIGKKIGLSTKSW---QENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~--------------~~~i~~~i~~~~~~~~~~~---~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-+++-|+|++|+|||||+-++..              ...+....++.+++..+..   ...+.++..+.+...++ +.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~~~~  132 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGA  132 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTC
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHhcCC
Confidence            347999999999999999988811              1112234466666543321   23345555555555554 34


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      .-|||+|.+-.
T Consensus       133 ~~liViDSi~a  143 (263)
T d1u94a1         133 VDVIVVDSVAA  143 (263)
T ss_dssp             CSEEEEECGGG
T ss_pred             CCEEEEECccc
Confidence            46889998854

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.19  E-value=0.0012  Score=50.34  Aligned_cols=19  Identities=37%  Similarity=0.354  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+|+.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~L   20 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRI   20 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4779999999999999988

>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=96.17  E-value=0.0018  Score=52.19  Aligned_cols=42  Identities=12%  Similarity=0.163  Sum_probs=34.0

Q ss_pred             eeehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           80 VIRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        80 ~vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +||....+.++.+.+..-.....-|.|.|+.|+|||++|+.+
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~i   43 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLI   43 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHH
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHH
Confidence            688888888888887764334456799999999999999988

>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=96.16  E-value=0.0017  Score=48.94  Aligned_cols=33  Identities=30%  Similarity=0.424  Sum_probs=23.8

Q ss_pred             HHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           90 VWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        90 l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +.+++.-.. +..-|.|+|.+|+|||||...+..
T Consensus         3 ~~~~~~~~~-k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_           3 VLQFLGLYK-KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             HHHHHTCTT-CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             hHHhccccC-CCCEEEEECCCCCCHHHHHHHHhC
Confidence            344454443 334577999999999999998844

>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=96.12  E-value=0.0026  Score=54.13  Aligned_cols=41  Identities=15%  Similarity=0.087  Sum_probs=28.2

Q ss_pred             ehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           82 RQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        82 Gr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      |.+..+-+....+..+....+.+.++||+|+|||++|+.+.
T Consensus       135 ~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~  175 (362)
T d1svma_         135 KMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALL  175 (362)
T ss_dssp             THHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHH
Confidence            44433334444444454466799999999999999998763

>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=96.09  E-value=0.0014  Score=53.07  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.+++|+|++|+|||||++.+
T Consensus        30 Gei~~liG~nGaGKSTLl~~i   50 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVI   50 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHH
Confidence            469999999999999999999

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.06  E-value=0.003  Score=51.85  Aligned_cols=24  Identities=25%  Similarity=0.163  Sum_probs=20.6

Q ss_pred             CCCceEEEEEcCCCChHHHHHHHh
Q 048597           98 ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        98 ~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+-+|+|.|+.|+|||||+..+
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l   47 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQI   47 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHH
Confidence            345679999999999999999876

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.02  E-value=0.0017  Score=49.35  Aligned_cols=19  Identities=32%  Similarity=0.321  Sum_probs=16.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+++.+
T Consensus         4 rIvl~G~pGSGKtT~a~~L   22 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNL   22 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3557799999999999999

>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=96.01  E-value=0.0016  Score=52.94  Aligned_cols=20  Identities=35%  Similarity=0.758  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|+|+|-||+||||+|-.+
T Consensus         2 r~Iai~gKGGvGKTT~a~nL   21 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNL   21 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHH
Confidence            68999999999999999877

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.00  E-value=0.0017  Score=50.68  Aligned_cols=20  Identities=20%  Similarity=0.381  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|.|+||+|+|||||.+.+
T Consensus         3 ~livi~GPSG~GK~tl~~~L   22 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQAL   22 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            57889999999999998776

>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=95.96  E-value=0.0016  Score=49.41  Aligned_cols=19  Identities=32%  Similarity=0.149  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      .|.|.|++|+||||+++.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~L   20 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFI   20 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4678999999999999998

>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=95.94  E-value=0.014  Score=47.55  Aligned_cols=32  Identities=22%  Similarity=0.143  Sum_probs=24.8

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           89 RVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        89 ~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++++.+..=. .-..++|.|++|+|||+|+..+
T Consensus        32 r~ID~l~Pig-rGQr~~I~g~~g~GKT~l~~~i   63 (289)
T d1xpua3          32 RVLDLASPIG-RGQRGLIVAPPKAGKTMLLQNI   63 (289)
T ss_dssp             HHHHHHSCCB-TTCEEEEEECSSSSHHHHHHHH
T ss_pred             eeeeeccccc-CCCeeeEeCCCCCCHHHHHHHH
Confidence            5666665421 3468899999999999999888

>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=95.91  E-value=0.0029  Score=53.94  Aligned_cols=45  Identities=29%  Similarity=0.233  Sum_probs=33.8

Q ss_pred             cCceeehhHHHHHHHHHHh----------------------------cCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           77 ERTVIRQELLLDRVWRFVT----------------------------DQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        77 ~~~~vGr~~~~~~l~~~L~----------------------------~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+||.++.++.+...+-                            +.+.....+..+||.|+|||.||+.+
T Consensus        16 ~~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~L   88 (364)
T d1um8a_          16 DNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTL   88 (364)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHH
T ss_pred             CCeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHH
Confidence            3568899988777765552                            11335667899999999999999887

>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=95.90  E-value=0.0084  Score=47.37  Aligned_cols=22  Identities=36%  Similarity=0.445  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|++|+|||+|+.++
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qi   46 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRF   46 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHH
Confidence            4579999999999999999998

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.88  E-value=0.0019  Score=47.47  Aligned_cols=19  Identities=37%  Similarity=0.452  Sum_probs=17.1

Q ss_pred             EEEEcCCCChHHHHHHHhh
Q 048597          104 IGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~  122 (294)
                      |.|+|++|+|||||++.+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~   21 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLK   21 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6799999999999999873

>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=95.87  E-value=0.0064  Score=49.36  Aligned_cols=73  Identities=19%  Similarity=0.214  Sum_probs=47.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh-------------C-hhHHHHHHHHHhCCCCCC---cccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA-------------N-LKKIQADIGKKIGLSTKS---WQENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~-------------~-~~~i~~~i~~~~~~~~~~---~~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-+++-|.|++|+|||||+.++.             + ...+...+++++++..+.   ....+.++..+.+...+. +.
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~~~~  135 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGA  135 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTC
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHhcCC
Confidence            45799999999999999998871             1 112233567777765433   123455665555555554 34


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      .-|||+|.+-.
T Consensus       136 ~~liIiDSi~a  146 (268)
T d1xp8a1         136 IDVVVVDSVAA  146 (268)
T ss_dssp             CSEEEEECTTT
T ss_pred             CcEEEEecccc
Confidence            66899998854

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=95.87  E-value=0.0022  Score=49.23  Aligned_cols=26  Identities=31%  Similarity=0.401  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLK  125 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~  125 (294)
                      +.+.|+|+|.+|+|||||.+.+.+..
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~~   47 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCCC
Confidence            56789999999999999999997644

>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=95.87  E-value=0.003  Score=47.49  Aligned_cols=26  Identities=42%  Similarity=0.397  Sum_probs=21.0

Q ss_pred             cCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           96 DQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        96 ~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+...--|.++|++|+|||||++.+
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l   36 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQL   36 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHH
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHH
Confidence            33334456889999999999999988

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.76  E-value=0.0023  Score=47.39  Aligned_cols=20  Identities=40%  Similarity=0.512  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.|+|.+|+|||||.+.+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~   26 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQ   26 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998873

>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=95.76  E-value=0.0026  Score=52.13  Aligned_cols=22  Identities=32%  Similarity=0.400  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+++|.+.|-||+||||++..+
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~l   28 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCAT   28 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHH
Confidence            5789999999999999988777

>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=95.75  E-value=0.0067  Score=49.23  Aligned_cols=73  Identities=22%  Similarity=0.305  Sum_probs=46.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh-------------C-hhHHHHHHHHHhCCCCCC---cccCChHHHHHHHHHHhc-cC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA-------------N-LKKIQADIGKKIGLSTKS---WQENSFEDKALDIAGILS-RK  161 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~-------------~-~~~i~~~i~~~~~~~~~~---~~~~~~~~~~~~l~~~l~-~k  161 (294)
                      .-+++-|.|++|+|||||+.++.             + ...+..+.++++++..+.   ....+.++..+.+...+. ++
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~~~~  138 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGA  138 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTTC
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHhcCC
Confidence            56899999999999999997771             1 111223456666664332   123455555555544444 44


Q ss_pred             CeEEEEccccC
Q 048597          162 RFVLLLDDIWE  172 (294)
Q Consensus       162 r~LlvlDdv~~  172 (294)
                      ..|||+|.+-.
T Consensus       139 ~~liIiDSi~a  149 (269)
T d1mo6a1         139 LDIVVIDSVAA  149 (269)
T ss_dssp             EEEEEEECSTT
T ss_pred             CCEEEEecccc
Confidence            67899999855

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.52  E-value=0.006  Score=45.62  Aligned_cols=32  Identities=34%  Similarity=0.580  Sum_probs=23.5

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhh
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ..+..++...   ..-|.|+|.+|+|||||+..+.
T Consensus         5 ~~~~~~~~~k---~~kI~vvG~~~~GKSsLi~rl~   36 (177)
T d1zj6a1           5 TRIWRLFNHQ---EHKVIIVGLDNAGKTTILYQFS   36 (177)
T ss_dssp             HHHHHHHTTS---CEEEEEEESTTSSHHHHHHHHH
T ss_pred             HHHHHHhCCC---eEEEEEECCCCCCHHHHHHHHh
Confidence            3455444433   3567799999999999999873

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.51  E-value=0.0032  Score=46.83  Aligned_cols=20  Identities=35%  Similarity=0.459  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.|+|++|+|||||++.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~   23 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFN   23 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            37799999999999999874

>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=95.50  E-value=0.0045  Score=46.88  Aligned_cols=22  Identities=36%  Similarity=0.421  Sum_probs=18.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..--|.++|.+|+|||||++.+
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l   37 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRL   37 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHT
T ss_pred             ceEEEEEECCCCCCHHHHHHHH
Confidence            3345669999999999999988

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.46  E-value=0.0036  Score=48.32  Aligned_cols=21  Identities=33%  Similarity=0.327  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      +.|.|+|.+|+|||||...+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~   24 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLT   24 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            588999999999999998883

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.45  E-value=0.0036  Score=48.80  Aligned_cols=20  Identities=35%  Similarity=0.403  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -+|+|+|+.|+||||+++.+
T Consensus         4 ~iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHH
Confidence            38999999999999999977

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.44  E-value=0.0037  Score=48.62  Aligned_cols=20  Identities=45%  Similarity=0.514  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -+|+|+|..|+||||+++.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999987

>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=95.42  E-value=0.0068  Score=48.17  Aligned_cols=152  Identities=18%  Similarity=0.183  Sum_probs=76.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCCC----------------------cccCChHHHHHHHHHH
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTKS----------------------WQENSFEDKALDIAGI  157 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~~----------------------~~~~~~~~~~~~l~~~  157 (294)
                      +.+++.|.||...||||+++.+.     +..++.+++.....                      ...+....-...+...
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~-----l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~i  114 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTA-----LIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANI  114 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHH-----HHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------CHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHH-----HHHHHHHcCCeEecCceecccchhheeEEccCcccccchhHHHHHHHHHHHH
Confidence            34789999999999999999881     12223333321100                      0011112222233333


Q ss_pred             h--ccCCeEEEEccccCc---cchhh----hcCCcCCCCCCcEEEEecCChHHhhc---cCCce-eecCCCCHHHHHHHH
Q 048597          158 L--SRKRFVLLLDDIWEH---INLNK----LGVPLQYLHLGSKIVFTTNSRVVCGQ---MEATM-LNASPLRDEEAWRLF  224 (294)
Q Consensus       158 l--~~kr~LlvlDdv~~~---~~~~~----l~~~l~~~~~gs~iivTtr~~~v~~~---~~~~~-~~l~~L~~~~~~~Lf  224 (294)
                      +  ..++.|+++|++-..   .+=..    +...+. ...++.+++||........   ..... +++....+++... |
T Consensus       115 l~~~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~~~~~~~~~v~~~~~~~~~~~~~i~-f  192 (234)
T d1wb9a2         115 LHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELTQLPEKMEGVANVHLDALEHGDTIA-F  192 (234)
T ss_dssp             HHHCCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGGGHHHHSTTEEEEEEEEEEETTEEE-E
T ss_pred             HHhcccccEEeecccccCCChhhhhHHHHHhhhhhh-ccccceEEEecchHHHhhhhhcccceEEEEEEEeeccCcce-E
Confidence            3  467889999999752   11111    111221 2235789999988765432   11222 5554443332211 1


Q ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH
Q 048597          225 EEAVGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM  264 (294)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L  264 (294)
                      ..++ .... +.   ...|-++++.+| +|-.+..-|..+
T Consensus       193 ~YkL-~~G~-~~---~s~ai~iA~~~G-lp~~ii~~A~~i  226 (234)
T d1wb9a2         193 MHSV-QDGA-AS---KSYGLAVAALAG-VPKEVIKRARQK  226 (234)
T ss_dssp             EEEE-EESC-CS---SCCHHHHHHHTT-CCHHHHHHHHHH
T ss_pred             EEEe-cCCC-CC---CcHHHHHHHHhC-cCHHHHHHHHHH
Confidence            1111 0110 11   134677887766 888777766543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.41  E-value=0.0037  Score=45.85  Aligned_cols=20  Identities=35%  Similarity=0.401  Sum_probs=17.6

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.++|.+|+|||||+..+.
T Consensus         2 KI~liG~~nvGKSSLln~l~   21 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLK   21 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998763

>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=95.40  E-value=0.004  Score=49.37  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +++.|+|-|+-|+||||+++.+
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L   22 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLL   22 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHH
Confidence            3689999999999999999888

>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=95.40  E-value=0.0033  Score=49.72  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=19.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+.|+|-|+-|+||||+++.+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L   22 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNIL   22 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            478999999999999999988

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.38  E-value=0.0041  Score=46.60  Aligned_cols=21  Identities=29%  Similarity=0.464  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .|+|+|.+|+|||||++.+.+
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            689999999999999999864

>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=95.37  E-value=0.0038  Score=51.14  Aligned_cols=20  Identities=35%  Similarity=0.689  Sum_probs=17.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|+|.|-||+||||++-.+
T Consensus         3 r~IaisgKGGVGKTT~a~NL   22 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            57889999999999988776

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.37  E-value=0.0069  Score=47.71  Aligned_cols=32  Identities=25%  Similarity=0.467  Sum_probs=24.4

Q ss_pred             HHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           87 LDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        87 ~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ++.|..+|. +    +...++|.+|+|||||.+.+..
T Consensus        86 ~~~L~~~l~-~----kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYLK-G----KISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHHS-S----SEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHhc-C----CeEEEECCCCCCHHHHHHhhcc
Confidence            556666664 2    5778999999999999987743

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.37  E-value=0.0038  Score=46.42  Aligned_cols=18  Identities=28%  Similarity=0.687  Sum_probs=16.6

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.++|.+|+|||||++.+
T Consensus         5 v~liG~~~vGKSsLi~rl   22 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRY   22 (164)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            779999999999999876

>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=95.36  E-value=0.0037  Score=47.47  Aligned_cols=20  Identities=45%  Similarity=0.582  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|+|+|.+++|||||.+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~   22 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVS   22 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSE
T ss_pred             eEEEECCCCCCHHHHHHHHh
Confidence            48999999999999999983

>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=95.35  E-value=0.0044  Score=46.55  Aligned_cols=24  Identities=38%  Similarity=0.555  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -...|+|+|.+|+|||||.+.+.+
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHT
T ss_pred             cccEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999999854

>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=95.28  E-value=0.0042  Score=46.14  Aligned_cols=19  Identities=37%  Similarity=0.352  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||++.+
T Consensus         4 Kv~liG~~~vGKTsLl~~~   22 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRF   22 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            3789999999999999887

>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=95.25  E-value=0.0044  Score=46.19  Aligned_cols=19  Identities=42%  Similarity=0.471  Sum_probs=17.2

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         6 KivlvG~~~vGKTsli~~~   24 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQF   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999887

>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=95.25  E-value=0.0044  Score=46.57  Aligned_cols=20  Identities=40%  Similarity=0.453  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.|+|.+|+|||||++.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~   24 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFT   24 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHh
Confidence            37799999999999999873

>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=95.24  E-value=0.032  Score=45.09  Aligned_cols=32  Identities=38%  Similarity=0.650  Sum_probs=22.4

Q ss_pred             HHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           89 RVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        89 ~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.++.+..-- .-..++|.|.+|+|||+|+..+
T Consensus        57 raID~l~pig-kGQr~~If~~~g~GKt~l~~~i   88 (276)
T d2jdid3          57 KVVDLLAPYA-KGGKIGLFGGAGVGKTVLIMEL   88 (276)
T ss_dssp             HHHHHHSCEE-TTCEEEEEECTTSSHHHHHHHH
T ss_pred             eeeeeecccc-CCCEEEeeCCCCCCHHHHHHHH
Confidence            3444454311 2245999999999999998877

>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=95.17  E-value=0.0056  Score=46.16  Aligned_cols=24  Identities=33%  Similarity=0.563  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ....|+|+|.+|+|||||++.+.+
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999988854

>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=95.15  E-value=0.0049  Score=46.10  Aligned_cols=19  Identities=37%  Similarity=0.476  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||++.+
T Consensus         7 Ki~vvG~~~vGKTsLi~~l   25 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRY   25 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999877

>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=95.13  E-value=0.0049  Score=46.06  Aligned_cols=19  Identities=37%  Similarity=0.863  Sum_probs=16.9

Q ss_pred             EEEEcCCCChHHHHHHHhh
Q 048597          104 IGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~  122 (294)
                      |.|+|.+|+|||||++.+.
T Consensus         5 i~viG~~~vGKTsLi~r~~   23 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFV   23 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6799999999999998873

>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=95.11  E-value=0.013  Score=47.21  Aligned_cols=40  Identities=23%  Similarity=0.297  Sum_probs=30.6

Q ss_pred             hHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           84 ELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        84 ~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      +..+.++...+.......-.|.|+|..|+|||||.+.+++
T Consensus        15 ~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg   54 (257)
T d1h65a_          15 QTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIG   54 (257)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhC
Confidence            3455666666666555566788999999999999999854

>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=95.08  E-value=0.0051  Score=45.61  Aligned_cols=18  Identities=33%  Similarity=0.553  Sum_probs=16.8

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.|+|.+|+|||||++.+
T Consensus         3 v~vvG~~~vGKTsLi~r~   20 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRF   20 (164)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            789999999999999987

>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=95.05  E-value=0.0054  Score=46.01  Aligned_cols=20  Identities=35%  Similarity=0.622  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.|+|.+|+|||||++.+.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~   23 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYV   23 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHH
Confidence            47899999999999998873

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.05  E-value=0.0058  Score=47.26  Aligned_cols=20  Identities=25%  Similarity=0.248  Sum_probs=18.2

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +-|.|+|++|+|||||.+.+
T Consensus         1 k~V~ivG~~~~GKTsLl~~l   20 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRL   20 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            35899999999999999888

>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=95.05  E-value=0.0053  Score=45.97  Aligned_cols=19  Identities=47%  Similarity=0.669  Sum_probs=17.4

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         7 Ki~lvG~~~vGKTsLi~~l   25 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRF   25 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999887

>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=95.05  E-value=0.005  Score=46.47  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      .|+|+|.+|+|||||.+.+.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999854

>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=95.04  E-value=0.0054  Score=46.57  Aligned_cols=19  Identities=42%  Similarity=0.536  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l   25 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRY   25 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999887

>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=95.03  E-value=0.0055  Score=45.63  Aligned_cols=19  Identities=42%  Similarity=0.642  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||++.+
T Consensus         5 Ki~lvG~~~vGKTsLi~r~   23 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQF   23 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999887

>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=95.02  E-value=0.0056  Score=45.77  Aligned_cols=19  Identities=32%  Similarity=0.475  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||++.+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l   26 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRF   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999887

>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=95.02  E-value=0.004  Score=47.09  Aligned_cols=19  Identities=37%  Similarity=0.620  Sum_probs=17.8

Q ss_pred             EEEEcCCCChHHHHHHHhh
Q 048597          104 IGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~  122 (294)
                      |+|+|.+|+|||||++.+.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            8999999999999999884

>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=95.00  E-value=0.006  Score=45.89  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhCh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      +...|+|+|.+++|||||.+.+...
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            5678999999999999999999553

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.99  E-value=0.0057  Score=45.55  Aligned_cols=19  Identities=32%  Similarity=0.557  Sum_probs=17.0

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         6 Ki~lvG~~~vGKTsli~rl   24 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRF   24 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            3678999999999999887

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.98  E-value=0.0058  Score=45.95  Aligned_cols=19  Identities=42%  Similarity=0.635  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|..|+|||||++.+
T Consensus         6 Ki~vvG~~~vGKTsLi~~~   24 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRF   24 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4889999999999999887

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.98  E-value=0.0058  Score=45.65  Aligned_cols=20  Identities=35%  Similarity=0.526  Sum_probs=17.9

Q ss_pred             EEEEcCCCChHHHHHHHhhC
Q 048597          104 IGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~~  123 (294)
                      |.++|.+|+|||||++.+.+
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            78999999999999998844

>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=94.98  E-value=0.0059  Score=45.35  Aligned_cols=19  Identities=32%  Similarity=0.295  Sum_probs=16.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|++|+|||||+..+
T Consensus         4 ki~i~G~~~~GKTsLl~~l   22 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVI   22 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3668899999999999887

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.98  E-value=0.0058  Score=45.55  Aligned_cols=19  Identities=42%  Similarity=0.587  Sum_probs=17.1

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         5 KivlvG~~~vGKTsLi~r~   23 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRY   23 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999876

>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=94.98  E-value=0.0062  Score=47.00  Aligned_cols=19  Identities=37%  Similarity=0.688  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      +|+|-|+-|+||||+++.+
T Consensus         2 lI~ieG~dGsGKST~~~~L   20 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKL   20 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999876

>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=94.97  E-value=0.066  Score=41.86  Aligned_cols=148  Identities=18%  Similarity=0.184  Sum_probs=76.0

Q ss_pred             eEEEEEcCCCChHHHHHHHhhChhHHHHHHHHHhCCCCC-------------------C--c-ccCChHHHHHHHHHHh-
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANLKKIQADIGKKIGLSTK-------------------S--W-QENSFEDKALDIAGIL-  158 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~~~i~~~i~~~~~~~~~-------------------~--~-~~~~~~~~~~~l~~~l-  158 (294)
                      .++.|.||...||||+.+.+.-     ..++.+.+....                   +  . ..+....-...+...+ 
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l-----~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~  110 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTAL-----IALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILK  110 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH-----HHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHH-----HHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhc
Confidence            4789999999999999998821     122333332100                   0  0 0111222233344444 


Q ss_pred             -ccCCeEEEEccccCccc--------hhhhcCCcCCCCCCcEEEEecCChHHhhccCCce--eecCCCCHHHHHHHHHHH
Q 048597          159 -SRKRFVLLLDDIWEHIN--------LNKLGVPLQYLHLGSKIVFTTNSRVVCGQMEATM--LNASPLRDEEAWRLFEEA  227 (294)
Q Consensus       159 -~~kr~LlvlDdv~~~~~--------~~~l~~~l~~~~~gs~iivTtr~~~v~~~~~~~~--~~l~~L~~~~~~~Lf~~~  227 (294)
                       .+++.|+++|++....+        |. +...|.  ..++..++||...++........  +++....+++... |..+
T Consensus       111 ~~~~~sLvliDE~~~gT~~~eg~ala~a-ile~L~--~~~~~~i~tTH~~eL~~l~~~~~~~~~~~~~~~~~~~~-f~Yk  186 (224)
T d1ewqa2         111 EATENSLVLLDEVGRGTSSLDGVAIATA-VAEALH--ERRAYTLFATHYFELTALGLPRLKNLHVAAREEAGGLV-FYHQ  186 (224)
T ss_dssp             HCCTTEEEEEESTTTTSCHHHHHHHHHH-HHHHHH--HHTCEEEEECCCHHHHTCCCTTEEEEEEEEECCSSSCE-EEEE
T ss_pred             cCCCCcEEeecccccCcchhhhcchHHH-HHHHHh--hcCcceEEeeechhhhhhhhcccceEEEEEEEeCCCeE-EEEE
Confidence             36789999999976211        11 112221  23678999999888765432222  4443222221111 1001


Q ss_pred             hCCCCCCCCCCHHHHHHHHHHhCCCChHHHHHHHHHH
Q 048597          228 VGRYVLDSHPDIPELAKTMAEECCCLPLALKTVGRAM  264 (294)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~I~~~c~GlPlai~~i~~~L  264 (294)
                      +. ... +.   ...|-++++++ |+|-.+..-|..+
T Consensus       187 l~-~G~-~~---~s~ai~iA~~~-Glp~~II~rA~~i  217 (224)
T d1ewqa2         187 VL-PGP-AS---KSYGVEVAAMA-GLPKEVVARARAL  217 (224)
T ss_dssp             EE-ESC-CS---SCCHHHHHHHT-TCCHHHHHHHHHH
T ss_pred             Ee-eCC-CC---ccHHHHHHHHh-CcCHHHHHHHHHH
Confidence            10 010 11   23467788876 5888887766544

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.92  E-value=0.006  Score=45.36  Aligned_cols=20  Identities=45%  Similarity=0.556  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.++|.+|+|||||++.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~   23 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFV   23 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHH
Confidence            47899999999999999873

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.89  E-value=0.0061  Score=45.68  Aligned_cols=19  Identities=37%  Similarity=0.504  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~   25 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQF   25 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4889999999999999887

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.89  E-value=0.0062  Score=45.30  Aligned_cols=19  Identities=42%  Similarity=0.613  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||++.+
T Consensus         5 Ki~viG~~~vGKTsli~~l   23 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQL   23 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3789999999999999887

>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=94.88  E-value=0.0081  Score=46.14  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|++|+|||||+.++
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~l   43 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTL   43 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHH
Confidence            3479999999999999999877

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.88  E-value=0.0062  Score=45.57  Aligned_cols=19  Identities=42%  Similarity=0.560  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~   25 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQF   25 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999887

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=94.88  E-value=0.0063  Score=44.82  Aligned_cols=20  Identities=30%  Similarity=0.421  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|+++|.+|+|||||.+.+.
T Consensus         3 kI~lvG~~nvGKSsLin~l~   22 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALA   22 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47799999999999998883

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.87  E-value=0.0062  Score=45.70  Aligned_cols=21  Identities=38%  Similarity=0.487  Sum_probs=18.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .--|.|+|.+|+|||||++.+
T Consensus         6 ~~Kv~lvG~~~vGKTsLi~r~   26 (173)
T d2fn4a1           6 THKLVVVGGGGVGKSALTIQF   26 (173)
T ss_dssp             EEEEEEEECTTSSHHHHHHHH
T ss_pred             eEEEEEECCCCcCHHHHHHHH
Confidence            345789999999999999887

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.86  E-value=0.0065  Score=45.34  Aligned_cols=18  Identities=33%  Similarity=0.785  Sum_probs=16.7

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.++|.+|+|||+|++.+
T Consensus         5 i~lvG~~~vGKTsli~r~   22 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRF   22 (168)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            679999999999999987

>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=94.83  E-value=0.01  Score=51.67  Aligned_cols=44  Identities=25%  Similarity=0.249  Sum_probs=32.4

Q ss_pred             CceeehhHHHHHHHHHHhcC------------CCCceEEEEEcCCCChHHHHHHHh
Q 048597           78 RTVIRQELLLDRVWRFVTDQ------------ERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        78 ~~~vGr~~~~~~l~~~L~~~------------~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+||.++.+..+.-.+-++            +-..+-|.++||.|+|||.||+.+
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~L   69 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRL   69 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHH
Confidence            45788887777666655321            113557999999999999999988

>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=94.83  E-value=0.0066  Score=46.38  Aligned_cols=19  Identities=53%  Similarity=0.658  Sum_probs=17.2

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||++.+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4779999999999999887

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.81  E-value=0.0079  Score=44.70  Aligned_cols=21  Identities=33%  Similarity=0.389  Sum_probs=18.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..-|.|+|..|+|||||++.+
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~   24 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQF   24 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHH
Confidence            356889999999999999886

>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=94.79  E-value=0.0069  Score=45.92  Aligned_cols=19  Identities=42%  Similarity=0.613  Sum_probs=16.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||+|++++
T Consensus         4 KivllG~~~vGKTsl~~r~   22 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQM   22 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999875

>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=94.76  E-value=0.0063  Score=47.95  Aligned_cols=22  Identities=41%  Similarity=0.431  Sum_probs=19.8

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++..|.|+-|+|||||.+.+
T Consensus         2 ~iPv~iitGFLGaGKTTll~~l   23 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHI   23 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHH
T ss_pred             CCCEEEEeeCCCCCHHHHHHHH
Confidence            5789999999999999998766

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.75  E-value=0.0084  Score=46.69  Aligned_cols=20  Identities=30%  Similarity=0.388  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|-|+.|+||||+++.+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L   23 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKL   23 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            68999999999999998887

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.74  E-value=0.0074  Score=45.03  Aligned_cols=19  Identities=26%  Similarity=0.455  Sum_probs=17.0

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|..|+|||||++.+
T Consensus         5 Ki~vvG~~~vGKTsLi~~~   23 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRF   23 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4678999999999999887

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.73  E-value=0.0074  Score=44.90  Aligned_cols=19  Identities=42%  Similarity=0.637  Sum_probs=17.2

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||+|++.+
T Consensus         5 KivvvG~~~vGKTsli~r~   23 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQF   23 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3789999999999999987

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.73  E-value=0.007  Score=46.37  Aligned_cols=19  Identities=42%  Similarity=0.564  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         8 KivvvG~~~vGKTsli~~l   26 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRF   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4789999999999999887

>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=94.67  E-value=0.01  Score=46.61  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-+++.|.|++|+|||||+.++
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~   54 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTL   54 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHH
Confidence            4579999999999999999876

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.66  E-value=0.0076  Score=45.31  Aligned_cols=19  Identities=37%  Similarity=0.515  Sum_probs=16.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||+..+
T Consensus         4 KivvvG~~~vGKTsLi~~~   22 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVN   22 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4678999999999999876

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.62  E-value=0.0082  Score=44.79  Aligned_cols=19  Identities=47%  Similarity=0.593  Sum_probs=17.3

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus         8 Ki~vvG~~~vGKTsli~~~   26 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRF   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4899999999999999876

>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=94.61  E-value=0.044  Score=43.89  Aligned_cols=20  Identities=35%  Similarity=0.444  Sum_probs=17.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+..|+|++|+|||||+.++
T Consensus        30 ~~~~i~G~~G~GKS~l~l~l   49 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQL   49 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHH
Confidence            57889999999999999776

>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=94.61  E-value=0.011  Score=46.67  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.9

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-+++.|.|++|+||||++.++
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~   56 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTL   56 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHH
Confidence            4579999999999999999877

>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=94.61  E-value=0.0082  Score=44.98  Aligned_cols=20  Identities=45%  Similarity=0.516  Sum_probs=17.6

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.++|.+|+|||||++.+.
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~   24 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFA   24 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHH
Confidence            47899999999999998873

>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=94.57  E-value=0.0085  Score=45.34  Aligned_cols=20  Identities=40%  Similarity=0.383  Sum_probs=17.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      --|.|+|.+|+|||||++.+
T Consensus         6 iKivviG~~~vGKTsli~~~   25 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISY   25 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            35889999999999999887

>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=94.56  E-value=0.0073  Score=45.21  Aligned_cols=21  Identities=43%  Similarity=0.688  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -|.++|.+|+|||||++.+.+
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC-
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            377899999999999988743

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.54  E-value=0.0086  Score=45.32  Aligned_cols=20  Identities=40%  Similarity=0.645  Sum_probs=17.5

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|.++|.+|+|||||++.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~   23 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYV   23 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHH
Confidence            37899999999999998773

>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=94.54  E-value=0.0087  Score=45.00  Aligned_cols=18  Identities=44%  Similarity=0.660  Sum_probs=17.0

Q ss_pred             EEEEcCCCChHHHHHHHh
Q 048597          104 IGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v  121 (294)
                      |.++|.+|+|||||++.+
T Consensus        10 i~vvG~~~vGKTsli~~l   27 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRF   27 (177)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            889999999999999887

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.52  E-value=0.0096  Score=47.11  Aligned_cols=20  Identities=30%  Similarity=0.192  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+|+|+|..|+||||+|+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l   21 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFI   21 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999987

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.51  E-value=0.015  Score=43.40  Aligned_cols=21  Identities=33%  Similarity=0.333  Sum_probs=18.0

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|.++|.+|+|||||++.+.
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~   33 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLK   33 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            346699999999999999983

>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=94.47  E-value=0.03  Score=41.33  Aligned_cols=22  Identities=36%  Similarity=0.400  Sum_probs=19.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ...+|.+.|.=|+||||+++.+
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~   53 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGM   53 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCeEEEEecCCCccHHHHHHHH
Confidence            4569999999999999999866

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.46  E-value=0.0093  Score=44.65  Aligned_cols=19  Identities=42%  Similarity=0.768  Sum_probs=17.4

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||||++.+
T Consensus         8 KI~vvG~~~vGKSSli~~~   26 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRY   26 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999877

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.019  Score=46.63  Aligned_cols=33  Identities=15%  Similarity=0.278  Sum_probs=26.7

Q ss_pred             HHHHhcCCCCceEEEEEcCCCChHHHHHHHhhC
Q 048597           91 WRFVTDQERNRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus        91 ~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ++.|..-+..+.||+|+|+-+.|||||+..+++
T Consensus        22 l~~l~~~~~~v~vvsi~G~~~sGKS~llN~l~~   54 (277)
T d1f5na2          22 LKILSAITQPMVVVAIVGLYRTGKSYLMNKLAG   54 (277)
T ss_dssp             HHHHHTCCSBEEEEEEEEBTTSSHHHHHHHHTT
T ss_pred             HHHHHcCCCCEEEEEEECCCCCCHHHHHHHHcC
Confidence            344555455799999999999999999999865

>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=94.38  E-value=0.0099  Score=44.89  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|+|+|..|+|||||+..+.
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~   29 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAIL   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            458999999999999998884

>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=94.34  E-value=0.018  Score=45.36  Aligned_cols=22  Identities=27%  Similarity=0.291  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-+++.|.|++|+|||+++.++
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~   57 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTL   57 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4579999999999999999887

>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=94.29  E-value=0.011  Score=44.09  Aligned_cols=21  Identities=38%  Similarity=0.498  Sum_probs=18.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..-|.|+|.+|+|||||++.+
T Consensus         4 ~~KivlvG~~~vGKTsli~~~   24 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQF   24 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHH
Confidence            345889999999999999987

>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=94.28  E-value=0.01  Score=45.00  Aligned_cols=19  Identities=42%  Similarity=0.494  Sum_probs=17.4

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.|+|.+|+|||||++.+
T Consensus        11 Ki~lvG~~~vGKTsLi~r~   29 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSY   29 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999887

>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=94.24  E-value=0.011  Score=45.01  Aligned_cols=19  Identities=47%  Similarity=0.649  Sum_probs=17.1

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||+|++.+
T Consensus         4 Kiv~lG~~~vGKTsll~r~   22 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQM   22 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999877

>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=94.21  E-value=0.011  Score=45.67  Aligned_cols=20  Identities=35%  Similarity=0.317  Sum_probs=18.2

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.|+|-|+.|+||||+++.+
T Consensus         3 kfIviEG~dGsGKsT~~~~L   22 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVV   22 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            57899999999999999876

>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=94.13  E-value=0.015  Score=45.55  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|++|+|||+++.++
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~   54 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQS   54 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHH
Confidence            3479999999999999999888

>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=94.12  E-value=0.012  Score=44.44  Aligned_cols=19  Identities=37%  Similarity=0.389  Sum_probs=16.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|..|+|||+|++.+
T Consensus         4 KivliG~~~vGKTsli~r~   22 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVF   22 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            3679999999999999877

>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=94.09  E-value=0.012  Score=46.10  Aligned_cols=20  Identities=40%  Similarity=0.554  Sum_probs=18.0

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-|.++|.+|+|||||++.+
T Consensus         7 ~KilllG~~~vGKTsll~~~   26 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQM   26 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            46789999999999999887

>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=94.02  E-value=0.013  Score=43.67  Aligned_cols=19  Identities=42%  Similarity=0.585  Sum_probs=16.9

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|..|+|||||++.+
T Consensus         6 Ki~lvG~~~vGKTsll~~~   24 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQF   24 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            4678999999999999887

>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=94.02  E-value=0.012  Score=44.71  Aligned_cols=19  Identities=42%  Similarity=0.482  Sum_probs=16.8

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|.++|.+|+|||+|+..+
T Consensus         5 KvvllG~~~vGKTSli~r~   23 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISY   23 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            3779999999999998876

>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=94.02  E-value=0.014  Score=45.56  Aligned_cols=20  Identities=40%  Similarity=0.587  Sum_probs=17.8

Q ss_pred             eEEEEE-cCCCChHHHHHHHh
Q 048597          102 GIIGLY-GTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~-G~~GiGKTtLa~~v  121 (294)
                      ++|+|+ |-||+||||++..+
T Consensus         2 kvIav~s~KGGvGKTtia~nl   22 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANL   22 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHH
T ss_pred             EEEEEECCCCCChHHHHHHHH
Confidence            688888 68999999999887

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.93  E-value=0.014  Score=43.90  Aligned_cols=20  Identities=25%  Similarity=0.468  Sum_probs=17.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      --|.++|.+|+|||||+..+
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~   25 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRF   25 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            35889999999999999877

>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=93.92  E-value=0.016  Score=45.11  Aligned_cols=22  Identities=27%  Similarity=0.206  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-..|+|-|+-|+||||+++.+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L   23 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNIL   23 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHH
T ss_pred             CeEEEEEECCCCCcHHHHHHHH
Confidence            3478999999999999999887

>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=93.76  E-value=0.035  Score=45.14  Aligned_cols=21  Identities=19%  Similarity=0.148  Sum_probs=17.7

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -..++|.|.+|+|||+|+..+
T Consensus        68 GQr~~If~~~g~GKt~ll~~~   88 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDT   88 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHH
T ss_pred             CCEEEeecCCCCChHHHHHHH
Confidence            357889999999999997655

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.67  E-value=0.01  Score=44.38  Aligned_cols=21  Identities=38%  Similarity=0.496  Sum_probs=8.8

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -|.|+|.+|+|||||+..+.+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999987743

>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=93.39  E-value=0.022  Score=44.53  Aligned_cols=20  Identities=45%  Similarity=0.707  Sum_probs=17.8

Q ss_pred             eEEEEE-cCCCChHHHHHHHh
Q 048597          102 GIIGLY-GTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~-G~~GiGKTtLa~~v  121 (294)
                      ++|+|+ +-||+||||++..+
T Consensus         3 ~vIav~~~kGGvGKTtia~nL   23 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANL   23 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHH
Confidence            689999 57999999999887

>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=93.39  E-value=0.02  Score=43.16  Aligned_cols=20  Identities=25%  Similarity=0.232  Sum_probs=17.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-|.|.|++|+||||||..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l   34 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALEL   34 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHH
Confidence            67899999999999998765

>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=93.34  E-value=0.067  Score=43.22  Aligned_cols=20  Identities=20%  Similarity=0.177  Sum_probs=17.4

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++|.|.+|+|||+|+..+
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~   87 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDT   87 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHH
T ss_pred             ceEeeccCCCCChHHHHHHH
Confidence            45889999999999999764

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.16  E-value=0.0062  Score=44.82  Aligned_cols=20  Identities=35%  Similarity=0.469  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|+++|.+|+|||||++.+.
T Consensus         2 kI~liG~~n~GKSSLin~l~   21 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLL   21 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            37899999999999998874

>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=93.10  E-value=0.022  Score=42.88  Aligned_cols=20  Identities=25%  Similarity=0.245  Sum_probs=17.8

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-|.|.|++|+||||||..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l   35 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDL   35 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHH
Confidence            56889999999999999775

>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=92.99  E-value=0.012  Score=46.50  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=18.4

Q ss_pred             eEEEEEcCCCChHHHHHHHhhCh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~~~  124 (294)
                      +...++|.+|+|||||.+.+...
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             ceEEEECCCCccHHHHHHhhccH
Confidence            45568899999999999887543

>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=92.94  E-value=0.025  Score=43.93  Aligned_cols=22  Identities=32%  Similarity=0.194  Sum_probs=19.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.++.|.|++|+|||+|+.++
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~   46 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQF   46 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHH
Confidence            4579999999999999999775

>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=92.91  E-value=0.043  Score=45.56  Aligned_cols=20  Identities=35%  Similarity=0.411  Sum_probs=17.7

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-|.|.|+.|+||||+++.+
T Consensus       167 ~nili~G~tgSGKTT~l~al  186 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSI  186 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHH
T ss_pred             CCEEEEeeccccchHHHHHH
Confidence            45889999999999998877

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=92.85  E-value=0.055  Score=43.55  Aligned_cols=34  Identities=24%  Similarity=0.332  Sum_probs=26.2

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..+..+|.........+.++|+|+.|||+++..+
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i  124 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAI  124 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHH
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHH
Confidence            3445556555457789999999999999998766

>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=92.69  E-value=0.029  Score=41.98  Aligned_cols=20  Identities=20%  Similarity=0.245  Sum_probs=17.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-|.|.|++|+||||||-.+
T Consensus        16 ~gvli~G~sg~GKS~la~~l   35 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALEL   35 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHH
Confidence            67899999999999998654

>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=92.58  E-value=0.05  Score=45.80  Aligned_cols=21  Identities=38%  Similarity=0.449  Sum_probs=17.6

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .++..|.|++|+||||++..+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHH
Confidence            379999999999999987543

>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=92.25  E-value=0.037  Score=43.32  Aligned_cols=22  Identities=36%  Similarity=0.457  Sum_probs=19.3

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .++|+|+|-.++|||||+..+.
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~   26 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIR   26 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHH
Confidence            3679999999999999998773

>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=92.25  E-value=0.034  Score=41.74  Aligned_cols=21  Identities=38%  Similarity=0.510  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHhhC
Q 048597          103 IIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      -|+|+|..++|||||++.+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            599999999999999998843

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=92.15  E-value=0.012  Score=44.54  Aligned_cols=20  Identities=30%  Similarity=0.388  Sum_probs=17.6

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+..|+|+.|+||||+...+
T Consensus        25 ~~tvi~G~NGsGKStil~Ai   44 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAF   44 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            46778999999999998877

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.11  E-value=0.043  Score=46.96  Aligned_cols=22  Identities=18%  Similarity=0.318  Sum_probs=19.5

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .--|+|+|.+|+|||||.+.+.
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~   77 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLR   77 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHh
Confidence            4569999999999999999884

>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=92.04  E-value=0.041  Score=42.23  Aligned_cols=20  Identities=30%  Similarity=0.104  Sum_probs=17.5

Q ss_pred             eEEEEEcCC-CChHHHHHHHh
Q 048597          102 GIIGLYGTG-GVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~-GiGKTtLa~~v  121 (294)
                      +.+.|.|-+ |+||||++-.+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~L   22 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCAL   22 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHH
Confidence            568899998 99999998776

>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=91.80  E-value=0.068  Score=40.89  Aligned_cols=35  Identities=14%  Similarity=0.246  Sum_probs=26.7

Q ss_pred             HHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           86 LLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        86 ~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -+..+..+|... .....+.++||++.|||+++..+
T Consensus        39 Fl~~l~~~l~~~-PKkn~i~~~GP~~TGKS~f~~sl   73 (205)
T d1tuea_          39 FLGALKSFLKGT-PKKNCLVFCGPANTGKSYFGMSF   73 (205)
T ss_dssp             HHHHHHHHHHTC-TTCSEEEEESCGGGCHHHHHHHH
T ss_pred             HHHHHHHHHcCC-CCceEEEEECCCCccHHHHHHHH
Confidence            455566666443 46689999999999999998665

>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=91.50  E-value=0.046  Score=44.24  Aligned_cols=22  Identities=27%  Similarity=0.212  Sum_probs=20.4

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.+-|+|+|..|.|||||+-.+
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~l   26 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERI   26 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHH
Confidence            5788999999999999999888

>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=91.38  E-value=0.054  Score=43.62  Aligned_cols=21  Identities=38%  Similarity=0.496  Sum_probs=19.2

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+-|+|+|..|.|||||+..+
T Consensus         2 iRNv~iiGh~~~GKTtL~e~l   22 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEAL   22 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHH
Confidence            477999999999999999887

>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=91.37  E-value=0.096  Score=44.70  Aligned_cols=94  Identities=17%  Similarity=0.122  Sum_probs=51.9

Q ss_pred             eehhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHhhChh-HHHHHHHHHhC-----CCCC-C--cccCChHHHH
Q 048597           81 IRQELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQRANLK-KIQADIGKKIG-----LSTK-S--WQENSFEDKA  151 (294)
Q Consensus        81 vGr~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-~i~~~i~~~~~-----~~~~-~--~~~~~~~~~~  151 (294)
                      .|.....-+.+..+...  ....|.|.|+.|+||||.+..+.+.. +-..+|...=.     +... .  ..........
T Consensus       140 LG~~~~~~~~l~~l~~~--~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~~v~~~~~~~~~  217 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKR--PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDMTFA  217 (401)
T ss_dssp             SCCCHHHHHHHHHHHTS--SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEECBGGGTBCHH
T ss_pred             hcccHHHHHHHHHHHhh--hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCeeeecCCcCCCHH
Confidence            45544433333344433  46899999999999999987763211 00001000000     0000 0  0111222356


Q ss_pred             HHHHHHhccCCeEEEEccccCccch
Q 048597          152 LDIAGILSRKRFVLLLDDIWEHINL  176 (294)
Q Consensus       152 ~~l~~~l~~kr~LlvlDdv~~~~~~  176 (294)
                      ..++..|+...=+|++.++.+.+.-
T Consensus       218 ~~l~~~lR~dPDvi~igEiRd~~ta  242 (401)
T d1p9ra_         218 RGLRAILRQDPDVVMVGEIRDLETA  242 (401)
T ss_dssp             HHHHHHGGGCCSEEEESCCCSHHHH
T ss_pred             HHHHHHHhhcCCEEEecCcCChHHH
Confidence            6788888888889999999875443

>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=90.25  E-value=0.11  Score=41.42  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=18.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      -.++.|.|++|+||||++.++
T Consensus        35 G~l~vi~G~~G~GKT~~~~~l   55 (277)
T d1cr2a_          35 GEVIMVTSGSGMGKSTFVRQQ   55 (277)
T ss_dssp             TCEEEEECSTTSSHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHH
Confidence            368899999999999998887

>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=90.23  E-value=0.069  Score=43.11  Aligned_cols=21  Identities=33%  Similarity=0.417  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      --|+|+|.+.+|||||.+.+.
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt   23 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALT   23 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHH
Confidence            368999999999999998874

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=89.98  E-value=0.086  Score=43.79  Aligned_cols=23  Identities=35%  Similarity=0.232  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCChHHHHHHHhh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .+..|.|-|+-|+||||+++.+.
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~   27 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMA   27 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCccCCHHHHHHHHH
Confidence            35689999999999999999884

>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=89.94  E-value=0.06  Score=43.60  Aligned_cols=17  Identities=29%  Similarity=0.442  Sum_probs=13.7

Q ss_pred             eEEEEEcCCCChHHHHH
Q 048597          102 GIIGLYGTGGVGKTTLL  118 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa  118 (294)
                      ..+.|.|++|+||||.+
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            34678999999999754

>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=89.70  E-value=0.057  Score=43.88  Aligned_cols=20  Identities=20%  Similarity=0.529  Sum_probs=18.1

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ++-.|+|+.|+||||+..++
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            57899999999999998877

>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=89.67  E-value=0.067  Score=43.69  Aligned_cols=16  Identities=31%  Similarity=0.455  Sum_probs=13.5

Q ss_pred             EEEEEcCCCChHHHHH
Q 048597          103 IIGLYGTGGVGKTTLL  118 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa  118 (294)
                      .+.|.|++|+||||.+
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            4678899999999765

>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=89.46  E-value=0.085  Score=43.71  Aligned_cols=22  Identities=27%  Similarity=0.208  Sum_probs=19.4

Q ss_pred             ceEEEEEcCCCChHHHHHHHhh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      ...|.|-|+-|+||||+++.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La   25 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLV   25 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHT
T ss_pred             ceEEEEECCcCCCHHHHHHHHH
Confidence            4569999999999999999984

>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=89.43  E-value=0.082  Score=43.09  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCChHHHHHHHhh
Q 048597          102 GIIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v~  122 (294)
                      .-|+|+|.+.+|||||.+.+.
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT   31 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAIT   31 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            569999999999999988884

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.90  E-value=0.13  Score=42.71  Aligned_cols=33  Identities=18%  Similarity=0.204  Sum_probs=25.4

Q ss_pred             HHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           88 DRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        88 ~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      +.+.+++.. ..+.|-|+|+|-.|.|||||+-.+
T Consensus         5 ~~~~~lm~~-~~~IRNI~iiGhvd~GKTTL~d~L   37 (341)
T d1n0ua2           5 DQMRSLMDK-VTNVRNMSVIAHVDHGKSTLTDSL   37 (341)
T ss_dssp             HHHHHHHHC-GGGEEEEEEECCGGGTHHHHHHHH
T ss_pred             HHHHHHhcC-cccCcEEEEEeCCCCcHHHHHHHH
Confidence            344444443 347888999999999999999877

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=88.64  E-value=0.1  Score=42.86  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHhhCh
Q 048597          104 IGLYGTGGVGKTTLLKQRANL  124 (294)
Q Consensus       104 i~I~G~~GiGKTtLa~~v~~~  124 (294)
                      |+|+|.+.+|||||.+.+.+.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            899999999999999998554

>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=87.79  E-value=0.092  Score=43.58  Aligned_cols=21  Identities=38%  Similarity=0.278  Sum_probs=18.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .-.|.|-|.-|+||||+++.+
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L   25 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEF   25 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            346899999999999999988

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.76  E-value=0.14  Score=43.20  Aligned_cols=20  Identities=20%  Similarity=0.522  Sum_probs=17.9

Q ss_pred             eEEEEEcCCCChHHHHHHHh
Q 048597          102 GIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       102 ~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+-.|+|+.|+|||++..++
T Consensus        26 ~l~~i~G~NGsGKS~ileAi   45 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAI   45 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            57789999999999998887

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=87.71  E-value=0.14  Score=39.19  Aligned_cols=19  Identities=37%  Similarity=0.364  Sum_probs=17.4

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|+|+|-.+.|||||+.++
T Consensus         5 ni~iiGhvd~GKSTL~~~L   23 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAAL   23 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHH
Confidence            4899999999999999887

>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=86.80  E-value=0.16  Score=40.79  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=20.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHhhC
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQRAN  123 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v~~  123 (294)
                      ..-.|+|+|++.+|||||++.+..
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CceEEEEEecCccchhhhhhhhhc
Confidence            445699999999999999988754

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=85.00  E-value=5  Score=29.80  Aligned_cols=17  Identities=24%  Similarity=0.204  Sum_probs=13.9

Q ss_pred             EEEcCCCChHHHHHHHh
Q 048597          105 GLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       105 ~I~G~~GiGKTtLa~~v  121 (294)
                      .|+++.|.|||.++-.+
T Consensus        89 ll~~~tG~GKT~~a~~~  105 (206)
T d2fz4a1          89 CIVLPTGSGKTHVAMAA  105 (206)
T ss_dssp             EEEESSSTTHHHHHHHH
T ss_pred             EEEeCCCCCceehHHhH
Confidence            46789999999887665

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=83.36  E-value=1.6  Score=33.80  Aligned_cols=37  Identities=19%  Similarity=0.092  Sum_probs=29.8

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .....+++.+.+..+  ......|.|..|+|||-++-..
T Consensus        60 Q~~~~~~i~~~~~~~--~~~~~LL~GdvGsGKT~V~~~a   96 (233)
T d2eyqa3          60 QAQAINAVLSDMCQP--LAMDRLVCGDVGFGKTEVAMRA   96 (233)
T ss_dssp             HHHHHHHHHHHHHSS--SCCEEEEECCCCTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc--CccCeEEEcCCCCCcHHHHHHH
Confidence            556677788877777  6788999999999999887554

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=81.92  E-value=2  Score=33.90  Aligned_cols=37  Identities=19%  Similarity=0.098  Sum_probs=28.9

Q ss_pred             hhHHHHHHHHHHhcCCCCceEEEEEcCCCChHHHHHHHh
Q 048597           83 QELLLDRVWRFVTDQERNRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus        83 r~~~~~~l~~~L~~~~~~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ....+++|...+..+  ....-.+.|.-|+|||-++-..
T Consensus        88 Q~~ai~ei~~d~~~~--~~m~rLL~GdvGSGKT~Va~~a  124 (264)
T d1gm5a3          88 QKRAHQEIRNDMISE--KPMNRLLQGDVGSGKTVVAQLA  124 (264)
T ss_dssp             HHHHHHHHHHHHHSS--SCCCCEEECCSSSSHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcc--CcceeeeeccccccccHHHHHH
Confidence            445677777777766  6677889999999999887665

>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=81.59  E-value=0.41  Score=33.12  Aligned_cols=21  Identities=19%  Similarity=-0.110  Sum_probs=17.9

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      --.|.+.|..|+||+|||+.+
T Consensus         6 gf~i~~tg~~~~gk~~ia~al   26 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIAL   26 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHH
T ss_pred             ceEEEEeCCCCCCHHHHHHHH
Confidence            357899999999999998654

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=81.53  E-value=0.31  Score=34.16  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=18.5

Q ss_pred             CceEEEEEcCCCChHHHHHHHh
Q 048597          100 NRGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       100 ~~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      ..++..|+++.|.|||+++-.+
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~   28 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAA   28 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHH
Confidence            4578899999999999987654

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=81.32  E-value=0.35  Score=41.04  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=17.8

Q ss_pred             ceEEEEEcCCCChHHHHHHHh
Q 048597          101 RGIIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       101 ~~vi~I~G~~GiGKTtLa~~v  121 (294)
                      .+-+.|+|..|+|||++++.+
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~l   70 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLREL   70 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHH
Confidence            456899999999999987655

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=80.69  E-value=0.44  Score=35.69  Aligned_cols=20  Identities=45%  Similarity=0.493  Sum_probs=17.6

Q ss_pred             EEEEEcCCCChHHHHHHHhh
Q 048597          103 IIGLYGTGGVGKTTLLKQRA  122 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v~  122 (294)
                      -|+|.|-...|||||+..+.
T Consensus         7 nIaiiGhvd~GKSTL~~~L~   26 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALT   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeccCCcHHHHHHHHH
Confidence            47999999999999998883

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=80.07  E-value=0.48  Score=35.79  Aligned_cols=19  Identities=37%  Similarity=0.361  Sum_probs=17.1

Q ss_pred             EEEEEcCCCChHHHHHHHh
Q 048597          103 IIGLYGTGGVGKTTLLKQR  121 (294)
Q Consensus       103 vi~I~G~~GiGKTtLa~~v  121 (294)
                      -|+|.|-.+.|||||+..+
T Consensus         5 ni~iiGHvd~GKSTL~~~l   23 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAI   23 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHH
Confidence            3889999999999999876