Citrus Sinensis ID: 047930

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-----
Protein Sequence
MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccEEEEEcccccccccccccccccccccccEEEEEEccHHHHcccccccccEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccHHHHHHHHHHccccHHHHHHHHHHHHcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHcccccEEEcccccccccccccccccccccHHHHHHHHHHHHcccccEEEEEEEcccccHHHHHHHHHcHHHHHccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccEEEEEEccccHccHHHccccccccccccEEEEEEccHHHHHHHccccccEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHcHHHHHHccc
Coil and Loop (DISEMBL)
MADIILSVIVEAAKclappiyrqmsylrkskyTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIdeaekftgvdarankrcfkglcpnlKIRRRLSKEAERQKEAIVKVREagrfdrisyniipddslllsnKDYEAFESRMSTLNDILDalknpdvnmlgiygmggigkTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEnldfqavgiphgdghkgsKVLLTARSLDVLSRkmdsqqnfsfdVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEqlrrpsstnfkdiqpTAYKAIELSY
Flexible Loop (DISEMBL)
MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKtevgnleaervskqrevdeakrrgeeIEKYVEKWLASVNGVIDEAEKftgvdarankrcfkglcpnlkirrrlskeaerqkeaivkvreagrfdrisyniipddslllSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLtlheetesgrarslcnrlkkEKRILVILDNIWENLDFQAVGiphgdghkgsKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKecaglpvsIVTVARALRNKRLFEWKDAleqlrrpsstnfkdiqptaykaielsy
Low Complexity Region (SEG)
MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY
Disordered region (IsUnstruct)
***IILSVIVEAAKCLAPPIYRQMSYLRKSKYT*********************************IEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRL********EAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH*********SLCNRLKKEKRILVILDNIW***************************************NFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALE*************************
Disordered Region (DISOPRED)
MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKE**R***************************************RMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKL*****************NRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSS*N**DIQPTAYKAIELSY
Disordered Region (DISEMBL)
MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH**********LCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY
Disordered Region (DISPRO)
MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNI**DDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MADIILSVIVEAAKCLAPPIYRQMSYLRxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIxxxxxxxxxxxxxxxxxxxxxGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	395	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.605	0.242	0.375	3e-37
O22727	967	Probable disease resistan	no	no	0.898	0.367	0.302	3e-35
O64789	925	Probable disease resistan	no	no	0.918	0.392	0.297	1e-33
Q940K0	889	Probable disease resistan	no	no	0.918	0.408	0.305	2e-33
O81825	919	Probable disease resistan	no	no	0.554	0.238	0.352	5e-32
Q8RXS5	888	Probable disease resistan	no	no	0.898	0.399	0.278	4e-31
O64973	889	Disease resistance protei	no	no	0.888	0.394	0.293	4e-31
Q8L3R3	885	Disease resistance protei	no	no	0.903	0.403	0.284	1e-30
P60838	894	Probable disease resistan	no	no	0.830	0.366	0.298	2e-30
Q9FG91	848	Probable disease resistan	no	no	0.908	0.423	0.293	9e-29

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  156 bits (394), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 93/248 (37%), Positives = 148/248 (59%), Gaps = 9/248 (3%)

Query: 153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENE---KLFDQVI 209
           ++   S M  L  I D L +     +G++GMGG+GKTTL + +  K   E   + F  VI
Sbjct: 144 HQTMASNM--LAKIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVI 201

Query: 210 FVEVSQIQDIRKIQGEFADKLGL-TLHEETESGRARSLCNRLKKEKRILVILDNIWENLD 268
           FV VS+  D R++Q + A++L + T  EE+E   AR +   L KE++ L+ILD++W+ +D
Sbjct: 202 FVIVSKEFDPREVQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILDDVWKPID 261

Query: 269 FQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIE 328
              +GIP  + +KGSKV+LT+R L+V  R M +  +   D L E++AW LF K AGD + 
Sbjct: 262 LDLLGIPRTEENKGSKVILTSRFLEV-CRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVR 320

Query: 329 GSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFE-WKDALEQLRRPSSTNFKDIQPTA 387
               + +A+ V++EC GLP++I+TV  A+R K+  + W   L +L + S    K I+   
Sbjct: 321 SDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSK-SVPWIKSIEEKI 379

Query: 388 YKAIELSY 395
           ++ ++LSY
Sbjct: 380 FQPLKLSY 387

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  149 bits (376), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 112/370 (30%), Positives = 184/370 (49%), Gaps = 15/370 (4%)

Query: 35  NLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVD-A 93
           NL+ L+ E+ +L A +   Q +V   + R ++  + V+ WL  VN +  E +    V   
Sbjct: 34  NLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPV 93

Query: 94  RANKRCFKGLCPNLKIRR-RLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKD 152
              K C  GLC        +  K      E + K++  G FD +S    P     +  + 
Sbjct: 94  ELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQ---PPPRSEVEERP 150

Query: 153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK-AENEKLFDQVIFV 211
            +    +   L    + L    V ++G++GMGG+GKTTL K++  K AE    FD VI++
Sbjct: 151 TQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWI 210

Query: 212 EVSQIQDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLKKEKRILVILDNIWENLD 268
            VSQ   + K+Q + A+KL L       + ES +A  + +R+ K KR +++LD+IWE +D
Sbjct: 211 VVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVD 269

Query: 269 FQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIE 328
            +A+GIP+       KV  T R   V   +M   +      L+ ++AW LFK   GD   
Sbjct: 270 LEAIGIPYPSEVNKCKVAFTTRDQKVCG-QMGDHKPMQVKCLEPEDAWELFKNKVGDNTL 328

Query: 329 GSE--FKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQLRRPSSTNFKDIQP 385
            S+     +AREVA++C GLP+++  +   + +K +  EW+ A++ L R S+  F D+Q 
Sbjct: 329 RSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTR-SAAEFSDMQN 387

Query: 386 TAYKAIELSY 395
                ++ SY
Sbjct: 388 KILPILKYSY 397

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 =  144 bits (363), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 113/380 (29%), Positives = 191/380 (50%), Gaps = 17/380 (4%)

Query: 25  SYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDE 84
           SY+R  +   NL+ L+ E+ +L A +   Q +V   + R ++  + V+ WL  VN +  E
Sbjct: 27  SYIRTLE--KNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIE 84

Query: 85  AEKFTGVD-ARANKRCFKGLCPNLKIRR-RLSKEAERQKEAIVKVREAGRFDRISYNIIP 142
            +    V      K C  GLC        +  K+     E +  ++  G FD +S    P
Sbjct: 85  CKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDEVSQ---P 141

Query: 143 DDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK-AEN 201
                +  +  +    +   L    + L    V ++G++GMGG+GKTTL K++  K AE 
Sbjct: 142 PPRSEVEERPTQPTIGQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEI 201

Query: 202 EKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLKKEKRILV 258
              FD VI++ VSQ   + K+Q + A+KL L       + ES +A  + +R+ K KR ++
Sbjct: 202 GGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRFVL 260

Query: 259 ILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSL 318
           +LD+IWE +D +A+GIP+       KV  T RS +V   +M   +    + L+ ++AW L
Sbjct: 261 MLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCG-EMGDHKPMQVNCLEPEDAWEL 319

Query: 319 FKKMAGDYIEGSE--FKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQLRRP 375
           FK   GD    S+     +AREVA++C GLP+++  +   + +K +  EW+ A++ L R 
Sbjct: 320 FKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTR- 378

Query: 376 SSTNFKDIQPTAYKAIELSY 395
           S+  F  ++      ++ SY
Sbjct: 379 SAAEFSGMENKILPILKYSY 398

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 =  144 bits (362), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 116/380 (30%), Positives = 189/380 (49%), Gaps = 17/380 (4%)

Query: 25  SYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDE 84
           SY+R  +   NL+ L+ E+ +L A +   Q +V   + R +   + V+ WL  VN V  E
Sbjct: 25  SYIRTLE--KNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIE 82

Query: 85  AEKFTGV-DARANKRCFKGLCPNLKIRR-RLSKEAERQKEAIVKVREAGRFDRISYNIIP 142
            +    V      K C  GLC        +  K+     E + K+   G FD +S    P
Sbjct: 83  CKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQ---P 139

Query: 143 DDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK-AEN 201
                +  +  +    +   L    + L    V ++G++GMGG+GKTTL K++  K AE 
Sbjct: 140 PPRSEVEERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEI 199

Query: 202 EKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLKKEKRILV 258
              FD VI++ VS+   I K+Q + A+KL L       + ES +A  + +R+ K KR ++
Sbjct: 200 GGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRFVL 258

Query: 259 ILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSL 318
           +LD+IWE +D +A+GIP+       KV  T RS +V   +M   +    + L+ ++AW L
Sbjct: 259 MLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCG-EMGDHKPMQVNCLEPEDAWEL 317

Query: 319 FKKMAGDYIEGSEFKWV--AREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQLRRP 375
           FK   GD    S+   V  AREVA++C GLP+++  +   + +K +  EW+ A+  +   
Sbjct: 318 FKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAI-HVFNT 376

Query: 376 SSTNFKDIQPTAYKAIELSY 395
           S+  F D+Q      ++ SY
Sbjct: 377 SAAEFSDMQNKILPILKYSY 396

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score =  139 bits (349), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 80/227 (35%), Positives = 129/227 (56%), Gaps = 8/227 (3%)

Query: 174 DVNMLGIYGMGGIGKTTLAKEVAR---KAENEKLFDQVIFVEVSQIQDIRKIQGEFADKL 230
           +V  +G++GMGG+GKTTL + +     K    + F  VI+V VS+  D++++Q + A +L
Sbjct: 133 NVQKIGVWGMGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRL 192

Query: 231 GLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHG-DGHKGSKVLLTA 289
           G     E  +    ++C RL   K  L+ILD++W  +D   +GIP   +  K SKV+LT+
Sbjct: 193 GKRFTREQMNQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSKVVLTS 252

Query: 290 RSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS 349
           R L+V  ++M + +N     L+E EAW LF    G+       K +A++V+ EC GLP++
Sbjct: 253 RRLEV-CQQMMTNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLA 311

Query: 350 IVTVARALRNKRLFE-WKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
           I+T+ R LR K   E WK  L  L+R + +   D +   +  ++LSY
Sbjct: 312 IITIGRTLRGKPQVEVWKHTLNLLKRSAPS--IDTEEKIFGTLKLSY 356

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  136 bits (342), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 103/370 (27%), Positives = 176/370 (47%), Gaps = 15/370 (4%)

Query: 35  NLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGV-DA 93
           NL  L+  +  +E  R    R++   +RRG +    V+ W++ V  ++    +   +   
Sbjct: 35  NLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSV 94

Query: 94  RANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKD 152
           +  + C  G C  NL    R  K   +  E +  +R  G F  ++  +   D+  +  + 
Sbjct: 95  QVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERV---DAARVEERP 151

Query: 153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVA-RKAENEKLFDQVIFV 211
                +    L    + L   ++ +LG++GMGG+GKTTL   +  R +     FD VI++
Sbjct: 152 TRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWI 211

Query: 212 EVSQIQDIRKIQGEFADKL---GLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD 268
            VS+   I++IQ E  +KL        ++TE  +A ++ N LK  KR +++LD+IW  +D
Sbjct: 212 VVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLK-HKRFVLLLDDIWSKVD 270

Query: 269 FQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIE 328
              VG+P      G K++ T R  ++  R M    +     L  D+AW LF K  G+   
Sbjct: 271 LTEVGVPFPSRENGCKIVFTTRLKEICGR-MGVDSDMEVRCLAPDDAWDLFTKKVGEITL 329

Query: 329 GS--EFKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQLRRPSSTNFKDIQP 385
           GS  E   VAR VAK+C GLP+++  +   +  KR   EW+ A++ L   S+  F  ++ 
Sbjct: 330 GSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTS-SAAEFSGMED 388

Query: 386 TAYKAIELSY 395
                ++ SY
Sbjct: 389 EILPILKYSY 398

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 =  135 bits (341), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 113/385 (29%), Positives = 190/385 (49%), Gaps = 34/385 (8%)

Query: 34  SNLQNLKTEVGNLE-AERVSKQREVDEAKRRGEEIEKY---------VEKWLASVNGVID 83
           S + NL   + +L+ A R+ K R+ D  +R   E E++         V+ WL SV  + +
Sbjct: 27  SYIHNLSKNLASLQKAMRMLKARQYDVIRRL--ETEEFTGRQQRLSQVQVWLTSVLIIQN 84

Query: 84  EAEKFT-GVDARANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNII 141
           +        +    + C  G C  +LK+  R  K      + +  +   G FD +S    
Sbjct: 85  QFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVS---- 140

Query: 142 PDDSLLLSNKDYEAFESRMS----TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVAR 197
             ++   ++ D   F+  +      L    + L      +LG+YGMGG+GKTTL  ++  
Sbjct: 141 --EATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINN 198

Query: 198 K-AENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGR---ARSLCNRLKKE 253
           K ++ +  FD VI+V VS+   +RKIQ + A+K+GL   E +E      A  + N L++ 
Sbjct: 199 KFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRR 258

Query: 254 KRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKED 313
           K +L +LD+IWE ++ +AVG+P+     G KV  T RS DV  R M          L+ +
Sbjct: 259 KFVL-LLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGR-MGVDDPMEVSCLQPE 316

Query: 314 EAWSLFKKMAGDYIEGS--EFKWVAREVAKECAGLPVSIVTVARALRNKR-LFEWKDALE 370
           E+W LF+   G    GS  +   +AR+VA++C GLP+++  +  A+  KR + EW  A++
Sbjct: 317 ESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAID 376

Query: 371 QLRRPSSTNFKDIQPTAYKAIELSY 395
            L   S+ +F  ++      ++ SY
Sbjct: 377 VL-TSSAIDFSGMEDEILHVLKYSY 400

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

 Score =  134 bits (337), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 110/387 (28%), Positives = 191/387 (49%), Gaps = 30/387 (7%)

Query: 25  SYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIE-KYVEKWLASVNGVID 83
           SY++    + NL +L+  +G L A+R   Q  ++  +  G       V+ WL  +  + +
Sbjct: 27  SYIQN--LSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIEN 84

Query: 84  E-AEKFTGVDARANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREA-GRFDRISYNI 140
           +  +  +  +A   + C  G C  N+K+     K        IV +RE  G   +  ++I
Sbjct: 85  QFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV------IVLLREVEGLSSQGVFDI 138

Query: 141 IPDDSLLLSNKDY---EAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVAR 197
           + + + +   ++         + S L+ + + L    V ++G+YGMGG+GKTTL  ++  
Sbjct: 139 VTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINN 198

Query: 198 KAENEKL---FDQVIFVEVSQIQDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLK 251
           K    KL   FD VI+V VS+   + KIQ    +KLGL      E+ ++ RA  + N L+
Sbjct: 199 KFS--KLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLR 256

Query: 252 KEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLK 311
           ++K +L +LD+IWE ++ + +G+P+  G  G KV  T  S +V  R M          L 
Sbjct: 257 RKKFVL-LLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGR-MGVDNPMEISCLD 314

Query: 312 EDEAWSLFKKMAGDYIEGS--EFKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDA 368
              AW L KK  G+   GS  +   +AR+V+++C GLP+++  +   +  KR   EW+ A
Sbjct: 315 TGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHA 374

Query: 369 LEQLRRPSSTNFKDIQPTAYKAIELSY 395
            E L   S+T+F  ++      ++ SY
Sbjct: 375 TEVL--TSATDFSGMEDEILPILKYSY 399

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  133 bits (335), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 107/358 (29%), Positives = 179/358 (50%), Gaps = 30/358 (8%)

Query: 33  TSNLQNLKTEVGNLEAERVSKQREVD--EAKRRGEEIEKYVEKWLASVNGVIDE-AEKFT 89
           + N+  +K ++  L+ +R   +R VD  E  RR E + + V+ WL +V+ V ++  E  T
Sbjct: 33  SKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQ-VQGWLTNVSTVENKFNELLT 91

Query: 90  GVDARANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNI-------I 141
             DA   + C  G C  N+K+     K      + I  +   G FD ++          +
Sbjct: 92  TNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATPIARIEEM 151

Query: 142 PDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK-AE 200
           P    ++  +         + L  +   L      ++G+YGMGG+GKTTL   +  K +E
Sbjct: 152 PIQPTIVGQE---------TMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSE 202

Query: 201 NEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE---ETESGRARSLCNRLKKEKRIL 257
               F  VI+V VS+  DI +IQG+   +L L   E     E+ RA  + N L K+K +L
Sbjct: 203 KCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVL 262

Query: 258 VILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWS 317
            +LD+IWE ++ + +G+P+     G KV+ T RS DV  R M          L+ +EAW 
Sbjct: 263 -LLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGR-MRVDDPMEVSCLEPNEAWE 320

Query: 318 LFKKMAG-DYIEG-SEFKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQL 372
           LF+   G + ++G  +   +AR+VA +C GLP+++  +   +  KR+  EW++A++ L
Sbjct: 321 LFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVL 378

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG91|DRL32_ARATH Probable disease resistance protein At5g43730 OS=Arabidopsis thaliana GN=At5g43730 PE=2 SV=1

 Score =  128 bits (321), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 114/388 (29%), Positives = 181/388 (46%), Gaps = 29/388 (7%)

Query: 25  SYLRKSKYT----SNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNG 80
            +L  S Y     SNL  L+  +  L+  R      V   + +G +    V  WL+ V  
Sbjct: 20  CFLSDSNYIHLMESNLDALQKTMEELKNGRDDLLARVSIEEDKGLQRLALVNGWLSRVQI 79

Query: 81  VIDEAEKFT-GVDARANKRCFKGLCPNLKIRR-----RLSKEAERQKEAIVKVREAGRFD 134
           V  E +     +     + C  G C    I       ++ K  E  KE + K      F+
Sbjct: 80  VESEFKDLLEAMSIETGRLCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSK----KNFE 135

Query: 135 RISYNIIPDDSLLLSNKDYEAFESRMSTLNDI-LDALKNPDVNMLGIYGMGGIGKTTLAK 193
            ++  IIP      + K +      + T+  I  ++L + ++  LG+YGMGGIGKTTL +
Sbjct: 136 VVAQKIIPK-----AEKKHIQTTVGLDTMVGIAWESLIDDEIRTLGLYGMGGIGKTTLLE 190

Query: 194 EVARK-AENEKLFDQVIFVEVSQIQDIRKIQGEFADKL--GLTLHEETESGRARSLCNRL 250
            +  K  E E  FD VI+V VS+   +  IQ +   +L        ETES +A  + N L
Sbjct: 191 SLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRPDKEWERETESKKASLINNNL 250

Query: 251 KKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVL 310
           K++K +L +LD++W  +D   +G+P      GSK++ T RS +V  + M + +    D L
Sbjct: 251 KRKKFVL-LLDDLWSEVDLIKIGVPPPSRENGSKIVFTTRSKEV-CKHMKADKQIKVDCL 308

Query: 311 KEDEAWSLFKKMAGDYIEGS--EFKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKD 367
             DEAW LF+   GD I  S  +   +AR VA +C GLP+++  + +A+  K    EW+ 
Sbjct: 309 SPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRH 368

Query: 368 ALEQLRRPSSTNFKDIQPTAYKAIELSY 395
           A+  L  P    F  ++      ++ SY
Sbjct: 369 AINVLNSPGH-KFPGMEERILPILKFSY 395

Probable 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	395
359488027	1520	PREDICTED: disease resistance protein At	0.994	0.258	0.478	1e-101
147802546	1409	hypothetical protein VITISV_007222 [Viti	0.994	0.278	0.478	1e-101
147833354	1494	hypothetical protein VITISV_041837 [Viti	0.987	0.261	0.460	3e-95
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.994	0.293	0.450	1e-94
224147195	554	cc-nbs resistance protein [Populus trich	0.969	0.691	0.477	4e-94
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.987	0.230	0.453	3e-93
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.972	0.292	0.488	3e-93
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.972	0.287	0.491	7e-92
359487988	1297	PREDICTED: disease resistance protein RP	0.977	0.297	0.460	9e-92
359488108	1436	PREDICTED: disease resistance protein At	0.984	0.270	0.452	2e-91

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 189/395 (47%), Positives = 273/395 (69%), Gaps = 2/395 (0%)

Query: 1   MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEA 60
           M +I++++  + A+ L  PI R   YL    Y SN+ +L+ +V  L   R   +R VDEA
Sbjct: 1   MEEIVVTIAAKVAEYLVAPIGRSFGYL--FNYRSNIDDLRQQVEKLGDARARLERSVDEA 58

Query: 61  KRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQ 120
            R G+EIE  V+KWL  V+G ++EA  F  V+ +AN+ CF G CPNLK + +LS+EA+++
Sbjct: 59  IRNGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKR 118

Query: 121 KEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGI 180
              + +++  G+F+R+SY            K +EA ESRM+TL++I++AL++  VN++G+
Sbjct: 119 ARVVAEIQGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDAHVNIIGV 178

Query: 181 YGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETES 240
           +GM G+GKTTL K+VA++AE EKLFD+V+   +S   +++KIQGE AD LGL   EE+E 
Sbjct: 179 WGMAGVGKTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESEM 238

Query: 241 GRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMD 300
           GRA  LC RLKK K+IL+ILD+IW  LD + VGIP GD HKG K++LT+R+  +LS +M 
Sbjct: 239 GRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHILSNEMG 298

Query: 301 SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNK 360
           +Q++F  + L+E+EA  LFKKMAGD IE  + + +A +VAKECAGLP++IVTVA+AL+NK
Sbjct: 299 TQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNK 358

Query: 361 RLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
            L  W+DAL QL+R   TN K +    Y  +ELSY
Sbjct: 359 GLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSY 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147802546|emb|CAN77665.1| hypothetical protein VITISV_007222 [Vitis vinifera]

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 189/395 (47%), Positives = 272/395 (68%), Gaps = 2/395 (0%)

Query: 1   MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEA 60
           M +I++++  + A+ L  PI R   YL    Y SN+ +L+ +V  L   R   +R VDEA
Sbjct: 1   MEEIVVTIAAKVAEYLVAPIGRSFGYL--FNYRSNIDDLRQQVEKLGDARARLERSVDEA 58

Query: 61  KRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQ 120
            R G+EIE  V+KWL  V+G ++EA  F  V+ +AN+ CF G CPNLK + +LS+EA+++
Sbjct: 59  IRNGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKR 118

Query: 121 KEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGI 180
              + +++  G+F+R+SY            K +EA ESRM+TL++I++AL++  VN++G+
Sbjct: 119 ARVVAEIQGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDAHVNIIGV 178

Query: 181 YGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETES 240
           +GM G+GKTTL K+VA++ E EKLFD+V+   +S   +++KIQGE AD LGL   EE+E 
Sbjct: 179 WGMAGVGKTTLMKQVAKQVEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESEM 238

Query: 241 GRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMD 300
           GRA  LC RLKK K+IL+ILD+IW  LD + VGIP GD HKG K++LT+R+  VLS +M 
Sbjct: 239 GRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHVLSNEMG 298

Query: 301 SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNK 360
           +Q++F  + L+E+EA  LFKKMAGD IE  + + +A +VAKECAGLP++IVTVA+AL+NK
Sbjct: 299 TQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNK 358

Query: 361 RLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
            L  W+DAL QL+R   TN K +    Y  +ELSY
Sbjct: 359 GLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSY 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147833354|emb|CAN66237.1| hypothetical protein VITISV_041837 [Vitis vinifera]

 Score =  355 bits (910), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 182/395 (46%), Positives = 260/395 (65%), Gaps = 5/395 (1%)

Query: 1   MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEA 60
           M DI+ SV  + ++ L  P+ RQ+ YL    Y +N+++L  EV  L   R   Q  V+EA
Sbjct: 1   MVDIVFSVAAKVSEYLVVPVVRQLGYL--FNYRTNIEDLSQEVEKLRDARDRHQHSVNEA 58

Query: 61  KRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQ 120
              G +IE YV KWL   +G I +A KF   +  A K CF GLCPNLK R +LS+EA ++
Sbjct: 59  IGNGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRHQLSREARKK 118

Query: 121 KEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGI 180
               V++ E G+F+++SY   P   +       EA ESRM TLN++++AL++ ++N +G+
Sbjct: 119 AGVSVQILENGQFEKVSYRT-PLQGI--RTAPSEALESRMLTLNEVMEALRDANINRIGL 175

Query: 181 YGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETES 240
           +GMGG+GK+TL K +A +A  EKLFD+V+ V V Q  D+ +IQ E AD LG+   EE+E 
Sbjct: 176 WGMGGVGKSTLVKHLAEQANQEKLFDKVVKVSVLQTPDLERIQRELADGLGMKFEEESEQ 235

Query: 241 GRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMD 300
           GRA  L  R++ EK IL+ILD++W  L+ + VGIP  D HKG K++LT+R+  VLS +M 
Sbjct: 236 GRAARLLQRMEAEKTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMS 295

Query: 301 SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNK 360
           +Q++F    L+EDE W LFK  AGD IE  E + +A +VAKECAGLP++IVTVA+AL+NK
Sbjct: 296 TQKDFRVRHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPLAIVTVAKALKNK 355

Query: 361 RLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
            +  WKDAL+QL+  +STN   I+   Y +++LSY
Sbjct: 356 NVSIWKDALQQLKSQTSTNITGIETKVYSSLKLSY 390

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  353 bits (905), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 178/395 (45%), Positives = 255/395 (64%), Gaps = 2/395 (0%)

Query: 1   MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEA 60
           M +I++SV  + ++ L  P+ RQ+ +L    Y +N+++L  +V  L   R  +Q  VDEA
Sbjct: 1   MVEIVVSVAAKVSEYLVAPVGRQLGHL--FNYRTNVEDLSQQVAKLRDARARQQHSVDEA 58

Query: 61  KRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQ 120
            R+G +IE  V KW    +G I  A KF   +  A K CF GLCPNLK R +LSKEA ++
Sbjct: 59  IRKGHKIEDDVCKWFTRADGFIQVACKFLEEEKEAQKTCFNGLCPNLKSRYQLSKEARKK 118

Query: 121 KEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGI 180
               V++   G+F+R+SY     +      K  +  ESRM TLN+++ AL++ D+N +GI
Sbjct: 119 AGVAVEIHGDGQFERVSYRPPLLEIGSAPPKASKVLESRMLTLNEVMKALRDADINTIGI 178

Query: 181 YGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETES 240
           +GMGG+GK TL K+VA +A  EKLFD+V+   V Q  D R+IQGE AD LG+   EE+E 
Sbjct: 179 WGMGGVGKNTLVKQVAEQAAQEKLFDKVVMTSVFQTPDFRRIQGEIADMLGMKFEEESEQ 238

Query: 241 GRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMD 300
           GRA  L  ++ +EK IL+ILD+IW  L+ + +GIP  D HKG K++LT+R+  VLS +M 
Sbjct: 239 GRAARLHRKINEEKTILIILDDIWAELELEKIGIPSPDNHKGCKLVLTSRNKHVLSNEMS 298

Query: 301 SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNK 360
           +Q++F  + L+ DEAW LFK M GD IE  +   +A +VAKEC GLP++IVTVA+AL+NK
Sbjct: 299 TQKDFGVEHLQGDEAWILFKNMVGDSIENPDLLLIATDVAKECTGLPIAIVTVAKALKNK 358

Query: 361 RLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
            +  WKDAL+QL+  +STN   +    Y  ++LSY
Sbjct: 359 NVSIWKDALKQLKTQTSTNITGMGTKVYSTLKLSY 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224147195|ref|XP_002336426.1| cc-nbs resistance protein [Populus trichocarpa] gi|222834979|gb|EEE73428.1| cc-nbs resistance protein [Populus trichocarpa]

 Score =  351 bits (900), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 188/394 (47%), Positives = 257/394 (65%), Gaps = 11/394 (2%)

Query: 3   DIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKR 62
           +I++S++ + A+ L  PI RQ+ Y+      SN+QNLK EV  L   +      ++EA+ 
Sbjct: 2   EIVISIVAKVAELLVVPIKRQIGYVLDC--NSNIQNLKNEVEKLTDAKTRVIHSIEEAQW 59

Query: 63  RGEEIEKYVEKWLASVNGVIDEAEKFTGVDA-RANKRCFKGLCPNLKIRRRLSKEAERQK 121
            GEEIE  V  WL SV+GVI+ A    GV A  ++K+CF GLCP+LKIR RL K A+++ 
Sbjct: 60  NGEEIEVEVLNWLGSVDGVIEGA---GGVVADESSKKCFMGLCPDLKIRYRLGKAAKKEL 116

Query: 122 EAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIY 181
             +V ++  G+FDR+SY   P  S +   KDYEAFESR S LNDI+ ALK+ D NM+G++
Sbjct: 117 TVVVDLQGKGKFDRVSYRAAP--SGIGPVKDYEAFESRNSVLNDIVGALKDGDENMVGVF 174

Query: 182 GMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESG 241
           GM G+GKTTL K+VA + +  +LF++V+   VSQ  DIR+IQGE AD LGL L  ET+ G
Sbjct: 175 GMAGVGKTTLVKKVAEQVKEGRLFNEVVLAVVSQTPDIRRIQGEIADGLGLKLDAETDKG 234

Query: 242 RARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDS 301
           RA  LC  LKK  R+LVILD+IW+ L  + VGIP G  H G K+L+T+R  +VLS +M +
Sbjct: 235 RASQLCKGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHDGCKILMTSRDKNVLSCEMGA 294

Query: 302 QQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKR 361
            +NF   VL E EAW LF+K  G  ++    + VA +VAK CAGLP+ +  VARALRN+ 
Sbjct: 295 NKNFQIQVLPESEAWDLFEKTVGVTVKNPSVQPVAAKVAKRCAGLPILLAAVARALRNEE 354

Query: 362 LFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
           ++ W DAL+QL R    +  +I    Y  +ELSY
Sbjct: 355 VYAWNDALKQLNR---FDKDEIDNQVYLGLELSY 385

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865073|emb|CAN83232.1| hypothetical protein VITISV_021876 [Vitis vinifera]

 Score =  348 bits (892), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 179/395 (45%), Positives = 256/395 (64%), Gaps = 5/395 (1%)

Query: 1   MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEA 60
           M +I+LSV  + ++ L  P  RQ+ YL    Y +N+++L  +V  L   R   Q  VDEA
Sbjct: 1   MVEIVLSVAAKVSEYLVDPAIRQLGYL--FNYRANIEDLSQQVEKLRDARARLQHSVDEA 58

Query: 61  KRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQ 120
              G  IE  V KW+   +G I  A KF   +  A K CF GLCPNLK R +LS+EA ++
Sbjct: 59  IGNGHIIEDDVRKWMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKK 118

Query: 121 KEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGI 180
               V++  AG+F+R+SY     +   +     EA ESRM TLN++++AL++ ++N +G+
Sbjct: 119 AGVAVEIHGAGQFERVSYRAPLQE---IRTAPSEALESRMLTLNEVMEALRDANINRIGV 175

Query: 181 YGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETES 240
           +GMGG+GK+TL K+VA +AE EKLF +V+ V V Q  D + IQ + ADKLG+   E +E 
Sbjct: 176 WGMGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMKFEEVSEQ 235

Query: 241 GRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMD 300
           GRA  L  R+K+E  IL+ILD++W  L+ + VGIP  D HKG K++LT+R+  VLS +M 
Sbjct: 236 GRADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMS 295

Query: 301 SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNK 360
           +Q++F    L+EDE W LFK  AGD IE  E + +A +VAKECAGLP++IVTVA+AL+NK
Sbjct: 296 TQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNK 355

Query: 361 RLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
            +  WKDAL+QL   +STN   ++   Y +++LSY
Sbjct: 356 NVSIWKDALQQLNSQTSTNITGMETKVYSSLKLSY 390

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111296|ref|XP_002332952.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834264|gb|EEE72741.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  348 bits (892), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 192/393 (48%), Positives = 258/393 (65%), Gaps = 9/393 (2%)

Query: 3   DIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKR 62
           +I++S++ + A+ L  PI RQ+ Y+      +N+QNLK EV  L   R      ++EA+R
Sbjct: 2   EIVISIVAKVAELLVVPIKRQIGYVLNC--NTNIQNLKNEVEKLTDARTRVNHSIEEARR 59

Query: 63  RGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKE 122
            GEEIE  V  WL SV+GVID        ++  +K+CF GLCP+LKIR RL K A+++  
Sbjct: 60  NGEEIEVEVFNWLGSVDGVIDGGGGGVADES--SKKCFMGLCPDLKIRYRLGKAAKKELT 117

Query: 123 AIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYG 182
            +V ++E GRFDR+SY   P  S +   KDYEAFESR S LN I+DALK+  VNM+G+YG
Sbjct: 118 VVVDLQEKGRFDRVSYRAAP--SGIGPVKDYEAFESRDSVLNAIVDALKDGGVNMVGVYG 175

Query: 183 MGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGR 242
           M G+GKTTL K+VA + +  +LFD+ +   VS   DIR+IQGE AD LGL L  ET+ GR
Sbjct: 176 MPGVGKTTLVKKVAEQVKEGRLFDKEVLAVVSHTPDIRRIQGEIADGLGLKLDAETDKGR 235

Query: 243 ARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQ 302
           A  L  RLKK  R+LVILD+IW+ L  + VGIP G  H+G K+L+++R+  VLSR+M S 
Sbjct: 236 ASQLYERLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMSSRNEYVLSREMGSN 295

Query: 303 QNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRL 362
           +NF   VL   EAW+LF+KM G  ++    + VA EVA+ CAGLP+ + TVARAL+NK L
Sbjct: 296 RNFPIQVLPASEAWNLFEKMVGVAVKKHSVRLVAAEVARRCAGLPILLATVARALKNKDL 355

Query: 363 FEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
           + WK AL+QL R    +  DI    Y  +ELSY
Sbjct: 356 YAWKKALKQLTR---FDKDDIDDQVYLGLELSY 385

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143316|ref|XP_002336027.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222838884|gb|EEE77235.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  343 bits (881), Expect = 7e-92,   Method: Compositional matrix adjust.
 Identities = 193/393 (49%), Positives = 263/393 (66%), Gaps = 9/393 (2%)

Query: 3   DIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKR 62
           +I++S++ + A+ L  PI RQ+ Y+      +N+QNLK EV  L   +      ++EA  
Sbjct: 2   EIVISIVAKVAELLVVPIKRQIGYVIDC--NTNIQNLKNEVEKLTYAKTRVIHSIEEAIS 59

Query: 63  RGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKE 122
           +GEEIE  VE WL SV+GVI+      G    ++K+CF GLCP+LKIR RL K A+ +  
Sbjct: 60  KGEEIEVDVENWLGSVDGVIEGGCGVVG--DESSKKCFMGLCPDLKIRYRLGKAAKEELT 117

Query: 123 AIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYG 182
            +V ++E G+FDR+SY   P  S +   KDYEAFESR S LNDI+DALK+ DVNM+G+YG
Sbjct: 118 VVVDLQEKGKFDRVSYRAAP--SGIGPVKDYEAFESRNSVLNDIVDALKDCDVNMVGVYG 175

Query: 183 MGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGR 242
           MGG+GKTTLAK+VA + +  +LFD+V+   VS   DIR+IQGE AD LGL L  ET+ GR
Sbjct: 176 MGGVGKTTLAKKVAEQVKEGRLFDKVVLALVSPTPDIRRIQGEIADGLGLKLDAETDKGR 235

Query: 243 ARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQ 302
           A  LC  LKK   +LVILD+IW+ L  + VGIP G  H+G K+L+T+R+ ++LSR+M + 
Sbjct: 236 ASQLCRGLKKVTTVLVILDDIWKELKLEDVGIPSGSDHEGCKILMTSRNKNILSREMGAN 295

Query: 303 QNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRL 362
           +NF   +L   EAW+ F+KM G  ++    + VA EVAK CAGLP+ + TVARAL+N+ L
Sbjct: 296 RNFQIQILPVREAWNFFEKMVGVTVKNPSVQLVAAEVAKRCAGLPILLATVARALKNEDL 355

Query: 363 FEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
           + WK+AL QL R    +  DI  TAY  +ELSY
Sbjct: 356 YAWKEALTQLTR---FDKDDIDKTAYSCLELSY 385

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487988|ref|XP_002262896.2| PREDICTED: disease resistance protein RPS2-like [Vitis vinifera]

 Score =  343 bits (880), Expect = 9e-92,   Method: Compositional matrix adjust.
 Identities = 183/397 (46%), Positives = 263/397 (66%), Gaps = 11/397 (2%)

Query: 1   MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEA 60
           MA+I++S+  + A+ L  PI R + YL    Y SNL NL+ +V  L   R  +QR+VD+A
Sbjct: 1   MAEILISIAAKVAEYLVAPIVRPLGYL--FNYRSNLDNLEEQVDKLGDARERRQRDVDDA 58

Query: 61  KRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQ 120
            R+G+EIE  V+KWL    G+I  A++    +  A+  CF     NLK+R + S++A++Q
Sbjct: 59  NRQGDEIEPDVQKWLTRTEGIIQTAKELIEDEKAASTSCF-----NLKLRYQRSRQAKKQ 113

Query: 121 KEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGI 180
              I K++E  +F+R+SY + P        +D  A ESR S LN+I++AL+N D+ M+G+
Sbjct: 114 SGDIGKIQEENKFNRVSYGLPPQGIWSPRLRDCGALESRASILNEIMEALRNDDIRMIGV 173

Query: 181 YGMGGIGKTTLAKEVARKAENEKLFDQVIF-VEVSQIQDIRKIQGEFADKLGLTLHEETE 239
           +GMGG+GKTTLA +VA+KAE +KLF++V+  + +S++ ++ KIQGE A  LGL   EE E
Sbjct: 174 WGMGGVGKTTLANQVAKKAEEDKLFEKVVMALNISRVPNVTKIQGEIASMLGLKFEEEEE 233

Query: 240 SGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKM 299
           SGRA  L   L+K K +LVILD+IWE L  + +GIPHGD H+G KVLLT+R   VLSRKM
Sbjct: 234 SGRAARLSKSLQKNKTVLVILDDIWEELSLENIGIPHGDAHRGCKVLLTSRKQGVLSRKM 293

Query: 300 DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRN 359
            +Q+NF    L E+EAWSLFKK AGD +E  + K +A +V +EC GLPV+IVTVA+AL+ 
Sbjct: 294 ATQKNFRVQHLCEEEAWSLFKKTAGDSVE--QLKSIAIKVLRECDGLPVAIVTVAKALKG 351

Query: 360 KR-LFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
           +     W +AL +L   ++ N +D+    Y  +ELSY
Sbjct: 352 ESDEAVWNNALLELENSAAINIEDVHEKVYSCLELSY 388

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488108|ref|XP_003633701.1| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  342 bits (876), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 181/400 (45%), Positives = 258/400 (64%), Gaps = 11/400 (2%)

Query: 1   MADIILSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEA 60
           M DII SV+ + ++ L  P+ RQ+ YL    Y +N+++L  +V NL   R  +Q  VDEA
Sbjct: 1   MVDIIGSVVAKVSEYLVGPVVRQLDYL--FNYRTNIEDLSQKVDNLRDARARQQHSVDEA 58

Query: 61  KRRGEEIEKYVEKWLASV-----NGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSK 115
              G  IE  V KW+        NG I  A KF   +  A K CF  LCPNLK R +LS+
Sbjct: 59  IGNGHIIEDDVCKWMKRADGFIQNGFIQNACKFLEDEKEARKSCFNRLCPNLKSRYQLSR 118

Query: 116 EAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDV 175
           EA ++    V++  AG+F+R+SY     +   + +   EA ESRM TLN+++ AL++  +
Sbjct: 119 EARKRAGVAVEILGAGQFERVSYRAPLQE---IRSAPSEALESRMLTLNEVMVALRDAKI 175

Query: 176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH 235
           N +G++G+GG+GKTTL K+VA +A  EKLFD+V+   V +  D++KIQGE AD LG+   
Sbjct: 176 NKIGVWGLGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFE 235

Query: 236 EETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVL 295
           EE+E GRA  L  R+ +EK IL+ILD+IW  LD + +GIP  D HKG K++LT+R+  +L
Sbjct: 236 EESEQGRAARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHIL 295

Query: 296 SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVAR 355
           S +MD+Q++F    L+EDE W LFK  AG  IE  E + +A +VAKECAGLP++IVTVA+
Sbjct: 296 SNEMDTQKDFRVQPLQEDETWILFKNTAGS-IENPELQPIAVDVAKECAGLPLAIVTVAK 354

Query: 356 ALRNKRLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
           AL+NK +  WKDAL+QL+  + TN   +    Y +++LSY
Sbjct: 355 ALKNKNVSIWKDALQQLKSQTLTNVTGLTTNVYSSLKLSY 394

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	395
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.954	0.382	0.296	2.2e-38
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.916	0.374	0.300	3.5e-38
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.913	0.401	0.308	7.3e-37
TAIR|locus:2093192	375	AT3G15700 [Arabidopsis thalian	0.865	0.912	0.306	2.4e-35
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.848	0.364	0.303	6.7e-35
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.908	0.403	0.287	1.3e-34
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.898	0.399	0.275	2.7e-34
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.845	0.373	0.303	1.6e-33
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.903	0.403	0.284	4.1e-33
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.931	0.432	0.276	9.3e-32

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 421 (153.3 bits), Expect = 2.2e-38, P = 2.2e-38
 Identities = 116/391 (29%), Positives = 208/391 (53%)

Query:    14 KCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEK 73
             +C AP I   +  + +S ++     +K +  N++A   S +R  +      E+ E  + K
Sbjct:     2 ECCAPVIGEILRLMYESTFSRVANAIKFK-SNVKALNESLERLTELKGNMSEDHETLLTK 60

Query:    74 WLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKVREAG-R 132
                    ++    +   V ++A  +  + +   + +R R+S++  +  + +  + + G  
Sbjct:    61 DKPLRLKLMRWQREAEEVISKARLKLEERVSCGMSLRPRMSRKLVKILDEVKMLEKDGIE 120

Query:   133 F-DRISYNIIPD--DSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKT 189
             F D +S    P+  + +   +  ++   S M  L  I D L +     +G++GMGG+GKT
Sbjct:   121 FVDMLSVESTPERVEHVPGVSVVHQTMASNM--LAKIRDGLTSEKAQKIGVWGMGGVGKT 178

Query:   190 TLAKEVARKAENE---KLFDQVIFVEVSQIQDIRKIQGEFADKLGL-TLHEETESGRARS 245
             TL + +  K   E   + F  VIFV VS+  D R++Q + A++L + T  EE+E   AR 
Sbjct:   179 TLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEKLARR 238

Query:   246 LCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNF 305
             +   L KE++ L+ILD++W+ +D   +GIP  + +KGSKV+LT+R L+V  R M +  + 
Sbjct:   239 IYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVC-RSMKTDLDV 297

Query:   306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFE- 364
               D L E++AW LF K AGD +     + +A+ V++EC GLP++I+TV  A+R K+  + 
Sbjct:   298 RVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKNVKL 357

Query:   365 WKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
             W   L +L + S    K I+   ++ ++LSY
Sbjct:   358 WNHVLSKLSK-SVPWIKSIEEKIFQPLKLSY 387

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 419 (152.6 bits), Expect = 3.5e-38, P = 3.5e-38
 Identities = 114/379 (30%), Positives = 188/379 (49%)

Query:    26 YLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEA 85
             Y+R  +   NL+ L+ E+ +L A +   Q +V   + R ++  + V+ WL  VN +  E 
Sbjct:    27 YIRNLE--KNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIEC 84

Query:    86 EKFTGVD-ARANKRCFKGLCPNLKIRR-RLSKEAERQKEAIVKVREAGRFDRISYNIIPD 143
             +    V      K C  GLC        +  K      E + K++  G FD +S    P 
Sbjct:    85 KDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQ---PP 141

Query:   144 DSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK-AENE 202
                 +  +  +    +   L    + L    V ++G++GMGG+GKTTL K++  K AE  
Sbjct:   142 PRSEVEERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETG 201

Query:   203 KLFDQVIFVEVSQIQDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLKKEKRILVI 259
               FD VI++ VSQ   + K+Q + A+KL L       + ES +A  + +R+ K KR +++
Sbjct:   202 GTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRFVLM 260

Query:   260 LDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLF 319
             LD+IWE +D +A+GIP+       KV  T R   V  + M   +      L+ ++AW LF
Sbjct:   261 LDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQ-MGDHKPMQVKCLEPEDAWELF 319

Query:   320 KKMAGDYIEGSE--FKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQLRRPS 376
             K   GD    S+     +AREVA++C GLP+++  +   + +K +  EW+ A++ L R S
Sbjct:   320 KNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTR-S 378

Query:   377 STNFKDIQPTAYKAIELSY 395
             +  F D+Q      ++ SY
Sbjct:   379 AAEFSDMQNKILPILKYSY 397

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 406 (148.0 bits), Expect = 7.3e-37, P = 7.3e-37
 Identities = 118/382 (30%), Positives = 191/382 (50%)

Query:    25 SYLRKSKYTSNLQNLKTEVGNLEAERVSKQREV--DEAKRRGEEIEKYVEKWLASVNGVI 82
             SY+R  +   NL+ L+ E+ +L A +   Q +V  DEA+ +   +E  V+ WL  VN V 
Sbjct:    25 SYIRTLE--KNLRALQREMEDLRAIQHEVQNKVARDEARHQ-RRLEA-VQVWLDRVNSVD 80

Query:    83 DEAEKFTGVD-ARANKRCFKGLCPNLKIRR-RLSKEAERQKEAIVKVREAGRFDRISYNI 140
              E +    V      K C  GLC        +  K+     E + K+   G FD +S   
Sbjct:    81 IECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQ-- 138

Query:   141 IPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK-A 199
              P     +  +  +    +   L    + L    V ++G++GMGG+GKTTL K++  K A
Sbjct:   139 -PPPRSEVEERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFA 197

Query:   200 ENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLKKEKRI 256
             E    FD VI++ VS+   I K+Q + A+KL L       + ES +A  + +R+ K KR 
Sbjct:   198 EIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDI-HRVLKGKRF 256

Query:   257 LVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAW 316
             +++LD+IWE +D +A+GIP+       KV  T RS +V   +M   +    + L+ ++AW
Sbjct:   257 VLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCG-EMGDHKPMQVNCLEPEDAW 315

Query:   317 SLFKKMAGDYIEGSE--FKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQLR 373
              LFK   GD    S+     +AREVA++C GLP+++  +   + +K +  EW+ A+    
Sbjct:   316 ELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFN 375

Query:   374 RPSSTNFKDIQPTAYKAIELSY 395
               S+  F D+Q      ++ SY
Sbjct:   376 T-SAAEFSDMQNKILPILKYSY 396

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 382 (139.5 bits), Expect = 2.4e-35, P = 2.4e-35
 Identities = 111/362 (30%), Positives = 190/362 (52%)

Query:    31 KYTSNLQNLKTEVGNLEAER--VSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKF 88
             K   N++ LKT    L+  R  V K+ ++ E +++ + +EK V+ WL   +  I EAE+ 
Sbjct:    17 KENDNVKKLKTATEELKDLRNIVMKRVKMYEDQQKLKRLEK-VQVWLRQADVAIKEAEEM 75

Query:    89 TGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNI-IPDDSLL 147
                   ++      +    K+ ++L K+ +  +E    ++  G FD +  N  I   S++
Sbjct:    76 LITLMSSSSSNGSSMMSFHKLDKKLCKKLKEVQE----IKSRGTFDVVVENSGIGSGSMM 131

Query:   148 LSNKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKL-- 204
             +SN D +     +  ++ ++      D   ++G+YG+ G+GKTT+  +V  +    KL  
Sbjct:   132 ISNVDRDDQTVGLEAVSGLVWRCMTVDNTGIIGLYGVEGVGKTTVLTQVNNRLLQHKLNG 191

Query:   205 FDQVIFVEVSQIQDIRKIQGEFADKLGL---TLHEETESGRARSLCNRLKKEKRILVILD 261
             FD VI+V VS+  ++ KIQ    +K+G    +   +TE  +A  +   L K +R  + LD
Sbjct:   192 FDFVIWVFVSKNVNLEKIQDTIREKIGFLDRSWMSKTEEEKAGKIFEILSK-RRFALFLD 250

Query:   262 NIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKK 321
             ++WE +D    G+P  DG   SK++ T  S D + ++M +Q     + L  + AW LFK 
Sbjct:   251 DVWEKVDLVKAGVPPPDGLNRSKIVFTTCS-DEVCQEMGAQTKIKMEKLPWERAWDLFKM 309

Query:   322 MAGDYIEGS--EFKWVAREVAKECAGLPVSIVTVARALRNKRL-FEWKDALEQLRRPSST 378
              AG+ I  S  +   VA+EVA +C GLP+++VT+ RA+ +K+   EW+DAL  L   S  
Sbjct:   310 NAGEEIVKSHPDITKVAQEVAAKCDGLPLALVTIGRAMASKKTPQEWRDALYILST-SPP 368

Query:   379 NF 380
             NF
Sbjct:   369 NF 370

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 388 (141.6 bits), Expect = 6.7e-35, P = 6.7e-35
 Identities = 110/363 (30%), Positives = 194/363 (53%)

Query:    45 NLEAERVSK-QREVDEA-KRRG---EEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRC 99
             N   ER+   Q +V+EA KR G   + +E+ +  WL  V   +   E    ++ R++  C
Sbjct:    10 NRALERLKNVQTKVNEALKRSGIQEKSLERKLRIWLRKVEENVPLGELI--LEKRSS--C 65

Query:   100 FKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFES 158
                L   +++I  ++ +  E+ ++ I K+      ++ S  I+  + +L     +   ++
Sbjct:    66 AIWLSDKDVEILEKVKRLEEQGQDLIKKIS----VNKSSREIV--ERVL--GPSFHPQKT 117

Query:   159 RMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAK----EVARKAENEKLFDQVIFVEVS 214
              +  L+ + D LK  +V  +G++GMGG+GKTTL +    ++ + A  ++ F  VI+V VS
Sbjct:   118 ALEMLDKLKDCLKKKNVQKIGVWGMGGVGKTTLVRTLNNDLLKYAATQQ-FALVIWVTVS 176

Query:   215 QIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGI 274
             +  D++++Q + A +LG     E  +    ++C RL   K  L+ILD++W  +D   +GI
Sbjct:   177 KDFDLKRVQMDIAKRLGKRFTREQMNQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGI 236

Query:   275 PHG-DGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFK 333
             P   +  K SKV+LT+R L+V  + M + +N     L+E EAW LF    G+       K
Sbjct:   237 PLALERSKDSKVVLTSRRLEVCQQMM-TNENIKVACLQEKEAWELFCHNVGEVANSDNVK 295

Query:   334 WVAREVAKECAGLPVSIVTVARALRNKRLFE-WKDALEQLRRPSSTNFKDIQPTAYKAIE 392
              +A++V+ EC GLP++I+T+ R LR K   E WK  L  L+R S+ +  D +   +  ++
Sbjct:   296 PIAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKR-SAPSI-DTEEKIFGTLK 353

Query:   393 LSY 395
             LSY
Sbjct:   354 LSY 356

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 = 1.3e-34, Sum P(2) = 1.3e-34
 Identities = 111/386 (28%), Positives = 196/386 (50%)

Query:    25 SYLRKSKYTSNLQNLKTEVGNLEAER--VSKQREVDEAKRRGEEIEKYVEKWLASVNGVI 82
             SY+     + NL +L+  +  L+A +  V ++ E +E   R + + + V+ WL SV  + 
Sbjct:    27 SYIHN--LSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQ-VQVWLTSVLIIQ 83

Query:    83 DEA-EKFTGVDARANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNI 140
             ++  +     +    + C  G C  +LK+  R  K      + +  +   G FD +S   
Sbjct:    84 NQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVS--- 140

Query:   141 IPDDSLLLSNKDYEAFESRMSTLNDILDA----LKNPDVNMLGIYGMGGIGKTTLAKEVA 196
                ++   ++ D   F+  +     +L+     L      +LG+YGMGG+GKTTL  ++ 
Sbjct:   141 ---EATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKIN 197

Query:   197 RK-AENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGL---TLHEETESGRARSLCNRLKK 252
              K ++ +  FD VI+V VS+   +RKIQ + A+K+GL      E+ ++  A  + N L++
Sbjct:   198 NKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRR 257

Query:   253 EKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKE 312
              K +L +LD+IWE ++ +AVG+P+     G KV  T RS DV  R M          L+ 
Sbjct:   258 RKFVL-LLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGR-MGVDDPMEVSCLQP 315

Query:   313 DEAWSLFKKMAGDYIEGS--EFKWVAREVAKECAGLPVSIVTVARALRNKR-LFEWKDAL 369
             +E+W LF+   G    GS  +   +AR+VA++C GLP+++  +  A+  KR + EW  A+
Sbjct:   316 EESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAI 375

Query:   370 EQLRRPSSTNFKDIQPTAYKAIELSY 395
             + L   S+ +F  ++      ++ SY
Sbjct:   376 DVLTS-SAIDFSGMEDEILHVLKYSY 400

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:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 382 (139.5 bits), Expect = 2.7e-34, P = 2.7e-34
 Identities = 102/370 (27%), Positives = 175/370 (47%)

Query:    35 NLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGV-DA 93
             NL  L+  +  +E  R    R++   +RRG +    V+ W++ V  ++    +   +   
Sbjct:    35 NLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSV 94

Query:    94 RANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKD 152
             +  + C  G C  NL    R  K   +  E +  +R  G F  ++  +   D+  +  + 
Sbjct:    95 QVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERV---DAARVEERP 151

Query:   153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK-LFDQVIFV 211
                  +    L    + L   ++ +LG++GMGG+GKTTL   +  +       FD VI++
Sbjct:   152 TRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWI 211

Query:   212 EVSQIQDIRKIQGEFADKL---GLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD 268
              VS+   I++IQ E  +KL        ++TE  +A ++ N LK  KR +++LD+IW  +D
Sbjct:   212 VVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLK-HKRFVLLLDDIWSKVD 270

Query:   269 FQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIE 328
                VG+P      G K++ T R  ++  R M    +     L  D+AW LF K  G+   
Sbjct:   271 LTEVGVPFPSRENGCKIVFTTRLKEICGR-MGVDSDMEVRCLAPDDAWDLFTKKVGEITL 329

Query:   329 GS--EFKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQLRRPSSTNFKDIQP 385
             GS  E   VAR VAK+C GLP+++  +   +  KR   EW+ A++ L   S+  F  ++ 
Sbjct:   330 GSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTS-SAAEFSGMED 388

Query:   386 TAYKAIELSY 395
                  ++ SY
Sbjct:   389 EILPILKYSY 398

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 375 (137.1 bits), Expect = 1.6e-33, P = 1.6e-33
 Identities = 107/352 (30%), Positives = 181/352 (51%)

Query:    33 TSNLQNLKTEVGNLEAERVSKQREVD--EAKRRGEEIEKYVEKWLASVNGVIDEA-EKFT 89
             + N+  +K ++  L+ +R   +R VD  E  RR E + + V+ WL +V+ V ++  E  T
Sbjct:    33 SKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQ-VQGWLTNVSTVENKFNELLT 91

Query:    90 GVDARANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLL 148
               DA   + C  G C  N+K+     K      + I  +   G FD ++  +    + + 
Sbjct:    92 TNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVT--LATPIARIE 149

Query:   149 SNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK-AENEKLFDQ 207
                       + + L  +   L      ++G+YGMGG+GKTTL   +  K +E    F  
Sbjct:   150 EMPIQPTIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGV 209

Query:   208 VIFVEVSQIQDIRKIQGEFADKLGLTLHE---ETESGRARSLCNRLKKEKRILVILDNIW 264
             VI+V VS+  DI +IQG+   +L L   E     E+ RA  + N L K+K +L +LD+IW
Sbjct:   210 VIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVL-LLDDIW 268

Query:   265 ENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSR-KMDSQQNFSFDVLKEDEAWSLFKKMA 323
             E ++ + +G+P+     G KV+ T RS DV  R ++D     S   L+ +EAW LF+   
Sbjct:   269 EKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVS--CLEPNEAWELFQMKV 326

Query:   324 GDY-IEGS-EFKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQL 372
             G+  ++G  +   +AR+VA +C GLP+++  +   +  KR+  EW++A++ L
Sbjct:   327 GENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDVL 378

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 371 (135.7 bits), Expect = 4.1e-33, P = 4.1e-33
 Identities = 110/387 (28%), Positives = 189/387 (48%)

Query:    25 SYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIE-KYVEKWLASVNGVID 83
             SY++    + NL +L+  +G L A+R   Q  ++  +  G       V+ WL  +  + +
Sbjct:    27 SYIQN--LSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIEN 84

Query:    84 EAEKFTGV-DARANKRCFKGLCP-NLKIRRRLSKEAERQKEAIVKVREA-GRFDRISYNI 140
             +        +A   + C  G C  N+K+     K        IV +RE  G   +  ++I
Sbjct:    85 QFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV------IVLLREVEGLSSQGVFDI 138

Query:   141 IPDDSLLLSNKDY---EAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVAR 197
             + + + +   ++         + S L+ + + L    V ++G+YGMGG+GKTTL  ++  
Sbjct:   139 VTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINN 198

Query:   198 KAENEKL---FDQVIFVEVSQIQDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLK 251
             K    KL   FD VI+V VS+   + KIQ    +KLGL      E+ ++ RA  + N L+
Sbjct:   199 KFS--KLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLR 256

Query:   252 KEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLK 311
             ++K +L +LD+IWE ++ + +G+P+  G  G KV  T  S +V  R M          L 
Sbjct:   257 RKKFVL-LLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGR-MGVDNPMEISCLD 314

Query:   312 EDEAWSLFKKMAGDYIEGS--EFKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDA 368
                AW L KK  G+   GS  +   +AR+V+++C GLP+++  +   +  KR   EW+ A
Sbjct:   315 TGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHA 374

Query:   369 LEQLRRPSSTNFKDIQPTAYKAIELSY 395
              E L   S+T+F  ++      ++ SY
Sbjct:   375 TEVLT--SATDFSGMEDEILPILKYSY 399

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:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 358 (131.1 bits), Expect = 9.3e-32, P = 9.3e-32
 Identities = 106/384 (27%), Positives = 181/384 (47%)

Query:    20 IYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVN 79
             ++   +Y+ K +  +NL+ L+  +  LE  R    R V   + +G +    V+ WL+ V 
Sbjct:    22 LFGDRNYILKME--ANLEALQNTMQELEERRDDLLRRVVIEEDKGLQRLAQVQGWLSRVK 79

Query:    80 GVIDEAEKFTGVDARANKR-CFKGLCP-NLKIRRRLSKEAERQKEAIVKVREAGRFDRIS 137
              V  +        +   +R C  G C  N    R       ++ + +  +   G F+ ++
Sbjct:    80 DVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVLKKLKHVEGLLAKGVFEVVA 139

Query:   138 YNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVAR 197
               I P   +    K  +      + +    ++L   +   LG+YGMGG+GKTTL   +  
Sbjct:   140 EKI-PAPKV--EKKHIQTTVGLDAMVGRAWNSLMKDERRTLGLYGMGGVGKTTLLASINN 196

Query:   198 K-AENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTL--HEETESGRARSLCNRLKKEK 254
             K  E    FD VI+V VS+      IQ +   +LGL     + TE  +A  +CN L  +K
Sbjct:   197 KFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGLHRGWKQVTEKEKASYICNILNVKK 256

Query:   255 RILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDE 314
              +L +LD++W  +D + +G+P      GSK++ T RS DV  R M+       D L  DE
Sbjct:   257 FVL-LLDDLWSEVDLEKIGVPPLTRENGSKIVFTTRSKDVC-RDMEVDGEMKVDCLPPDE 314

Query:   315 AWSLFKKMAGDY-IEGSE-FKWVAREVAKECAGLPVSIVTVARALRNKRLF-EWKDALEQ 371
             AW LF+K  G   ++  E    +AR+VA++C GLP+++  + +A+ ++    EW+  +  
Sbjct:   315 AWELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHV 374

Query:   372 LRRPSSTNFKDIQPTAYKAIELSY 395
             L   SS  F  ++      ++ SY
Sbjct:   375 LNS-SSHEFPSMEEKILPVLKFSY 397

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

Fail to connect to STRING server

---

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	395
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	4e-46
pfam13401	124	pfam13401, AAA_22, AAA domain	2e-08
smart00382	148	smart00382, AAA, ATPases associated with a variety	4e-05
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.001
PLN03210	1153	PLN03210, PLN03210, Resistant to P	0.001

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

 Score =  159 bits (404), Expect = 4e-46
 Identities = 75/245 (30%), Positives = 125/245 (51%), Gaps = 11/245 (4%)

Query: 159 RMSTLNDILDAL--KNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI 216
           R   +  +++ L   + ++ ++GI GMGG+GKTTLAK++         FD V +V VS+ 
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 217 QDIRKIQGEFADKLGLT---LHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVG 273
               ++Q +   +LGL      E+ ES  A  +   L   KR L++LD++WE  D+  +G
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALL-RKRFLLVLDDVWEKNDWDKIG 119

Query: 274 IPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAG--DYIEGSE 331
           +P  DG  GS+V++T RS  V  R   + +    + L+ +E+W LF       +     E
Sbjct: 120 VPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPE 179

Query: 332 FKWVAREVAKECAGLPVSIVTVARALRNKR-LFEWKDALEQLRRPSSTNFKDIQPTAYKA 390
            + VA+E+ ++C GLP+++  +   L  K  + EW+  LEQL        +D        
Sbjct: 180 LEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNN--ELAGRDGLNEVLSI 237

Query: 391 IELSY 395
           + LSY
Sbjct: 238 LSLSY 242

Length = 285

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 51.9 bits (125), Expect = 2e-08
 Identities = 26/92 (28%), Positives = 47/92 (51%), Gaps = 5/92 (5%)

Query: 180 IYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETE 239
           + G  G GKTTL + +AR+  N     +V++VE   +   + +  +    LGL L   T 
Sbjct: 9   LTGESGSGKTTLLRRLARQLPN----RRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTT 64

Query: 240 SGRARSLCNRLKKEKRILVILDNIWENLDFQA 271
           +    ++ + LK+  R L+I+D   ++L  +A
Sbjct: 65  AELLEAILDALKRRGRPLLIIDEA-QHLSLEA 95

Length = 124

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

 Score = 43.1 bits (101), Expect = 4e-05
 Identities = 27/93 (29%), Positives = 39/93 (41%), Gaps = 3/93 (3%)

Query: 176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH 235
            ++ I G  G GKTTLA+ +AR+         VI+++   I +    Q       G    
Sbjct: 3   EVILIVGPPGSGKTTLARALAREL--GPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 236 EETESGRARSLCNRLKKEKRILVILDNIWENLD 268
              E  R R      +K K  ++ILD I   LD
Sbjct: 61  GSGEL-RLRLALALARKLKPDVLILDEITSLLD 92

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

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 39.1 bits (91), Expect = 0.001
 Identities = 21/123 (17%), Positives = 43/123 (34%), Gaps = 16/123 (13%)

Query: 157 ESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE--NEKLFDQVIFVEVS 214
           E  +  L D L   ++     + + G  G GKT+L +E+         K          +
Sbjct: 6   EEELERLLDALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPYA 65

Query: 215 QIQDIRKIQGEFADKLGLTL--------------HEETESGRARSLCNRLKKEKRILVIL 260
             Q +R++  +   +L   L                E        L   L + + ++++L
Sbjct: 66  FSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARARPLVLVL 125

Query: 261 DNI 263
           D++
Sbjct: 126 DDL 128

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

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

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 71/306 (23%), Positives = 127/306 (41%), Gaps = 61/306 (19%)

Query: 110 RRRLSKEAERQKEAIVKV------------REAGRFDRISYNIIPDDSLLLSN--KDYEA 155
           + +   E  + K+A+  V             EA   + I+ +++   +L  SN  +D+  
Sbjct: 129 QNKTEDEKIQWKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVG 188

Query: 156 FESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE--- 212
            E  ++ ++ +L  L++ +V M+GI+G  GIGKTT+A+ +  +   +  F   +F++   
Sbjct: 189 IEDHIAKMSSLLH-LESEEVRMVGIWGSSGIGKTTIARALFSRLSRQ--FQSSVFIDRAF 245

Query: 213 VSQIQDI----------------RKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRI 256
           +S+  +I                R    E  DK  + ++     G       RLK  K +
Sbjct: 246 ISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIY---HLGAME---ERLKHRKVL 299

Query: 257 LVILDNIWENLDFQAV-----GIPHGDGHKGSKVLLTARSLDVL-SRKMDSQQNF---SF 307
           + I D     LD Q V     G     G  GS++++  +    L +  +D        S 
Sbjct: 300 IFIDD-----LDDQDVLDALAGQTQWFGS-GSRIIVITKDKHFLRAHGIDHIYEVCLPSN 353

Query: 308 DVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKD 367
           ++  E    S FKK +        F  +A EVA     LP+ +  +   LR +   +W D
Sbjct: 354 ELALEMFCRSAFKKNS----PPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMD 409

Query: 368 ALEQLR 373
            L +LR
Sbjct: 410 MLPRLR 415

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	395
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	100.0
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.54
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.47
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.39
PF05729	166	NACHT: NACHT domain	99.37
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.3
PRK04841	903	transcriptional regulator MalT; Provisional	99.29
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.16
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.14
PRK13342	413	recombination factor protein RarA; Reviewed	99.14
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.09
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.09
PRK06893	229	DNA replication initiation factor; Validated	99.03
PRK12402	337	replication factor C small subunit 2; Reviewed	99.02
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.99
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.99
PF13173	128	AAA_14: AAA domain	98.98
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.97
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.97
PLN03025	319	replication factor C subunit; Provisional	98.96
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.95
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.94
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.92
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.92
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.91
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.91
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.91
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.9
KOG2028	554	consensus ATPase related to the helicase subunit o	98.89
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.86
PRK04195	482	replication factor C large subunit; Provisional	98.85
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.85
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.84
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.84
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.84
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.83
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.82
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.78
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.78
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.78
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.77
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.77
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.77
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.77
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.76
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.75
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.75
COG3899	849	Predicted ATPase [General function prediction only	98.74
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.74
PTZ00202	550	tuzin; Provisional	98.74
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.73
PRK13341	725	recombination factor protein RarA/unknown domain f	98.73
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.72
cd01128	249	rho_factor Transcription termination factor rho is	98.71
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.69
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.68
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.67
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.66
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK09087	226	hypothetical protein; Validated	98.65
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.64
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.63
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.62
PRK08084	235	DNA replication initiation factor; Provisional	98.6
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.6
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.6
PF14516	331	AAA_35: AAA-like domain	98.6
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.58
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.58
PRK08727	233	hypothetical protein; Validated	98.57
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.56
PRK09376	416	rho transcription termination factor Rho; Provisio	98.56
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.55
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.55
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.54
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.54
PHA02544	316	44 clamp loader, small subunit; Provisional	98.53
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.51
COG3903	414	Predicted ATPase [General function prediction only	98.5
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.49
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.48
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.47
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.45
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.43
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.42
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.41
CHL00095	821	clpC Clp protease ATP binding subunit	98.41
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.4
TIGR00767	415	rho transcription termination factor Rho. Members	98.4
PRK05642	234	DNA replication initiation factor; Validated	98.39
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.37
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.35
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.32
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.31
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.31
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.3
CHL00181	287	cbbX CbbX; Provisional	98.3
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.3
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.28
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.27
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.26
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.23
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.2
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.18
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.18
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.18
PF00004	132	AAA: ATPase family associated with various cellula	98.17
PRK10865	857	protein disaggregation chaperone; Provisional	98.16
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.16
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.15
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.15
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.14
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.14
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.13
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.13
CHL00176	638	ftsH cell division protein; Validated	98.13
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.1
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.1
smart00382	148	AAA ATPases associated with a variety of cellular	98.09
PRK06620	214	hypothetical protein; Validated	98.09
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.09
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.06
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.04
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.03
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.01
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.0
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.98
PRK10536	262	hypothetical protein; Provisional	97.97
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.96
CHL00195	489	ycf46 Ycf46; Provisional	97.93
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.89
PRK04132	846	replication factor C small subunit; Provisional	97.88
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.87
PRK08116	268	hypothetical protein; Validated	97.84
PRK12422	445	chromosomal replication initiation protein; Provis	97.84
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.82
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.82
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.82
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.81
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.79
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.77
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.75
PRK08118	167	topology modulation protein; Reviewed	97.75
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.74
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.72
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.71
PHA00729	226	NTP-binding motif containing protein	97.7
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.68
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.67
PRK12608	380	transcription termination factor Rho; Provisional	97.65
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.64
PRK07261	171	topology modulation protein; Provisional	97.62
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.62
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.61
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.61
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.6
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.59
PRK08939	306	primosomal protein DnaI; Reviewed	97.56
PRK12377	248	putative replication protein; Provisional	97.56
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.54
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.53
PRK08181	269	transposase; Validated	97.52
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.5
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.49
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.49
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.47
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.47
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.45
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.42
PRK06526	254	transposase; Provisional	97.42
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.42
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.4
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.37
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.36
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.36
PRK06921	266	hypothetical protein; Provisional	97.36
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.35
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.35
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.35
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.34
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.33
PRK10865	857	protein disaggregation chaperone; Provisional	97.32
PRK09183	259	transposase/IS protein; Provisional	97.31
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.3
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.29
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.29
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.26
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.25
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.22
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.21
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	97.21
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.2
PRK07952	244	DNA replication protein DnaC; Validated	97.16
CHL00095	821	clpC Clp protease ATP binding subunit	97.15
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.15
PRK06696	223	uridine kinase; Validated	97.14
PRK07132	299	DNA polymerase III subunit delta'; Validated	97.13
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.12
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.11
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.11
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.09
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.09
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.06
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.06
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.05
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.04
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.01
PRK09354	349	recA recombinase A; Provisional	97.01
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.01
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.0
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.0
PRK06835	329	DNA replication protein DnaC; Validated	97.0
PRK05541	176	adenylylsulfate kinase; Provisional	96.99
PHA02244	383	ATPase-like protein	96.97
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.97
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.95
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.92
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.92
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.9
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	96.9
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.88
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.88
PRK04296	190	thymidine kinase; Provisional	96.88
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.88
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.87
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.86
PRK06547	172	hypothetical protein; Provisional	96.85
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.85
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.84
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.84
PRK07667	193	uridine kinase; Provisional	96.8
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.79
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.79
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.79
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.78
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.77
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.76
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.75
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.74
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.74
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.73
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.73
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.72
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.71
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.7
PTZ00301	210	uridine kinase; Provisional	96.7
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.69
PRK15455	644	PrkA family serine protein kinase; Provisional	96.68
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.68
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.67
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.66
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.66
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.66
PRK05439	311	pantothenate kinase; Provisional	96.65
PTZ00035	337	Rad51 protein; Provisional	96.65
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.64
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.64
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.62
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.62
PRK00409	782	recombination and DNA strand exchange inhibitor pr	96.62
PRK06067	234	flagellar accessory protein FlaH; Validated	96.61
PRK13531	498	regulatory ATPase RavA; Provisional	96.61
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.6
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.59
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.59
PRK05480	209	uridine/cytidine kinase; Provisional	96.58
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.58
PRK08233	182	hypothetical protein; Provisional	96.57
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.56
PRK04328	249	hypothetical protein; Provisional	96.56
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.56
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.55
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.55
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.52
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.49
PRK06762	166	hypothetical protein; Provisional	96.48
PRK06217	183	hypothetical protein; Validated	96.48
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.47
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.46
CHL00206	2281	ycf2 Ycf2; Provisional	96.46
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.46
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.45
PRK14974	336	cell division protein FtsY; Provisional	96.45
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.43
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.43
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.41
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.4
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.4
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.4
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.39
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.39
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.39
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.38
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.38
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.37
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.37
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.36
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.35
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.34
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	96.33
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.32
PRK11823	446	DNA repair protein RadA; Provisional	96.29
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.28
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.28
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.28
PRK14527	191	adenylate kinase; Provisional	96.27
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.27
) 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	96.26
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.25
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.25
PRK03839	180	putative kinase; Provisional	96.25
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.25
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.25
PTZ00494	664	tuzin-like protein; Provisional	96.24
PRK00131	175	aroK shikimate kinase; Reviewed	96.24
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.22
PRK10867	433	signal recognition particle protein; Provisional	96.22
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.21
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.21
TIGR00959	428	ffh signal recognition particle protein. This mode	96.2
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.2
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.2
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.18
PRK13765	637	ATP-dependent protease Lon; Provisional	96.16
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.14
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.14
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.13
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.13
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.11
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.1
PRK04040	188	adenylate kinase; Provisional	96.1
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.08
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.07
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.07
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.06
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.06
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.06
PRK01184	184	hypothetical protein; Provisional	96.05
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.04
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.04
PRK08149	428	ATP synthase SpaL; Validated	96.03
PRK00625	173	shikimate kinase; Provisional	96.02
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.01
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.01
PF13245	76	AAA_19: Part of AAA domain	96.01
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.0
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.0
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.98
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.98
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.98
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.96
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	95.96
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.93
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	95.92
COG4240	300	Predicted kinase [General function prediction only	95.91
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	95.91
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.9
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.89
PRK00889	175	adenylylsulfate kinase; Provisional	95.88
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.88
PTZ00185	574	ATPase alpha subunit; Provisional	95.87
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.87
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.87
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.86
PHA02774	613	E1; Provisional	95.85
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.85
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	95.85
PTZ00088	229	adenylate kinase 1; Provisional	95.84
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.84
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.83
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.83
PRK07276	290	DNA polymerase III subunit delta'; Validated	95.83
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.82
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.81
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.8
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.79
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.78
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.78
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	95.78
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.77
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.77
COG0714	329	MoxR-like ATPases [General function prediction onl	95.77
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.76
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.76
PRK00300	205	gmk guanylate kinase; Provisional	95.76
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.76
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.75
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	95.75
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.73
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	95.73
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	95.73
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	95.73
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.71
PRK03846	198	adenylylsulfate kinase; Provisional	95.71
PRK14529	223	adenylate kinase; Provisional	95.7
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.69
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.69
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.69
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	95.69
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.68
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.68
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.68
PRK14737	186	gmk guanylate kinase; Provisional	95.67
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.67
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.66
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	95.66
PRK13947	171	shikimate kinase; Provisional	95.65
PRK06936	439	type III secretion system ATPase; Provisional	95.64
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.64
PRK12678	672	transcription termination factor Rho; Provisional	95.64
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.64
PRK05922	434	type III secretion system ATPase; Validated	95.63
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.63
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.62
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	95.6
PRK15453	290	phosphoribulokinase; Provisional	95.59
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.57
PRK13949	169	shikimate kinase; Provisional	95.55
PRK09099	441	type III secretion system ATPase; Provisional	95.55
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.54
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	95.54
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.53
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.53
PRK04182	180	cytidylate kinase; Provisional	95.53
PRK14530	215	adenylate kinase; Provisional	95.52
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	95.52
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	95.51
PRK05057	172	aroK shikimate kinase I; Reviewed	95.51
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.51
PRK14738	206	gmk guanylate kinase; Provisional	95.5
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.5
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.5
PRK07594	433	type III secretion system ATPase SsaN; Validated	95.5
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	95.5
PF07726	131	AAA_3: ATPase family associated with various cellu	95.5
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.49
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	95.48
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.48
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.46
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	95.46
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.45
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	95.44
PRK13975	196	thymidylate kinase; Provisional	95.43
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.43
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.42
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.41
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.4
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	95.38
PRK13948	182	shikimate kinase; Provisional	95.37
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.36
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	95.35
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	95.33
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.31
PRK00698	205	tmk thymidylate kinase; Validated	95.29
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.28
cd03116	159	MobB Molybdenum is an essential trace element in t	95.27
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.27
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.26
PRK13946	184	shikimate kinase; Provisional	95.23
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.23
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.22
PRK09825	176	idnK D-gluconate kinase; Provisional	95.22
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.2
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.2
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.19
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.19
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.19
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.18
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.18
COG4136	213	ABC-type uncharacterized transport system, ATPase	95.16
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.15
PLN02200	234	adenylate kinase family protein	95.15
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.14
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.14
PRK10875	615	recD exonuclease V subunit alpha; Provisional	95.11
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	95.11
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	95.1
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.09
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	95.09
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	95.09
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.08
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.08
CHL00060	494	atpB ATP synthase CF1 beta subunit	95.06
PRK05818	261	DNA polymerase III subunit delta'; Validated	95.03
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	95.02
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	95.02
PRK04196	460	V-type ATP synthase subunit B; Provisional	95.02
PRK13695	174	putative NTPase; Provisional	95.0
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	94.99
PRK09302	509	circadian clock protein KaiC; Reviewed	94.98
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.98
PRK03731	171	aroL shikimate kinase II; Reviewed	94.97
cd02117	212	NifH_like This family contains the NifH (iron prot	94.95
PRK14532	188	adenylate kinase; Provisional	94.94
PLN02348	395	phosphoribulokinase	94.94
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	94.9
PRK06761	282	hypothetical protein; Provisional	94.89

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2.2e-50  Score=411.84  Aligned_cols=356  Identities=28%  Similarity=0.451  Sum_probs=288.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHhhhhhhHhh-----------------cccc
Q 047930           37 QNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARA-----------------NKRC   99 (395)
Q Consensus        37 ~~l~~~i~~l~~~l~~i~~~l~~a~~~~~~~~~~~~~Wl~~lr~~a~d~ed~ld~~~~~-----------------~~~~   99 (395)
                      .+.++.+..|+..|..++.++++++.++. ....+..|...+++++|++||.++.+...                 +.-|
T Consensus        24 ~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~-~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c  102 (889)
T KOG4658|consen   24 DGKDNYILELKENLKALQSALEDLDAKRD-DLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLC  102 (889)
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHhhcc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHh
Confidence            67778899999999999999999998874 46888999999999999999998754211                 0112


Q ss_pred             ccCC-CcchhHhhHHHHHHHHHHHHHHHHHHcCCcceeeec-cCCCCccccccccccchhchHHHHHHHHHHhcCCCceE
Q 047930          100 FKGL-CPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYN-IIPDDSLLLSNKDYEAFESRMSTLNDILDALKNPDVNM  177 (395)
Q Consensus       100 ~~~~-~~~~~~r~~i~~~i~~~~~~l~~i~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~gr~~~~~~l~~~l~~~~~~v  177 (395)
                      +.+. ......-+.+++++..+...++.+...+.|..+... .+.......+...... +|.+..++++.+.|.+.+..+
T Consensus       103 ~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~~i  181 (889)
T KOG4658|consen  103 LCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDDVGI  181 (889)
T ss_pred             hhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCCCCE
Confidence            1111 123344455566666666666666545445444321 1111222222222333 899999999999999887799


Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc-ccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccch---hhhHHHHHHHHhcC
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE-NEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETE---SGRARSLCNRLKKE  253 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~-~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~---~~~~~~l~~~l~~~  253 (395)
                      ++|+||||+||||||++++|+.. +..+|+.++||+||+.++...++.+|+..++.......+   ......+.+.|. +
T Consensus       182 v~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~-~  260 (889)
T KOG4658|consen  182 VGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLE-G  260 (889)
T ss_pred             EEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhc-c
Confidence            99999999999999999999988 889999999999999999999999999998875444333   345667777777 7


Q ss_pred             CeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCC--CCCCc
Q 047930          254 KRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDY--IEGSE  331 (395)
Q Consensus       254 kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~--~~~~~  331 (395)
                      +||||||||||+..+|+.+..++|...+||+|++|||++.|+...++....++++.|+++|||.||++.++..  ...+.
T Consensus       261 krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~  340 (889)
T KOG4658|consen  261 KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPD  340 (889)
T ss_pred             CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccccccc
Confidence            9999999999999999999999999999999999999999976658888899999999999999999999854  23355


Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHHhhCC-CHHHHHHHHHHhcCCCCCCCCCchHhhhhhhcccC
Q 047930          332 FKWVAREVAKECAGLPVSIVTVARALRNK-RLFEWKDALEQLRRPSSTNFKDIQPTAYKAIELSY  395 (395)
Q Consensus       332 ~~~~~~~i~~~c~GlPlai~~i~~~l~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~L~lSY  395 (395)
                      +.++|++++++|+|+|||++++|+.|+.| +..+|+++++.+.+....+.++..+.++++|++||
T Consensus       341 i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSy  405 (889)
T KOG4658|consen  341 IEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSY  405 (889)
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccH
Confidence            88999999999999999999999999988 88899999999999877777777899999999999

>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=2.3e-38  Score=291.84  Aligned_cols=235  Identities=33%  Similarity=0.537  Sum_probs=183.3

Q ss_pred             hHHHHHHHHHHhcC--CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc-
Q 047930          159 RMSTLNDILDALKN--PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH-  235 (395)
Q Consensus       159 r~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-  235 (395)
                      |+.++++|.++|.+  ++.++|+|+|+||+||||||..++++...+.+|+.++|++++...+...++..|+..++.... 
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            68899999999987  789999999999999999999999986677889999999999999999999999999987633 


Q ss_pred             ---ccchhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhcCCCcceeecCCCCh
Q 047930          236 ---EETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKE  312 (395)
Q Consensus       236 ---~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~~~~~~~~~l~~L~~  312 (395)
                         ..........+.+.|. ++++||||||||+...|+.+...++....||+||||||+..++.........+++++|++
T Consensus        81 ~~~~~~~~~~~~~l~~~L~-~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLK-DKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHC-CTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             cccccccccccccchhhhc-cccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               2334446677777777 679999999999999998888888777789999999999888643333367999999999


Q ss_pred             HHHHHHHHHhhCCCC--CCCchHHHHHHHHHHcCCchHHHHHHHHHhhCC-CHHHHHHHHHHhcCCCCCCCCCchHhhhh
Q 047930          313 DEAWSLFKKMAGDYI--EGSEFKWVAREVAKECAGLPVSIVTVARALRNK-RLFEWKDALEQLRRPSSTNFKDIQPTAYK  389 (395)
Q Consensus       313 ~e~~~lf~~~~~~~~--~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~i~~  389 (395)
                      +|+++||.+.++...  .++...+.+++|+++|+|+||||+++|++|+.+ +..+|+.+++++...... ..+....++.
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~~~~~~~~~  238 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SRDYDRSVFS  238 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SSGSCHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccc
Confidence            999999999997543  344556689999999999999999999999754 788999999987765432 2223577888


Q ss_pred             hhcccC
Q 047930          390 AIELSY  395 (395)
Q Consensus       390 ~L~lSY  395 (395)
                      ++.+||
T Consensus       239 ~l~~s~  244 (287)
T PF00931_consen  239 ALELSY  244 (287)
T ss_dssp             HHHHHH
T ss_pred             cceech
Confidence            888887

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=100.00  E-value=1.9e-31  Score=285.81  Aligned_cols=232  Identities=22%  Similarity=0.337  Sum_probs=180.3

Q ss_pred             ccccchhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEe---CCc---------
Q 047930          151 KDYEAFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEV---SQI---------  216 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~---s~~---------  216 (395)
                      .+..+++|++..++++..+|.  .++.++|+|+||||+||||||+.+|+...  .+|++.+|+..   +..         
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~--~~F~g~vfv~~~~v~~~~~~~~~~~~  258 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLS--RQFQSSVFIDRAFISKSMEIYSSANP  258 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHh--hcCCeEEEeeccccccchhhcccccc
Confidence            445679999999999988875  55789999999999999999999999876  45888877642   111         


Q ss_pred             --CC-HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchh
Q 047930          217 --QD-IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLD  293 (395)
Q Consensus       217 --~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~  293 (395)
                        ++ ...+..+++..+......  .......+.+.+. ++|+||||||||+...|+.+.....+.++||+||||||+..
T Consensus       259 ~~~~~~~~l~~~~l~~il~~~~~--~~~~~~~~~~~L~-~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~  335 (1153)
T PLN03210        259 DDYNMKLHLQRAFLSEILDKKDI--KIYHLGAMEERLK-HRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKH  335 (1153)
T ss_pred             cccchhHHHHHHHHHHHhCCCCc--ccCCHHHHHHHHh-CCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHH
Confidence              01 122344444443221111  0111245666666 79999999999999999988766666678999999999999


Q ss_pred             hhhhcCCCcceeecCCCChHHHHHHHHHhhCCCC-CCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHHh
Q 047930          294 VLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYI-EGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQL  372 (395)
Q Consensus       294 va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~-~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~l  372 (395)
                      ++. ..+..++|+++.|++++||+||++.+|... +++++.+++++|+++|+|+||||+++|++|+.++..+|+.+++++
T Consensus       336 vl~-~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L  414 (1153)
T PLN03210        336 FLR-AHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRL  414 (1153)
T ss_pred             HHH-hcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            863 345567999999999999999999998543 445678899999999999999999999999999999999999998


Q ss_pred             cCCCCCCCCCchHhhhhhhcccC
Q 047930          373 RRPSSTNFKDIQPTAYKAIELSY  395 (395)
Q Consensus       373 ~~~~~~~~~~~~~~i~~~L~lSY  395 (395)
                      ....       ...|..+|++||
T Consensus       415 ~~~~-------~~~I~~~L~~SY  430 (1153)
T PLN03210        415 RNGL-------DGKIEKTLRVSY  430 (1153)
T ss_pred             HhCc-------cHHHHHHHHHhh
Confidence            7632       356889999998

syringae 6; Provisional

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

Probab=99.54  E-value=3.2e-12  Score=116.56  Aligned_cols=198  Identities=15%  Similarity=0.157  Sum_probs=124.9

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHH--
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNR--  249 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~--  249 (395)
                      ..+.+.+.|+|++|+|||||++.+++...... + ..+|+ +....+..+++..|+..++.+............+.+.  
T Consensus        40 ~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~-~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        40 SQREGFILITGEVGAGKTTLIRNLLKRLDQER-V-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLI  116 (269)
T ss_pred             hcCCCEEEEEcCCCCCHHHHHHHHHHhcCCCC-e-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHH
Confidence            34456899999999999999999998865321 1 22333 2334577889999999887764433222333333332  


Q ss_pred             --HhcCCeEEEEEeCCCCcc--ccchhcc--cc-CCCCCCcEEEEeecchhhh--h------hcCCCcceeecCCCChHH
Q 047930          250 --LKKEKRILVILDNIWENL--DFQAVGI--PH-GDGHKGSKVLLTARSLDVL--S------RKMDSQQNFSFDVLKEDE  314 (395)
Q Consensus       250 --l~~~kr~LlVlDdv~~~~--~~~~l~~--~l-~~~~~gs~iivTtR~~~va--~------~~~~~~~~~~l~~L~~~e  314 (395)
                        ...+++++||+||++...  .++.+..  .+ ........|++|....-..  .      ........+++++|+.+|
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence              335788999999998753  3443321  11 1122233556666532110  0      000113468899999999


Q ss_pred             HHHHHHHhhCCC---CCCCchHHHHHHHHHHcCCchHHHHHHHHHhh------C-C--CHHHHHHHHHHh
Q 047930          315 AWSLFKKMAGDY---IEGSEFKWVAREVAKECAGLPVSIVTVARALR------N-K--RLFEWKDALEQL  372 (395)
Q Consensus       315 ~~~lf~~~~~~~---~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~------~-~--~~~~w~~~l~~l  372 (395)
                      ..+++...+...   ....-..+..+.|++.|+|.|..|..++..+-      + +  +.+.++.++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~  266 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEI  266 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence            999998877421   11223346789999999999999999988862      1 1  566666666654

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=99.47  E-value=4.4e-13  Score=119.32  Aligned_cols=194  Identities=17%  Similarity=0.246  Sum_probs=105.1

Q ss_pred             hhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH---------
Q 047930          156 FESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF---------  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i---------  226 (395)
                      |+||+.+++.|.+++..+..+.+.|+|+.|+|||+|++.+.+...... + .++|+........ .....+         
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~-~-~~~y~~~~~~~~~-~~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKG-Y-KVVYIDFLEESNE-SSLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--E-E-CCCHHCCTTBSHH-HHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC-C-cEEEEecccchhh-hHHHHHHHHHHHHHH
Confidence            789999999999988876678899999999999999999999874321 1 2344444333222 222222         


Q ss_pred             -HHHh----CCCc-------cccchhhhHHHHHHHHhc-CCeEEEEEeCCCCcc-cc---ch----hccccC--CCCCCc
Q 047930          227 -ADKL----GLTL-------HEETESGRARSLCNRLKK-EKRILVILDNIWENL-DF---QA----VGIPHG--DGHKGS  283 (395)
Q Consensus       227 -~~~l----~~~~-------~~~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~-~~---~~----l~~~l~--~~~~gs  283 (395)
                       ...+    ....       ...........+.+.+.. +++++|||||+.... ..   ..    +...+.  ......
T Consensus        78 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen   78 LSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             CHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTE
T ss_pred             HHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCc
Confidence             1111    1100       011122345566666653 456999999996655 11   11    111111  123344


Q ss_pred             EEEEeecchhhhhh-------cCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHH
Q 047930          284 KVLLTARSLDVLSR-------KMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVT  352 (395)
Q Consensus       284 ~iivTtR~~~va~~-------~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~  352 (395)
                      .+|+++.+......       ..+....+.+++|+.+++++++...+.....-+.-.+..++|+..+||+|..|..
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            45555554433221       2344456999999999999999997643311111234569999999999999865

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

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.39  E-value=3.6e-11  Score=115.84  Aligned_cols=215  Identities=20%  Similarity=0.174  Sum_probs=136.3

Q ss_pred             cchhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      ..++||++++++|...+.    ......+.|+|++|+|||++++.++++.......-.++++++....+...++..++.+
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~  109 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQ  109 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHH
Confidence            458899999999888773    3445678899999999999999999987644323446778887777888999999999


Q ss_pred             hCCC-cc--ccchhhhHHHHHHHHhc-CCeEEEEEeCCCCcc------ccchhccccCCCCCCcE--EEEeecchhhhhh
Q 047930          230 LGLT-LH--EETESGRARSLCNRLKK-EKRILVILDNIWENL------DFQAVGIPHGDGHKGSK--VLLTARSLDVLSR  297 (395)
Q Consensus       230 l~~~-~~--~~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~------~~~~l~~~l~~~~~gs~--iivTtR~~~va~~  297 (395)
                      +... .+  ..+.......+.+.+.. ++..+||||+++...      .+..+.... ....+++  +|.++....+...
T Consensus       110 l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~-~~~~~~~v~vI~i~~~~~~~~~  188 (394)
T PRK00411        110 LFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAH-EEYPGARIGVIGISSDLTFLYI  188 (394)
T ss_pred             hcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhh-hccCCCeEEEEEEECCcchhhh
Confidence            8652 11  11223445566666653 566899999997643      122222211 1122333  5666665433211


Q ss_pred             ------cCCCcceeecCCCChHHHHHHHHHhhCCC----CCCCchHHHHHHHHHH----cCCchHHHHHHHHHh--h---
Q 047930          298 ------KMDSQQNFSFDVLKEDEAWSLFKKMAGDY----IEGSEFKWVAREVAKE----CAGLPVSIVTVARAL--R---  358 (395)
Q Consensus       298 ------~~~~~~~~~l~~L~~~e~~~lf~~~~~~~----~~~~~~~~~~~~i~~~----c~GlPlai~~i~~~l--~---  358 (395)
                            ..-....+.+.|++.++..+++...+...    ..++   +..+.|++.    .|..+.|+..+-...  .   
T Consensus       189 l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~---~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~  265 (394)
T PRK00411        189 LDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDD---EVLDLIADLTAREHGDARVAIDLLRRAGLIAERE  265 (394)
T ss_pred             cCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCH---hHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHc
Confidence                  01123478999999999999999876321    1122   233444444    455777777764432  1   


Q ss_pred             C--C-CHHHHHHHHHHh
Q 047930          359 N--K-RLFEWKDALEQL  372 (395)
Q Consensus       359 ~--~-~~~~w~~~l~~l  372 (395)
                      +  + +.+....+++.+
T Consensus       266 ~~~~I~~~~v~~a~~~~  282 (394)
T PRK00411        266 GSRKVTEEDVRKAYEKS  282 (394)
T ss_pred             CCCCcCHHHHHHHHHHH
Confidence            1  2 677787777765

>PF05729 NACHT: NACHT domain

Probab=99.37  E-value=7e-12  Score=105.41  Aligned_cols=144  Identities=24%  Similarity=0.329  Sum_probs=91.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCcCCHH---HHHHHHHHHhCCCccccchhhhHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIFVEVSQIQDIR---KIQGEFADKLGLTLHEETESGRARSLCN  248 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~wv~~s~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~l~~  248 (395)
                      +++.|+|.+|+||||+++.++........    +...+|.+.+......   .+...|...........     ...+..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~-----~~~~~~   75 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPI-----EELLQE   75 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhh-----HHHHHH
Confidence            57899999999999999999988665443    3456677765543322   34444444333221111     112233


Q ss_pred             HHhcCCeEEEEEeCCCCccc---------cchhccccCC--CCCCcEEEEeecchhh--hhhcCCCcceeecCCCChHHH
Q 047930          249 RLKKEKRILVILDNIWENLD---------FQAVGIPHGD--GHKGSKVLLTARSLDV--LSRKMDSQQNFSFDVLKEDEA  315 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~~~~---------~~~l~~~l~~--~~~gs~iivTtR~~~v--a~~~~~~~~~~~l~~L~~~e~  315 (395)
                      .+...++++||||++++...         +..+...+..  ..+++++|||+|....  ..........+++.+|++++.
T Consensus        76 ~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~  155 (166)
T PF05729_consen   76 LLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDI  155 (166)
T ss_pred             HHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHH
Confidence            33457899999999976532         2222222212  2568999999998665  222344446899999999999


Q ss_pred             HHHHHHhhC
Q 047930          316 WSLFKKMAG  324 (395)
Q Consensus       316 ~~lf~~~~~  324 (395)
                      .+++.+.+.
T Consensus       156 ~~~~~~~f~  164 (166)
T PF05729_consen  156 KQYLRKYFS  164 (166)
T ss_pred             HHHHHHHhh
Confidence            999988763

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.30  E-value=3e-10  Score=108.35  Aligned_cols=219  Identities=17%  Similarity=0.202  Sum_probs=133.9

Q ss_pred             cchhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhcccC-C---CCEEEEEEeCCcCCHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEK-L---FDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~---f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      ..++||+.++++|..++.    ....+.+.|+|++|+|||++++.+++...... .   --..+|+++....+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            468899999999988875    34456799999999999999999998753211 1   124678888777788889999


Q ss_pred             HHHHhC---CCccc--cchhhhHHHHHHHHh-cCCeEEEEEeCCCCcc-ccc----hhcccc-CCCC--CCcEEEEeecc
Q 047930          226 FADKLG---LTLHE--ETESGRARSLCNRLK-KEKRILVILDNIWENL-DFQ----AVGIPH-GDGH--KGSKVLLTARS  291 (395)
Q Consensus       226 i~~~l~---~~~~~--~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~-~~~----~l~~~l-~~~~--~gs~iivTtR~  291 (395)
                      |++++.   ...+.  .+..+....+.+.+. .+++++||||+++... ...    .+.... ....  ....+|.+|..
T Consensus        95 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~  174 (365)
T TIGR02928        95 LANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISND  174 (365)
T ss_pred             HHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECC
Confidence            999883   32211  122334455666664 3568899999997662 111    221110 1111  23345555544


Q ss_pred             hhhh----hhcCC--CcceeecCCCChHHHHHHHHHhhCC----CCCCCchHHHHHHHHHHcCCchHHHHHHH-HHh---
Q 047930          292 LDVL----SRKMD--SQQNFSFDVLKEDEAWSLFKKMAGD----YIEGSEFKWVAREVAKECAGLPVSIVTVA-RAL---  357 (395)
Q Consensus       292 ~~va----~~~~~--~~~~~~l~~L~~~e~~~lf~~~~~~----~~~~~~~~~~~~~i~~~c~GlPlai~~i~-~~l---  357 (395)
                      ....    .....  ....+.+.|++.++..+++..++..    ...+++..+.+.+++..+.|.|-.+..+. ...   
T Consensus       175 ~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a  254 (365)
T TIGR02928       175 LKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIA  254 (365)
T ss_pred             cchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence            3221    11111  1246899999999999999988731    11233333455667777789985543322 111   


Q ss_pred             -h-C--C-CHHHHHHHHHHh
Q 047930          358 -R-N--K-RLFEWKDALEQL  372 (395)
Q Consensus       358 -~-~--~-~~~~w~~~l~~l  372 (395)
                       . +  . +.+..+.+.+.+
T Consensus       255 ~~~~~~~it~~~v~~a~~~~  274 (365)
T TIGR02928       255 EREGAERVTEDHVEKAQEKI  274 (365)
T ss_pred             HHcCCCCCCHHHHHHHHHHH
Confidence             1 1  2 566666666554

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.29  E-value=6.3e-11  Score=126.31  Aligned_cols=193  Identities=13%  Similarity=0.143  Sum_probs=123.3

Q ss_pred             cchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC-CcCCHHHHHHHHHHHhCC
Q 047930          154 EAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS-QIQDIRKIQGEFADKLGL  232 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s-~~~~~~~~~~~i~~~l~~  232 (395)
                      ..++.|...++.+-.   ....+++.|+|++|.||||++.++...      +..++|+++. .+.++..++..++..++.
T Consensus        14 ~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~   84 (903)
T PRK04841         14 HNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQ   84 (903)
T ss_pred             cccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHH
Confidence            456667655554432   245689999999999999999998853      2258999996 445667777777777642


Q ss_pred             Cccc--------------cchhhhHHHHHHHHhc-CCeEEEEEeCCCCcc--ccchhcccc-CCCCCCcEEEEeecchhh
Q 047930          233 TLHE--------------ETESGRARSLCNRLKK-EKRILVILDNIWENL--DFQAVGIPH-GDGHKGSKVLLTARSLDV  294 (395)
Q Consensus       233 ~~~~--------------~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~--~~~~l~~~l-~~~~~gs~iivTtR~~~v  294 (395)
                      ....              ......+..+...+.. +.+++|||||+...+  ....+...+ .....+.++|||||...-
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~  164 (903)
T PRK04841         85 ATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPP  164 (903)
T ss_pred             hcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCC
Confidence            1111              0111223345555543 678999999996542  222222222 233456788899997421


Q ss_pred             h--hhcCCCcceeecC----CCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhC
Q 047930          295 L--SRKMDSQQNFSFD----VLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRN  359 (395)
Q Consensus       295 a--~~~~~~~~~~~l~----~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~  359 (395)
                      .  ...........+.    +|+.+|+.+||....+....    .+...+|.+.|+|.|+++..++..+..
T Consensus       165 ~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~~----~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        165 LGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPIE----AAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             CchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCCC----HHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence            1  0000112244555    99999999999887764332    224678999999999999998877753

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.16  E-value=1.7e-09  Score=100.49  Aligned_cols=205  Identities=17%  Similarity=0.107  Sum_probs=116.3

Q ss_pred             ccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          153 YEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      ...|+|++..++.|..++.     ......+.++|++|+|||+||+.+.+.....  +   ..+..+....... +...+
T Consensus         3 ~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~--~---~~~~~~~~~~~~~-l~~~l   76 (305)
T TIGR00635         3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--L---KITSGPALEKPGD-LAAIL   76 (305)
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--E---EEeccchhcCchh-HHHHH
Confidence            4579999999998888775     3345678899999999999999999876532  2   1222221112222 22222


Q ss_pred             HHhCCCc-------cccchhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhcCC
Q 047930          228 DKLGLTL-------HEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMD  300 (395)
Q Consensus       228 ~~l~~~~-------~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~~~  300 (395)
                      ..++...       +..+ ......+...+. +.+..+|+++..+...+..   +++   +.+-|..||+...+......
T Consensus        77 ~~~~~~~vl~iDEi~~l~-~~~~e~l~~~~~-~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLS-PAVEELLYPAME-DFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HhcccCCEEEEehHhhhC-HHHHHHhhHHHh-hhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHh
Confidence            2222111       0000 011122333333 3445556665544433321   111   24455667776443221111


Q ss_pred             -CcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhh------C--C-CHHHHHHHHH
Q 047930          301 -SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALR------N--K-RLFEWKDALE  370 (395)
Q Consensus       301 -~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~------~--~-~~~~w~~~l~  370 (395)
                       ....+++++++.++..+++.+.+......- -.+....|++.|+|.|-.+..++..+.      +  . +.+..+.++.
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~~~~-~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~  227 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLNVEI-EPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALE  227 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhCCCc-CHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence             234689999999999999998885322211 234678899999999987665554431      1  1 5566666666


Q ss_pred             Hh
Q 047930          371 QL  372 (395)
Q Consensus       371 ~l  372 (395)
                      .+
T Consensus       228 ~l  229 (305)
T TIGR00635       228 ML  229 (305)
T ss_pred             Hh
Confidence            64

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

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

Probab=99.14  E-value=7.9e-10  Score=101.32  Aligned_cols=179  Identities=16%  Similarity=0.151  Sum_probs=109.1

Q ss_pred             cccccchhchHHHH---HHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          150 NKDYEAFESRMSTL---NDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       150 ~~~~~~~~gr~~~~---~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      |.....++|.+..+   .-|...+..+++....+||++|+||||||+.+.......  |     ..++...+-.+-++++
T Consensus        20 P~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~--f-----~~~sAv~~gvkdlr~i   92 (436)
T COG2256          20 PKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAA--F-----EALSAVTSGVKDLREI   92 (436)
T ss_pred             CCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCc--e-----EEeccccccHHHHHHH
Confidence            34455666655443   234455667888888999999999999999999865532  3     3333332222222333


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc-ccchhccccCCCCCCcEEEE--eecchhhh--hhcCCC
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL-DFQAVGIPHGDGHKGSKVLL--TARSLDVL--SRKMDS  301 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~-~~~~l~~~l~~~~~gs~iiv--TtR~~~va--~~~~~~  301 (395)
                      ++                .-.+....+++.+|++|+|..-. .-++.  .+|.-.+|.-|+|  ||.|....  ....+.
T Consensus        93 ~e----------------~a~~~~~~gr~tiLflDEIHRfnK~QQD~--lLp~vE~G~iilIGATTENPsF~ln~ALlSR  154 (436)
T COG2256          93 IE----------------EARKNRLLGRRTILFLDEIHRFNKAQQDA--LLPHVENGTIILIGATTENPSFELNPALLSR  154 (436)
T ss_pred             HH----------------HHHHHHhcCCceEEEEehhhhcChhhhhh--hhhhhcCCeEEEEeccCCCCCeeecHHHhhh
Confidence            32                22223334789999999995432 11222  2334556776666  66665422  234567


Q ss_pred             cceeecCCCChHHHHHHHHHhhC-CC-----CCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          302 QQNFSFDVLKEDEAWSLFKKMAG-DY-----IEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       302 ~~~~~l~~L~~~e~~~lf~~~~~-~~-----~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ..++.+++|+.++...++.+.+- ..     ....--.+...-++..++|---+.-..
T Consensus       155 ~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~  212 (436)
T COG2256         155 ARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNL  212 (436)
T ss_pred             hheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHH
Confidence            78999999999999999998442 11     111112346678899999986544333

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.14  E-value=7.5e-10  Score=106.87  Aligned_cols=196  Identities=18%  Similarity=0.190  Sum_probs=116.8

Q ss_pred             cccccchhchHHHHHH---HHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLND---ILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~---l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      |.....|+|++..+..   +..++.......+.++|++|+||||||+.+++.....  |     +.++....-..-++.+
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~--~-----~~l~a~~~~~~~ir~i   80 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAP--F-----EALSAVTSGVKDLREV   80 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCC--E-----EEEecccccHHHHHHH
Confidence            3445678888877655   7777777777788999999999999999999876422  2     2222211111111222


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEE--eecchh--hhhhcCC
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLL--TARSLD--VLSRKMD  300 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iiv--TtR~~~--va~~~~~  300 (395)
                      ++.                .......+++.+|+||+++...  ..+.+...+.   .|..++|  ||.+..  +......
T Consensus        81 i~~----------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~S  141 (413)
T PRK13342         81 IEE----------------ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLS  141 (413)
T ss_pred             HHH----------------HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhc
Confidence            211                1111123578899999998653  3333433332   2444444  344432  2122334


Q ss_pred             CcceeecCCCChHHHHHHHHHhhCCC-CCC-CchHHHHHHHHHHcCCchHHHHHHHHHhh---CC-CHHHHHHHHHH
Q 047930          301 SQQNFSFDVLKEDEAWSLFKKMAGDY-IEG-SEFKWVAREVAKECAGLPVSIVTVARALR---NK-RLFEWKDALEQ  371 (395)
Q Consensus       301 ~~~~~~l~~L~~~e~~~lf~~~~~~~-~~~-~~~~~~~~~i~~~c~GlPlai~~i~~~l~---~~-~~~~w~~~l~~  371 (395)
                      ....+.+.+++.++...++.+.+... ... .-..+..+.|++.|+|.|..+..+.....   .. +.+.-+.++..
T Consensus       142 R~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~~~~It~~~v~~~~~~  218 (413)
T PRK13342        142 RAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQK  218 (413)
T ss_pred             cceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCCHHHHHHHHhh
Confidence            45789999999999999999876421 111 22245678899999999987755544432   11 55555555544

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.09  E-value=5.8e-09  Score=97.75  Aligned_cols=193  Identities=15%  Similarity=0.076  Sum_probs=105.4

Q ss_pred             cccccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQG  224 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  224 (395)
                      |.....|+|++..++.+...+.     ......+.++|++|+|||+||+.+++.....  +   .++..+.. .....+.
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~--~---~~~~~~~~-~~~~~l~   94 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--I---RITSGPAL-EKPGDLA   94 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC--e---EEEecccc-cChHHHH
Confidence            3456789999999888776664     2345678899999999999999999987532  1   12222211 1111222


Q ss_pred             HHHHHhCCCc----cccc--hhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhc
Q 047930          225 EFADKLGLTL----HEET--ESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRK  298 (395)
Q Consensus       225 ~i~~~l~~~~----~~~~--~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~  298 (395)
                      .++..+....    ++..  .....+.+...+. +.+..+++|+..+...+.   ..+   .+.+-|..||+...+....
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e-~~~~~~~l~~~~~~~~~~---~~l---~~~~li~at~~~~~l~~~L  167 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRLSPVVEEILYPAME-DFRLDIMIGKGPAARSIR---LDL---PPFTLIGATTRAGLLTSPL  167 (328)
T ss_pred             HHHHhcccCCEEEEecHhhcchHHHHHHHHHHH-hcceeeeeccCcccccee---ecC---CCceEEeecCCcccCCHHH
Confidence            2332222110    0000  0001111222222 233444444433222111   011   1234455666654332211


Q ss_pred             CC-CcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          299 MD-SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       299 ~~-~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      .. ....+++++++.++..+++.+.+......- -.+....|++.|+|.|-.+..+...
T Consensus       168 ~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~-~~~~~~~ia~~~~G~pR~a~~~l~~  225 (328)
T PRK00080        168 RDRFGIVQRLEFYTVEELEKIVKRSARILGVEI-DEEGALEIARRSRGTPRIANRLLRR  225 (328)
T ss_pred             HHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCc-CHHHHHHHHHHcCCCchHHHHHHHH
Confidence            11 234689999999999999998885432221 2346889999999999866666554

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.09  E-value=7.6e-09  Score=103.23  Aligned_cols=182  Identities=14%  Similarity=0.175  Sum_probs=117.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCC-------------------CEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLF-------------------DQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f-------------------~~~~  209 (395)
                      +.....++|.+..++.|.+++..++. ..+.++|..|+||||+|+.+.+.......+                   ..++
T Consensus        12 PqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dvi   91 (830)
T PRK07003         12 PKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYV   91 (830)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEE
Confidence            45567889999999999999887664 455799999999999999988865432111                   1122


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCc
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGS  283 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs  283 (395)
                      +++.+....+                     +.+..+.+.+.    .++.-++|||++....  .++.+...+.....+.
T Consensus        92 EIDAas~rgV---------------------DdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v  150 (830)
T PRK07003         92 EMDAASNRGV---------------------DEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHV  150 (830)
T ss_pred             EecccccccH---------------------HHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCe
Confidence            2222211111                     11222222221    2445689999997664  4666655554444577


Q ss_pred             EEEEeecch-hhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHH
Q 047930          284 KVLLTARSL-DVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTV  353 (395)
Q Consensus       284 ~iivTtR~~-~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i  353 (395)
                      ++|+||.+. .+.....+.+..+++.+++.++..+.+.+.+..+...- -.+....|++.++|..- ++..+
T Consensus       151 ~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~i-d~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        151 KFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAF-EPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             EEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHHHH
Confidence            777777763 44333455667999999999999999998875432221 13457889999988654 55543

>PRK06893 DNA replication initiation factor; Validated

Probab=99.03  E-value=4.5e-09  Score=93.15  Aligned_cols=154  Identities=16%  Similarity=0.164  Sum_probs=94.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ..+.+.++|++|+|||+|++.+++....+  ...+.|+++....   ...                    ..+.+.+.  
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~~~~~---~~~--------------------~~~~~~~~--   90 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPLSKSQ---YFS--------------------PAVLENLE--   90 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeHHHhh---hhh--------------------HHHHhhcc--
Confidence            34678999999999999999999986543  2335676653110   000                    11222222  


Q ss_pred             CeEEEEEeCCCCc---cccch-hccccCC-CCCCcEEEEeecch----------hhhhhcCCCcceeecCCCChHHHHHH
Q 047930          254 KRILVILDNIWEN---LDFQA-VGIPHGD-GHKGSKVLLTARSL----------DVLSRKMDSQQNFSFDVLKEDEAWSL  318 (395)
Q Consensus       254 kr~LlVlDdv~~~---~~~~~-l~~~l~~-~~~gs~iivTtR~~----------~va~~~~~~~~~~~l~~L~~~e~~~l  318 (395)
                      +.-+|+|||+|..   ..|+. +...+.. ...|+.+||+|.+.          .+.. .+.....++++++++++.+++
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~s-Rl~~g~~~~l~~pd~e~~~~i  169 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLAS-RLTWGEIYQLNDLTDEQKIIV  169 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHH-HHhcCCeeeCCCCCHHHHHHH
Confidence            2359999999864   34543 2222211 12355565554432          2222 233456889999999999999


Q ss_pred             HHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          319 FKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       319 f~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      +++.+......- -.++.+-|++.+.|..-.+..+-..
T Consensus       170 L~~~a~~~~l~l-~~~v~~~L~~~~~~d~r~l~~~l~~  206 (229)
T PRK06893        170 LQRNAYQRGIEL-SDEVANFLLKRLDRDMHTLFDALDL  206 (229)
T ss_pred             HHHHHHHcCCCC-CHHHHHHHHHhccCCHHHHHHHHHH
Confidence            998885332211 2347788999999887766555443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.02  E-value=1.1e-08  Score=96.33  Aligned_cols=203  Identities=14%  Similarity=0.114  Sum_probs=114.6

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCC-EEEEEEeCCcCCH--HHHHH--
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFD-QVIFVEVSQIQDI--RKIQG--  224 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-~~~wv~~s~~~~~--~~~~~--  224 (395)
                      |.....++|++..++.+..++..+..+.+.++|+.|+||||+|+.+.+..... .+. ..++++++.....  ..+..  
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~   89 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD-PWENNFTEFNVADFFDQGKKYLVEDP   89 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc-ccccceEEechhhhhhcchhhhhcCc
Confidence            44456788999999999998887776678899999999999999998876432 222 2344444321100  00000  


Q ss_pred             HHHHHhCCC-ccccchhhhHHHHHHHHh-----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchh-hh
Q 047930          225 EFADKLGLT-LHEETESGRARSLCNRLK-----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLD-VL  295 (395)
Q Consensus       225 ~i~~~l~~~-~~~~~~~~~~~~l~~~l~-----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~-va  295 (395)
                      .....++.. ............+.+...     ...+-+|||||+....  ....+...+......+++|+||.+.. +.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~  169 (337)
T PRK12402         90 RFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLI  169 (337)
T ss_pred             chhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCc
Confidence            000000000 000011122222222221     1334589999996542  22333333322334567877775432 22


Q ss_pred             hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          296 SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       296 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      .........+.+.+++.++...++.+.+...... --.+....+++.++|.+-.+....
T Consensus       170 ~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l  227 (337)
T PRK12402        170 PPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTL  227 (337)
T ss_pred             hhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2223345688999999999999998876432221 123467889999998876654433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.99  E-value=1.1e-08  Score=103.90  Aligned_cols=186  Identities=17%  Similarity=0.198  Sum_probs=114.8

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceE-EEEEecCCCcHHHHHHHHHHHhcccCC-------------------CCEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNM-LGIYGMGGIGKTTLAKEVARKAENEKL-------------------FDQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~  209 (395)
                      |.....++|.+..+..|.+++..++... +.++|+.|+||||+|+.+++.......                   |..++
T Consensus        12 P~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dvi   91 (944)
T PRK14949         12 PATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLI   91 (944)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEE
Confidence            3456678999999999988888777655 479999999999999999987643211                   11112


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL  287 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv  287 (395)
                      ++..+....+.. +++|...+.                ..-..+++-++|||++...  ...+.|...+-....+.++|+
T Consensus        92 EidAas~~kVDd-IReLie~v~----------------~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFIL  154 (944)
T PRK14949         92 EVDAASRTKVDD-TRELLDNVQ----------------YRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLL  154 (944)
T ss_pred             EeccccccCHHH-HHHHHHHHH----------------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEE
Confidence            221111111111 122222111                0001256779999999755  355555555543344566655


Q ss_pred             eecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          288 TARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       288 TtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      +|.+ ..+.......+..|++.+|+.++....+.+.+...... .-.+....|++.++|.|--+..+
T Consensus       155 aTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~-~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        155 ATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLP-FEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             ECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHH
Confidence            5544 44443334556799999999999999998877432221 12346788999999988644443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.99  E-value=4.8e-08  Score=92.71  Aligned_cols=195  Identities=14%  Similarity=0.187  Sum_probs=112.3

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..++.+...+..++. ..+.++|+.|+||||+|+.+.+..........       .+........++..
T Consensus        12 P~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~-------~pc~~c~~c~~~~~   84 (363)
T PRK14961         12 PQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITS-------NPCRKCIICKEIEK   84 (363)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCC-------CCCCCCHHHHHHhc
Confidence            34456788999988888888876654 45689999999999999999987542211100       00000000111111


Q ss_pred             HhCCCcc-----ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-hhhh
Q 047930          229 KLGLTLH-----EETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-DVLS  296 (395)
Q Consensus       229 ~l~~~~~-----~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-~va~  296 (395)
                      .......     .....+.+..+.+.+.    .+++-++|||++....  .++.+...+.......++|++|.+. .+..
T Consensus        85 ~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~  164 (363)
T PRK14961         85 GLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPK  164 (363)
T ss_pred             CCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhH
Confidence            0000000     0001112223333322    1455699999997654  4555555554444566777766543 3332


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVT  352 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~  352 (395)
                      ...+....+++.+++.++..+.+...+......- -.+....|++.++|.|-.+..
T Consensus       165 tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i-~~~al~~ia~~s~G~~R~al~  219 (363)
T PRK14961        165 TILSRCLQFKLKIISEEKIFNFLKYILIKESIDT-DEYALKLIAYHAHGSMRDALN  219 (363)
T ss_pred             HHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHH
Confidence            2334457899999999999999988764322111 123577899999998864433

>PF13173 AAA_14: AAA domain

Probab=98.98  E-value=2.3e-09  Score=85.98  Aligned_cols=121  Identities=20%  Similarity=0.216  Sum_probs=81.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      .+++.|.|+.|+|||||+++++.+..   ....++|++............+                ....+.+... .+
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~----------------~~~~~~~~~~-~~   61 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPD----------------LLEYFLELIK-PG   61 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhh----------------hHHHHHHhhc-cC
Confidence            46899999999999999999998765   2345677776554321110000                1122333322 36


Q ss_pred             eEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhh-----hcCCCcceeecCCCChHHH
Q 047930          255 RILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLS-----RKMDSQQNFSFDVLKEDEA  315 (395)
Q Consensus       255 r~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~-----~~~~~~~~~~l~~L~~~e~  315 (395)
                      +.+|+||++....+|......+.+..+..+|++|+.+.....     ...+....++|.||+-.|.
T Consensus        62 ~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   62 KKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            789999999988888886666656556789999998765431     2234455789999997763

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.97  E-value=1.4e-08  Score=100.05  Aligned_cols=201  Identities=13%  Similarity=0.132  Sum_probs=116.0

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.....++|.+..++.|.+++..++.. .+.++|..|+||||+|+.+.+.......-.. --+. +..+......+.|..
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~-~g~~-~~PCG~C~sC~~I~a   89 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGE-GGIT-AQPCGQCRACTEIDA   89 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcccc-ccCC-CCCCcccHHHHHHHc
Confidence            455677899999999999998877654 4588999999999999999887543110000 0000 000000111111110


Q ss_pred             Hh-----CCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeec-chhhhh
Q 047930          229 KL-----GLTLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTAR-SLDVLS  296 (395)
Q Consensus       229 ~l-----~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR-~~~va~  296 (395)
                      .-     ..+.......+.+..+.+.+.    .++.-++|||++...  ..++.+...+-....++++|++|. ...+..
T Consensus        90 G~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlp  169 (700)
T PRK12323         90 GRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPV  169 (700)
T ss_pred             CCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhh
Confidence            00     000000011122233333322    256679999999765  355666555544344556555554 455544


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ...+.+..+++.+++.++..+.+.+.+.......+ .+..+.|++.++|.|.-...+
T Consensus       170 TIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d-~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        170 TVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHE-VNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHH
Confidence            44456679999999999999999887743222222 235678999999999755444

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.97  E-value=2.7e-08  Score=92.65  Aligned_cols=176  Identities=17%  Similarity=0.190  Sum_probs=115.5

Q ss_pred             cchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhc----ccCCCCEEEEEEe-CCcCCHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAE----NEKLFDQVIFVEV-SQIQDIRKIQGEFA  227 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~----~~~~f~~~~wv~~-s~~~~~~~~~~~i~  227 (395)
                      ..++|.+...+.+..++..++. +...++|+.|+||||+|+.++...-    ...|+|...|... +.....++ .+++.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHH
Confidence            3567888888888888876654 5668999999999999999998642    2346676666442 22233333 33333


Q ss_pred             HHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCC--CccccchhccccCCCCCCcEEEEeecchh-hhhhcCCCcce
Q 047930          228 DKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIW--ENLDFQAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQQN  304 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~--~~~~~~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~~~  304 (395)
                      +.+.....                .+++-++|+|+++  +...++.+...+.....++.+|++|.+.+ +.......+..
T Consensus        83 ~~~~~~p~----------------~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~  146 (313)
T PRK05564         83 EEVNKKPY----------------EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQI  146 (313)
T ss_pred             HHHhcCcc----------------cCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhcee
Confidence            33322110                1345567777764  44567777777766667888888887643 22333455679


Q ss_pred             eecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          305 FSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       305 ~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      +++.++++++....+.+....  .+   .+.++.++..++|.|..+.
T Consensus       147 ~~~~~~~~~~~~~~l~~~~~~--~~---~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        147 YKLNRLSKEEIEKFISYKYND--IK---EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             eeCCCcCHHHHHHHHHHHhcC--CC---HHHHHHHHHHcCCCHHHHH
Confidence            999999999998888766431  11   2236678899999886543

>PLN03025 replication factor C subunit; Provisional

Probab=98.96  E-value=2.2e-08  Score=93.46  Aligned_cols=187  Identities=13%  Similarity=0.063  Sum_probs=111.5

Q ss_pred             ccccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCC-EEEEEEeCCcCCHHHHHHHHH
Q 047930          149 SNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFD-QVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       149 ~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .|.....++|..+.+..|..++..++.+.+.++|++|+||||+|..+++..... .|. .++-++.+...... ..++++
T Consensus         8 rP~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~eln~sd~~~~~-~vr~~i   85 (319)
T PLN03025          8 RPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP-NYKEAVLELNASDDRGID-VVRNKI   85 (319)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc-cCccceeeecccccccHH-HHHHHH
Confidence            345567788988888888887777777778899999999999999999876432 122 23333333332322 222222


Q ss_pred             HHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-hhhhhcCCCcce
Q 047930          228 DKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMDSQQN  304 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~~~~~  304 (395)
                      +.+......             +..++.-+++||+++...  ....+...+......+++|+++... .+..........
T Consensus        86 ~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~  152 (319)
T PLN03025         86 KMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAI  152 (319)
T ss_pred             HHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhc
Confidence            221110000             001356799999997653  2223333332223456677766542 221112233468


Q ss_pred             eecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          305 FSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       305 ~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      +++.++++++....+...+......-+ .+....|++.|+|..-.+.
T Consensus       153 i~f~~l~~~~l~~~L~~i~~~egi~i~-~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        153 VRFSRLSDQEILGRLMKVVEAEKVPYV-PEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHH
Confidence            999999999999999888743222111 2357788889988775443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.95  E-value=5.2e-08  Score=91.10  Aligned_cols=186  Identities=14%  Similarity=0.113  Sum_probs=110.4

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|++..++.+..++..+..+.+.++|+.|+||||+++.+.+...... +.. .+-++.+...... ...+.+.
T Consensus        13 P~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~-~~~~~i~~~~~~~~~~~-~~~~~i~   90 (319)
T PRK00440         13 PRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGED-WRENFLELNASDERGID-VIRNKIK   90 (319)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCc-cccceEEeccccccchH-HHHHHHH
Confidence            455567889999999999998877777789999999999999999998764322 211 2222222222221 1111111


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-hhhhhcCCCccee
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMDSQQNF  305 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~~~~~~  305 (395)
                      .+....+              .....+-++++|++....  ....+...+......+.+|+++... .+..........+
T Consensus        91 ~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~  156 (319)
T PRK00440         91 EFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVF  156 (319)
T ss_pred             HHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhee
Confidence            1110000              001235689999986542  2333433333333456677766432 2211112234578


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVT  352 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~  352 (395)
                      ++.++++++....+...+......- -.+....+++.++|.+--+..
T Consensus       157 ~~~~l~~~ei~~~l~~~~~~~~~~i-~~~al~~l~~~~~gd~r~~~~  202 (319)
T PRK00440        157 RFSPLKKEAVAERLRYIAENEGIEI-TDDALEAIYYVSEGDMRKAIN  202 (319)
T ss_pred             eeCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHH
Confidence            9999999999999988774322211 133678899999998876443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.94  E-value=1.5e-08  Score=89.91  Aligned_cols=169  Identities=15%  Similarity=0.167  Sum_probs=102.4

Q ss_pred             hHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccc
Q 047930          159 RMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEET  238 (395)
Q Consensus       159 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~  238 (395)
                      ....++.+..++.......+.|+|+.|+|||+||+.+++.....  ....++++++.-..      ..            
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~~~~------~~------------   81 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER--GKSAIYLPLAELAQ------AD------------   81 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEeHHHHHH------hH------------
Confidence            44566777777655566789999999999999999999876532  33456665543211      00            


Q ss_pred             hhhhHHHHHHHHhcCCeEEEEEeCCCCcc---ccch-hccccCC-CCCCcEEEEeecchhhh--------hhcCCCccee
Q 047930          239 ESGRARSLCNRLKKEKRILVILDNIWENL---DFQA-VGIPHGD-GHKGSKVLLTARSLDVL--------SRKMDSQQNF  305 (395)
Q Consensus       239 ~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---~~~~-l~~~l~~-~~~gs~iivTtR~~~va--------~~~~~~~~~~  305 (395)
                           ..+.+.+.  +.-+|||||++...   .|.. +...+.. ...+.++|+||+.....        .........+
T Consensus        82 -----~~~~~~~~--~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i  154 (226)
T TIGR03420        82 -----PEVLEGLE--QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVF  154 (226)
T ss_pred             -----HHHHhhcc--cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeE
Confidence                 01112222  23489999997543   3332 3322211 12234788888753211        1111224579


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVAR  355 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~  355 (395)
                      ++.++++++...++...+..... +--.+..+.+++.+.|.|..+..+..
T Consensus       155 ~l~~l~~~e~~~~l~~~~~~~~~-~~~~~~l~~L~~~~~gn~r~L~~~l~  203 (226)
T TIGR03420       155 QLPPLSDEEKIAALQSRAARRGL-QLPDEVADYLLRHGSRDMGSLMALLD  203 (226)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHH
Confidence            99999999999999876532111 11234567888889999988776643

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.

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

Probab=98.92  E-value=1.5e-07  Score=88.61  Aligned_cols=197  Identities=18%  Similarity=0.255  Sum_probs=129.0

Q ss_pred             hhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhC
Q 047930          156 FESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLG  231 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~  231 (395)
                      +.+|+.+++++...|.    +..+..+.|+|..|+|||+.++.+.+.......-..+++|++....+..+++..|+..++
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~   98 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLG   98 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcC
Confidence            7799999999887765    445556999999999999999999998765422222799999999999999999999996


Q ss_pred             C-CccccchhhhHHHHHHHHhc-CCeEEEEEeCCCCcccc--chhccccC-CCCCCcEEEE--eecchhhh-------hh
Q 047930          232 L-TLHEETESGRARSLCNRLKK-EKRILVILDNIWENLDF--QAVGIPHG-DGHKGSKVLL--TARSLDVL-------SR  297 (395)
Q Consensus       232 ~-~~~~~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~~~--~~l~~~l~-~~~~gs~iiv--TtR~~~va-------~~  297 (395)
                      . +....+..+....+.+.+.. ++.+++|||+++....-  +.+...+. ....+++|++  .+.+....       ..
T Consensus        99 ~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~rv~s  178 (366)
T COG1474          99 KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKS  178 (366)
T ss_pred             CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhhhhhh
Confidence            2 33334555666777777753 67899999999765322  22222221 1222455433  33333221       11


Q ss_pred             cCCCcceeecCCCChHHHHHHHHHhhC----CCCCCCchHHHHHHHHHHcCC-chHHHHHH
Q 047930          298 KMDSQQNFSFDVLKEDEAWSLFKKMAG----DYIEGSEFKWVAREVAKECAG-LPVSIVTV  353 (395)
Q Consensus       298 ~~~~~~~~~l~~L~~~e~~~lf~~~~~----~~~~~~~~~~~~~~i~~~c~G-lPlai~~i  353 (395)
                      ..+. ..+..+|-+.+|-.+++..++.    ....+++.-+.+..++..-+| -=.||..+
T Consensus       179 ~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         179 SLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             ccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence            2222 3488999999999999998873    223334444455555555554 34454444

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.92  E-value=6e-08  Score=95.15  Aligned_cols=198  Identities=16%  Similarity=0.121  Sum_probs=113.7

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+...+.|..++..++.. .+.++|+.|+||||+|+.+++.....+.+...+|.|.+.. .+......-+.
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~-~i~~~~h~dv~   88 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCL-AVRRGAHPDVL   88 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhH-HHhcCCCCceE
Confidence            344567889888888888888766654 4589999999999999999887643222221222221100 00000000000


Q ss_pred             HhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeec-chhhhhhcCCC
Q 047930          229 KLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTAR-SLDVLSRKMDS  301 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR-~~~va~~~~~~  301 (395)
                      .+...  .....+.+..+.+.+.    .+++-++|||+++..  ..+..+...+......+.+|++|. ...+.......
T Consensus        89 el~~~--~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SR  166 (504)
T PRK14963         89 EIDAA--SNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSR  166 (504)
T ss_pred             Eeccc--ccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcc
Confidence            00000  0011112223333322    145679999999754  345556555544344555555554 34443333455


Q ss_pred             cceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          302 QQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       302 ~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      ...+++.+++.++....+.+.+.......+ .+....|++.++|.+--+.
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~~~egi~i~-~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLLEAEGREAE-PEALQLVARLADGAMRDAE  215 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHH
Confidence            678999999999999999988743222211 2367889999999986553

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

Probab=98.91  E-value=6.7e-09  Score=83.64  Aligned_cols=116  Identities=27%  Similarity=0.338  Sum_probs=79.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc---CCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-cchhhhHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE---KLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-ETESGRARSLCNR  249 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~  249 (395)
                      +.+++.|+|.+|+|||++++.+.+.....   ..-..++|++++...+...+...|+.+++..... .+.......+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            34678999999999999999999875321   0123477999988889999999999999877665 3445566777888


Q ss_pred             HhcCCeEEEEEeCCCCc-c--ccchhccccCCCCCCcEEEEeecc
Q 047930          250 LKKEKRILVILDNIWEN-L--DFQAVGIPHGDGHKGSKVLLTARS  291 (395)
Q Consensus       250 l~~~kr~LlVlDdv~~~-~--~~~~l~~~l~~~~~gs~iivTtR~  291 (395)
                      +.+.+..+|||||++.. .  .++.+... .+ ..+.++|+..+.
T Consensus        83 l~~~~~~~lviDe~~~l~~~~~l~~l~~l-~~-~~~~~vvl~G~~  125 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHLFSDEFLEFLRSL-LN-ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHCTEEEEEEETTHHHHTHHHHHHHHHH-TC-SCBEEEEEEESS
T ss_pred             HHhcCCeEEEEeChHhcCCHHHHHHHHHH-Hh-CCCCeEEEEECh
Confidence            87666789999999764 2  22333222 22 567778887765

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.91  E-value=3.6e-08  Score=97.46  Aligned_cols=196  Identities=13%  Similarity=0.142  Sum_probs=114.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+.....|..++..++ ...+.++|+.|+||||+|+.+++.........      . ..+......+.+..
T Consensus        11 PktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~------~-~pCg~C~sC~~I~~   83 (702)
T PRK14960         11 PRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVT------S-TPCEVCATCKAVNE   83 (702)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCC------C-CCCccCHHHHHHhc
Confidence            4556778999999999999888665 45668999999999999999988754321110      0 00011111111111


Q ss_pred             HhCCCc-----cccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecc-hhhhh
Q 047930          229 KLGLTL-----HEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARS-LDVLS  296 (395)
Q Consensus       229 ~l~~~~-----~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~-~~va~  296 (395)
                      .-....     ......+.+..+...+.    .++.-++|||++....  ....+...+.....+.++|++|.+ ..+..
T Consensus        84 g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~  163 (702)
T PRK14960         84 GRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPI  163 (702)
T ss_pred             CCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhH
Confidence            000000     00001111222222221    2456789999997653  445555444343456677777765 33332


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      .....+..+++.+++.++....+.+.+......-+ .+....|++.++|.+-.+..+
T Consensus       164 TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id-~eAL~~IA~~S~GdLRdALnL  219 (702)
T PRK14960        164 TVISRCLQFTLRPLAVDEITKHLGAILEKEQIAAD-QDAIWQIAESAQGSLRDALSL  219 (702)
T ss_pred             HHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHH
Confidence            33455679999999999999999888753322222 235678999999987554433

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.91  E-value=6e-08  Score=96.83  Aligned_cols=196  Identities=17%  Similarity=0.177  Sum_probs=127.7

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhC
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLG  231 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~  231 (395)
                      ..+.+-|...++.|.+   ..+.+.+.|..|+|.|||||+.+.......   -..+.|.++.. +.++..+.+.++..++
T Consensus        18 ~~~~v~R~rL~~~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~~~---~~~v~Wlslde~dndp~rF~~yLi~al~   91 (894)
T COG2909          18 PDNYVVRPRLLDRLRR---ANDYRLILISAPAGFGKTTLLAQWRELAAD---GAAVAWLSLDESDNDPARFLSYLIAALQ   91 (894)
T ss_pred             cccccccHHHHHHHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhcCc---ccceeEeecCCccCCHHHHHHHHHHHHH
Confidence            4455566544444332   347899999999999999999999873221   34589999975 4568888888888876


Q ss_pred             CCcccc--------------chhhhHHHHHHHHhc-CCeEEEEEeCCCCc--cccch-hccccCCCCCCcEEEEeecchh
Q 047930          232 LTLHEE--------------TESGRARSLCNRLKK-EKRILVILDNIWEN--LDFQA-VGIPHGDGHKGSKVLLTARSLD  293 (395)
Q Consensus       232 ~~~~~~--------------~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~--~~~~~-l~~~l~~~~~gs~iivTtR~~~  293 (395)
                      ...+..              +-...+..+...+.. .+++.|||||..-.  ..... +.-.+....++-..|+|||+..
T Consensus        92 ~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP  171 (894)
T COG2909          92 QATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRP  171 (894)
T ss_pred             HhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCC
Confidence            432221              111234455554432 56899999997432  22222 2222234456788999999853


Q ss_pred             hh--hhcCCCcceeec----CCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhh
Q 047930          294 VL--SRKMDSQQNFSF----DVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALR  358 (395)
Q Consensus       294 va--~~~~~~~~~~~l----~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~  358 (395)
                      -.  ....-....+++    -.|+.+|+-++|....+...+..    -.+.+.+..+|-+-|+..++=.++
T Consensus       172 ~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~Ld~~----~~~~L~~~teGW~~al~L~aLa~~  238 (894)
T COG2909         172 QLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPLDAA----DLKALYDRTEGWAAALQLIALALR  238 (894)
T ss_pred             CCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCCChH----HHHHHHhhcccHHHHHHHHHHHcc
Confidence            21  001111223333    34899999999998875544433    367899999999999999988888

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.90  E-value=9.7e-08  Score=93.36  Aligned_cols=198  Identities=14%  Similarity=0.159  Sum_probs=114.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCcCCHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~~i~  227 (395)
                      |.....++|.+..+..|...+..++ .+.+.++|+.|+||||+|+.+++.......... -.+..+...    .....+.
T Consensus        17 P~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C----~~C~~i~   92 (507)
T PRK06645         17 PSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC----TNCISFN   92 (507)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC----hHHHHHh
Confidence            4455678898888888887776554 467889999999999999999987543211100 000000000    0011111


Q ss_pred             HHhCCCcc-----ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE-eecchhhh
Q 047930          228 DKLGLTLH-----EETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL-TARSLDVL  295 (395)
Q Consensus       228 ~~l~~~~~-----~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv-TtR~~~va  295 (395)
                      ........     .....+.+..+.+...    .+++-++|||+++..  ..++.+...+....+.+.+|+ ||+...+.
T Consensus        93 ~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~  172 (507)
T PRK06645         93 NHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIP  172 (507)
T ss_pred             cCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhh
Confidence            00000000     0001112222222221    246678999999865  346666655544445666654 44444554


Q ss_pred             hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHH
Q 047930          296 SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVT  352 (395)
Q Consensus       296 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~  352 (395)
                      .........+++.+++.++....+.+.+.......+ .+....|++.++|.+--+..
T Consensus       173 ~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie-~eAL~~Ia~~s~GslR~al~  228 (507)
T PRK06645        173 ATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTD-IEALRIIAYKSEGSARDAVS  228 (507)
T ss_pred             HHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHH
Confidence            333445678999999999999999988853332222 23567899999998755433

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

Probab=98.89  E-value=2.2e-08  Score=90.61  Aligned_cols=175  Identities=15%  Similarity=0.195  Sum_probs=109.2

Q ss_pred             ccchhchHHHHH---HHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          153 YEAFESRMSTLN---DILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       153 ~~~~~gr~~~~~---~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      ..+++|.+..+.   .|...+.++..+.+.+||++|+||||||+.+.+..+...    +.||..|....-..-.+.|.++
T Consensus       137 L~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  137 LDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             HHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHH
Confidence            344555443332   244445577888999999999999999999998876433    5677776554444444445443


Q ss_pred             hCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc-ccchhccccCCCCCCcEEEE--eecchhhh--hhcCCCcce
Q 047930          230 LGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL-DFQAVGIPHGDGHKGSKVLL--TARSLDVL--SRKMDSQQN  304 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~-~~~~l~~~l~~~~~gs~iiv--TtR~~~va--~~~~~~~~~  304 (395)
                      ...              ...+ .++|.+|++|+|..-. .-+++  .+|...+|+-++|  ||.+....  ......+.+
T Consensus       213 aq~--------------~~~l-~krkTilFiDEiHRFNksQQD~--fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~V  275 (554)
T KOG2028|consen  213 AQN--------------EKSL-TKRKTILFIDEIHRFNKSQQDT--FLPHVENGDITLIGATTENPSFQLNAALLSRCRV  275 (554)
T ss_pred             HHH--------------HHhh-hcceeEEEeHHhhhhhhhhhhc--ccceeccCceEEEecccCCCccchhHHHHhccce
Confidence            210              1111 2689999999995322 11222  3345667776666  66665431  224566789


Q ss_pred             eecCCCChHHHHHHHHHhh---CC------CCCCCc---hHHHHHHHHHHcCCchH
Q 047930          305 FSFDVLKEDEAWSLFKKMA---GD------YIEGSE---FKWVAREVAKECAGLPV  348 (395)
Q Consensus       305 ~~l~~L~~~e~~~lf~~~~---~~------~~~~~~---~~~~~~~i~~~c~GlPl  348 (395)
                      +-|++|+.++...++.+..   ++      ..+++.   -..+.+-++..|+|-.-
T Consensus       276 fvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  276 FVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             eEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence            9999999999999998743   21      122221   12456677778888754

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.86  E-value=5.3e-08  Score=97.30  Aligned_cols=196  Identities=14%  Similarity=0.147  Sum_probs=114.7

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceE-EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNM-LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..+..|...+..++... +.++|+.|+||||+|+.+.+.......+.       +.++......+.|..
T Consensus        12 P~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~~i~~   84 (647)
T PRK07994         12 PQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCREIEQ   84 (647)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHHHHHc
Confidence            4556778999999998888888766544 57999999999999999987654321100       001111111112211


Q ss_pred             HhCCCc---cc--cchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhh
Q 047930          229 KLGLTL---HE--ETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLS  296 (395)
Q Consensus       229 ~l~~~~---~~--~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~  296 (395)
                      .-..+.   +.  ....+.+..+.+.+.    .+++-++|||++...  ...+.+...+-....+.++|++|.+ ..+..
T Consensus        85 g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~  164 (647)
T PRK07994         85 GRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  164 (647)
T ss_pred             CCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccch
Confidence            000000   00  011122233333322    256679999999754  3455555555333445555555444 44543


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      .....+..|++.+|+.++....+.+.+.......+ ......|++.++|.|--+..+
T Consensus       165 TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~e-~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        165 TILSRCLQFHLKALDVEQIRQQLEHILQAEQIPFE-PRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             HHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHH
Confidence            34455779999999999999999987743222222 235678999999988744443

>PRK04195 replication factor C large subunit; Provisional

Probab=98.85  E-value=9e-08  Score=94.35  Aligned_cols=186  Identities=17%  Similarity=0.168  Sum_probs=113.4

Q ss_pred             ccccccchhchHHHHHHHHHHhcC----CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHH
Q 047930          149 SNKDYEAFESRMSTLNDILDALKN----PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQG  224 (395)
Q Consensus       149 ~~~~~~~~~gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  224 (395)
                      .|.....++|++..++.+..|+..    ...+.+.|+|++|+||||+|+.+++...    |+ .+.++.+...+.. ...
T Consensus         9 rP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~~-~i~   82 (482)
T PRK04195          9 RPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTAD-VIE   82 (482)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccHH-HHH
Confidence            345567789999999999888762    2267899999999999999999998764    32 3444555433322 223


Q ss_pred             HHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc------cchhccccCCCCCCcEEEEeecchh-hhh-
Q 047930          225 EFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD------FQAVGIPHGDGHKGSKVLLTARSLD-VLS-  296 (395)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~------~~~l~~~l~~~~~gs~iivTtR~~~-va~-  296 (395)
                      .++.......              .+...++-+||||+++....      +..+...+.  ..+..||+|+.+.. ... 
T Consensus        83 ~~i~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k  146 (482)
T PRK04195         83 RVAGEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLR  146 (482)
T ss_pred             HHHHHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchh
Confidence            3332221110              00112578999999976432      333333332  22344666665422 211 


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      ........+++.+++.++....+.+.+......-+ .+....|++.|+|..-.+......+
T Consensus       147 ~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~-~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        147 ELRNACLMIEFKRLSTRSIVPVLKRICRKEGIECD-DEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             hHhccceEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            12234568999999999999999887743222222 3467889999998776654433333

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.85  E-value=1.4e-07  Score=91.92  Aligned_cols=202  Identities=18%  Similarity=0.180  Sum_probs=117.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCC--C-----------------CEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKL--F-----------------DQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--f-----------------~~~~  209 (395)
                      |.....++|.+.....|...+..+.. ..+.++|++|+||||+|+.+.+.......  +                 ..+.
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~   89 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVI   89 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccE
Confidence            44566788988887778777776665 45789999999999999999887542111  0                 0122


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL  287 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv  287 (395)
                      .++.+......++ +++.+.....               . ..+++-++|+|++...  ...+.+...+........+|+
T Consensus        90 el~aa~~~gid~i-R~i~~~~~~~---------------p-~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Il  152 (472)
T PRK14962         90 ELDAASNRGIDEI-RKIRDAVGYR---------------P-MEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVL  152 (472)
T ss_pred             EEeCcccCCHHHH-HHHHHHHhhC---------------h-hcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEE
Confidence            2222222222211 1222111100               0 1145679999999654  234444444433333444444


Q ss_pred             eecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHHHHHhh--C-C-C
Q 047930          288 TARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTVARALR--N-K-R  361 (395)
Q Consensus       288 TtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~~~l~--~-~-~  361 (395)
                      +|.+ ..+..........+++.+++.++....+.+.+......- -.+....|++.++|. +.++..+-.+..  . + +
T Consensus       153 attn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i-~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~It  231 (472)
T PRK14962        153 ATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEI-DREALSFIAKRASGGLRDALTMLEQVWKFSEGKIT  231 (472)
T ss_pred             EeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCC
Confidence            4443 344333445667899999999999999988774322111 133577888877654 677777765443  1 2 5


Q ss_pred             HHHHHHHH
Q 047930          362 LFEWKDAL  369 (395)
Q Consensus       362 ~~~w~~~l  369 (395)
                      .+....++
T Consensus       232 ~e~V~~~l  239 (472)
T PRK14962        232 LETVHEAL  239 (472)
T ss_pred             HHHHHHHH
Confidence            55555544

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.84  E-value=1e-07  Score=95.08  Aligned_cols=199  Identities=11%  Similarity=0.129  Sum_probs=114.9

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCC--CEEEEEEeCCcCCHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLF--DQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f--~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      |....+++|.+..+..|.+++..++. ..+.++|+.|+||||+|+.+.+........  .....    ..+......+.|
T Consensus        12 P~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~i   87 (618)
T PRK14951         12 PRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRDI   87 (618)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHHH
Confidence            35567788988888889888887665 456899999999999999997764321110  00000    011111111222


Q ss_pred             HHHhCCC---ccc--cchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEee-cchhh
Q 047930          227 ADKLGLT---LHE--ETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTA-RSLDV  294 (395)
Q Consensus       227 ~~~l~~~---~~~--~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTt-R~~~v  294 (395)
                      ...-...   .+.  ....+.+..+.+.+.    .++.-++|||+++..  ..++.+...+......+++|++| ....+
T Consensus        88 ~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~ki  167 (618)
T PRK14951         88 DSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV  167 (618)
T ss_pred             HcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhh
Confidence            1100000   000  001112223333322    244558999999765  34555655554444556666555 43444


Q ss_pred             hhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          295 LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       295 a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      .......+..+++.+++.++....+.+.+......-+ .+....|++.++|.+--+..+
T Consensus       168 l~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie-~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        168 PVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAE-PQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHH
Confidence            4334456679999999999999999887743322222 235788899999987655444

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.84  E-value=1.3e-07  Score=93.12  Aligned_cols=186  Identities=14%  Similarity=0.182  Sum_probs=111.3

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccC-------------------CCCEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEK-------------------LFDQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~  209 (395)
                      |.....++|.+..+..|...+..++. ..+.++|+.|+||||+|+.+++......                   .|...+
T Consensus        12 P~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         12 PQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             cCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            34556788999999889888876554 4577999999999999999998643211                   111222


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL  287 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv  287 (395)
                      ++.........+ .+++++.+                ...-..+++-++|+|++...  ..++.+...+......+.+|+
T Consensus        92 eidaas~~gvd~-ir~ii~~~----------------~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL  154 (546)
T PRK14957         92 EIDAASRTGVEE-TKEILDNI----------------QYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFIL  154 (546)
T ss_pred             EeecccccCHHH-HHHHHHHH----------------HhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEE
Confidence            222211111111 11111111                11101256679999999654  345555555544444565665


Q ss_pred             ee-cchhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHH
Q 047930          288 TA-RSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTV  353 (395)
Q Consensus       288 Tt-R~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i  353 (395)
                      +| ....+.......+..+++.+++.++....+.+.+.......+ ......|++.++|.+- |+..+
T Consensus       155 ~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~e-~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        155 ATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSD-EQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             EECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHH
Confidence            44 434443333455679999999999998888886643222222 2356789999999765 44443

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.84  E-value=6e-08  Score=93.17  Aligned_cols=196  Identities=15%  Similarity=0.144  Sum_probs=116.7

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..+..|..++..++.. .+.++|+.|+||||+|+.+++..........   ..+....+    ...+..
T Consensus        14 P~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~---~pCg~C~s----C~~i~~   86 (484)
T PRK14956         14 PQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN---EPCNECTS----CLEITK   86 (484)
T ss_pred             CCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc---cccCCCcH----HHHHHc
Confidence            455677899988888888888877654 5789999999999999999987543211100   00111111    111111


Q ss_pred             HhCCCc---c--ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE-eecchhhhh
Q 047930          229 KLGLTL---H--EETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL-TARSLDVLS  296 (395)
Q Consensus       229 ~l~~~~---~--~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv-TtR~~~va~  296 (395)
                      ......   +  .....+.+..+.+.+.    .++.-++|||++...  ..++.+...+-.......+|+ ||....+..
T Consensus        87 g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~  166 (484)
T PRK14956         87 GISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPE  166 (484)
T ss_pred             cCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccH
Confidence            111000   0  0011122333333332    255669999999755  356666555533334555554 444455544


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      .....+..|.+.+++.++..+.+.+.+......-+ .+....|++.++|.+--...+
T Consensus       167 TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e-~eAL~~Ia~~S~Gd~RdAL~l  222 (484)
T PRK14956        167 TILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYD-QEGLFWIAKKGDGSVRDMLSF  222 (484)
T ss_pred             HHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCChHHHHHHH
Confidence            44556678999999999999999888753322222 346788999999998544333

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.83  E-value=8.5e-08  Score=94.33  Aligned_cols=186  Identities=13%  Similarity=0.153  Sum_probs=114.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceE-EEEEecCCCcHHHHHHHHHHHhcccCCC-------------------CEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNM-LGIYGMGGIGKTTLAKEVARKAENEKLF-------------------DQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~GiGKTtLa~~v~~~~~~~~~f-------------------~~~~  209 (395)
                      |....+++|.+..+..|.+++..++.+. +.++|+.|+||||+|+.+.+.......+                   ..++
T Consensus        12 P~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~   91 (509)
T PRK14958         12 PRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLF   91 (509)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEE
Confidence            4556778999999999999998766544 6899999999999999998865432111                   1123


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL  287 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv  287 (395)
                      .+..+....++++ +++++.+....                ..++.-++|||++...  ...+.+...+.....++++|+
T Consensus        92 eidaas~~~v~~i-R~l~~~~~~~p----------------~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIl  154 (509)
T PRK14958         92 EVDAASRTKVEDT-RELLDNIPYAP----------------TKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFIL  154 (509)
T ss_pred             EEcccccCCHHHH-HHHHHHHhhcc----------------ccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEE
Confidence            3332222222221 22222221100                1245668999999764  345555555544445666666


Q ss_pred             eecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          288 TARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       288 TtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      +|.+ ..+..........+++.+++.++....+.+.+......-+ ......|++.++|.|.-+..+
T Consensus       155 attd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~-~~al~~ia~~s~GslR~al~l  220 (509)
T PRK14958        155 ATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFE-NAALDLLARAANGSVRDALSL  220 (509)
T ss_pred             EECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCcHHHHHHH
Confidence            5543 3443333445678999999999988887777643222222 234678899999988655443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.82  E-value=2.5e-07  Score=86.77  Aligned_cols=199  Identities=14%  Similarity=0.080  Sum_probs=116.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCC--CCEEEEEEeCCcCCHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKL--FDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      |.....++|.+.....+...+..++. ..+.|+|+.|+||||+|..+....-....  +...   ....+.......+.+
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i   95 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQI   95 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHH
Confidence            45566788999999999998886664 45889999999999999999887543110  1111   001111111223333


Q ss_pred             HHHhC-------CCcccc-------chhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEE-
Q 047930          227 ADKLG-------LTLHEE-------TESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKV-  285 (395)
Q Consensus       227 ~~~l~-------~~~~~~-------~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~i-  285 (395)
                      ...-.       .+.+..       -..+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+.....+..+ 
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fi  175 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFI  175 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEE
Confidence            22211       000000       01123344555543    3567799999997553  344444444322234444 


Q ss_pred             EEeecchhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          286 LLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       286 ivTtR~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      ++|++...+.....+....+++.+++.++...++.+......   --.+....+++.++|.|.....+.
T Consensus       176 Lit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        176 LISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             EEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            444444444333345567999999999999999988532211   113356789999999998665443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.78  E-value=2.7e-07  Score=93.15  Aligned_cols=219  Identities=20%  Similarity=0.189  Sum_probs=125.2

Q ss_pred             cchhchHHHHHHHHHHhc----CCC-ceEEEEEecCCCcHHHHHHHHHHHhcc---cCCC--CEEEEEEeCCcCCHHHHH
Q 047930          154 EAFESRMSTLNDILDALK----NPD-VNMLGIYGMGGIGKTTLAKEVARKAEN---EKLF--DQVIFVEVSQIQDIRKIQ  223 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~f--~~~~wv~~s~~~~~~~~~  223 (395)
                      ..+.+|++++++|...|.    ... ..++.|+|++|+|||++++.+.+....   +...  -.+++|++....+...++
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIY  834 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAY  834 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHH
Confidence            346799999999887775    223 356789999999999999999876532   1112  236788887777888899


Q ss_pred             HHHHHHhCCCccc--cchhhhHHHHHHHHhc--CCeEEEEEeCCCCccc-cch-hccccC-CCCCCcEEEE--eecchhh
Q 047930          224 GEFADKLGLTLHE--ETESGRARSLCNRLKK--EKRILVILDNIWENLD-FQA-VGIPHG-DGHKGSKVLL--TARSLDV  294 (395)
Q Consensus       224 ~~i~~~l~~~~~~--~~~~~~~~~l~~~l~~--~kr~LlVlDdv~~~~~-~~~-l~~~l~-~~~~gs~iiv--TtR~~~v  294 (395)
                      ..|..++....+.  .+....+..+...+..  ....+||||+++.... -+. |...+. ....+++|++  ++.....
T Consensus       835 qvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdlDL  914 (1164)
T PTZ00112        835 QVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMDL  914 (1164)
T ss_pred             HHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCchhc
Confidence            9999888433222  1223345555555521  2345899999975421 111 211111 1223555544  3332221


Q ss_pred             h----hhcCC--CcceeecCCCChHHHHHHHHHhhCCC--CCCC-chHHHHHHHHHHcCCchHHHHHHHHHhhC----C-
Q 047930          295 L----SRKMD--SQQNFSFDVLKEDEAWSLFKKMAGDY--IEGS-EFKWVAREVAKECAGLPVSIVTVARALRN----K-  360 (395)
Q Consensus       295 a----~~~~~--~~~~~~l~~L~~~e~~~lf~~~~~~~--~~~~-~~~~~~~~i~~~c~GlPlai~~i~~~l~~----~-  360 (395)
                      .    .....  ....+.+.|++.++..+++..++...  ..++ .++-+++.++...|-.=.||.++-.....    + 
T Consensus       915 perLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikegskV  994 (1164)
T PTZ00112        915 PERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRGQKI  994 (1164)
T ss_pred             chhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCCCcc
Confidence            1    11111  12347789999999999999988532  1222 22333333333334445566555444431    2 


Q ss_pred             CHHHHHHHHHHh
Q 047930          361 RLFEWKDALEQL  372 (395)
Q Consensus       361 ~~~~w~~~l~~l  372 (395)
                      +.+.-..+.+.+
T Consensus       995 T~eHVrkAleei 1006 (1164)
T PTZ00112        995 VPRDITEATNQL 1006 (1164)
T ss_pred             CHHHHHHHHHHH
Confidence            455666666554

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.78  E-value=1.9e-07  Score=94.23  Aligned_cols=204  Identities=18%  Similarity=0.163  Sum_probs=118.4

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCC---CEEEEEEeCCc---CCHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLF---DQVIFVEVSQI---QDIRKIQG  224 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f---~~~~wv~~s~~---~~~~~~~~  224 (395)
                      ...+.++|+...+..+...+..+....+.|+|++|+||||||+.+++.......+   ...-|+.+...   .+...+..
T Consensus       151 ~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~  230 (615)
T TIGR02903       151 RAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTN  230 (615)
T ss_pred             CcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhH
Confidence            3445678988888888887776667789999999999999999998876433222   11234444321   12222211


Q ss_pred             HH---------------HHHhCCCc----------------cc--cchhhhHHHHHHHHhcCCeEEEEEeCCCCc--ccc
Q 047930          225 EF---------------ADKLGLTL----------------HE--ETESGRARSLCNRLKKEKRILVILDNIWEN--LDF  269 (395)
Q Consensus       225 ~i---------------~~~l~~~~----------------~~--~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~  269 (395)
                      .+               +...+...                ++  .-+......+.+.+. .++++++-|+.|..  ..|
T Consensus       231 ~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le-~~~v~~~~~~~~~~~~~~~  309 (615)
T TIGR02903       231 PLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLE-DKRVEFSSSYYDPDDPNVP  309 (615)
T ss_pred             HhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHh-hCeEEeecceeccCCcccc
Confidence            11               11111100                00  001123445666665 56777777666543  357


Q ss_pred             chhccccCCCCCCcEEEE--eecchhh-hhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          270 QAVGIPHGDGHKGSKVLL--TARSLDV-LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       270 ~~l~~~l~~~~~gs~iiv--TtR~~~v-a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      ..+...+....+...+++  ||++... ..........+.+.+++.++.+.++++.+...... --.++.+.|.+.+..-
T Consensus       310 ~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~-ls~eal~~L~~ys~~g  388 (615)
T TIGR02903       310 KYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVH-LAAGVEELIARYTIEG  388 (615)
T ss_pred             hhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHCCCcH
Confidence            767666555555544555  5564332 12122334578899999999999999987532211 1134556677766656


Q ss_pred             hHHHHHHHHH
Q 047930          347 PVSIVTVARA  356 (395)
Q Consensus       347 Plai~~i~~~  356 (395)
                      +-++..++..
T Consensus       389 Rraln~L~~~  398 (615)
T TIGR02903       389 RKAVNILADV  398 (615)
T ss_pred             HHHHHHHHHH
Confidence            7777777544

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.

>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=98.78  E-value=8.2e-08  Score=78.42  Aligned_cols=121  Identities=21%  Similarity=0.225  Sum_probs=71.6

Q ss_pred             chHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcccc
Q 047930          158 SRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEE  237 (395)
Q Consensus       158 gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~  237 (395)
                      |++..+..+...+..+..+.+.|+|++|+|||++++.+++.....  -..++++..+...........+...        
T Consensus         2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~--------   71 (151)
T cd00009           2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHF--------   71 (151)
T ss_pred             chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhh--------
Confidence            677788888888877667789999999999999999999986422  2335666665443322211111100        


Q ss_pred             chhhhHHHHHHHHhcCCeEEEEEeCCCCc-----cccchhccccCC---CCCCcEEEEeecch
Q 047930          238 TESGRARSLCNRLKKEKRILVILDNIWEN-----LDFQAVGIPHGD---GHKGSKVLLTARSL  292 (395)
Q Consensus       238 ~~~~~~~~l~~~l~~~kr~LlVlDdv~~~-----~~~~~l~~~l~~---~~~gs~iivTtR~~  292 (395)
                          ............++.+|++||++..     ..+..+...+..   ...+..+|+||...
T Consensus        72 ----~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          72 ----LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             ----hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence                0001111111246789999999854     122222222211   13577888888864

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.77  E-value=3.7e-07  Score=86.88  Aligned_cols=170  Identities=14%  Similarity=0.101  Sum_probs=104.0

Q ss_pred             cchhchHHHHHHHHHHhcCCC----------ceEEEEEecCCCcHHHHHHHHHHHhcccC-------------------C
Q 047930          154 EAFESRMSTLNDILDALKNPD----------VNMLGIYGMGGIGKTTLAKEVARKAENEK-------------------L  204 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~----------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~  204 (395)
                      ..++|.+..++.|..++..+.          .+.+.++|+.|+|||++|..+........                   |
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            457788888888888887543          45688999999999999999987643221                   1


Q ss_pred             CCEEEEEEeC-CcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccC
Q 047930          205 FDQVIFVEVS-QIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHG  277 (395)
Q Consensus       205 f~~~~wv~~s-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~  277 (395)
                      .|. .++... ....+.                     .+..+.+.+.    .+++-++|||+++...  ..+.+...+.
T Consensus        85 pD~-~~i~~~~~~i~i~---------------------~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LE  142 (394)
T PRK07940         85 PDV-RVVAPEGLSIGVD---------------------EVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVE  142 (394)
T ss_pred             CCE-EEeccccccCCHH---------------------HHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhh
Confidence            111 111111 011111                     1223333322    2455688899997552  3344444443


Q ss_pred             CCCCCcEEEEeecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          278 DGHKGSKVLLTARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       278 ~~~~gs~iivTtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      ....++.+|++|.+ ..+..........+.+.+++.++....+.+..+   .+   .+.+..++..++|.|....
T Consensus       143 ep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~---~~---~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        143 EPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG---VD---PETARRAARASQGHIGRAR  211 (394)
T ss_pred             cCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC---CC---HHHHHHHHHHcCCCHHHHH
Confidence            33445556666655 444444445667999999999999988875432   11   2346788999999997543

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.77  E-value=1.9e-07  Score=93.17  Aligned_cols=183  Identities=14%  Similarity=0.188  Sum_probs=112.8

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCC-------------------CCEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKL-------------------FDQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~  209 (395)
                      |.....++|.+..+..|..++..++. ..+.++|+.|+||||+|+.+.+.......                   |..++
T Consensus        12 P~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dvl   91 (709)
T PRK08691         12 PKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLL   91 (709)
T ss_pred             CCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceE
Confidence            45567889999999999998887664 46789999999999999999876432211                   10112


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCc
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGS  283 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs  283 (395)
                      .+..+....+                     +.+..+.+...    .+++-++|||++....  ....+...+......+
T Consensus        92 EidaAs~~gV---------------------d~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v  150 (709)
T PRK08691         92 EIDAASNTGI---------------------DNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHV  150 (709)
T ss_pred             EEeccccCCH---------------------HHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCc
Confidence            2222111111                     11222222211    1456799999997543  2344444443333456


Q ss_pred             EEEEeecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          284 KVLLTARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       284 ~iivTtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      ++|++|.+ ..+.....+.+..+++.+++.++....+.+.+......-+ ......|++.++|.+.-+..+-
T Consensus       151 ~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~id-~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        151 KFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYE-PPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             EEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCcC-HHHHHHHHHHhCCCHHHHHHHH
Confidence            67666654 3333222344567899999999999999988753322221 2357889999999986554443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.77  E-value=3.5e-07  Score=88.85  Aligned_cols=185  Identities=12%  Similarity=0.113  Sum_probs=114.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccC-------------------CCCEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEK-------------------LFDQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~f~~~~  209 (395)
                      |....+++|.+...+.|.+.+..++.. .+.++|+.|+||||+|+.+........                   .+..++
T Consensus         9 P~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~   88 (491)
T PRK14964          9 PSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVI   88 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEE
Confidence            355677889988888888888766654 788999999999999999987432110                   111133


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEE
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLL  287 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iiv  287 (395)
                      .++.+......+ .+++.+......                ..++.-++|+|++....  ..+.+...+....+++++|+
T Consensus        89 eidaas~~~vdd-IR~Iie~~~~~P----------------~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIl  151 (491)
T PRK14964         89 EIDAASNTSVDD-IKVILENSCYLP----------------ISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFIL  151 (491)
T ss_pred             EEecccCCCHHH-HHHHHHHHHhcc----------------ccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEE
Confidence            444433333322 222222211000                01456689999996543  45555555544445666666


Q ss_pred             eec-chhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHH
Q 047930          288 TAR-SLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVT  352 (395)
Q Consensus       288 TtR-~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~  352 (395)
                      +|. ...+..........+++.+++.++....+.+.+......-+ .+....|++.++|.+-.+..
T Consensus       152 atte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~-~eAL~lIa~~s~GslR~als  216 (491)
T PRK14964        152 ATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHD-EESLKLIAENSSGSMRNALF  216 (491)
T ss_pred             EeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHH
Confidence            554 34454334456678999999999999999988753322222 23567899999998864433

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.77  E-value=2.3e-07  Score=91.58  Aligned_cols=197  Identities=14%  Similarity=0.135  Sum_probs=110.7

Q ss_pred             cccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|++..++.+..++..++ .+.+.++|+.|+||||+|+.+.+......      |.... .+......+.+..
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~------~~~~~-~Cg~C~sCr~i~~   84 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLN------PKDGD-CCNSCSVCESINT   84 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCC------CCCCC-CCcccHHHHHHHc
Confidence            4556678899999999999887654 44688999999999999999988754322      11100 1111111111111


Q ss_pred             HhCCCccc-----cchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEee-cchhhhh
Q 047930          229 KLGLTLHE-----ETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTA-RSLDVLS  296 (395)
Q Consensus       229 ~l~~~~~~-----~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTt-R~~~va~  296 (395)
                      ........     ....+.+..+.+.+.    .+++-++|+|++...  ..+..+...+.....++.+|++| ....+..
T Consensus        85 ~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~  164 (605)
T PRK05896         85 NQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPL  164 (605)
T ss_pred             CCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhH
Confidence            11000000     001111222222221    123447999999654  34555554443333455555544 4344433


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTVA  354 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i~  354 (395)
                      .....+..+++.++++++....+...+......-+ .+.+..+++.++|.|- |+..+-
T Consensus       165 TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is-~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        165 TIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIE-DNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             HHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCcHHHHHHHHH
Confidence            33445678999999999999999887743221111 2357789999999765 444433

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.76  E-value=5.8e-07  Score=85.36  Aligned_cols=186  Identities=16%  Similarity=0.181  Sum_probs=111.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccC--------------------CCCEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEK--------------------LFDQV  208 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------------~f~~~  208 (395)
                      |.....++|.+..++.+..++..++. ..+.++|+.|+||||+|+.+........                    +++. 
T Consensus        10 p~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-   88 (355)
T TIGR02397        10 PQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-   88 (355)
T ss_pred             CCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-
Confidence            34456788999999999998876654 4678999999999999999987753211                    2222 


Q ss_pred             EEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEE
Q 047930          209 IFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVL  286 (395)
Q Consensus       209 ~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~ii  286 (395)
                      +++..+...... -.+++...+....                ..+++-++|+|++...  .....+...+......+.+|
T Consensus        89 ~~~~~~~~~~~~-~~~~l~~~~~~~p----------------~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lI  151 (355)
T TIGR02397        89 IEIDAASNNGVD-DIREILDNVKYAP----------------SSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFI  151 (355)
T ss_pred             EEeeccccCCHH-HHHHHHHHHhcCc----------------ccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEE
Confidence            222222111111 1122222211100                0134568999998654  33445544443334466666


Q ss_pred             Eeecchh-hhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          287 LTARSLD-VLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       287 vTtR~~~-va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      ++|.+.. +..........+++.++++++....+...+......-+ .+.+..+++.++|.|..+....
T Consensus       152 l~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~-~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       152 LATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIE-DEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             EEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCChHHHHHHH
Confidence            7765533 22222334568899999999999999887743221111 2467889999999987655443

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.75  E-value=6.4e-07  Score=84.50  Aligned_cols=198  Identities=16%  Similarity=0.074  Sum_probs=114.9

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEE----EEEeCCcCCHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVI----FVEVSQIQDIRKIQG  224 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~----wv~~s~~~~~~~~~~  224 (395)
                      |.....++|.+.....|.+.+..++.. .+.++|+.|+||+|+|..+....-.+.......    -.+... .......+
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~-~~~c~~c~   93 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAI-DPDHPVAR   93 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccC-CCCChHHH
Confidence            344567889999999999988877654 588999999999999999888754322111000    000000 00001111


Q ss_pred             HHHHHhCCC-------cccc-------chhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcE
Q 047930          225 EFADKLGLT-------LHEE-------TESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSK  284 (395)
Q Consensus       225 ~i~~~l~~~-------~~~~-------~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  284 (395)
                      .+...-..+       .++.       -..+.+..+.+.+.    .+++.++||||++..  ...+.+...+.....++.
T Consensus        94 ~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~  173 (365)
T PRK07471         94 RIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSL  173 (365)
T ss_pred             HHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeE
Confidence            221111000       0000       01122334444442    256779999999654  344555444433344566


Q ss_pred             EEEeecch-hhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          285 VLLTARSL-DVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       285 iivTtR~~-~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      +|++|.+. .+..........+.+.+++.++..+++......   .++  .....++..++|.|+....+
T Consensus       174 ~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~~--~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        174 FLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LPD--DPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CCH--HHHHHHHHHcCCCHHHHHHH
Confidence            67766654 443444556779999999999999999886522   111  12267899999999866544

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.75  E-value=5.1e-07  Score=77.56  Aligned_cols=159  Identities=19%  Similarity=0.162  Sum_probs=94.3

Q ss_pred             HHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhccc--------------------CCCCEEEEEEeCC-cCCHHHHH
Q 047930          166 ILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENE--------------------KLFDQVIFVEVSQ-IQDIRKIQ  223 (395)
Q Consensus       166 l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~--------------------~~f~~~~wv~~s~-~~~~~~~~  223 (395)
                      +.+.+..++. ..+.++|+.|+||||+|+.+.......                    .+.+. .++.... .... +..
T Consensus         4 l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~-~~i   81 (188)
T TIGR00678         4 LKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKV-DQV   81 (188)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCH-HHH
Confidence            4445555554 678899999999999999998875432                    11122 1221111 1111 111


Q ss_pred             HHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-hhhhhcCC
Q 047930          224 GEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMD  300 (395)
Q Consensus       224 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~  300 (395)
                      +++.+.+....                ..+.+-++|+||+....  ..+.+...+......+.+|++|++. .+......
T Consensus        82 ~~i~~~~~~~~----------------~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~s  145 (188)
T TIGR00678        82 RELVEFLSRTP----------------QESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRS  145 (188)
T ss_pred             HHHHHHHccCc----------------ccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHh
Confidence            12222221100                01456789999996542  3455555554444466677777653 33222334


Q ss_pred             CcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          301 SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       301 ~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      ....+++.+++.++..+.+.+. +  . +   .+.+..|++.++|.|..
T Consensus       146 r~~~~~~~~~~~~~~~~~l~~~-g--i-~---~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       146 RCQVLPFPPLSEEALLQWLIRQ-G--I-S---EEAAELLLALAGGSPGA  187 (188)
T ss_pred             hcEEeeCCCCCHHHHHHHHHHc-C--C-C---HHHHHHHHHHcCCCccc
Confidence            5568999999999999999887 2  2 1   24688999999998853

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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.74  E-value=1.4e-07  Score=98.40  Aligned_cols=202  Identities=16%  Similarity=0.193  Sum_probs=118.1

Q ss_pred             hhchHHHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCcCC---HHHHHHHHHH
Q 047930          156 FESRMSTLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAENE-KLFDQVIFVEVSQIQD---IRKIQGEFAD  228 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~s~~~~---~~~~~~~i~~  228 (395)
                      ++||+.+++.|...+.   .+...++.+.|.+|+|||+|++.|......+ ..|-.-.+-....+.+   ..+.+++++.
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            6799999999988876   4566799999999999999999999886544 2221111111111211   2233333333


Q ss_pred             Hh-------------------CCCcc--------------------c---cchhhh-----HHHHHHHHhcCCeEEEEEe
Q 047930          229 KL-------------------GLTLH--------------------E---ETESGR-----ARSLCNRLKKEKRILVILD  261 (395)
Q Consensus       229 ~l-------------------~~~~~--------------------~---~~~~~~-----~~~l~~~l~~~kr~LlVlD  261 (395)
                      ++                   +....                    +   ......     ...+.......++.++|+|
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            33                   11000                    0   000011     1122222334679999999


Q ss_pred             CC-CCccc-cc---hhccccC---CCCCCcEEEEeecch-hhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCch
Q 047930          262 NI-WENLD-FQ---AVGIPHG---DGHKGSKVLLTARSL-DVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEF  332 (395)
Q Consensus       262 dv-~~~~~-~~---~l~~~l~---~~~~gs~iivTtR~~-~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~  332 (395)
                      |+ |-+.. .+   .+.....   ...+-.-.+.|.+.. ............|.|.||+..+...+....++.....  .
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~--~  239 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLL--P  239 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcccc--c
Confidence            99 64432 11   1111111   000011123333332 1112234556799999999999999999998753322  2


Q ss_pred             HHHHHHHHHHcCCchHHHHHHHHHhhC
Q 047930          333 KWVAREVAKECAGLPVSIVTVARALRN  359 (395)
Q Consensus       333 ~~~~~~i~~~c~GlPlai~~i~~~l~~  359 (395)
                      .+..+.|+++..|+|+.+..+-..|..
T Consensus       240 ~p~~~~i~~kt~GnPfFi~e~lk~l~~  266 (849)
T COG3899         240 APLLELIFEKTKGNPFFIEEFLKALYE  266 (849)
T ss_pred             chHHHHHHHHhcCCCccHHHHHHHHHh
Confidence            346889999999999999999888864

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.74  E-value=3.5e-07  Score=94.48  Aligned_cols=193  Identities=14%  Similarity=0.070  Sum_probs=110.9

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.....++|.+..++.|..++..++.. .+.++|+.|+||||+|+.+.+..........       ..+......+.|..
T Consensus        11 P~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~-------~pCg~C~sC~~~~~   83 (824)
T PRK07764         11 PATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTS-------TPCGECDSCVALAP   83 (824)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCC-------CCCcccHHHHHHHc
Confidence            344567889999899999988876654 4789999999999999999887643211100       00000000111110


Q ss_pred             HhCC-------CccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhh
Q 047930          229 KLGL-------TLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDV  294 (395)
Q Consensus       229 ~l~~-------~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~v  294 (395)
                      .-..       ........+.+..+.+.+.    .++.-++|||++...  ..++.|...+..-...+.+|++|.+ ..+
T Consensus        84 g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kL  163 (824)
T PRK07764         84 GGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKV  163 (824)
T ss_pred             CCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            0000       0000001112222222221    245568899999765  3455565555444456666655543 444


Q ss_pred             hhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH
Q 047930          295 LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       295 a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai  350 (395)
                      .......+..|++.+++.++...++.+.+.......+ ......|++.++|.+..+
T Consensus       164 l~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id-~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        164 IGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVE-PGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             hHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHH
Confidence            4334456779999999999999998887643222211 234677889999988433

>PTZ00202 tuzin; Provisional

Probab=98.74  E-value=3.9e-07  Score=85.53  Aligned_cols=164  Identities=14%  Similarity=0.205  Sum_probs=105.8

Q ss_pred             ccccccchhchHHHHHHHHHHhcC---CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          149 SNKDYEAFESRMSTLNDILDALKN---PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       149 ~~~~~~~~~gr~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .|.+...|+||+.++..|...|.+   ...+++.|.|++|+|||||++.+.....    + ..++++..   +..++++.
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~eElLr~  328 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTEDTLRS  328 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHHHHHHH
Confidence            456677899999999999888753   2346899999999999999999996543    1 13333333   67999999


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHh----c-CCeEEEEEeCCCCccc----cchhccccCCCCCCcEEEEeecchhh--
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLK----K-EKRILVILDNIWENLD----FQAVGIPHGDGHKGSKVLLTARSLDV--  294 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~----~-~kr~LlVlDdv~~~~~----~~~l~~~l~~~~~gs~iivTtR~~~v--  294 (395)
                      ++.+|+.+.. ....+....+.+.+.    . +++.+||+-= .+-..    +.+. ..+.....-|.|++----+.+  
T Consensus       329 LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPVLII~l-reg~~l~rvyne~-v~la~drr~ch~v~evpleslt~  405 (550)
T PTZ00202        329 VVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPLLVLKL-REGSSLQRVYNEV-VALACDRRLCHVVIEVPLESLTI  405 (550)
T ss_pred             HHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEe-cCCCcHHHHHHHH-HHHHccchhheeeeeehHhhcch
Confidence            9999997432 223345555555553    2 6667777642 22222    2221 233344456667764443322  


Q ss_pred             hhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          295 LSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       295 a~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      +....+.-..|-+++++.++|..+-.+..
T Consensus       406 ~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        406 ANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            12233455688999999999988876654

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.73  E-value=3.1e-07  Score=90.95  Aligned_cols=179  Identities=16%  Similarity=0.193  Sum_probs=109.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCC-------------------CCEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKL-------------------FDQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~  209 (395)
                      |.....++|.+..++.|..++..++.. .+.++|+.|+||||+|+.+.........                   |...+
T Consensus        12 P~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~   91 (527)
T PRK14969         12 PKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLI   91 (527)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCcee
Confidence            345567889999999998888876654 4579999999999999999877532110                   11122


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCc
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGS  283 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs  283 (395)
                      ++..+.....                     +.+..+.+...    .+++-++|+|++....  ..+.+...+......+
T Consensus        92 ei~~~~~~~v---------------------d~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~  150 (527)
T PRK14969         92 EVDAASNTQV---------------------DAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHV  150 (527)
T ss_pred             EeeccccCCH---------------------HHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCE
Confidence            2222211111                     11222222221    2556799999997553  3455554554434456


Q ss_pred             EEEEeecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH
Q 047930          284 KVLLTARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       284 ~iivTtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai  350 (395)
                      .+|++|.+ ..+.......+..+++.+++.++....+.+.+.......+ ......|++.++|.+--+
T Consensus       151 ~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~~-~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        151 KFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPFD-ATALQLLARAAAGSMRDA  217 (527)
T ss_pred             EEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHH
Confidence            66665544 3333222334568999999999999988887743222222 235678999999987633

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

Probab=98.73  E-value=2.7e-07  Score=94.07  Aligned_cols=176  Identities=19%  Similarity=0.248  Sum_probs=102.6

Q ss_pred             cccccchhchHHHHH---HHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLN---DILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~---~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      |.....|+|.+..+.   .+...+...+...+.++|++|+||||||+.+++....  +|.   .++.+. ....++ ++ 
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~--~f~---~lna~~-~~i~di-r~-   95 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRA--HFS---SLNAVL-AGVKDL-RA-   95 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcC--cce---eehhhh-hhhHHH-HH-
Confidence            455667889887764   4556666677778899999999999999999987542  231   121110 011110 11 


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEe--ecchh--hhhhcC
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLT--ARSLD--VLSRKM  299 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivT--tR~~~--va~~~~  299 (395)
                                     .+....+.+. .+++.+|||||++..  ...+.+...+   ..|+.++|+  |.+..  +.....
T Consensus        96 ---------------~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~  157 (725)
T PRK13341         96 ---------------EVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALV  157 (725)
T ss_pred             ---------------HHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhh
Confidence                           1111111221 145689999999754  3344443322   235555553  33321  212223


Q ss_pred             CCcceeecCCCChHHHHHHHHHhhCC------CCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          300 DSQQNFSFDVLKEDEAWSLFKKMAGD------YIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       300 ~~~~~~~l~~L~~~e~~~lf~~~~~~------~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      .....+.+++|+.++...++.+.+..      .....--.+....|++.+.|..-.+.
T Consensus       158 SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~ll  215 (725)
T PRK13341        158 SRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLL  215 (725)
T ss_pred             ccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHH
Confidence            34568999999999999999887641      11111223467889999998755333

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.72  E-value=3e-07  Score=88.33  Aligned_cols=202  Identities=14%  Similarity=0.162  Sum_probs=114.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE-eCCcCCHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE-VSQIQDIRKIQGEFA  227 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~-~s~~~~~~~~~~~i~  227 (395)
                      |.....++|.+...+.|..++..++.+ .+.++|+.|+||||+|..+.+............|.. ...+.......+.+.
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~   91 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFD   91 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHh
Confidence            344567889888888888888876654 488999999999999999988764422111111110 000111111111111


Q ss_pred             HHhCCCc-----cccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeec-chhhh
Q 047930          228 DKLGLTL-----HEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTAR-SLDVL  295 (395)
Q Consensus       228 ~~l~~~~-----~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR-~~~va  295 (395)
                      .....+.     ......+.+..+.+.+.    .+++-++|+|++...  ..++.+...+....+.+.+|++|. ...+.
T Consensus        92 ~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~  171 (397)
T PRK14955         92 AGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (397)
T ss_pred             cCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhH
Confidence            1100000     00011122333444442    245668999999754  356666555544445666665553 33333


Q ss_pred             hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHH
Q 047930          296 SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVT  352 (395)
Q Consensus       296 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~  352 (395)
                      .........+++.++++++....+...+...... --.+.+..|++.++|.+--+..
T Consensus       172 ~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~-i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        172 ATIASRCQRFNFKRIPLEEIQQQLQGICEAEGIS-VDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHH
Confidence            2222334689999999999998888877422111 1133678899999998764444

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

Probab=98.71  E-value=4.7e-08  Score=87.07  Aligned_cols=90  Identities=16%  Similarity=0.130  Sum_probs=61.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc--CCHHHHHHHH-----HHHhCCCcccc-chh-hhHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI--QDIRKIQGEF-----ADKLGLTLHEE-TES-GRARS  245 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~--~~~~~~~~~i-----~~~l~~~~~~~-~~~-~~~~~  245 (395)
                      -..+.|.|++|+|||||++.++++.... +|+.++|+++.+.  +++.++++.+     +..++.+.... ... .....
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~   94 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEK   94 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHH
Confidence            3468899999999999999999987664 8999999997766  7899999998     33333211000 000 11112


Q ss_pred             HHHHHhcCCeEEEEEeCCCC
Q 047930          246 LCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       246 l~~~l~~~kr~LlVlDdv~~  265 (395)
                      .......+++.+|++|++..
T Consensus        95 a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          95 AKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHCCCCEEEEEECHHH
Confidence            22222358999999999954

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.69  E-value=9.1e-07  Score=84.19  Aligned_cols=175  Identities=18%  Similarity=0.246  Sum_probs=102.0

Q ss_pred             ccccchhchHHHHHHHHHHhc----C---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          151 KDYEAFESRMSTLNDILDALK----N---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      .....+.|++..++++.+.+.    .         ..++-+.++|++|+|||++|+.+++.....  |     +.+..  
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~--~-----~~v~~--  189 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT--F-----IRVVG--  189 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCC--E-----Eecch--
Confidence            344567888888888877653    1         124568899999999999999999876532  2     22211  


Q ss_pred             CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc----------------ccchhccccC--CC
Q 047930          218 DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL----------------DFQAVGIPHG--DG  279 (395)
Q Consensus       218 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~~  279 (395)
                        .++.....   +      ........+.+......+.+|+|||++...                .+..+...+.  ..
T Consensus       190 --~~l~~~~~---g------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~  258 (364)
T TIGR01242       190 --SELVRKYI---G------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDP  258 (364)
T ss_pred             --HHHHHHhh---h------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCC
Confidence              11111111   1      011122333333333567899999986531                0111111111  12


Q ss_pred             CCCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCch
Q 047930          280 HKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLP  347 (395)
Q Consensus       280 ~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP  347 (395)
                      ..+.+||.||...... ....   .....+.+...+.++..++|...+......++..  ...+++.+.|..
T Consensus       259 ~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~--~~~la~~t~g~s  328 (364)
T TIGR01242       259 RGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVD--LEAIAKMTEGAS  328 (364)
T ss_pred             CCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCC--HHHHHHHcCCCC
Confidence            3466788888754322 1111   2245789999999999999998875433332211  467888888874

Many proteins may score above the trusted cutoff because an internal

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=9.8e-07  Score=84.15  Aligned_cols=183  Identities=16%  Similarity=0.196  Sum_probs=106.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhccc------CCCCE-EEEEEeCCcCCHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENE------KLFDQ-VIFVEVSQIQDIRK  221 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~------~~f~~-~~wv~~s~~~~~~~  221 (395)
                      |....+++|.+...+.+..++..++. +.+.++|+.|+||||+|+.+.+.....      ..|.. ++.+.........+
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   92 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDD   92 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHH
Confidence            34456788999999999998886654 578899999999999999998775431      11221 11121111111111


Q ss_pred             HHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeec-chhhhhhc
Q 047930          222 IQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTAR-SLDVLSRK  298 (395)
Q Consensus       222 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR-~~~va~~~  298 (395)
                       .+++++.+....               . .+++-++++|++....  .+..+...+......+.+|++|. ...+....
T Consensus        93 -i~~l~~~~~~~p---------------~-~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l  155 (367)
T PRK14970         93 -IRNLIDQVRIPP---------------Q-TGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTI  155 (367)
T ss_pred             -HHHHHHHHhhcc---------------c-cCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHH
Confidence             222222221100               0 1345689999986542  34444433333233455555553 33332222


Q ss_pred             CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH
Q 047930          299 MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       299 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai  350 (395)
                      ......+++.++++++....+.+.+......-+ .+....+++.++|.+-.+
T Consensus       156 ~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~-~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        156 LSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFE-DDALHIIAQKADGALRDA  206 (367)
T ss_pred             HhcceeEecCCccHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHhCCCCHHHH
Confidence            344568999999999999999887743222111 246788888999876643

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.67  E-value=8.3e-07  Score=88.75  Aligned_cols=200  Identities=13%  Similarity=0.151  Sum_probs=116.3

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCC--EEEEEEeCCcCCHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFD--QVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~--~~~wv~~s~~~~~~~~~~~i  226 (395)
                      |.....++|.+..++.|.+++..++. ..+.++|+.|+||||+|+.+.+.........  ...+-    .+....-.+.|
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~----~cg~c~~C~~i   95 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID----LCGVGEHCQAI   95 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc----cCcccHHHHHH
Confidence            34566789999999999998886664 4688999999999999999988754321110  00000    00111111122


Q ss_pred             HHHhCCCc-----cccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEee-cchhh
Q 047930          227 ADKLGLTL-----HEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTA-RSLDV  294 (395)
Q Consensus       227 ~~~l~~~~-----~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTt-R~~~v  294 (395)
                      ...-....     ......+.+..+.+.+.    .+++-++|+|++....  ..+.+...+.....++.+|++| ....+
T Consensus        96 ~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kl  175 (598)
T PRK09111         96 MEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKV  175 (598)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhh
Confidence            21111100     00011122333333332    1455689999996553  3455555554444566666555 43444


Q ss_pred             hhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          295 LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       295 a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      .......+..+++.+++.++....+.+.+......-+ .+....|++.++|.+.-+....
T Consensus       176 l~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~-~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        176 PVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVE-DEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHH
Confidence            3333445678999999999999999988743222111 2357889999999987665444

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

Probab=98.66  E-value=9.1e-08  Score=81.83  Aligned_cols=48  Identities=23%  Similarity=0.341  Sum_probs=34.3

Q ss_pred             chhchHHHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          155 AFESRMSTLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      .|+||+++++++.+.+.   ....+++.|+|++|+|||+|++.++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            38899999999999983   4557899999999999999999999887665

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=1.2e-06  Score=87.13  Aligned_cols=191  Identities=15%  Similarity=0.100  Sum_probs=109.8

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceE-EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNM-LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~v-i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..++.|..++..++... +.++|+.|+||||+|+.+..........+.       .++......+.|..
T Consensus         9 P~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~-------~pCg~C~~C~~i~~   81 (584)
T PRK14952          9 PATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTA-------TPCGVCESCVALAP   81 (584)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCC-------CcccccHHHHHhhc
Confidence            4456778899999999999988776554 689999999999999999976543211100       00000011111110


Q ss_pred             HhCC-------CccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEee-cchhh
Q 047930          229 KLGL-------TLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTA-RSLDV  294 (395)
Q Consensus       229 ~l~~-------~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTt-R~~~v  294 (395)
                      .-+.       ........+.+..+.+.+.    .+++-++|||++...  ...+.|...+......+.+|++| ....+
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kl  161 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKV  161 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhh
Confidence            0000       0000001112222332221    245568999999654  34555555554444455555544 44444


Q ss_pred             hhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          295 LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       295 a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      .......+..+++.+++.++..+.+.+.+......-+ .+....|++.++|.+-
T Consensus       162 l~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~-~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        162 LPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVD-DAVYPLVIRAGGGSPR  214 (584)
T ss_pred             HHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHH
Confidence            4333455678999999999999888887643222111 2356778888999775

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=7.9e-07  Score=88.28  Aligned_cols=200  Identities=16%  Similarity=0.129  Sum_probs=113.2

Q ss_pred             cccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..+..|...+..++ ...+.++|+.|+||||+|+.+.+..........       ..++.....+.|..
T Consensus        12 P~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~-------~pCg~C~sC~~i~~   84 (624)
T PRK14959         12 PQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTG-------EPCNTCEQCRKVTQ   84 (624)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCC-------CCCcccHHHHHHhc
Confidence            3445677898888888888777655 467888999999999999999987643211100       00111111111111


Q ss_pred             HhCCCccc-----cchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhh
Q 047930          229 KLGLTLHE-----ETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLS  296 (395)
Q Consensus       229 ~l~~~~~~-----~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~  296 (395)
                      ........     ....+.+..+.+.+.    .+++-++|||++...  ...+.|...+........+|++|.+ ..+..
T Consensus        85 g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~  164 (624)
T PRK14959         85 GMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPV  164 (624)
T ss_pred             CCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhH
Confidence            10000000     000111222222221    245679999999655  3345554444333334556565544 44432


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCch-HHHHHHHHHh
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLP-VSIVTVARAL  357 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP-lai~~i~~~l  357 (395)
                      ........+++.+++.++....+...+......- -.+.+..|++.++|.+ .|+..+..++
T Consensus       165 TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~i-d~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        165 TIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDY-DPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            2334456899999999999999988764322111 1236788999999965 5776665444

>PRK09087 hypothetical protein; Validated

Probab=98.65  E-value=1.4e-06  Score=76.91  Aligned_cols=159  Identities=15%  Similarity=0.108  Sum_probs=96.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      .+.+.|+|++|+|||+|++.++.....       .|++..      .+..++.                    ..+..  
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~~-------~~i~~~------~~~~~~~--------------------~~~~~--   88 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSDA-------LLIHPN------EIGSDAA--------------------NAAAE--   88 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcCC-------EEecHH------HcchHHH--------------------Hhhhc--
Confidence            456899999999999999988875421       133221      1111111                    12211  


Q ss_pred             eEEEEEeCCCCcc----ccchhccccCCCCCCcEEEEeecchhhh--------hhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          255 RILVILDNIWENL----DFQAVGIPHGDGHKGSKVLLTARSLDVL--------SRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       255 r~LlVlDdv~~~~----~~~~l~~~l~~~~~gs~iivTtR~~~va--------~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                       -+|+|||+....    .+-.+...+  ...|..+|+|++...-.        .........+++++++.++-..++.+.
T Consensus        89 -~~l~iDDi~~~~~~~~~lf~l~n~~--~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~  165 (226)
T PRK09087         89 -GPVLIEDIDAGGFDETGLFHLINSV--RQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKL  165 (226)
T ss_pred             -CeEEEECCCCCCCCHHHHHHHHHHH--HhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHH
Confidence             378889995432    222222222  12366788888742210        112345578999999999999999998


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh------hCC--CHHHHHHHHHHh
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL------RNK--RLFEWKDALEQL  372 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l------~~~--~~~~w~~~l~~l  372 (395)
                      +...... --+++.+-|++.+.|.+-++..+-..|      ..+  +....+.+++.+
T Consensus       166 ~~~~~~~-l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~~  222 (226)
T PRK09087        166 FADRQLY-VDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLNEM  222 (226)
T ss_pred             HHHcCCC-CCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHhh
Confidence            8532211 123478889999999888776543333      122  667777777653

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

Probab=98.64  E-value=3.1e-06  Score=79.49  Aligned_cols=206  Identities=13%  Similarity=0.120  Sum_probs=130.3

Q ss_pred             ccchhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          153 YEAFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .....||+.+++.+..++.    .+..+.+-|.|-+|+|||.+...++.+......--+++++++..-.....++..|..
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            4557899999998888765    456788999999999999999999988764322235678887766677888888887


Q ss_pred             HhCCC-ccccchhhhHHHHHHHHhcCC-eEEEEEeCCCCccc--cchhccccC-CCCCCcEEEEee---------cchhh
Q 047930          229 KLGLT-LHEETESGRARSLCNRLKKEK-RILVILDNIWENLD--FQAVGIPHG-DGHKGSKVLLTA---------RSLDV  294 (395)
Q Consensus       229 ~l~~~-~~~~~~~~~~~~l~~~l~~~k-r~LlVlDdv~~~~~--~~~l~~~l~-~~~~gs~iivTt---------R~~~v  294 (395)
                      .+-.. .......+....+.+...+.+ .+|+|+|+.+....  -..+...|. +.-+++++|+..         |.-.-
T Consensus       229 ~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~Lpr  308 (529)
T KOG2227|consen  229 SLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLPR  308 (529)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhhh
Confidence            77211 111122334455556665444 78999999975421  111222232 233566665532         21111


Q ss_pred             h-hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhh
Q 047930          295 L-SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALR  358 (395)
Q Consensus       295 a-~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~  358 (395)
                      . ....-....+...|.+.++-.++|..++......+.+...++-++++|.|.-=-+..+-.+.+
T Consensus       309 L~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R  373 (529)
T KOG2227|consen  309 LNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCR  373 (529)
T ss_pred             hhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHH
Confidence            0 101223457889999999999999999865544444444556666666665544444444444

>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=98.63  E-value=2.2e-06  Score=73.87  Aligned_cols=178  Identities=20%  Similarity=0.199  Sum_probs=92.6

Q ss_pred             cccccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQG  224 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  224 (395)
                      |....+|+|.+..+..+.-.+.     +.....+.++|++|+||||||..+.+.....  |   .+.+.+.-....+   
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~--~---~~~sg~~i~k~~d---   91 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN--F---KITSGPAIEKAGD---   91 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT----E---EEEECCC--SCHH---
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC--e---EeccchhhhhHHH---
Confidence            4567789998887776543332     3457788999999999999999999987643  3   2333221111111   


Q ss_pred             HHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--c-------cchhcc--ccCCC----------CCCc
Q 047930          225 EFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--D-------FQAVGI--PHGDG----------HKGS  283 (395)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~-------~~~l~~--~l~~~----------~~gs  283 (395)
                                        +..+...+.  ++-+|++|++....  .       .++...  ....+          .+-+
T Consensus        92 ------------------l~~il~~l~--~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FT  151 (233)
T PF05496_consen   92 ------------------LAAILTNLK--EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFT  151 (233)
T ss_dssp             ------------------HHHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----E
T ss_pred             ------------------HHHHHHhcC--CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCce
Confidence                              112222232  34577788885431  1       111111  11001          1122


Q ss_pred             EEEEeecchhhhhhcCCCcc-eeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          284 KVLLTARSLDVLSRKMDSQQ-NFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       284 ~iivTtR~~~va~~~~~~~~-~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      -|=.|||...+.....+... +.+|+..+.+|-.++..+.+.....+- -.+.+.+|+.+|.|-|--..-+-.-
T Consensus       152 ligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i-~~~~~~~Ia~rsrGtPRiAnrll~r  224 (233)
T PF05496_consen  152 LIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEI-DEDAAEEIARRSRGTPRIANRLLRR  224 (233)
T ss_dssp             EEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE--HHHHHHHHHCTTTSHHHHHHHHHH
T ss_pred             EeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCc-CHHHHHHHHHhcCCChHHHHHHHHH
Confidence            34458887554322223333 468999999999999998875322222 2347899999999999765544433

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.62  E-value=2.1e-06  Score=86.50  Aligned_cols=197  Identities=14%  Similarity=0.153  Sum_probs=114.8

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.....++|.+..++.|..++..++. ..+.++|+.|+||||+|+.+.+.........      ....++.....+.+..
T Consensus        12 P~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~i~~   85 (585)
T PRK14950         12 SQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRAIAE   85 (585)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHHHhc
Confidence            34456788999989888888876654 4567999999999999999998754221100      0001112223333332


Q ss_pred             HhCCCcc-----ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhh
Q 047930          229 KLGLTLH-----EETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLS  296 (395)
Q Consensus       229 ~l~~~~~-----~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~  296 (395)
                      .......     .....+.+..+.+.+.    .+++-++|||++...  ...+.+...+......+.+|++|.+ ..+..
T Consensus        86 ~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~  165 (585)
T PRK14950         86 GSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPA  165 (585)
T ss_pred             CCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhH
Confidence            2211100     0011122333333332    145679999999654  3455554444333345666666544 33332


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ........+.+.+++.++....+...+......-+ .+....|++.++|.+..+...
T Consensus       166 tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~-~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        166 TILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLE-PGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             HHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHH
Confidence            23344568899999999999988887743222111 246788999999988655443

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.60  E-value=9.8e-07  Score=78.50  Aligned_cols=167  Identities=14%  Similarity=0.092  Sum_probs=99.5

Q ss_pred             HHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchh
Q 047930          161 STLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETES  240 (395)
Q Consensus       161 ~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~  240 (395)
                      ..+..+..+....+...+.|+|+.|+|||+|++.+++....+  -..+.|+++.....                      
T Consensus        31 ~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~~----------------------   86 (235)
T PRK08084         31 SLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR--GRAVGYVPLDKRAW----------------------   86 (235)
T ss_pred             HHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEHHHHhh----------------------
Confidence            344445555444455688999999999999999999876533  23456666532100                      


Q ss_pred             hhHHHHHHHHhcCCeEEEEEeCCCCc---cccch-h---ccccCCCCCCcEEEEeecchhhh--------hhcCCCccee
Q 047930          241 GRARSLCNRLKKEKRILVILDNIWEN---LDFQA-V---GIPHGDGHKGSKVLLTARSLDVL--------SRKMDSQQNF  305 (395)
Q Consensus       241 ~~~~~l~~~l~~~kr~LlVlDdv~~~---~~~~~-l---~~~l~~~~~gs~iivTtR~~~va--------~~~~~~~~~~  305 (395)
                       ....+.+.+.  +--+|+|||+...   ..|+. +   ...+.. ..+.++|+||+...-.        ...+....++
T Consensus        87 -~~~~~~~~~~--~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e-~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~  162 (235)
T PRK08084         87 -FVPEVLEGME--QLSLVCIDNIECIAGDELWEMAIFDLYNRILE-SGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIY  162 (235)
T ss_pred             -hhHHHHHHhh--hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHH-cCCCeEEEeCCCChHHcCcccHHHHHHHhCCcee
Confidence             0012222232  1248999999643   34443 2   222211 1224689998854211        1123345689


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      ++.++++++-.+++.+++..... .--+++..-|++.+.|..-.+..+-..
T Consensus       163 ~l~~~~~~~~~~~l~~~a~~~~~-~l~~~v~~~L~~~~~~d~r~l~~~l~~  212 (235)
T PRK08084        163 KLQPLSDEEKLQALQLRARLRGF-ELPEDVGRFLLKRLDREMRTLFMTLDQ  212 (235)
T ss_pred             eecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhhcCCHHHHHHHHHH
Confidence            99999999999999886643211 112347888999999877666554433

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.60  E-value=2.4e-06  Score=83.90  Aligned_cols=182  Identities=19%  Similarity=0.187  Sum_probs=110.7

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccCC------------------CC-EEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEKL------------------FD-QVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~------------------f~-~~~  209 (395)
                      |.....++|.+.....|...+..++.. ...++|+.|+||||+|+.+.+..-....                  +. .++
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~   89 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDII   89 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEE
Confidence            345567889888888888888776654 5589999999999999998876532111                  00 012


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCc
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGS  283 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs  283 (395)
                      .+..+......+                     +..+.+...    .+++-++|+|++...  ...+.+...+......+
T Consensus        90 eldaas~~gId~---------------------IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t  148 (535)
T PRK08451         90 EMDAASNRGIDD---------------------IRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYV  148 (535)
T ss_pred             EeccccccCHHH---------------------HHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCce
Confidence            222111111111                     111211111    145668999999654  33455544443334466


Q ss_pred             EEEEeecch-hhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          284 KVLLTARSL-DVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       284 ~iivTtR~~-~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ++|++|.+. .+..........+++.+++.++....+.+.+......-+ .+.+..|++.++|.+--+..+
T Consensus       149 ~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~-~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        149 KFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYE-PEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             EEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCcHHHHHHH
Confidence            777666553 332223345678999999999999999887743322211 346778999999988555444

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=1.9e-06  Score=86.29  Aligned_cols=200  Identities=15%  Similarity=0.183  Sum_probs=111.3

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE-eCCcCCHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE-VSQIQDIRKIQGEFA  227 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~-~s~~~~~~~~~~~i~  227 (395)
                      |.....++|.+..+..|..++..++. ..+.++|+.|+||||+|+.+.+........+.-.|.. +..........+.+.
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~   91 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFD   91 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHh
Confidence            34556788998888888888876665 4488999999999999999988764322111001110 000111111111111


Q ss_pred             HHhCCCc---c--ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEee-cchhhh
Q 047930          228 DKLGLTL---H--EETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTA-RSLDVL  295 (395)
Q Consensus       228 ~~l~~~~---~--~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTt-R~~~va  295 (395)
                      ..-..+.   +  .....+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+......+.+|++| +...+.
T Consensus        92 ~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl  171 (620)
T PRK14954         92 AGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (620)
T ss_pred             ccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhh
Confidence            1000000   0  0011122333333331    2455689999986543  3455555553333455555544 434443


Q ss_pred             hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH
Q 047930          296 SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       296 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai  350 (395)
                      .........+++.+++.++....+.+.+......- -.+.++.|++.++|.+--+
T Consensus       172 ~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I-~~eal~~La~~s~Gdlr~a  225 (620)
T PRK14954        172 ATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQI-DADALQLIARKAQGSMRDA  225 (620)
T ss_pred             HHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHhCCCHHHH
Confidence            33345567999999999999888887664222111 1235788999999966533

>PF14516 AAA_35: AAA-like domain

Probab=98.60  E-value=5.8e-06  Score=77.40  Aligned_cols=200  Identities=12%  Similarity=0.205  Sum_probs=119.2

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-----CCHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-----QDIRKIQGEF  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-----~~~~~~~~~i  226 (395)
                      +.+-++.|...-+++.+.+.+++ ..+.|.|+..+|||||...+.+....+ .+. ++++++...     .+.+.+++.+
T Consensus         9 ~~~~Yi~R~~~e~~~~~~i~~~G-~~~~I~apRq~GKTSll~~l~~~l~~~-~~~-~v~id~~~~~~~~~~~~~~f~~~~   85 (331)
T PF14516_consen    9 DSPFYIERPPAEQECYQEIVQPG-SYIRIKAPRQMGKTSLLLRLLERLQQQ-GYR-CVYIDLQQLGSAIFSDLEQFLRWF   85 (331)
T ss_pred             CCCcccCchHHHHHHHHHHhcCC-CEEEEECcccCCHHHHHHHHHHHHHHC-CCE-EEEEEeecCCCcccCCHHHHHHHH
Confidence            34456788866677777776543 478999999999999999999887654 233 457776542     3456666666


Q ss_pred             HHHh----CCCccc--------cchhhhHHHHHHHHh--cCCeEEEEEeCCCCcccc----chhccccC-------CCC-
Q 047930          227 ADKL----GLTLHE--------ETESGRARSLCNRLK--KEKRILVILDNIWENLDF----QAVGIPHG-------DGH-  280 (395)
Q Consensus       227 ~~~l----~~~~~~--------~~~~~~~~~l~~~l~--~~kr~LlVlDdv~~~~~~----~~l~~~l~-------~~~-  280 (395)
                      +..+    +....-        .+.......+.+.+.  .+++.+|+||+++.....    .++...+.       ... 
T Consensus        86 ~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~  165 (331)
T PF14516_consen   86 CEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPI  165 (331)
T ss_pred             HHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcc
Confidence            5544    332210        011112223333332  268999999999754221    11111110       000 


Q ss_pred             -CCcEEEEeecch-hhh----hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          281 -KGSKVLLTARSL-DVL----SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       281 -~gs~iivTtR~~-~va----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                       ..-++++....+ ...    .........++|++++.+|...|+.+.-... .    ....++|...+||+|.-+..++
T Consensus       166 ~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~-~----~~~~~~l~~~tgGhP~Lv~~~~  240 (331)
T PF14516_consen  166 WQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF-S----QEQLEQLMDWTGGHPYLVQKAC  240 (331)
T ss_pred             cceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccC-C----HHHHHHHHHHHCCCHHHHHHHH
Confidence             111222222111 111    1112334589999999999999988764321 1    1237899999999999999999


Q ss_pred             HHhhC
Q 047930          355 RALRN  359 (395)
Q Consensus       355 ~~l~~  359 (395)
                      ..+..
T Consensus       241 ~~l~~  245 (331)
T PF14516_consen  241 YLLVE  245 (331)
T ss_pred             HHHHH
Confidence            99974

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

Probab=98.58  E-value=4.9e-07  Score=80.36  Aligned_cols=186  Identities=20%  Similarity=0.213  Sum_probs=121.0

Q ss_pred             cccccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCcCCHHHHHHHH
Q 047930          148 LSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       148 ~~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~~i  226 (395)
                      ..|.....+.|.+..+.-|...+.....++...+|++|+|||+-|..+....-..+.|.+ +.-.++|......-+-..+
T Consensus        30 YrPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Ki  109 (346)
T KOG0989|consen   30 YRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKI  109 (346)
T ss_pred             hCCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhh
Confidence            345556778898888888999888878889999999999999999999887665566765 4445665543322111111


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHh-----cCCe-EEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecch-hhhhh
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLK-----KEKR-ILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSL-DVLSR  297 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~-----~~kr-~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~-~va~~  297 (395)
                       +.             ..++.-...     .-++ -++|||+.+..  +.|..+...+.+....++.|+.+... .+...
T Consensus       110 -k~-------------fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~p  175 (346)
T KOG0989|consen  110 -KN-------------FAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRP  175 (346)
T ss_pred             -cC-------------HHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChH
Confidence             00             001110000     0233 47889999865  57888876665555667766655543 33222


Q ss_pred             cCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          298 KMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       298 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      .......+..++|.+++...-+...+..+...-+ .+..+.|++.++|---
T Consensus       176 i~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d-~~al~~I~~~S~GdLR  225 (346)
T KOG0989|consen  176 LVSRCQKFRFKKLKDEDIVDRLEKIASKEGVDID-DDALKLIAKISDGDLR  225 (346)
T ss_pred             HHhhHHHhcCCCcchHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHcCCcHH
Confidence            3345568899999999999999988854333222 2357789999988643

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=3.1e-06  Score=85.24  Aligned_cols=184  Identities=14%  Similarity=0.184  Sum_probs=112.1

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhccc---------------------CCCCEE
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENE---------------------KLFDQV  208 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~---------------------~~f~~~  208 (395)
                      .....++|.+...+.|..++..++.. .+.++|+.|+||||+|+.+.......                     .+|+. 
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-   92 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-   92 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-
Confidence            44567889999999999998876654 47899999999999999988765321                     12332 


Q ss_pred             EEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEE
Q 047930          209 IFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVL  286 (395)
Q Consensus       209 ~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~ii  286 (395)
                      ..+..+......++ ++++.++....                ..+++-++|||++...  ..++.+...+.....++.+|
T Consensus        93 ~~ld~~~~~~vd~I-r~li~~~~~~P----------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifI  155 (614)
T PRK14971         93 HELDAASNNSVDDI-RNLIEQVRIPP----------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFI  155 (614)
T ss_pred             EEecccccCCHHHH-HHHHHHHhhCc----------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEE
Confidence            22222222222221 12222211100                0144568899998654  34555655554434456655


Q ss_pred             Eee-cchhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          287 LTA-RSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       287 vTt-R~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ++| ....+.......+..+++.++++++....+.+.+.......+ .+.+..|++.++|.+--+...
T Consensus       156 L~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~-~~al~~La~~s~gdlr~al~~  222 (614)
T PRK14971        156 LATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAE-PEALNVIAQKADGGMRDALSI  222 (614)
T ss_pred             EEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHH
Confidence            544 444444334456678999999999999999887743322211 235788999999977644433

>PRK08727 hypothetical protein; Validated

Probab=98.57  E-value=1.1e-06  Score=78.20  Aligned_cols=171  Identities=17%  Similarity=0.154  Sum_probs=98.8

Q ss_pred             ccchhchH-HHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhC
Q 047930          153 YEAFESRM-STLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLG  231 (395)
Q Consensus       153 ~~~~~gr~-~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~  231 (395)
                      .++|++.. ..+..+.....+.....+.|+|..|+|||.|++.+++....+  ...+.|+++..      ....+     
T Consensus        18 f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~--~~~~~y~~~~~------~~~~~-----   84 (233)
T PRK08727         18 FDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQA--GRSSAYLPLQA------AAGRL-----   84 (233)
T ss_pred             hhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEeHHH------hhhhH-----
Confidence            34455432 333333333333334569999999999999999998876543  23455665322      11111     


Q ss_pred             CCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc---ccch-hccccCC-CCCCcEEEEeecchhhh--------hhc
Q 047930          232 LTLHEETESGRARSLCNRLKKEKRILVILDNIWENL---DFQA-VGIPHGD-GHKGSKVLLTARSLDVL--------SRK  298 (395)
Q Consensus       232 ~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---~~~~-l~~~l~~-~~~gs~iivTtR~~~va--------~~~  298 (395)
                                  ....+.+.  +.-+|||||+....   .|.. +...+.. ..+|..+|+|++...-.        ...
T Consensus        85 ------------~~~~~~l~--~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SR  150 (233)
T PRK08727         85 ------------RDALEALE--GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSR  150 (233)
T ss_pred             ------------HHHHHHHh--cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHH
Confidence                        12223332  34599999996442   2332 2211111 12356799999853210        111


Q ss_pred             CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          299 MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       299 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      ......+++++++.++...++.+.+......- -.+...-|++.|+|-.-.+.
T Consensus       151 l~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l-~~e~~~~La~~~~rd~r~~l  202 (233)
T PRK08727        151 LAQCIRIGLPVLDDVARAAVLRERAQRRGLAL-DEAAIDWLLTHGERELAGLV  202 (233)
T ss_pred             HhcCceEEecCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHhCCCCHHHHH
Confidence            22346899999999999999998764222111 13467889999988766653

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.56  E-value=2.8e-06  Score=85.80  Aligned_cols=188  Identities=19%  Similarity=0.170  Sum_probs=108.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..+..|..++..++. +...++|+.|+||||+|+.++...-.....+         ...+.......  
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~---------~~~pC~~C~~~--   82 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTD---------LLEPCQECIEN--   82 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCC---------CCCchhHHHHh--
Confidence            34456788998888889998886654 4567999999999999999987643211100         00000000000  


Q ss_pred             HhCCCcc-----c--cchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEE-Eeecchhh
Q 047930          229 KLGLTLH-----E--ETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVL-LTARSLDV  294 (395)
Q Consensus       229 ~l~~~~~-----~--~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~ii-vTtR~~~v  294 (395)
                       .+...+     .  ....+.+..+.+.+.    .+++-++|+|++...  ..+..+...+-.....+.+| +|+....+
T Consensus        83 -~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KL  161 (725)
T PRK07133         83 -VNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKI  161 (725)
T ss_pred             -hcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhh
Confidence             000000     0  001122333433332    245669999999654  34555554443333344444 45544555


Q ss_pred             hhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH
Q 047930          295 LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       295 a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai  350 (395)
                      .......+..+++.+++.++....+...+.......+ .+.+..|++.++|.+--+
T Consensus       162 l~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id-~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        162 PLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYE-KNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             hHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHH
Confidence            4333455679999999999999999876632222111 235678899998876533

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.56  E-value=2e-07  Score=86.84  Aligned_cols=89  Identities=19%  Similarity=0.219  Sum_probs=60.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC--CHHHHHHHHHHHhCC-Cccccchhh-----hHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ--DIRKIQGEFADKLGL-TLHEETESG-----RARSLC  247 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~--~~~~~~~~i~~~l~~-~~~~~~~~~-----~~~~l~  247 (395)
                      .-..|+|++|+|||||++.+|+....+ +|+.++|+.+.+..  ...++++.+...+-. ..+......     .+-...
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~A  248 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEKA  248 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHHH
Confidence            347799999999999999999998765 89999999998877  677777777632211 111111111     111222


Q ss_pred             HHH-hcCCeEEEEEeCCCC
Q 047930          248 NRL-KKEKRILVILDNIWE  265 (395)
Q Consensus       248 ~~l-~~~kr~LlVlDdv~~  265 (395)
                      +++ ..+++.||++|++..
T Consensus       249 e~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        249 KRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHcCCCEEEEEEChHH
Confidence            222 357999999999953

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.55  E-value=1e-06  Score=84.35  Aligned_cols=204  Identities=17%  Similarity=0.294  Sum_probs=114.8

Q ss_pred             cccchhchHHHHHHHHHHhc----C---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          152 DYEAFESRMSTLNDILDALK----N---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      ....+.|+++.++++.+.+.    .         ..++-|.++|++|+|||++|+.+++.....       |+.++.   
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~-------~i~v~~---  198 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT-------FIRVVG---  198 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC-------EEEeeh---
Confidence            34567788888888776552    1         345668899999999999999999876421       222211   


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------cc-chhcc---ccC--CCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------DF-QAVGI---PHG--DGH  280 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~~-~~l~~---~l~--~~~  280 (395)
                       .++....   .+      ........+.+......+.+|+|||++...            .. ..+..   .+.  ...
T Consensus       199 -~~l~~~~---~g------~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~  268 (389)
T PRK03992        199 -SELVQKF---IG------EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPR  268 (389)
T ss_pred             -HHHhHhh---cc------chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCC
Confidence             1111111   01      011223334444444567899999997531            01 11111   111  122


Q ss_pred             CCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCch-HHHHHH--
Q 047930          281 KGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLP-VSIVTV--  353 (395)
Q Consensus       281 ~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP-lai~~i--  353 (395)
                      .+..||.||...... ....   .....+++++.+.++-.++|+..+.......+..  ...+++.+.|.- --|..+  
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~--~~~la~~t~g~sgadl~~l~~  346 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVD--LEELAELTEGASGADLKAICT  346 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCC--HHHHHHHcCCCCHHHHHHHHH
Confidence            356677777654322 1111   2245799999999999999998875433222211  456777777763 323322  


Q ss_pred             -HHHh--hC---C-CHHHHHHHHHHhcCCCC
Q 047930          354 -ARAL--RN---K-RLFEWKDALEQLRRPSS  377 (395)
Q Consensus       354 -~~~l--~~---~-~~~~w~~~l~~l~~~~~  377 (395)
                       |++.  +.   . +.+....+++.......
T Consensus       347 eA~~~a~~~~~~~i~~~d~~~A~~~~~~~~~  377 (389)
T PRK03992        347 EAGMFAIRDDRTEVTMEDFLKAIEKVMGKEE  377 (389)
T ss_pred             HHHHHHHHcCCCCcCHHHHHHHHHHHhcccc
Confidence             2232  22   1 67777777777655443

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.55  E-value=4.7e-06  Score=81.69  Aligned_cols=183  Identities=17%  Similarity=0.159  Sum_probs=107.9

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCce-EEEEEecCCCcHHHHHHHHHHHhcccC--C-----------------CCEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVN-MLGIYGMGGIGKTTLAKEVARKAENEK--L-----------------FDQVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~--~-----------------f~~~~  209 (395)
                      |.....++|.+.....|..++..++.. ...++|+.|+||||+|+.++.......  .                 +...+
T Consensus        12 P~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~   91 (486)
T PRK14953         12 PKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLI   91 (486)
T ss_pred             CCcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEE
Confidence            344567889998899999988866544 456899999999999999887643210  0                 11112


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCc
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGS  283 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs  283 (395)
                      ++..+.....                     +.+..+.+.+.    .+++-++|+|++...  ...+.+...+....+..
T Consensus        92 eidaas~~gv---------------------d~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~  150 (486)
T PRK14953         92 EIDAASNRGI---------------------DDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRT  150 (486)
T ss_pred             EEeCccCCCH---------------------HHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCe
Confidence            2221111111                     11223333322    256679999999754  23444544443333345


Q ss_pred             EEEEee-cchhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          284 KVLLTA-RSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       284 ~iivTt-R~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      .+|++| +...+..........+++.+++.++....+.+.+.......+ .+....|++.++|.+..+....
T Consensus       151 v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id-~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        151 IFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYE-EKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             EEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHH
Confidence            555544 433333222344568999999999999988887643222111 2356788889999776444443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.54  E-value=1.7e-06  Score=76.77  Aligned_cols=163  Identities=12%  Similarity=0.081  Sum_probs=92.8

Q ss_pred             HHHHHHHhc-CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhh
Q 047930          163 LNDILDALK-NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESG  241 (395)
Q Consensus       163 ~~~l~~~l~-~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~  241 (395)
                      +..+..+.. ......+.|+|..|+|||+||+.+++...... . ...+++.....      ..    +           
T Consensus        29 ~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~-~-~~~~i~~~~~~------~~----~-----------   85 (227)
T PRK08903         29 VARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGG-R-NARYLDAASPL------LA----F-----------   85 (227)
T ss_pred             HHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-C-cEEEEehHHhH------HH----H-----------
Confidence            334444433 23446788999999999999999998754321 2 24455443211      00    0           


Q ss_pred             hHHHHHHHHhcCCeEEEEEeCCCCccccc--hhccccCC-CCCCc-EEEEeecchhhhhh-------cCCCcceeecCCC
Q 047930          242 RARSLCNRLKKEKRILVILDNIWENLDFQ--AVGIPHGD-GHKGS-KVLLTARSLDVLSR-------KMDSQQNFSFDVL  310 (395)
Q Consensus       242 ~~~~l~~~l~~~kr~LlVlDdv~~~~~~~--~l~~~l~~-~~~gs-~iivTtR~~~va~~-------~~~~~~~~~l~~L  310 (395)
                            ...  ...-+||+||+.....+.  .+...+.. ...+. .+|+|++.......       .......+++.++
T Consensus        86 ------~~~--~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl  157 (227)
T PRK08903         86 ------DFD--PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPL  157 (227)
T ss_pred             ------hhc--ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCC
Confidence                  011  223478999996543222  23222211 11233 36666654322110       1122468999999


Q ss_pred             ChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          311 KEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       311 ~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      ++++-..++.+.+...... --.+....+++.+.|.|..+..+-..|
T Consensus       158 ~~~~~~~~l~~~~~~~~v~-l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        158 SDADKIAALKAAAAERGLQ-LADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             CHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            9988777777654322121 123467888999999999887776655

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.54  E-value=9.7e-07  Score=92.20  Aligned_cols=183  Identities=12%  Similarity=0.118  Sum_probs=102.7

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEE-EEeCCcCCHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIF-VEVSQIQDIRKIQGE  225 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~w-v~~s~~~~~~~~~~~  225 (395)
                      ....+++||+.++.+++..|.......+.++|++|+||||+|+.+++.......    .+..+| +..+.-..       
T Consensus       184 ~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~a-------  256 (852)
T TIGR03345       184 GKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQA-------  256 (852)
T ss_pred             CCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhc-------
Confidence            445678999999999999988776667889999999999999999987532211    122332 22221000       


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCCcc-------ccc--hhccccCCCCCCcEEEEeecchhh-
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWENL-------DFQ--AVGIPHGDGHKGSKVLLTARSLDV-  294 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~-------~~~--~l~~~l~~~~~gs~iivTtR~~~v-  294 (395)
                           + ......-...+..+.+.+. .+++.+|++|++....       .-+  .+..+....+ .-++|-+|..... 
T Consensus       257 -----g-~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G-~l~~IgaTT~~e~~  329 (852)
T TIGR03345       257 -----G-ASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG-ELRTIAATTWAEYK  329 (852)
T ss_pred             -----c-cccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC-CeEEEEecCHHHHh
Confidence                 0 0000011123334444443 2568999999986432       111  1222322222 3455555554221 


Q ss_pred             -----hhhcCCCcceeecCCCChHHHHHHHHHhhC---CCCCCCchHHHHHHHHHHcCCch
Q 047930          295 -----LSRKMDSQQNFSFDVLKEDEAWSLFKKMAG---DYIEGSEFKWVAREVAKECAGLP  347 (395)
Q Consensus       295 -----a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~---~~~~~~~~~~~~~~i~~~c~GlP  347 (395)
                           -.........+.+++++.++...++.....   ....-.-..+....+++.+++.+
T Consensus       330 ~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       330 KYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             hhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence                 011223456899999999999999754442   11111112334566666666554

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.53  E-value=1.5e-06  Score=81.12  Aligned_cols=150  Identities=17%  Similarity=0.186  Sum_probs=87.7

Q ss_pred             ccccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          149 SNKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       149 ~~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .|.....++|.+...+.+..++..++. ..+.++|++|+||||+|+.+++....     ....++.+. ..... .+..+
T Consensus        16 rP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~-----~~~~i~~~~-~~~~~-i~~~l   88 (316)
T PHA02544         16 RPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGA-----EVLFVNGSD-CRIDF-VRNRL   88 (316)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCc-----cceEeccCc-ccHHH-HHHHH
Confidence            345567788999999999998876654 56666999999999999999887531     123444443 22211 11111


Q ss_pred             HHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCCc--ccc-chhccccCCCCCCcEEEEeecchh-hhhhcCCCc
Q 047930          228 DKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWEN--LDF-QAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQ  302 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~--~~~-~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~  302 (395)
                      ..+                ..... .+.+-+|||||+...  ... ..+...+.....++++|+||.... +........
T Consensus        89 ~~~----------------~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~  152 (316)
T PHA02544         89 TRF----------------ASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRC  152 (316)
T ss_pred             HHH----------------HHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhc
Confidence            111                11110 134568999999754  122 223222323345678888886532 212222344


Q ss_pred             ceeecCCCChHHHHHHHHH
Q 047930          303 QNFSFDVLKEDEAWSLFKK  321 (395)
Q Consensus       303 ~~~~l~~L~~~e~~~lf~~  321 (395)
                      ..+.+...+.++...++..
T Consensus       153 ~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        153 RVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             eEEEeCCCCHHHHHHHHHH
Confidence            5778888888887766543

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

Probab=98.51  E-value=7.9e-06  Score=73.64  Aligned_cols=194  Identities=15%  Similarity=0.138  Sum_probs=115.0

Q ss_pred             HHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCcCCHHHHHHHHHHHhCCC
Q 047930          161 STLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIFVEVSQIQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       161 ~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~wv~~s~~~~~~~~~~~i~~~l~~~  233 (395)
                      +.++.|-+.+.   ....+.+.|+|.+|.|||++++.+.........    --.++.+.....++...++..|+.+++.+
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP  123 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAP  123 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcc
Confidence            34555555554   345678999999999999999999986543211    12477888889999999999999999987


Q ss_pred             ccccch-hhhHHHHHHHHhcCCeEEEEEeCCCCccc-----cchh---ccccCCCCCCcEEEEeecchhhhhh----cCC
Q 047930          234 LHEETE-SGRARSLCNRLKKEKRILVILDNIWENLD-----FQAV---GIPHGDGHKGSKVLLTARSLDVLSR----KMD  300 (395)
Q Consensus       234 ~~~~~~-~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-----~~~l---~~~l~~~~~gs~iivTtR~~~va~~----~~~  300 (395)
                      ...... ..........+..-+--+||||++.+...     -..+   ...+.+.-.=+-|.+-|+.-.-+-.    ..+
T Consensus       124 ~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~  203 (302)
T PF05621_consen  124 YRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLAS  203 (302)
T ss_pred             cCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHh
Confidence            644322 22233334444444566999999976411     1111   1122222233445666654222100    012


Q ss_pred             CcceeecCCCCh-HHHHHHHHHhhC----CCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          301 SQQNFSFDVLKE-DEAWSLFKKMAG----DYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       301 ~~~~~~l~~L~~-~e~~~lf~~~~~----~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      ....+.|++-.. ++...|+...-.    ....+-...+++..|...++|+.--+..+-
T Consensus       204 RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll  262 (302)
T PF05621_consen  204 RFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLL  262 (302)
T ss_pred             ccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHH
Confidence            234566665554 444555544331    222223345689999999999976665553

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

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.50  E-value=2.2e-07  Score=86.01  Aligned_cols=210  Identities=25%  Similarity=0.277  Sum_probs=137.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCC-CEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLF-DQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f-~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      .+.+.++|.||+||||++-++.. ...  -| +.+.++......+...+.-.+...++.....  .......+..++. +
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~-~~~--~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~--g~~~~~~~~~~~~-~   87 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAH-AAS--EYADGVAFVDLAPITDPALVFPTLAGALGLHVQP--GDSAVDTLVRRIG-D   87 (414)
T ss_pred             hheeeeeccCccceehhhhhhHh-Hhh--hcccceeeeeccccCchhHhHHHHHhhccccccc--chHHHHHHHHHHh-h
Confidence            46799999999999999999998 332  35 5577888777777777777777767665432  1223445555555 6


Q ss_pred             CeEEEEEeCCCCcc-ccchhccccCCCCCCcEEEEeecchhhhhhcCCCcceeecCCCChH-HHHHHHHHhhCCC----C
Q 047930          254 KRILVILDNIWENL-DFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKED-EAWSLFKKMAGDY----I  327 (395)
Q Consensus       254 kr~LlVlDdv~~~~-~~~~l~~~l~~~~~gs~iivTtR~~~va~~~~~~~~~~~l~~L~~~-e~~~lf~~~~~~~----~  327 (395)
                      +|.++|+||-.+.. .-..+.-.+..+.+...++.|+|+...    .....+..+.+|+.. ++.++|...+...    .
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l----~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~  163 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL----VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFW  163 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc----ccccccccCCccccCCchhHHHHHHHHHhcccee
Confidence            89999999986542 222233334445556678899997543    344557778888865 7899988776311    1


Q ss_pred             CCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHH----hcCCCCCCCCCchHhhhhhhcccC
Q 047930          328 EGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQ----LRRPSSTNFKDIQPTAYKAIELSY  395 (395)
Q Consensus       328 ~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~----l~~~~~~~~~~~~~~i~~~L~lSY  395 (395)
                      ....-.....+|.++.+|.|++|...++..+.....+--..++.    +... .....--.+...+.+.+||
T Consensus       164 l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~  234 (414)
T COG3903         164 LTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSY  234 (414)
T ss_pred             ecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhh
Confidence            12223447889999999999999999999987765555544442    2221 1111112345666666665

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.49  E-value=6.3e-06  Score=80.21  Aligned_cols=175  Identities=15%  Similarity=0.177  Sum_probs=105.5

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccC---------------------CCCEE
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEK---------------------LFDQV  208 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~---------------------~f~~~  208 (395)
                      .....++|.+..+..|..++..++. ..+.++|+.|+||||+|+.+.+......                     +++ .
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~   92 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-V   92 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-e
Confidence            4456788999999999988876664 5678999999999999999988653321                     111 1


Q ss_pred             EEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCC
Q 047930          209 IFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKG  282 (395)
Q Consensus       209 ~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~g  282 (395)
                      +++.........                     .+..+.+.+.    .+++-++|+|++...  ...+.+...+.....+
T Consensus        93 ~~i~g~~~~gid---------------------~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~  151 (451)
T PRK06305         93 LEIDGASHRGIE---------------------DIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQH  151 (451)
T ss_pred             EEeeccccCCHH---------------------HHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCC
Confidence            111111111111                     1122222221    145678999998644  2334444444333345


Q ss_pred             cEEEEeecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          283 SKVLLTARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       283 s~iivTtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      +.+|++|.+ ..+..........+++.++++++....+.+.+......- -.+.+..|++.++|.+-
T Consensus       152 ~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i-~~~al~~L~~~s~gdlr  217 (451)
T PRK06305        152 VKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIET-SREALLPIARAAQGSLR  217 (451)
T ss_pred             ceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHH
Confidence            566666543 333222234556899999999999998888764222111 12357789999999764

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=3.6e-06  Score=84.46  Aligned_cols=196  Identities=16%  Similarity=0.174  Sum_probs=110.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+.....|..++..++. +.+.++|+.|+||||+|+.+.+........+.       ..+........|..
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~-------~~c~~c~~c~~i~~   84 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTA-------EPCNVCPPCVEITE   84 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCC-------CCCCccHHHHHHhc
Confidence            44566788999888889998887665 45689999999999999999887543211100       00000011111111


Q ss_pred             HhCCCc---c--ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEE-eecchhhhh
Q 047930          229 KLGLTL---H--EETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLL-TARSLDVLS  296 (395)
Q Consensus       229 ~l~~~~---~--~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iiv-TtR~~~va~  296 (395)
                      .-..+.   +  .....+.+..+.+.+.    .+++-++|||++....  ..+.+...+-....++.+|+ ||....+..
T Consensus        85 g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~  164 (576)
T PRK14965         85 GRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPI  164 (576)
T ss_pred             CCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhH
Confidence            000000   0  0001112233333332    2445689999996543  34555544433334555555 444455543


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTV  353 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i  353 (395)
                      .....+..+++.+++.++....+...+......-+ .+....|++.++|..- ++..+
T Consensus       165 tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~-~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        165 TILSRCQRFDFRRIPLQKIVDRLRYIADQEGISIS-DAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHcCCCHHHHHHHH
Confidence            34455678999999999998888876643222111 2356788888888664 44444

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.47  E-value=8.5e-06  Score=82.11  Aligned_cols=196  Identities=15%  Similarity=0.111  Sum_probs=111.7

Q ss_pred             ccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .....++|.+.....|..++..++ .+.+.++|+.|+||||+|+.++........... .    ..........+.+...
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-~----~~~Cg~C~~C~~i~~g   87 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-T----PEPCGKCELCRAIAAG   87 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-C----CCCCcccHHHHHHhcC
Confidence            445667898888888888887654 367789999999999999999987643211100 0    0011112222223222


Q ss_pred             hCCCcc-----ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhh
Q 047930          230 LGLTLH-----EETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSR  297 (395)
Q Consensus       230 l~~~~~-----~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~  297 (395)
                      ......     .....+.+..+.+.+.    .+++-++|||++...  ..++.+...+......+.+|++|.+ ..+...
T Consensus        88 ~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpT  167 (620)
T PRK14948         88 NALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPT  167 (620)
T ss_pred             CCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHH
Confidence            111100     0011112233333322    145568999999754  3455555555333344555555543 333333


Q ss_pred             cCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHH
Q 047930          298 KMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVT  352 (395)
Q Consensus       298 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~  352 (395)
                      .......+++.+++.++....+...+......-+ .+....|++.++|.+..+..
T Consensus       168 IrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is-~~al~~La~~s~G~lr~A~~  221 (620)
T PRK14948        168 IISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIE-PEALTLVAQRSQGGLRDAES  221 (620)
T ss_pred             HHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHcCCCHHHHHH
Confidence            3445678899999999988888876643221111 23577899999998764443

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.45  E-value=1.1e-05  Score=80.71  Aligned_cols=194  Identities=16%  Similarity=0.149  Sum_probs=110.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+.....|.+++..++. +.+.++|+.|+||||+|+.+..........+       ..+++.....+.|..
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~-------~~pC~~C~~C~~i~~   84 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD-------GEPCNECEICKAITN   84 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCccHHHHHHhc
Confidence            45567789999999999998876554 4567899999999999999987643221100       001111111122211


Q ss_pred             HhCCCccc-----cchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE-eecchhhhh
Q 047930          229 KLGLTLHE-----ETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL-TARSLDVLS  296 (395)
Q Consensus       229 ~l~~~~~~-----~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv-TtR~~~va~  296 (395)
                      ....+...     ....+.+..+.+.+.    .++.-++|||++...  ..+..+...+.....+..+|+ ||....+..
T Consensus        85 g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~  164 (559)
T PRK05563         85 GSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPA  164 (559)
T ss_pred             CCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcH
Confidence            11100000     011122333333332    255678899999754  345555544433333444454 444444433


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      ........+++.+++.++....+...+......-+ .+....|++.++|.+..+.
T Consensus       165 tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~-~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        165 TILSRCQRFDFKRISVEDIVERLKYILDKEGIEYE-DEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             HHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHH
Confidence            33445668899999999999999887743222112 2356788888888776443

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

Probab=98.43  E-value=2.1e-06  Score=73.39  Aligned_cols=106  Identities=18%  Similarity=0.130  Sum_probs=72.0

Q ss_pred             ccccccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          147 LLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       147 ~~~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ...|....+++|.++.++.+.-...+++.+.+.|.||+|+||||-+..+++..-....-+.+.-.+.|+...+.-+-..|
T Consensus        20 KYrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~I   99 (333)
T KOG0991|consen   20 KYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKI   99 (333)
T ss_pred             hhCchHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHH
Confidence            33455567789999888887777778889999999999999999999998886654444566667777665554433333


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      -.-....              -.+-.++.-++|||+.++.
T Consensus       100 K~FAQ~k--------------v~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  100 KMFAQKK--------------VTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             HHHHHhh--------------ccCCCCceeEEEeeccchh
Confidence            2111000              0011256678999999876

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

Probab=98.42  E-value=1.7e-06  Score=89.49  Aligned_cols=160  Identities=15%  Similarity=0.182  Sum_probs=93.3

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC---CC-CEEEEEEeCCcCCHHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK---LF-DQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~f-~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ....+++||+.+++.++..|.......+.++|++|+|||++|+.+++......   .+ +..+|. +    +...+..  
T Consensus       179 ~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l~a--  251 (731)
T TIGR02639       179 GKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSLLA--  251 (731)
T ss_pred             CCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHHhh--
Confidence            34567899999999999988876666788999999999999999998753321   11 333442 1    1111110  


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc----------ccchhccccCCCCCCcEEEEeecchhh--
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL----------DFQAVGIPHGDGHKGSKVLLTARSLDV--  294 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~----------~~~~l~~~l~~~~~gs~iivTtR~~~v--  294 (395)
                        ...   ........+..+.+.+...++.+|+||++....          +...+..+....+ .-++|-+|.....  
T Consensus       252 --~~~---~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g-~i~~IgaTt~~e~~~  325 (731)
T TIGR02639       252 --GTK---YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG-KLRCIGSTTYEEYKN  325 (731)
T ss_pred             --hcc---ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC-CeEEEEecCHHHHHH
Confidence              000   001122344555555544568999999986331          1112222221222 2344444443111  


Q ss_pred             ----hhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          295 ----LSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       295 ----a~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                          -.........+++++++.++..+++....
T Consensus       326 ~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       326 HFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence                01112234579999999999999998655

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.41  E-value=1.5e-05  Score=79.41  Aligned_cols=196  Identities=14%  Similarity=0.158  Sum_probs=111.3

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..+..|..++..++. +.+.++|+.|+||||+|+.+++..........   ..+....    ..+.|..
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~----~C~~i~~   84 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECS----SCKSIDN   84 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccch----HHHHHHc
Confidence            34556788999989999998886654 45789999999999999999887542211100   0000000    0011111


Q ss_pred             HhCCC---ccc--cchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecc-hhhhh
Q 047930          229 KLGLT---LHE--ETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARS-LDVLS  296 (395)
Q Consensus       229 ~l~~~---~~~--~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~-~~va~  296 (395)
                      .-...   .+.  ....+.+..+.+.+.    .+++-++|+|++....  .++.+...+......+.+|.+|.+ ..+..
T Consensus        85 ~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~  164 (563)
T PRK06647         85 DNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPA  164 (563)
T ss_pred             CCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHH
Confidence            00000   000  011112222322221    2456689999996543  455565555444445666655543 33433


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ........+++.+++.++....+.+.+......- -.+.+..|++.++|.+-.+...
T Consensus       165 tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~i-d~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        165 TIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKY-EDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             HHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHHH
Confidence            2334556799999999999999988774322221 1235778899999988644433

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.41  E-value=4.4e-06  Score=87.61  Aligned_cols=158  Identities=14%  Similarity=0.210  Sum_probs=92.5

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCC---C-CEEEEEEeCCcCCHHHHHHHHHH
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL---F-DQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f-~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ..+++||+++++.+++.|.......+.++|++|+|||++|+.++........   . +..+|. +    +...++    .
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~----a  248 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL----A  248 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh----c
Confidence            4568999999999999998766667789999999999999999887542111   1 234442 1    111111    0


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc---------ccchhccccCCCCCCcEEEEeecchhhh----
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL---------DFQAVGIPHGDGHKGSKVLLTARSLDVL----  295 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~iivTtR~~~va----  295 (395)
                        +.. ........+..+.+.+...++.+|+||++....         +...+..+....+ .-++|.+|......    
T Consensus       249 --g~~-~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg-~l~~IgaTt~~ey~~~ie  324 (821)
T CHL00095        249 --GTK-YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG-ELQCIGATTLDEYRKHIE  324 (821)
T ss_pred             --cCC-CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC-CcEEEEeCCHHHHHHHHh
Confidence              111 111122345556666554568999999995321         1122222221222 23445544433221    


Q ss_pred             --hhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          296 --SRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       296 --~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                        .........+.+...+.++...+++...
T Consensus       325 ~D~aL~rRf~~I~v~ep~~~e~~aILr~l~  354 (821)
T CHL00095        325 KDPALERRFQPVYVGEPSVEETIEILFGLR  354 (821)
T ss_pred             cCHHHHhcceEEecCCCCHHHHHHHHHHHH
Confidence              1122344578899999999988887543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.40  E-value=4.4e-06  Score=75.66  Aligned_cols=135  Identities=16%  Similarity=0.236  Sum_probs=70.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ....+.++|++|+||||+|+.+++............++.++..    ++....   ++     . .......+.+..   
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~----~l~~~~---~g-----~-~~~~~~~~~~~a---  104 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA----DLVGEY---IG-----H-TAQKTREVIKKA---  104 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH----Hhhhhh---cc-----c-hHHHHHHHHHhc---
Confidence            4567889999999999999999876432111111123333221    111110   01     0 011112222222   


Q ss_pred             CeEEEEEeCCCCcc----------ccchhccccCCCCCCcEEEEeecchhhh------hhcCCC-cceeecCCCChHHHH
Q 047930          254 KRILVILDNIWENL----------DFQAVGIPHGDGHKGSKVLLTARSLDVL------SRKMDS-QQNFSFDVLKEDEAW  316 (395)
Q Consensus       254 kr~LlVlDdv~~~~----------~~~~l~~~l~~~~~gs~iivTtR~~~va------~~~~~~-~~~~~l~~L~~~e~~  316 (395)
                      ...+|+||++....          ....+...+........+|+++......      ...... ...+++++++.++..
T Consensus       105 ~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~  184 (261)
T TIGR02881       105 LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELM  184 (261)
T ss_pred             cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHH
Confidence            23589999996521          2223333332333334555555432210      011122 356899999999999


Q ss_pred             HHHHHhhC
Q 047930          317 SLFKKMAG  324 (395)
Q Consensus       317 ~lf~~~~~  324 (395)
                      +++.+.+.
T Consensus       185 ~Il~~~~~  192 (261)
T TIGR02881       185 EIAERMVK  192 (261)
T ss_pred             HHHHHHHH
Confidence            99998874

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.

>TIGR00767 rho transcription termination factor Rho

Probab=98.40  E-value=1.6e-06  Score=81.26  Aligned_cols=90  Identities=16%  Similarity=0.171  Sum_probs=61.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc--CCHHHHHHHHHHHhCCC-ccccch--hhhHH----H
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI--QDIRKIQGEFADKLGLT-LHEETE--SGRAR----S  245 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~--~~~~~~~~~i~~~l~~~-~~~~~~--~~~~~----~  245 (395)
                      -..++|+|++|+|||||++.+++....+ +|+..+|+.+.+.  .++.++++.+...+-.. .+....  .....    .
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            3468899999999999999999987654 8999999999865  68899999985433111 111111  11111    2


Q ss_pred             HHHHHhcCCeEEEEEeCCCC
Q 047930          246 LCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       246 l~~~l~~~kr~LlVlDdv~~  265 (395)
                      ......++++.+|++|++..
T Consensus       247 Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhH
Confidence            22222358999999999954

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

>PRK05642 DNA replication initiation factor; Validated

Probab=98.39  E-value=9.9e-06  Score=72.00  Aligned_cols=154  Identities=14%  Similarity=0.192  Sum_probs=92.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.|+|..|+|||.|++.+++....+  -..++|++...      +...                 ...+.+.+.+ - 
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~--~~~v~y~~~~~------~~~~-----------------~~~~~~~~~~-~-   98 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQR--GEPAVYLPLAE------LLDR-----------------GPELLDNLEQ-Y-   98 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEeeHHH------HHhh-----------------hHHHHHhhhh-C-
Confidence            568899999999999999998875432  23466776432      2111                 1133444432 1 


Q ss_pred             EEEEEeCCCCc---cccch-hccccCC-CCCCcEEEEeecchhhh--------hhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWEN---LDFQA-VGIPHGD-GHKGSKVLLTARSLDVL--------SRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~---~~~~~-l~~~l~~-~~~gs~iivTtR~~~va--------~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      =+|++||+...   ..|.. +...+.. ...|..+|+|++...-.        .........+++.+++.++-..+++.+
T Consensus        99 d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~k  178 (234)
T PRK05642         99 ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLR  178 (234)
T ss_pred             CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHH
Confidence            27889999633   34543 3333211 22466788888753221        011223467899999999999999966


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      +...... --.++.+-|++.+.|..-.+..+-..|
T Consensus       179 a~~~~~~-l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        179 ASRRGLH-LTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHcCCC-CCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            6322111 113578889999988866665544333

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.37  E-value=6.6e-06  Score=80.04  Aligned_cols=184  Identities=15%  Similarity=0.099  Sum_probs=112.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      .-+.|+|..|+|||.|++.+++.......-..+++++      ..++...+...+....      .....+.+.+.  +.
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~~------~~~~~~~~~~~--~~  207 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKTH------KEIEQFKNEIC--QN  207 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHhh------hHHHHHHHHhc--cC
Confidence            4588999999999999999998654322223345554      3456677766654210      12334444443  34


Q ss_pred             EEEEEeCCCCcc---ccc-hhccccCC-CCCCcEEEEeecchhh-h-------hhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWENL---DFQ-AVGIPHGD-GHKGSKVLLTARSLDV-L-------SRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~~---~~~-~l~~~l~~-~~~gs~iivTtR~~~v-a-------~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      -+|||||+....   .+. .+...+.. ...|..||+|+....- .       ...+...-.+.+++++.++-..++.+.
T Consensus       208 dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~  287 (450)
T PRK14087        208 DVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKE  287 (450)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHH
Confidence            589999996432   222 22222211 1234468888664211 0       112234567889999999999999998


Q ss_pred             hCCCCC-CCchHHHHHHHHHHcCCchHHHHHHHHHh------h--CC--CHHHHHHHHHHhc
Q 047930          323 AGDYIE-GSEFKWVAREVAKECAGLPVSIVTVARAL------R--NK--RLFEWKDALEQLR  373 (395)
Q Consensus       323 ~~~~~~-~~~~~~~~~~i~~~c~GlPlai~~i~~~l------~--~~--~~~~w~~~l~~l~  373 (395)
                      +..... ..--.++..-|++.++|.|-.+.-+..-+      .  ++  +.+.-+.+++.+.
T Consensus       288 ~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~~  349 (450)
T PRK14087        288 IKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDIP  349 (450)
T ss_pred             HHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhcc
Confidence            853221 12234678999999999998776654333      2  12  5667777777653

>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=98.35  E-value=6e-06  Score=72.54  Aligned_cols=163  Identities=20%  Similarity=0.196  Sum_probs=96.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      ...+.|+|..|+|||.|.+.+++.......-..++|++      ..++...+...+..        .....+.+.+.  .
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~~~~~~--------~~~~~~~~~~~--~   97 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFADALRD--------GEIEEFKDRLR--S   97 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHHHHHHT--------TSHHHHHHHHC--T
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHHHHHHc--------ccchhhhhhhh--c
Confidence            34588999999999999999999865432222356664      45566666655532        12345556665  3


Q ss_pred             eEEEEEeCCCCcc---ccch-hccccC-CCCCCcEEEEeecchhhh--------hhcCCCcceeecCCCChHHHHHHHHH
Q 047930          255 RILVILDNIWENL---DFQA-VGIPHG-DGHKGSKVLLTARSLDVL--------SRKMDSQQNFSFDVLKEDEAWSLFKK  321 (395)
Q Consensus       255 r~LlVlDdv~~~~---~~~~-l~~~l~-~~~~gs~iivTtR~~~va--------~~~~~~~~~~~l~~L~~~e~~~lf~~  321 (395)
                      -=+|+|||++...   .|+. +...+. ....|.++|+|+....-.        ...+...-.+++.+++.++...++.+
T Consensus        98 ~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~  177 (219)
T PF00308_consen   98 ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQK  177 (219)
T ss_dssp             SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHH
T ss_pred             CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHH
Confidence            4589999997542   2332 221111 012466899999653211        11223456899999999999999999


Q ss_pred             hhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          322 MAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       322 ~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      .+...... --+++++-|++.+.+..-.+..+-
T Consensus       178 ~a~~~~~~-l~~~v~~~l~~~~~~~~r~L~~~l  209 (219)
T PF00308_consen  178 KAKERGIE-LPEEVIEYLARRFRRDVRELEGAL  209 (219)
T ss_dssp             HHHHTT---S-HHHHHHHHHHTTSSHHHHHHHH
T ss_pred             HHHHhCCC-CcHHHHHHHHHhhcCCHHHHHHHH
Confidence            88432221 223467778888877665554443

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.

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

Probab=98.32  E-value=1.8e-05  Score=75.92  Aligned_cols=135  Identities=20%  Similarity=0.194  Sum_probs=85.3

Q ss_pred             hHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccc
Q 047930          159 RMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEET  238 (395)
Q Consensus       159 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~  238 (395)
                      |..-+.+++..+..... ++.|.|+.++||||+++.+.......     .++++.-+......-+.+             
T Consensus        22 ~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l~d-------------   82 (398)
T COG1373          22 RRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIELLD-------------   82 (398)
T ss_pred             HHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhHHH-------------
Confidence            33445556665543333 99999999999999996666554322     455544322111110011             


Q ss_pred             hhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhh-----hhcCCCcceeecCCCChH
Q 047930          239 ESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVL-----SRKMDSQQNFSFDVLKED  313 (395)
Q Consensus       239 ~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va-----~~~~~~~~~~~l~~L~~~  313 (395)
                         ....+.+.-. .++..++||.|.....|......+.+..+. +|++|+-+....     ....+....+++.|||-.
T Consensus        83 ---~~~~~~~~~~-~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~  157 (398)
T COG1373          83 ---LLRAYIELKE-REKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFR  157 (398)
T ss_pred             ---HHHHHHHhhc-cCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHH
Confidence               1111111111 267899999999999999876777666666 899988875443     223456678999999999


Q ss_pred             HHHH
Q 047930          314 EAWS  317 (395)
Q Consensus       314 e~~~  317 (395)
                      |-..
T Consensus       158 Efl~  161 (398)
T COG1373         158 EFLK  161 (398)
T ss_pred             HHHh
Confidence            9865

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.31  E-value=3.8e-05  Score=71.17  Aligned_cols=196  Identities=15%  Similarity=0.159  Sum_probs=112.5

Q ss_pred             cchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhccc--------------CCCCEEEEEEeCCcCC
Q 047930          154 EAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENE--------------KLFDQVIFVEVSQIQD  218 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~--------------~~f~~~~wv~~s~~~~  218 (395)
                      ..++|.+...+.+...+..++ .+...++|+.|+||+++|..+.+..-..              .|.| ..|+.-.....
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPD-l~~i~p~~~~~   82 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPD-LLWVEPTYQHQ   82 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCC-EEEEecccccc
Confidence            457898888888988887766 4789999999999999999988764322              1222 23332110000


Q ss_pred             HHHHHHHHHHHhCC--CccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeec
Q 047930          219 IRKIQGEFADKLGL--TLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTAR  290 (395)
Q Consensus       219 ~~~~~~~i~~~l~~--~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR  290 (395)
                      -..+-...+...+.  .....-..+.+..+.+.+.    .+++-++|+|++...  ...+.+...+-...+..-|++|+.
T Consensus        83 g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~  162 (314)
T PRK07399         83 GKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPS  162 (314)
T ss_pred             ccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECC
Confidence            00000011111110  0000111123445555553    256779999998654  344445444422223333444444


Q ss_pred             chhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          291 SLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       291 ~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      ...+.....+.+..+++.++++++..+.+.+.........    ....++..++|.|..+..+.
T Consensus       163 ~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~~~----~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        163 PESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEILNI----NFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             hHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccchh----HHHHHHHHcCCCHHHHHHHH
Confidence            4455454556778999999999999999998753211111    13578999999997665443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.31  E-value=2.1e-05  Score=72.00  Aligned_cols=132  Identities=17%  Similarity=0.183  Sum_probs=71.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeE
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRI  256 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~  256 (395)
                      .+.++|++|+|||++|+.++...........--|+.++.    .++...+   .+..     . .....+.+..   ..-
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~l~~~~---~g~~-----~-~~~~~~~~~a---~~g  123 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DDLVGQY---IGHT-----A-PKTKEILKRA---MGG  123 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HHHhHhh---cccc-----h-HHHHHHHHHc---cCc
Confidence            578999999999999988877654322221112444432    1222111   1111     1 1122233322   336


Q ss_pred             EEEEeCCCCc-----------cccchhccccCCCCCCcEEEEeecchhhhh-hc------CCCcceeecCCCChHHHHHH
Q 047930          257 LVILDNIWEN-----------LDFQAVGIPHGDGHKGSKVLLTARSLDVLS-RK------MDSQQNFSFDVLKEDEAWSL  318 (395)
Q Consensus       257 LlVlDdv~~~-----------~~~~~l~~~l~~~~~gs~iivTtR~~~va~-~~------~~~~~~~~l~~L~~~e~~~l  318 (395)
                      +|+||++...           ..+..+...+.....+.+||.++.....-. ..      ......+++++++.+|...+
T Consensus       124 vL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I  203 (284)
T TIGR02880       124 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVI  203 (284)
T ss_pred             EEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHH
Confidence            8999999632           112233333333344566777765432110 00      01235799999999999999


Q ss_pred             HHHhhC
Q 047930          319 FKKMAG  324 (395)
Q Consensus       319 f~~~~~  324 (395)
                      +...+.
T Consensus       204 ~~~~l~  209 (284)
T TIGR02880       204 AGLMLK  209 (284)
T ss_pred             HHHHHH
Confidence            998874

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.30  E-value=3.8e-05  Score=71.58  Aligned_cols=167  Identities=14%  Similarity=0.078  Sum_probs=91.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC-----cc---ccchhhhHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT-----LH---EETESGRARSL  246 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~-----~~---~~~~~~~~~~l  246 (395)
                      ...+.++|+.|+||||+|..+....-.......       .........+.+...-..+     ..   .....+.+..+
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l   94 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGG-------GACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVREL   94 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHH
Confidence            456889999999999999999887543211100       0000000000110000000     00   00011223333


Q ss_pred             HHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecch-hhhhhcCCCcceeecCCCChHHHHHHH
Q 047930          247 CNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMDSQQNFSFDVLKEDEAWSLF  319 (395)
Q Consensus       247 ~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~~~~~~~l~~L~~~e~~~lf  319 (395)
                      .+.+.    .+++-++|||+++..  ...+.+...+.....++.+|+||.+. .+.....+....+++.+++.+++.+.+
T Consensus        95 ~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L  174 (328)
T PRK05707         95 VSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWL  174 (328)
T ss_pred             HHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHH
Confidence            33332    134455678999764  34555555553333566777777764 444444566778999999999999999


Q ss_pred             HHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          320 KKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ...... ..    .+.+..++..++|.|+....+
T Consensus       175 ~~~~~~-~~----~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        175 QQALPE-SD----ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             HHhccc-CC----hHHHHHHHHHcCCCHHHHHHH
Confidence            876421 11    123567788999999855433

>CHL00181 cbbX CbbX; Provisional

Probab=98.30  E-value=2.5e-05  Score=71.42  Aligned_cols=133  Identities=14%  Similarity=0.148  Sum_probs=72.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.++|++|+||||+|+.++........-...-|+.++.    .++.....   +..     . .....+.+..   ..
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----~~l~~~~~---g~~-----~-~~~~~~l~~a---~g  123 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----DDLVGQYI---GHT-----A-PKTKEVLKKA---MG  123 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----HHHHHHHh---ccc-----h-HHHHHHHHHc---cC
Confidence            3578999999999999999987643222111112444431    22222211   110     0 1112222222   23


Q ss_pred             EEEEEeCCCCc-----------cccchhccccCCCCCCcEEEEeecchhhhh-------hcCCCcceeecCCCChHHHHH
Q 047930          256 ILVILDNIWEN-----------LDFQAVGIPHGDGHKGSKVLLTARSLDVLS-------RKMDSQQNFSFDVLKEDEAWS  317 (395)
Q Consensus       256 ~LlVlDdv~~~-----------~~~~~l~~~l~~~~~gs~iivTtR~~~va~-------~~~~~~~~~~l~~L~~~e~~~  317 (395)
                      -+|+||++...           +....+...+.+...+.+||.++....+..       -.......+.+++++.+|..+
T Consensus       124 gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~  203 (287)
T CHL00181        124 GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQ  203 (287)
T ss_pred             CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHH
Confidence            59999999642           111223333333444567777775433210       011224589999999999999


Q ss_pred             HHHHhhC
Q 047930          318 LFKKMAG  324 (395)
Q Consensus       318 lf~~~~~  324 (395)
                      ++...+.
T Consensus       204 I~~~~l~  210 (287)
T CHL00181        204 IAKIMLE  210 (287)
T ss_pred             HHHHHHH
Confidence            9998874

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

Probab=98.30  E-value=1.6e-05  Score=75.93  Aligned_cols=199  Identities=17%  Similarity=0.257  Sum_probs=108.4

Q ss_pred             cccchhchHHHHHHHHHHhc----C---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          152 DYEAFESRMSTLNDILDALK----N---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      ...++.|.+..++++.+.+.    .         ..++-+.++|++|+|||+||+.+++.....  |   +.+..     
T Consensus       143 ~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~--f---i~i~~-----  212 (398)
T PTZ00454        143 TYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT--F---IRVVG-----  212 (398)
T ss_pred             CHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--E---EEEeh-----
Confidence            34556677666666655432    1         235678899999999999999999875422  2   22211     


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------c----cchhccccC--CCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------D----FQAVGIPHG--DGH  280 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~----~~~l~~~l~--~~~  280 (395)
                       ..+....   ++     . ....+..+........+.+|+||+++...            .    +..+...+.  ...
T Consensus       213 -s~l~~k~---~g-----e-~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~  282 (398)
T PTZ00454        213 -SEFVQKY---LG-----E-GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQT  282 (398)
T ss_pred             -HHHHHHh---cc-----h-hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCC
Confidence             1111111   11     0 11223344444444678999999986421            0    111111111  123


Q ss_pred             CCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH--
Q 047930          281 KGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV--  353 (395)
Q Consensus       281 ~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i--  353 (395)
                      .+..||.||...... ....   .-...+++...+.++...+|..........++..  ..++++.+.|+.-| |+.+  
T Consensus       283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd--~~~la~~t~g~sgaDI~~l~~  360 (398)
T PTZ00454        283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVD--LEDFVSRPEKISAADIAAICQ  360 (398)
T ss_pred             CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccC--HHHHHHHcCCCCHHHHHHHHH
Confidence            456788888754332 1111   2345789999999998888887764332222221  35677777776433 3332  


Q ss_pred             -HHHh--h-CC---CHHHHHHHHHHh
Q 047930          354 -ARAL--R-NK---RLFEWKDALEQL  372 (395)
Q Consensus       354 -~~~l--~-~~---~~~~w~~~l~~l  372 (395)
                       |++.  + ++   +.+.+..+++..
T Consensus       361 eA~~~A~r~~~~~i~~~df~~A~~~v  386 (398)
T PTZ00454        361 EAGMQAVRKNRYVILPKDFEKGYKTV  386 (398)
T ss_pred             HHHHHHHHcCCCccCHHHHHHHHHHH
Confidence             3332  2 21   566777776664

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

Probab=98.28  E-value=6.1e-05  Score=69.23  Aligned_cols=196  Identities=15%  Similarity=0.169  Sum_probs=116.8

Q ss_pred             cchhchHHHHHHHHHHhcCCC---ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHh
Q 047930          154 EAFESRMSTLNDILDALKNPD---VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKL  230 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~---~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l  230 (395)
                      +.|.+|+.++..+...+.+..   +..+.|.|-+|+|||.+.+++.+.....     -+|+++-..++...++..|+...
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~-----~vw~n~~ecft~~~lle~IL~~~   80 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE-----NVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc-----ceeeehHHhccHHHHHHHHHHHh
Confidence            457789999999988877443   3445789999999999999999887322     58999999999999999999998


Q ss_pred             CC-Cccccc-hh--hhHHHHHHHHh-------cCCeEEEEEeCCCCccccchhccc----c--CCCCCCcEEEEeecc--
Q 047930          231 GL-TLHEET-ES--GRARSLCNRLK-------KEKRILVILDNIWENLDFQAVGIP----H--GDGHKGSKVLLTARS--  291 (395)
Q Consensus       231 ~~-~~~~~~-~~--~~~~~l~~~l~-------~~kr~LlVlDdv~~~~~~~~l~~~----l--~~~~~gs~iivTtR~--  291 (395)
                      +. +.+... ..  +........+.       .++.++||||+++...+.+.+..+    +  .-+.+.. +|+++-.  
T Consensus        81 ~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i-~iils~~~~  159 (438)
T KOG2543|consen   81 QLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTI-VIILSAPSC  159 (438)
T ss_pred             ccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCce-EEEEecccc
Confidence            52 222111 11  11222222221       246899999999766544432110    0  0122233 3444332  


Q ss_pred             hhhhhhcCCC--cceeecCCCChHHHHHHHHHhhCCCCC----CCchHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          292 LDVLSRKMDS--QQNFSFDVLKEDEAWSLFKKMAGDYIE----GSEFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       292 ~~va~~~~~~--~~~~~l~~L~~~e~~~lf~~~~~~~~~----~~~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      +......++.  ..++.++..+.+|...+|.+.-.+...    ..-+.-+..-....|+ -|-.+..+...
T Consensus       160 e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~  229 (438)
T KOG2543|consen  160 EKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISL  229 (438)
T ss_pred             HHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHH
Confidence            2221111233  346778889999999988765432111    1112223344555666 56666555544

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.27  E-value=2.2e-05  Score=77.85  Aligned_cols=201  Identities=21%  Similarity=0.266  Sum_probs=108.4

Q ss_pred             ccccchhchHHHHHHH---HHHhcC---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          151 KDYEAFESRMSTLNDI---LDALKN---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l---~~~l~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      ....++.|-+...+++   +.++..         ...+-+.++|++|+|||+||+.+++.....       ++.++.   
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~-------~~~i~~---  121 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP-------FFSISG---  121 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC-------eeeccH---
Confidence            3445666766554443   333321         224568899999999999999999875432       222221   


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------ccc----hhccccC--CCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------DFQ----AVGIPHG--DGH  280 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~~~----~l~~~l~--~~~  280 (395)
                       .++....   .+.      ....+..+.+......+.+|+|||++...            .+.    .+...+.  ...
T Consensus       122 -~~~~~~~---~g~------~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       122 -SDFVEMF---VGV------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             -HHHHHHH---hcc------cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence             1111111   010      11123344444444567999999996431            011    1111110  122


Q ss_pred             CCcEEEEeecchhhh-hhc---CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHHHH
Q 047930          281 KGSKVLLTARSLDVL-SRK---MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTVAR  355 (395)
Q Consensus       281 ~gs~iivTtR~~~va-~~~---~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~~  355 (395)
                      .+..||.||...... ...   ..-...+++...+.++-.++|+..+......++.  ....+++.+.|. |--|..+..
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~--~l~~la~~t~G~sgadl~~l~~  269 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDV--DLKAVARRTPGFSGADLANLLN  269 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcch--hHHHHHHhCCCCCHHHHHHHHH
Confidence            345566666553321 111   1234578999999999999998887543222222  245788888884 444444432


Q ss_pred             ---Hh--h-CC---CHHHHHHHHHHhc
Q 047930          356 ---AL--R-NK---RLFEWKDALEQLR  373 (395)
Q Consensus       356 ---~l--~-~~---~~~~w~~~l~~l~  373 (395)
                         +.  + ++   +.+..+.+++...
T Consensus       270 eA~~~a~~~~~~~i~~~~l~~a~~~~~  296 (495)
T TIGR01241       270 EAALLAARKNKTEITMNDIEEAIDRVI  296 (495)
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence               11  2 22   6778888877654

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.26  E-value=5.3e-05  Score=73.23  Aligned_cols=181  Identities=18%  Similarity=0.166  Sum_probs=107.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.|+|+.|+|||.|++.+++....+..-..++|++.      .++...+...+...        ....+.+.+..  .
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~--------~~~~~~~~~~~--~  200 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN--------KMEEFKEKYRS--V  200 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC--------CHHHHHHHHHh--C
Confidence            45889999999999999999998754321123566643      34444555444321        12344444442  3


Q ss_pred             EEEEEeCCCCccc---cc-hhccccCC-CCCCcEEEEeecchh--hh------hhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWENLD---FQ-AVGIPHGD-GHKGSKVLLTARSLD--VL------SRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~~~---~~-~l~~~l~~-~~~gs~iivTtR~~~--va------~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      -+|+|||+.....   +. .+...+.. ...+..+|+|+....  +.      ...+.....+.+.+.+.++-..++.+.
T Consensus       201 dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~  280 (405)
T TIGR00362       201 DLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKK  280 (405)
T ss_pred             CEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHH
Confidence            4899999975321   11 12221111 123456788776421  10      111233457999999999999999998


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCchHHHH----HHHHHh--hC-C-CHHHHHHHHHHhc
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLPVSIV----TVARAL--RN-K-RLFEWKDALEQLR  373 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlPlai~----~i~~~l--~~-~-~~~~w~~~l~~l~  373 (395)
                      +......- -.++...|++.+.|.+-.+.    .+..+-  .+ . +....+.++..+-
T Consensus       281 ~~~~~~~l-~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~~  338 (405)
T TIGR00362       281 AEEEGLEL-PDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDLL  338 (405)
T ss_pred             HHHcCCCC-CHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHhc
Confidence            85432211 24578889999998776433    332221  12 2 7788888888753

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).

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.23  E-value=2.7e-05  Score=76.19  Aligned_cols=161  Identities=19%  Similarity=0.259  Sum_probs=89.2

Q ss_pred             cccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCC---CCEEEEEEeCC
Q 047930          152 DYEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL---FDQVIFVEVSQ  215 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f~~~~wv~~s~  215 (395)
                      .+.++.|.+..++++.+.+.             -..++-+.++|++|+|||++|+.+++.......   .....|+++..
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~  259 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKG  259 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccc
Confidence            34556678887777766542             123456889999999999999999998653211   12344555443


Q ss_pred             cCCHHHHHHHHHHHhCCCccccchhhhHHHHHHH----HhcCCeEEEEEeCCCCcc---------cc-----chhccccC
Q 047930          216 IQDIRKIQGEFADKLGLTLHEETESGRARSLCNR----LKKEKRILVILDNIWENL---------DF-----QAVGIPHG  277 (395)
Q Consensus       216 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~----l~~~kr~LlVlDdv~~~~---------~~-----~~l~~~l~  277 (395)
                      ..    ++....   +     . ....+..+.+.    ...+++++|+||+++...         +.     ..+...+.
T Consensus       260 ~e----Ll~kyv---G-----e-te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LD  326 (512)
T TIGR03689       260 PE----LLNKYV---G-----E-TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELD  326 (512)
T ss_pred             hh----hccccc---c-----h-HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhc
Confidence            21    111100   0     0 01112222222    223578999999997431         11     12222221


Q ss_pred             --CCCCCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCC
Q 047930          278 --DGHKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGD  325 (395)
Q Consensus       278 --~~~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~  325 (395)
                        ....+..||.||...... ....   .....|++++.+.++..++|+.++..
T Consensus       327 gl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       327 GVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             ccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence              112344556666544322 1111   22446999999999999999998753

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.

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

Probab=98.20  E-value=0.0001  Score=64.50  Aligned_cols=100  Identities=16%  Similarity=0.298  Sum_probs=62.5

Q ss_pred             ccccchhchHHHHHHHHHH----hcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDA----LKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~----l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      .....++|-+.+.+.|++.    +.......+.++|..|+|||+|++.+.+....+.   . --|.++..          
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G---L-RlIev~k~----------   89 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG---L-RLIEVSKE----------   89 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC---c-eEEEECHH----------
Confidence            4456678877777766654    3355566788999999999999999998876543   1 11222211          


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCC---Cccccchhcccc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIW---ENLDFQAVGIPH  276 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~---~~~~~~~l~~~l  276 (395)
                                  +...+..+.+.+. ...||+|++||+.   +...+..++..+
T Consensus        90 ------------~L~~l~~l~~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~L  131 (249)
T PF05673_consen   90 ------------DLGDLPELLDLLRDRPYKFILFCDDLSFEEGDTEYKALKSVL  131 (249)
T ss_pred             ------------HhccHHHHHHHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHh
Confidence                        1112334444443 3579999999984   223455555444

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.18  E-value=2.9e-05  Score=81.80  Aligned_cols=158  Identities=13%  Similarity=0.168  Sum_probs=90.9

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEE-EEeCCcCCHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIF-VEVSQIQDIRKIQGEF  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~w-v~~s~~~~~~~~~~~i  226 (395)
                      ...+++||+.++.+++..|.......+.++|++|+|||++|+.+.........    ....+| +.+      ..+.   
T Consensus       171 ~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~------~~l~---  241 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDM------GALI---  241 (852)
T ss_pred             CCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeH------HHHh---
Confidence            45678999999999999998766667789999999999999999887532211    122233 221      1111   


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCCccc---------cchhccccCCCCCCcEEEEeecchhh--
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWENLD---------FQAVGIPHGDGHKGSKVLLTARSLDV--  294 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~~---------~~~l~~~l~~~~~gs~iivTtR~~~v--  294 (395)
                       .  +.. ........+..+.+.+. .+++.+|+||++.....         ...+..+....+ .-++|-+|.....  
T Consensus       242 -a--~~~-~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g-~i~~IgaTt~~e~r~  316 (852)
T TIGR03346       242 -A--GAK-YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG-ELHCIGATTLDEYRK  316 (852)
T ss_pred             -h--cch-hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC-ceEEEEeCcHHHHHH
Confidence             0  000 00111223445555553 24689999999964321         112222322222 2344444443321  


Q ss_pred             ----hhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          295 ----LSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       295 ----a~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                          -.........+.+...+.++...++....
T Consensus       317 ~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       317 YIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence                01112234568899999999999987664

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.

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

Probab=98.18  E-value=1.2e-05  Score=76.66  Aligned_cols=108  Identities=23%  Similarity=0.321  Sum_probs=71.4

Q ss_pred             cchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC
Q 047930          154 EAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~  233 (395)
                      ...+..+..++.++..|...  +.|.++|++|+|||++|+.+++.......|+.+.|+++++..+..++..-+.-. +..
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~vg  251 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GVG  251 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCC-CCC
Confidence            34566778888888888754  457889999999999999999987655568889999999988877655422100 000


Q ss_pred             ccccchhhhHHHHHHHHh--cCCeEEEEEeCCCCc
Q 047930          234 LHEETESGRARSLCNRLK--KEKRILVILDNIWEN  266 (395)
Q Consensus       234 ~~~~~~~~~~~~l~~~l~--~~kr~LlVlDdv~~~  266 (395)
                      .  .-......++.+...  .+++++||||++...
T Consensus       252 y--~~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        252 F--RRKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             e--EecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            0  000112222223322  246899999999643

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

Probab=98.18  E-value=6.6e-05  Score=66.39  Aligned_cols=196  Identities=16%  Similarity=0.151  Sum_probs=110.1

Q ss_pred             cccccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQG  224 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  224 (395)
                      |.....|+|.++..++|-=.+.     +..+..+.++|++|.||||||.-+++...+.  +    -++...-..      
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--~----k~tsGp~le------   89 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN--L----KITSGPALE------   89 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC--e----Eeccccccc------
Confidence            4556789998887777654443     4567889999999999999999999998764  1    111111100      


Q ss_pred             HHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc---------ccchhcccc-CCCCCCcE----------
Q 047930          225 EFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL---------DFQAVGIPH-GDGHKGSK----------  284 (395)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---------~~~~l~~~l-~~~~~gs~----------  284 (395)
                                    ....+..+...|.  ..=+|++|++....         ..+++.... ...++++|          
T Consensus        90 --------------K~gDlaaiLt~Le--~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFT  153 (332)
T COG2255          90 --------------KPGDLAAILTNLE--EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFT  153 (332)
T ss_pred             --------------ChhhHHHHHhcCC--cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCee
Confidence                          0111222333332  23456667764321         111110000 01122222          


Q ss_pred             -EEEeecchhhhh-hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhC---
Q 047930          285 -VLLTARSLDVLS-RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRN---  359 (395)
Q Consensus       285 -iivTtR~~~va~-~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~---  359 (395)
                       |=-|||.-.+.. ......-+.+++..+.+|..++..+.+..-...-+ .+-+.+|+++..|-|--..-+-.-.+.   
T Consensus       154 LIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~-~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~  232 (332)
T COG2255         154 LIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEID-EEAALEIARRSRGTPRIANRLLRRVRDFAQ  232 (332)
T ss_pred             EeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCC-hHHHHHHHHhccCCcHHHHHHHHHHHHHHH
Confidence             345888643321 11123457889999999999999988842111111 235889999999999755544443331   


Q ss_pred             ---C---CHHHHHHHHHHhcC
Q 047930          360 ---K---RLFEWKDALEQLRR  374 (395)
Q Consensus       360 ---~---~~~~w~~~l~~l~~  374 (395)
                         .   +..--..+++.|.-
T Consensus       233 V~~~~~I~~~ia~~aL~~L~V  253 (332)
T COG2255         233 VKGDGDIDRDIADKALKMLDV  253 (332)
T ss_pred             HhcCCcccHHHHHHHHHHhCc
Confidence               1   34445556666544

>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=98.17  E-value=9.2e-06  Score=65.13  Aligned_cols=69  Identities=23%  Similarity=0.278  Sum_probs=42.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC-eE
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK-RI  256 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k-r~  256 (395)
                      |.|+|++|+||||+|+.+++....     ..+.++.+...+.               ........+..+.+...... +.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~-----~~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~~~~~~~~~   60 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGF-----PFIEIDGSELISS---------------YAGDSEQKIRDFFKKAKKSAKPC   60 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTS-----EEEEEETTHHHTS---------------STTHHHHHHHHHHHHHHHTSTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhccc-----ccccccccccccc---------------cccccccccccccccccccccce
Confidence            579999999999999999998742     1344544322100               01111223334444443333 89


Q ss_pred             EEEEeCCCCc
Q 047930          257 LVILDNIWEN  266 (395)
Q Consensus       257 LlVlDdv~~~  266 (395)
                      +|+|||++..
T Consensus        61 vl~iDe~d~l   70 (132)
T PF00004_consen   61 VLFIDEIDKL   70 (132)
T ss_dssp             EEEEETGGGT
T ss_pred             eeeeccchhc
Confidence            9999999654

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 ....

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.16  E-value=1.7e-05  Score=83.27  Aligned_cols=159  Identities=13%  Similarity=0.169  Sum_probs=90.1

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCE-EEEEEeCCcCCHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQ-VIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~-~~wv~~s~~~~~~~~~~~  225 (395)
                      ....+++||+.++..++..|.......+.++|++|+|||+||+.+.........    ... ++++.++.-      .. 
T Consensus       175 ~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l------~a-  247 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL------VA-  247 (857)
T ss_pred             CCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhh------hh-
Confidence            345679999999999999998766667889999999999999999987642211    122 233322211      00 


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCCcc---------ccchhccccCCCCCCcEEEEeecchhh-
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWENL---------DFQAVGIPHGDGHKGSKVLLTARSLDV-  294 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~iivTtR~~~v-  294 (395)
                           + ..........+..+.+.+. .+++.+|++|++....         +-..+..|....+ .-++|-+|..... 
T Consensus       248 -----g-~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g-~l~~IgaTt~~e~r  320 (857)
T PRK10865        248 -----G-AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATTLDEYR  320 (857)
T ss_pred             -----c-cchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC-CCeEEEcCCCHHHH
Confidence                 0 0000111123344444442 2568999999996442         1122333332222 3345544443321 


Q ss_pred             -----hhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          295 -----LSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       295 -----a~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                           -.........+.+...+.++...+++...
T Consensus       321 ~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        321 QYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence                 01112233456677778899998887654

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.16  E-value=8.2e-05  Score=72.90  Aligned_cols=181  Identities=18%  Similarity=0.163  Sum_probs=107.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.|+|+.|+|||+|++.+++....+..-..++|++..      ++...+...+...        ....+.+.+.  +.
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~------~~~~~~~~~~~~~--------~~~~~~~~~~--~~  212 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE------KFTNDFVNALRNN--------TMEEFKEKYR--SV  212 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH------HHHHHHHHHHHcC--------cHHHHHHHHh--cC
Confidence            458899999999999999999987643222335566543      3344444444211        1234444554  24


Q ss_pred             EEEEEeCCCCcc---cc-chhccccCC-CCCCcEEEEeecchh--hh------hhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWENL---DF-QAVGIPHGD-GHKGSKVLLTARSLD--VL------SRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~~---~~-~~l~~~l~~-~~~gs~iivTtR~~~--va------~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      -+|+|||+....   .+ +.+...+.. ...|..+|+|+....  +.      .........+++++.+.++-..++.+.
T Consensus       213 dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~  292 (450)
T PRK00149        213 DVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKK  292 (450)
T ss_pred             CEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHH
Confidence            589999996431   11 122221110 112445777776431  10      112334468999999999999999998


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCchHHHH----HHHHHh--hCC--CHHHHHHHHHHhc
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLPVSIV----TVARAL--RNK--RLFEWKDALEQLR  373 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlPlai~----~i~~~l--~~~--~~~~w~~~l~~l~  373 (395)
                      +..... .--.++..-|++.+.|..-.+.    .+..+-  .++  +....+.++..+.
T Consensus       293 ~~~~~~-~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~~  350 (450)
T PRK00149        293 AEEEGI-DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDLL  350 (450)
T ss_pred             HHHcCC-CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhh
Confidence            853221 1123478889999998876433    332221  222  7888888888763

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.15  E-value=0.00012  Score=67.60  Aligned_cols=173  Identities=18%  Similarity=0.162  Sum_probs=99.4

Q ss_pred             HHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCE----------------EEEEEeCCcCCHHHHHH
Q 047930          162 TLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ----------------VIFVEVSQIQDIRKIQG  224 (395)
Q Consensus       162 ~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~----------------~~wv~~s~~~~~~~~~~  224 (395)
                      ..+.+...+..++. ..+.++|+.|+||+++|..+....-.+....+                ..|+.......      
T Consensus        12 ~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~------   85 (319)
T PRK08769         12 AYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRT------   85 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcc------
Confidence            45566676666654 45889999999999999998876543221110                11111000000      


Q ss_pred             HHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecc-hhhhhh
Q 047930          225 EFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARS-LDVLSR  297 (395)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~-~~va~~  297 (395)
                            +......-..+.+..+.+.+.    .+++-++|||+++...  .-+.+...+-....++.+|++|.+ ..+...
T Consensus        86 ------~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpT  159 (319)
T PRK08769         86 ------GDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPAT  159 (319)
T ss_pred             ------cccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchH
Confidence                  000000001122333333332    2566799999997653  334444444333456667766665 445444


Q ss_pred             cCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          298 KMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       298 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      ..+....+.+.+++.+++...+... +  .. +   .-+..++..++|.|+....+
T Consensus       160 IrSRCq~i~~~~~~~~~~~~~L~~~-~--~~-~---~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        160 IRSRCQRLEFKLPPAHEALAWLLAQ-G--VS-E---RAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             HHhhheEeeCCCcCHHHHHHHHHHc-C--CC-h---HHHHHHHHHcCCCHHHHHHH
Confidence            5566778999999999999888754 1  11 1   12567899999999866543

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.15  E-value=1.2e-05  Score=80.72  Aligned_cols=203  Identities=11%  Similarity=0.098  Sum_probs=105.3

Q ss_pred             cccccccchhchHHHHHHHHHHhcC-----CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC---cCCH
Q 047930          148 LSNKDYEAFESRMSTLNDILDALKN-----PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ---IQDI  219 (395)
Q Consensus       148 ~~~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~---~~~~  219 (395)
                      ..|.....+++....+.++..++..     ....++.|+|+.|+||||+++.++....    ++..-|.+-..   ..+.
T Consensus        78 yrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~----~~~~Ew~npv~~~~~~~~  153 (637)
T TIGR00602        78 YKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG----IQVQEWSNPTLPDFQKND  153 (637)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh----hHHHHHhhhhhhcccccc
Confidence            3456667788988888888888763     2335699999999999999999997653    22222321110   0000


Q ss_pred             HHHHHHHHHHhCCCccccchhhhHHHHHHHH----------hcCCeEEEEEeCCCCcc-----ccchhcc-ccCCCCCCc
Q 047930          220 RKIQGEFADKLGLTLHEETESGRARSLCNRL----------KKEKRILVILDNIWENL-----DFQAVGI-PHGDGHKGS  283 (395)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l----------~~~kr~LlVlDdv~~~~-----~~~~l~~-~l~~~~~gs  283 (395)
                      ..+...+..++....   +.......+....          ..+++.+|+||++.+..     .+..+.. .+.....-.
T Consensus       154 ~~~~~s~~~~~~~~~---s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~~p  230 (637)
T TIGR00602       154 HKVTLSLESCFSNFQ---SQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCP  230 (637)
T ss_pred             cccchhhhhcccccc---chHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCCce
Confidence            111111222221110   1111111111111          12467899999995432     2333333 222222222


Q ss_pred             EEEEeecchh---------hh------hhc--CCCcceeecCCCChHHHHHHHHHhhCCCCC---CC---chHHHHHHHH
Q 047930          284 KVLLTARSLD---------VL------SRK--MDSQQNFSFDVLKEDEAWSLFKKMAGDYIE---GS---EFKWVAREVA  340 (395)
Q Consensus       284 ~iivTtR~~~---------va------~~~--~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~---~~---~~~~~~~~i~  340 (395)
                      -|++||-+..         ..      ...  ......|.+.|++..+..+.+.+.+.....   ..   .-.+....|+
T Consensus       231 LI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~I~  310 (637)
T TIGR00602       231 LVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLC  310 (637)
T ss_pred             EEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHHHH
Confidence            3455552211         00      001  123346899999999988877777642110   11   0134677888


Q ss_pred             HHcCCchHHHHHHHHHh
Q 047930          341 KECAGLPVSIVTVARAL  357 (395)
Q Consensus       341 ~~c~GlPlai~~i~~~l  357 (395)
                      ..++|---.+...-.++
T Consensus       311 ~~s~GDiRsAIn~LQf~  327 (637)
T TIGR00602       311 QGCSGDIRSAINSLQFS  327 (637)
T ss_pred             HhCCChHHHHHHHHHHH
Confidence            88888765444444443

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

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.14  E-value=5.1e-05  Score=73.79  Aligned_cols=181  Identities=14%  Similarity=0.130  Sum_probs=106.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      .-+.|+|++|+|||.|++.+++.......-..++|++.      .++..++...+...        ....+.+.+. .+.
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~--------~~~~f~~~~~-~~~  195 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EKFLNDLVDSMKEG--------KLNEFREKYR-KKV  195 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHhcc--------cHHHHHHHHH-hcC
Confidence            45889999999999999999998654321124666653      45566666555321        1223344433 235


Q ss_pred             EEEEEeCCCCcc---cc-chhccccCC-CCCCcEEEEeecc-hh----hhh---hcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWENL---DF-QAVGIPHGD-GHKGSKVLLTARS-LD----VLS---RKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~~---~~-~~l~~~l~~-~~~gs~iivTtR~-~~----va~---~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      -+|+|||+....   .+ ..+...+.. ...|..||+||.. ..    +..   ........+.+++.+.+.-..++++.
T Consensus       196 dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~  275 (440)
T PRK14088        196 DVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKM  275 (440)
T ss_pred             CEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHH
Confidence            589999997431   12 122222210 1224468888752 21    111   11233458899999999999999988


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHH------hhCC--CHHHHHHHHHHh
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLPVSIVTVARA------LRNK--RLFEWKDALEQL  372 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~------l~~~--~~~~w~~~l~~l  372 (395)
                      +...... --.++..-|++.+.|..-.+.-+-.-      +.++  +....+.++..+
T Consensus       276 ~~~~~~~-l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~~~  332 (440)
T PRK14088        276 LEIEHGE-LPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKDF  332 (440)
T ss_pred             HHhcCCC-CCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            8532211 12347888998888865443332211      1222  778888888775

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

Probab=98.14  E-value=3.7e-05  Score=74.05  Aligned_cols=200  Identities=20%  Similarity=0.252  Sum_probs=109.3

Q ss_pred             cccchhchHHHHHHHHHHhc----C---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          152 DYEAFESRMSTLNDILDALK----N---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .+.++.|.+..++++.+.+.    .         .....+.++|++|+|||++|+.+++....  .|   +.+..+.   
T Consensus       181 ~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~--~f---i~V~~se---  252 (438)
T PTZ00361        181 SYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA--TF---LRVVGSE---  252 (438)
T ss_pred             CHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCC--CE---EEEecch---
Confidence            34556677777777666542    1         23456889999999999999999997642  23   2222111   


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------c----cchhccccC--CCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------D----FQAVGIPHG--DGH  280 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~----~~~l~~~l~--~~~  280 (395)
                         +....   ++      .....+..+.+....+.+.+|+||+++...            .    +..+...+.  ...
T Consensus       253 ---L~~k~---~G------e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        253 ---LIQKY---LG------DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             ---hhhhh---cc------hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence               11110   00      011123334444444678899999975321            0    011111110  123


Q ss_pred             CCcEEEEeecchhhhhh-cC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH--
Q 047930          281 KGSKVLLTARSLDVLSR-KM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV--  353 (395)
Q Consensus       281 ~gs~iivTtR~~~va~~-~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i--  353 (395)
                      .+..||.||........ ..   .....|++.+.+.++..++|..++......++.  -...++..+.|+--| |..+  
T Consensus       321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dv--dl~~la~~t~g~sgAdI~~i~~  398 (438)
T PTZ00361        321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDV--DLEEFIMAKDELSGADIKAICT  398 (438)
T ss_pred             CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCc--CHHHHHHhcCCCCHHHHHHHHH
Confidence            35678888876443211 11   234579999999999999999877533222221  134566666665432 3333  


Q ss_pred             -HHHhh---C--C-CHHHHHHHHHHhc
Q 047930          354 -ARALR---N--K-RLFEWKDALEQLR  373 (395)
Q Consensus       354 -~~~l~---~--~-~~~~w~~~l~~l~  373 (395)
                       |+.++   .  . +.+.+..+++...
T Consensus       399 eA~~~Alr~~r~~Vt~~D~~~A~~~v~  425 (438)
T PTZ00361        399 EAGLLALRERRMKVTQADFRKAKEKVL  425 (438)
T ss_pred             HHHHHHHHhcCCccCHHHHHHHHHHHH
Confidence             33432   2  2 6677777777643

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.13  E-value=0.00037  Score=64.41  Aligned_cols=174  Identities=12%  Similarity=0.054  Sum_probs=98.3

Q ss_pred             HHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCc-----c-
Q 047930          163 LNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTL-----H-  235 (395)
Q Consensus       163 ~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~-----~-  235 (395)
                      .+.+...+..++ ...+.++|+.|+||+++|..+....-..+.-+.    .++..    ..-+.+...-..+.     . 
T Consensus        12 ~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~----~Cg~C----~sC~~~~~g~HPD~~~i~p~~   83 (319)
T PRK06090         12 WQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSE----ACGFC----HSCELMQSGNHPDLHVIKPEK   83 (319)
T ss_pred             HHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCC----CCCCC----HHHHHHHcCCCCCEEEEecCc
Confidence            445556665554 457889999999999999999876432211000    00000    00001100000000     0 


Q ss_pred             --ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceee
Q 047930          236 --EETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFS  306 (395)
Q Consensus       236 --~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~  306 (395)
                        ..-..+.+..+.+.+.    .+++-++|||+++..  ...+.+...+-...+++.+|++|.+ ..+.....+....+.
T Consensus        84 ~~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~  163 (319)
T PRK06090         84 EGKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWV  163 (319)
T ss_pred             CCCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEe
Confidence              0001112233333332    245568999999754  3455565555444456666666655 455555566778999


Q ss_pred             cCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          307 FDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       307 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      +.+++++++.+.+....   ..      ....++..++|.|+....+
T Consensus       164 ~~~~~~~~~~~~L~~~~---~~------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        164 VTPPSTAQAMQWLKGQG---IT------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             CCCCCHHHHHHHHHHcC---Cc------hHHHHHHHcCCCHHHHHHH
Confidence            99999999999887642   11      1356788999999977544

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

Probab=98.13  E-value=0.00014  Score=66.41  Aligned_cols=200  Identities=19%  Similarity=0.290  Sum_probs=117.7

Q ss_pred             ccccchhchHHHHHHHHHHhc----C---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          151 KDYEAFESRMSTLNDILDALK----N---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      ..+..+-|-++.+++|.+.+.    +         ..++=|.++|++|+|||-||+.+++.-...       |+.+..+ 
T Consensus       148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At-------FIrvvgS-  219 (406)
T COG1222         148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT-------FIRVVGS-  219 (406)
T ss_pred             CChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce-------EEEeccH-
Confidence            345555567777777766653    1         245668899999999999999999976532       4444332 


Q ss_pred             CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------c----cchhccccC--CC
Q 047930          218 DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------D----FQAVGIPHG--DG  279 (395)
Q Consensus       218 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~----~~~l~~~l~--~~  279 (395)
                         ++.++.+   |      .....+..+.+.-+.+.+++|++|.++...            .    .-+|...+-  +.
T Consensus       220 ---ElVqKYi---G------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~  287 (406)
T COG1222         220 ---ELVQKYI---G------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP  287 (406)
T ss_pred             ---HHHHHHh---c------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCC
Confidence               2222222   1      122345566666666889999999986431            0    111222221  22


Q ss_pred             CCCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCC--CCCCchHHHHHHHHHHcCCchH----H
Q 047930          280 HKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDY--IEGSEFKWVAREVAKECAGLPV----S  349 (395)
Q Consensus       280 ~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~--~~~~~~~~~~~~i~~~c~GlPl----a  349 (395)
                      ....|||..|.-.++. ...+   .-...|+++.-+.+.-.++|+=+...-  ...-++    +.+++.|.|.-=    |
T Consensus       288 ~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~----e~la~~~~g~sGAdlka  363 (406)
T COG1222         288 RGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDL----ELLARLTEGFSGADLKA  363 (406)
T ss_pred             CCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCH----HHHHHhcCCCchHHHHH
Confidence            3456888887765543 1111   234578887555555567777666432  233343    467778887753    4


Q ss_pred             HHHHHHHhh--C-C---CHHHHHHHHHHhcC
Q 047930          350 IVTVARALR--N-K---RLFEWKDALEQLRR  374 (395)
Q Consensus       350 i~~i~~~l~--~-~---~~~~w~~~l~~l~~  374 (395)
                      +.+=|++++  . +   +.+....+.+..-.
T Consensus       364 ictEAGm~AiR~~R~~Vt~~DF~~Av~KV~~  394 (406)
T COG1222         364 ICTEAGMFAIRERRDEVTMEDFLKAVEKVVK  394 (406)
T ss_pred             HHHHHhHHHHHhccCeecHHHHHHHHHHHHh
Confidence            555577764  2 2   66777777666433

>CHL00176 ftsH cell division protein; Validated

Probab=98.13  E-value=7.3e-05  Score=75.59  Aligned_cols=197  Identities=20%  Similarity=0.317  Sum_probs=107.2

Q ss_pred             cchhchHH---HHHHHHHHhcCC---------CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHH
Q 047930          154 EAFESRMS---TLNDILDALKNP---------DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRK  221 (395)
Q Consensus       154 ~~~~gr~~---~~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~  221 (395)
                      .++.|.++   ++.++++.+..+         ..+-+.++|++|+|||+||+.++......       |+.++..    +
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-------~i~is~s----~  251 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-------FFSISGS----E  251 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-------eeeccHH----H
Confidence            34455444   444555555432         24568899999999999999999876432       2333211    1


Q ss_pred             HHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------c----cchhccccC--CCCCCc
Q 047930          222 IQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------D----FQAVGIPHG--DGHKGS  283 (395)
Q Consensus       222 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~----~~~l~~~l~--~~~~gs  283 (395)
                      +....   .+.      ....+..+.+......+++|+|||++...            .    +..+...+.  ....+.
T Consensus       252 f~~~~---~g~------~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~V  322 (638)
T CHL00176        252 FVEMF---VGV------GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGV  322 (638)
T ss_pred             HHHHh---hhh------hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCe
Confidence            11100   000      11123344444445678999999996431            1    111211111  123455


Q ss_pred             EEEEeecchhhhh-hcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHHHH---
Q 047930          284 KVLLTARSLDVLS-RKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTVAR---  355 (395)
Q Consensus       284 ~iivTtR~~~va~-~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~~---  355 (395)
                      .||.||....... ...   .....+.+...+.++-.++|+.++......++  .....+++.+.|. +--|..+..   
T Consensus       323 iVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~d--~~l~~lA~~t~G~sgaDL~~lvneAa  400 (638)
T CHL00176        323 IVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPD--VSLELIARRTPGFSGADLANLLNEAA  400 (638)
T ss_pred             eEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccchh--HHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            6677776543221 111   22457889999999999999988754322222  2356788888883 333333322   


Q ss_pred             Hh--h-CC---CHHHHHHHHHHh
Q 047930          356 AL--R-NK---RLFEWKDALEQL  372 (395)
Q Consensus       356 ~l--~-~~---~~~~w~~~l~~l  372 (395)
                      ++  + ++   +.++.+.++++.
T Consensus       401 l~a~r~~~~~It~~dl~~Ai~rv  423 (638)
T CHL00176        401 ILTARRKKATITMKEIDTAIDRV  423 (638)
T ss_pred             HHHHHhCCCCcCHHHHHHHHHHH
Confidence            11  1 22   667777777765

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

Probab=98.10  E-value=1.3e-05  Score=82.46  Aligned_cols=158  Identities=16%  Similarity=0.193  Sum_probs=92.1

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC-C---CCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK-L---FDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~---f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ..+++||++++.+++..|.......+.++|++|+|||++|+.+++...... .   .++.+|..     +...+    +.
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l----la  255 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL----LA  255 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH----hc
Confidence            457899999999999988865555677999999999999999997643221 1   23444421     11111    10


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc----------cccchhccccCCCCCCcEEEEeecchhhh---
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN----------LDFQAVGIPHGDGHKGSKVLLTARSLDVL---  295 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~----------~~~~~l~~~l~~~~~gs~iivTtR~~~va---  295 (395)
                        +.. ........+..+.+.+.+.++.+|+||++...          .+...+..++... ..-++|-+|......   
T Consensus       256 --G~~-~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~~E~~~~~  331 (758)
T PRK11034        256 --GTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQEFSNIF  331 (758)
T ss_pred             --ccc-hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCChHHHHHHh
Confidence              000 01111223445555554456789999999643          1111222333222 233455544433210   


Q ss_pred             ---hhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          296 ---SRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       296 ---~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                         .........+.+++++.++...++....
T Consensus       332 ~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        332 EKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             hccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence               1112234589999999999999998654

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.10  E-value=0.00024  Score=65.85  Aligned_cols=175  Identities=12%  Similarity=0.047  Sum_probs=99.4

Q ss_pred             HHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC-------c
Q 047930          163 LNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT-------L  234 (395)
Q Consensus       163 ~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~-------~  234 (395)
                      -..+...+..++ .....++|+.|+||+++|..+....-.......       .........+.+...-..+       .
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~p~~   83 (325)
T PRK06871         11 YQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGD-------QPCGQCHSCHLFQAGNHPDFHILEPID   83 (325)
T ss_pred             HHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEcccc
Confidence            445666666554 456778999999999999999876543221100       0000001111111100000       0


Q ss_pred             cccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceeec
Q 047930          235 HEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFSF  307 (395)
Q Consensus       235 ~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~l  307 (395)
                      ...-..+.+..+.+.+.    .+++-++|+|+++..  ...+.+...+-....++.+|++|.+ ..+.....+....+.+
T Consensus        84 ~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~  163 (325)
T PRK06871         84 NKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLI  163 (325)
T ss_pred             CCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeC
Confidence            00011223334444442    256668889999765  3455555555444556667777765 4454444566789999


Q ss_pred             CCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH
Q 047930          308 DVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       308 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai  350 (395)
                      .++++++..+.+......   ..   ..+...+..++|.|+..
T Consensus       164 ~~~~~~~~~~~L~~~~~~---~~---~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        164 HPPEEQQALDWLQAQSSA---EI---SEILTALRINYGRPLLA  200 (325)
T ss_pred             CCCCHHHHHHHHHHHhcc---Ch---HHHHHHHHHcCCCHHHH
Confidence            999999999988876421   11   12556788899999733

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.09  E-value=1.8e-05  Score=63.75  Aligned_cols=90  Identities=29%  Similarity=0.227  Sum_probs=50.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.|+|++|+||||+++.++.......  ..++++..+........... ...................+.+.....+.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALALARKLKP   79 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHHHHHhcCC
Confidence            5788999999999999999998765432  23555555443222111111 11111111111222233344444443334


Q ss_pred             EEEEEeCCCCccc
Q 047930          256 ILVILDNIWENLD  268 (395)
Q Consensus       256 ~LlVlDdv~~~~~  268 (395)
                      .+|++|++.....
T Consensus        80 ~viiiDei~~~~~   92 (148)
T smart00382       80 DVLILDEITSLLD   92 (148)
T ss_pred             CEEEEECCcccCC
Confidence            8999999987643

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.

>PRK06620 hypothetical protein; Validated

Probab=98.09  E-value=2.8e-05  Score=67.95  Aligned_cols=137  Identities=17%  Similarity=0.032  Sum_probs=80.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      +.+.|+|++|+|||+|++.+.+....       .++.  ..+..                   .        +...  ..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-------~~~~--~~~~~-------------------~--------~~~~--~~   86 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-------YIIK--DIFFN-------------------E--------EILE--KY   86 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-------EEcc--hhhhc-------------------h--------hHHh--cC
Confidence            56899999999999999987765421       1211  00000                   0        0111  23


Q ss_pred             EEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchhhh------hhcCCCcceeecCCCChHHHHHHHHHhhCCCC
Q 047930          256 ILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLDVL------SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYI  327 (395)
Q Consensus       256 ~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~va------~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~  327 (395)
                      -+|++||+....  .+..+...+.  ..|..+|+|++.....      ...+....+++++++++++...++.+.+....
T Consensus        87 d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~  164 (214)
T PRK06620         87 NAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISS  164 (214)
T ss_pred             CEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcC
Confidence            578899996321  1112222221  3466899988753321      11123445899999999999999888774321


Q ss_pred             CCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          328 EGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       328 ~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      .. --+++.+-|++.+.|..-.+.-+
T Consensus       165 l~-l~~ev~~~L~~~~~~d~r~l~~~  189 (214)
T PRK06620        165 VT-ISRQIIDFLLVNLPREYSKIIEI  189 (214)
T ss_pred             CC-CCHHHHHHHHHHccCCHHHHHHH
Confidence            11 12347788888888876554433

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.09  E-value=0.00014  Score=68.14  Aligned_cols=160  Identities=9%  Similarity=0.050  Sum_probs=87.7

Q ss_pred             hhc-hHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC
Q 047930          156 FES-RMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       156 ~~g-r~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~  233 (395)
                      ++| .+...+.+...+..++. ....++|+.|+||||+|..+.+..-........   .+    ......+.+...-..+
T Consensus         7 i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~---~c----g~C~~c~~~~~~~hpD   79 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE---PC----GTCTNCKRIDSGNHPD   79 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC---CC----CcCHHHHHHhcCCCCC
Confidence            445 55566777777766654 456899999999999999998775332211000   00    0000000000000000


Q ss_pred             ------ccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecc-hhhhhhcCC
Q 047930          234 ------LHEETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMD  300 (395)
Q Consensus       234 ------~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~  300 (395)
                            .......+.+..+.+.+.    .+.+-++|+|++....  ..+.+...+.....++.+|++|.+ ..+.....+
T Consensus        80 ~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrS  159 (329)
T PRK08058         80 VHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILS  159 (329)
T ss_pred             EEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHh
Confidence                  000001122233333332    2455689999986542  344455555444456777777765 334344456


Q ss_pred             CcceeecCCCChHHHHHHHHHh
Q 047930          301 SQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       301 ~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      ....+++.++++++....+...
T Consensus       160 Rc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        160 RCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             hceeeeCCCCCHHHHHHHHHHc
Confidence            6779999999999998888654

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

Probab=98.06  E-value=0.00038  Score=60.83  Aligned_cols=180  Identities=17%  Similarity=0.167  Sum_probs=105.3

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC-CcCCHHHHHHHHHHHhCCCccccchhh----hHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS-QIQDIRKIQGEFADKLGLTLHEETESG----RARSL  246 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s-~~~~~~~~~~~i~~~l~~~~~~~~~~~----~~~~l  246 (395)
                      ..+.+++.++|.-|+|||++.+.+.......    .++-+.+. +..+...+...++..+..+ +......    ....+
T Consensus        48 ~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d----~~~~v~i~~~~~s~~~~~~ai~~~l~~~-p~~~~~~~~e~~~~~L  122 (269)
T COG3267          48 ADGQGILAVTGEVGSGKTVLRRALLASLNED----QVAVVVIDKPTLSDATLLEAIVADLESQ-PKVNVNAVLEQIDREL  122 (269)
T ss_pred             hcCCceEEEEecCCCchhHHHHHHHHhcCCC----ceEEEEecCcchhHHHHHHHHHHHhccC-ccchhHHHHHHHHHHH
Confidence            4556789999999999999999554443221    12223333 3456777888888888762 2222221    22234


Q ss_pred             HHHHhcCCe-EEEEEeCCCCc--cccchhcc---ccCCCCCCcEEEEeecch-------hhhhhcCCCcce-eecCCCCh
Q 047930          247 CNRLKKEKR-ILVILDNIWEN--LDFQAVGI---PHGDGHKGSKVLLTARSL-------DVLSRKMDSQQN-FSFDVLKE  312 (395)
Q Consensus       247 ~~~l~~~kr-~LlVlDdv~~~--~~~~~l~~---~l~~~~~gs~iivTtR~~-------~va~~~~~~~~~-~~l~~L~~  312 (395)
                      ....++++| ..+++||..+.  +..+.+..   .-.+....-+|+.....+       .+.........+ |++.|++.
T Consensus       123 ~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~  202 (269)
T COG3267         123 AALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTE  202 (269)
T ss_pred             HHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcCh
Confidence            444455777 99999998654  23333221   111111112344433221       011111123334 99999999


Q ss_pred             HHHHHHHHHhhCCCCCCC--chHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          313 DEAWSLFKKMAGDYIEGS--EFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       313 ~e~~~lf~~~~~~~~~~~--~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      ++...++...+.....++  --.+....|.....|.|.+|..++..
T Consensus       203 ~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         203 AETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             HHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            999999998885332222  22346788999999999999887643

>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=98.04  E-value=6.2e-05  Score=62.83  Aligned_cols=137  Identities=19%  Similarity=0.185  Sum_probs=77.0

Q ss_pred             chHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCC------------------CEEEEEEeCCc--
Q 047930          158 SRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLF------------------DQVIFVEVSQI--  216 (395)
Q Consensus       158 gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f------------------~~~~wv~~s~~--  216 (395)
                      |.++..+.|...+..++. ..+.++|+.|+||+++|..+....-.....                  ....|+.-...  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            345566777777776664 457999999999999999998865432221                  11233332221  


Q ss_pred             -CCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecchh
Q 047930          217 -QDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSLD  293 (395)
Q Consensus       217 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~~  293 (395)
                       ...+++. ++...+.....                .++.=++||||++..  .....+...+-....++.+|++|.+..
T Consensus        81 ~i~i~~ir-~i~~~~~~~~~----------------~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~  143 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSPS----------------EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPS  143 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS-T----------------TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GG
T ss_pred             hhhHHHHH-HHHHHHHHHHh----------------cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChH
Confidence             2222222 33333322111                145678999999765  455666655555556888888888754


Q ss_pred             -hhhhcCCCcceeecCCCC
Q 047930          294 -VLSRKMDSQQNFSFDVLK  311 (395)
Q Consensus       294 -va~~~~~~~~~~~l~~L~  311 (395)
                       +..........+.+.+||
T Consensus       144 ~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  144 KILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             GS-HHHHTTSEEEEE----
T ss_pred             HChHHHHhhceEEecCCCC
Confidence             444445666788887765

...

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

Probab=98.03  E-value=6.6e-05  Score=73.09  Aligned_cols=189  Identities=16%  Similarity=0.176  Sum_probs=113.6

Q ss_pred             cccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |....+++|.+.....|...+..++ ..--...|+.|+||||+|+.++...-....       ....++......++|..
T Consensus        12 P~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~-------~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          12 PKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENG-------PTAEPCGKCISCKEINE   84 (515)
T ss_pred             cccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCC-------CCCCcchhhhhhHhhhc
Confidence            4556678899888888888887554 234457799999999999999876433210       11111222222223322


Q ss_pred             HhCCCc---c--ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEE-eecchhhhh
Q 047930          229 KLGLTL---H--EETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLL-TARSLDVLS  296 (395)
Q Consensus       229 ~l~~~~---~--~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iiv-TtR~~~va~  296 (395)
                      .-..+.   +  .....+.+..+.+...    .++-=+.|||+|...  ..|..+...+-....+...|. ||-...++.
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~  164 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPN  164 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCch
Confidence            200000   0  1112234555555554    345558999999654  577877766644444555554 555566766


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      ...+.+..|.++.++.++-...+...+......-+ .+...-|++..+|.
T Consensus       165 TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e-~~aL~~ia~~a~Gs  213 (515)
T COG2812         165 TILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIE-EDALSLIARAAEGS  213 (515)
T ss_pred             hhhhccccccccCCCHHHHHHHHHHHHHhcCCccC-HHHHHHHHHHcCCC
Confidence            66778889999999999999999888854332222 12345555555553

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.01  E-value=0.00016  Score=71.86  Aligned_cols=182  Identities=16%  Similarity=0.115  Sum_probs=105.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.|+|..|+|||.|++.+++.......-..++|++.      .++..++...+...        ....+.+.+.  +-
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~~--------~~~~f~~~y~--~~  378 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRDG--------KGDSFRRRYR--EM  378 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHhc--------cHHHHHHHhh--cC
Confidence            34889999999999999999998653211223556543      44455554443211        1223444443  23


Q ss_pred             EEEEEeCCCCc---cccch-hccccCC-CCCCcEEEEeecchh--h------hhhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWEN---LDFQA-VGIPHGD-GHKGSKVLLTARSLD--V------LSRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~---~~~~~-l~~~l~~-~~~gs~iivTtR~~~--v------a~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      =+|+|||+...   ..|.. +...+.. ...|..|||||....  .      ....+...-++++.+.+.+.-..++.++
T Consensus       379 DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kk  458 (617)
T PRK14086        379 DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKK  458 (617)
T ss_pred             CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHH
Confidence            58999999654   22322 2222211 123556888887521  1      0122345568999999999999999998


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh------hCC--CHHHHHHHHHHhcC
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL------RNK--RLFEWKDALEQLRR  374 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l------~~~--~~~~w~~~l~~l~~  374 (395)
                      +......- -.++++-|++.+.+..-.|.-+-.-|      .++  +...-+.+++.+..
T Consensus       459 a~~r~l~l-~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~~~  517 (617)
T PRK14086        459 AVQEQLNA-PPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDLIP  517 (617)
T ss_pred             HHhcCCCC-CHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhc
Confidence            85332221 23577788888777654443332211      222  66777778876543

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

Probab=98.00  E-value=7.3e-05  Score=74.06  Aligned_cols=155  Identities=23%  Similarity=0.291  Sum_probs=92.9

Q ss_pred             chhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.+|-++..+++++.|.      .-+-++++++|++|+|||+|++.+++-....  |   +-++++.-.+..++-..=-.
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk--f---vR~sLGGvrDEAEIRGHRRT  398 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK--F---VRISLGGVRDEAEIRGHRRT  398 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC--E---EEEecCccccHHHhcccccc
Confidence            45688888888888875      2345799999999999999999999876533  4   34455554444332111000


Q ss_pred             HhCCCccccchhhhHHHHHHHHh--cCCeEEEEEeCCCCcc-ccc-----hhcccc-CCCC------------CCcEE-E
Q 047930          229 KLGLTLHEETESGRARSLCNRLK--KEKRILVILDNIWENL-DFQ-----AVGIPH-GDGH------------KGSKV-L  286 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~--~~kr~LlVlDdv~~~~-~~~-----~l~~~l-~~~~------------~gs~i-i  286 (395)
                      -+|.         .-.++.+.++  +.++-|++||.++... ++.     .+...| |..+            -=|.| .
T Consensus       399 YIGa---------mPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmF  469 (782)
T COG0466         399 YIGA---------MPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMF  469 (782)
T ss_pred             cccc---------CChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEE
Confidence            1110         0113333333  2577899999997541 111     111111 0000            11333 4


Q ss_pred             Eeec-chh-hhhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          287 LTAR-SLD-VLSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       287 vTtR-~~~-va~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      |+|- +.+ ++...++.-.+|++.+.+++|=.++-++++
T Consensus       470 iaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         470 IATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             EeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            4444 333 555566778899999999999999888876

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.98  E-value=0.00028  Score=63.91  Aligned_cols=154  Identities=17%  Similarity=0.173  Sum_probs=77.6

Q ss_pred             HHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH------------H
Q 047930          161 STLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA------------D  228 (395)
Q Consensus       161 ~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~------------~  228 (395)
                      ..++++..++..+.  .+.+.|++|+|||+||+.+.....     ...+.++++...+..+++....            .
T Consensus         9 ~l~~~~l~~l~~g~--~vLL~G~~GtGKT~lA~~la~~lg-----~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~   81 (262)
T TIGR02640         9 RVTSRALRYLKSGY--PVHLRGPAGTGKTTLAMHVARKRD-----RPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIH   81 (262)
T ss_pred             HHHHHHHHHHhcCC--eEEEEcCCCCCHHHHHHHHHHHhC-----CCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHH
Confidence            33455666665443  466899999999999999987432     1245566665555555443211            0


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccc-------cCC---------CCCCcEEEEeec
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIP-------HGD---------GHKGSKVLLTAR  290 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~-------l~~---------~~~gs~iivTtR  290 (395)
                      ..............-..+.....  +...|+||++....  ....+...       ++.         .+++.+||+|+.
T Consensus        82 ~~~~~~~~~~~~~~~g~l~~A~~--~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN  159 (262)
T TIGR02640        82 NVVKLEDIVRQNWVDNRLTLAVR--EGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSN  159 (262)
T ss_pred             HhhhhhcccceeecCchHHHHHH--cCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeC
Confidence            00000000000000112333333  24689999997532  21212111       111         124668888887


Q ss_pred             chhhh------hhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          291 SLDVL------SRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       291 ~~~va------~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      ...-.      .........+.+...+.++-.+++.+..
T Consensus       160 ~~~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~~  198 (262)
T TIGR02640       160 PVEYAGVHETQDALLDRLITIFMDYPDIDTETAILRAKT  198 (262)
T ss_pred             CccccceecccHHHHhhcEEEECCCCCHHHHHHHHHHhh
Confidence            53211      1111223456666677777777777664

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).

>PRK10536 hypothetical protein; Provisional

Probab=97.97  E-value=0.00013  Score=64.55  Aligned_cols=56  Identities=25%  Similarity=0.283  Sum_probs=40.3

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEE
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVI  209 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~  209 (395)
                      +..++.++......++.++.+.  .++.+.|+.|+|||+||..+..+.-..+.|+.++
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIi  108 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRII  108 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEE
Confidence            3345667777778888888764  4899999999999999999988633223355433

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.96  E-value=0.00055  Score=67.87  Aligned_cols=156  Identities=20%  Similarity=0.262  Sum_probs=91.9

Q ss_pred             cchhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .+-+|.++..+.+++.+.      +-+-++++.+|++|+|||++++.++.....+  |   +-++++.-.+..++-..=-
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk--F---fRfSvGG~tDvAeIkGHRR  485 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRK--F---FRFSVGGMTDVAEIKGHRR  485 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc--e---EEEeccccccHHhhcccce
Confidence            445788888899988875      3456899999999999999999999876532  3   2345555544443211100


Q ss_pred             HHhCCCccccchhhhHHHHHHHHh--cCCeEEEEEeCCCCcc---------ccchhccccCC----------CCCCcEEE
Q 047930          228 DKLGLTLHEETESGRARSLCNRLK--KEKRILVILDNIWENL---------DFQAVGIPHGD----------GHKGSKVL  286 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~--~~kr~LlVlDdv~~~~---------~~~~l~~~l~~----------~~~gs~ii  286 (395)
                      .-++     .    .-.++.+.|+  +-.+-|+.||+|+..-         .+-++..|-.+          .-.=|+|+
T Consensus       486 TYVG-----A----MPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVL  556 (906)
T KOG2004|consen  486 TYVG-----A----MPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVL  556 (906)
T ss_pred             eeec-----c----CChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheE
Confidence            0001     0    1124455554  2456799999996431         11111111110          01135553


Q ss_pred             -Eeecc--hhhhhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          287 -LTARS--LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       287 -vTtR~--~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                       |.|-|  ..++....+.-..|+|.+...+|-..+-.+++
T Consensus       557 FicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  557 FICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             EEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence             33333  23333345666799999999999888887776

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.93  E-value=0.00014  Score=71.23  Aligned_cols=155  Identities=18%  Similarity=0.174  Sum_probs=83.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      .++-|.++|++|+|||.+|+.+.+.....  |   +-+..+.      +..        ..... ....+..+.+.....
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~~~~--~---~~l~~~~------l~~--------~~vGe-se~~l~~~f~~A~~~  317 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDWQLP--L---LRLDVGK------LFG--------GIVGE-SESRMRQMIRIAEAL  317 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEEhHH------hcc--------cccCh-HHHHHHHHHHHHHhc
Confidence            35678899999999999999999876532  2   2222211      110        00001 112233444444446


Q ss_pred             CeEEEEEeCCCCccc----c----------chhccccCCCCCCcEEEEeecchhhh-hhc---CCCcceeecCCCChHHH
Q 047930          254 KRILVILDNIWENLD----F----------QAVGIPHGDGHKGSKVLLTARSLDVL-SRK---MDSQQNFSFDVLKEDEA  315 (395)
Q Consensus       254 kr~LlVlDdv~~~~~----~----------~~l~~~l~~~~~gs~iivTtR~~~va-~~~---~~~~~~~~l~~L~~~e~  315 (395)
                      .+++|+||+++....    .          ..+...+.....+.-||.||...... ...   ......+.++.-+.++-
T Consensus       318 ~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR  397 (489)
T CHL00195        318 SPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEER  397 (489)
T ss_pred             CCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHH
Confidence            789999999964210    0          01111111223344456677654321 111   12345788888899999


Q ss_pred             HHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          316 WSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       316 ~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      .++|+.++...........-...+++.+.|.--
T Consensus       398 ~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSG  430 (489)
T CHL00195        398 EKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSG  430 (489)
T ss_pred             HHHHHHHHhhcCCCcccccCHHHHHhhcCCCCH
Confidence            999998875422111001124567777777643

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.89  E-value=0.0017  Score=61.42  Aligned_cols=191  Identities=16%  Similarity=0.215  Sum_probs=117.9

Q ss_pred             hHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHH-HHHHHHhcccCCCCEEEEEEeCC---cCCHHHHHHHHHHHhCCCc
Q 047930          159 RMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLA-KEVARKAENEKLFDQVIFVEVSQ---IQDIRKIQGEFADKLGLTL  234 (395)
Q Consensus       159 r~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~~~wv~~s~---~~~~~~~~~~i~~~l~~~~  234 (395)
                      |.+..++|..||.+..-..|.|.||.|+||+.|+ .++..+.+.      ++.+.+.+   ..+-..++..++.++|.-+
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~lA~qvGY~P   74 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNLASQVGYFP   74 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHHHHhcCCCc
Confidence            5567889999999888889999999999999999 777765432      55665543   2334556666666654311


Q ss_pred             -----------------------cc--cchhhhHH--------HHHH-------------------HHh--cCCeEEEEE
Q 047930          235 -----------------------HE--ETESGRAR--------SLCN-------------------RLK--KEKRILVIL  260 (395)
Q Consensus       235 -----------------------~~--~~~~~~~~--------~l~~-------------------~l~--~~kr~LlVl  260 (395)
                                             ..  .+....+.        .|++                   +|.  ...+-+|||
T Consensus        75 vFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVI  154 (431)
T PF10443_consen   75 VFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVI  154 (431)
T ss_pred             chHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEE
Confidence                                   00  00000000        1111                   010  123679999


Q ss_pred             eCCCCcc-----------ccchhccccCCCCCCcEEEEeecchhhh---hhcC--CCcceeecCCCChHHHHHHHHHhhC
Q 047930          261 DNIWENL-----------DFQAVGIPHGDGHKGSKVLLTARSLDVL---SRKM--DSQQNFSFDVLKEDEAWSLFKKMAG  324 (395)
Q Consensus       261 Ddv~~~~-----------~~~~l~~~l~~~~~gs~iivTtR~~~va---~~~~--~~~~~~~l~~L~~~e~~~lf~~~~~  324 (395)
                      |+.-...           +|...   +. ..+-.+||++|-+....   ...+  ...+.+.|...+++.|..+..+++.
T Consensus       155 dnF~~k~~~~~~iy~~laeWAa~---Lv-~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~  230 (431)
T PF10443_consen  155 DNFLHKAEENDFIYDKLAEWAAS---LV-QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLD  230 (431)
T ss_pred             cchhccCcccchHHHHHHHHHHH---HH-hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhc
Confidence            9985431           34331   11 12344688877764432   1222  3456899999999999999999985


Q ss_pred             CCCCC-------------------CchHHHHHHHHHHcCCchHHHHHHHHHhhC
Q 047930          325 DYIEG-------------------SEFKWVAREVAKECAGLPVSIVTVARALRN  359 (395)
Q Consensus       325 ~~~~~-------------------~~~~~~~~~i~~~c~GlPlai~~i~~~l~~  359 (395)
                      .....                   .....-....++.+||=-.=+..+++-++.
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks  284 (431)
T PF10443_consen  231 EDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS  284 (431)
T ss_pred             ccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc
Confidence            32110                   112234567888899999999988888874

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 [].

>PRK04132 replication factor C small subunit; Provisional

Probab=97.88  E-value=0.00042  Score=71.72  Aligned_cols=155  Identities=14%  Similarity=0.046  Sum_probs=96.0

Q ss_pred             cCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeC
Q 047930          183 MGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDN  262 (395)
Q Consensus       183 ~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDd  262 (395)
                      |.++||||+|..++++.-....-..++.++++.......+ +++++.+....+.              ...+.-++|||+
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~I-R~iIk~~a~~~~~--------------~~~~~KVvIIDE  638 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELNASDERGINVI-REKVKEFARTKPI--------------GGASFKIIFLDE  638 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHH-HHHHHHHHhcCCc--------------CCCCCEEEEEEC
Confidence            7899999999999998633211123677888876555543 3333332111000              012457999999


Q ss_pred             CCCcc--ccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHH
Q 047930          263 IWENL--DFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREV  339 (395)
Q Consensus       263 v~~~~--~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i  339 (395)
                      ++...  ....+...+-.....+++|+++.+ ..+.....+.+..+++.++++++....+...+......-+ .+....|
T Consensus       639 aD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~-~e~L~~I  717 (846)
T PRK04132        639 ADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT-EEGLQAI  717 (846)
T ss_pred             cccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCC-HHHHHHH
Confidence            98663  445554444333345666666655 3443334456779999999999999888877643221111 3367899


Q ss_pred             HHHcCCchHHHHHH
Q 047930          340 AKECAGLPVSIVTV  353 (395)
Q Consensus       340 ~~~c~GlPlai~~i  353 (395)
                      ++.|+|.+-....+
T Consensus       718 a~~s~GDlR~AIn~  731 (846)
T PRK04132        718 LYIAEGDMRRAINI  731 (846)
T ss_pred             HHHcCCCHHHHHHH
Confidence            99999988544433

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.87  E-value=0.00039  Score=67.73  Aligned_cols=172  Identities=19%  Similarity=0.244  Sum_probs=94.5

Q ss_pred             ccchhchHHHHHHHHHHhc---CC---------CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          153 YEAFESRMSTLNDILDALK---NP---------DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~---~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      ...+-|.+..+.+|.+.+.   .+         .++-+.+||++|+|||.||+.++++..+.       |+.++.+    
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP-------f~~isAp----  257 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP-------FLSISAP----  257 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc-------eEeecch----
Confidence            4455666766666655443   21         34567799999999999999999988754       3333322    


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc---ccc----------hhc---cccCC-CCCCc
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL---DFQ----------AVG---IPHGD-GHKGS  283 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---~~~----------~l~---~~l~~-~~~gs  283 (395)
                          +|+..+..     .....+..+.+.-.+.-+++++||+++-..   +|.          .+.   .-+.. ...|-
T Consensus       258 ----eivSGvSG-----ESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~  328 (802)
T KOG0733|consen  258 ----EIVSGVSG-----ESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGD  328 (802)
T ss_pred             ----hhhcccCc-----ccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCC
Confidence                22222211     122345566666666789999999996431   111          111   11111 11122


Q ss_pred             EEEE---eecchhhh---hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          284 KVLL---TARSLDVL---SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       284 ~iiv---TtR~~~va---~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      .|+|   |+|-..+-   .+.....+.|.|.--++..-.+++.....+-..+..+.  -++|++..-|.
T Consensus       329 ~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d--~~qlA~lTPGf  395 (802)
T KOG0733|consen  329 PVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFD--FKQLAKLTPGF  395 (802)
T ss_pred             CeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcC--HHHHHhcCCCc
Confidence            3333   44433321   12223345677877777777777776664333333222  35677777665

>PRK08116 hypothetical protein; Validated

Probab=97.84  E-value=7.4e-05  Score=67.73  Aligned_cols=101  Identities=22%  Similarity=0.215  Sum_probs=59.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.++|..|+|||.||..+++....+  ...+++++      ..+++..+........     ......+.+.+..  -
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~------~~~ll~~i~~~~~~~~-----~~~~~~~~~~l~~--~  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVN------FPQLLNRIKSTYKSSG-----KEDENEIIRSLVN--A  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEE------HHHHHHHHHHHHhccc-----cccHHHHHHHhcC--C
Confidence            357899999999999999999987643  33456664      4455666655543211     1112344555542  2


Q ss_pred             EEEEEeCCC--Cccccch--hccccCC-CCCCcEEEEeecc
Q 047930          256 ILVILDNIW--ENLDFQA--VGIPHGD-GHKGSKVLLTARS  291 (395)
Q Consensus       256 ~LlVlDdv~--~~~~~~~--l~~~l~~-~~~gs~iivTtR~  291 (395)
                      =||||||+.  ...+|..  +...+.. -.++..+|+||..
T Consensus       180 dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        180 DLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             CEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            389999994  3344432  2222211 1245568888874

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.84  E-value=0.00039  Score=67.62  Aligned_cols=178  Identities=9%  Similarity=0.091  Sum_probs=100.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      .-+.|+|+.|+|||+|++.+++.....  ...+++++      ...+...+...+...        ....+.+.+.  +.
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~--~~~v~yi~------~~~f~~~~~~~l~~~--------~~~~f~~~~~--~~  203 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRES--GGKILYVR------SELFTEHLVSAIRSG--------EMQRFRQFYR--NV  203 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEee------HHHHHHHHHHHHhcc--------hHHHHHHHcc--cC
Confidence            457899999999999999999986532  22345554      334445555554321        1122333332  34


Q ss_pred             EEEEEeCCCCccc--c--chhccccCC-CCCCcEEEEeecchh-----hh---hhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWENLD--F--QAVGIPHGD-GHKGSKVLLTARSLD-----VL---SRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~~~--~--~~l~~~l~~-~~~gs~iivTtR~~~-----va---~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      -+|+|||+.....  +  +.+...+.. ...|..||+||....     +.   .........+.+.+++.++...++.+.
T Consensus       204 dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k  283 (445)
T PRK12422        204 DALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERK  283 (445)
T ss_pred             CEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHH
Confidence            5899999865421  1  122222210 113556888885421     11   112334568999999999999999988


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCch-HHHHHHHHH--------hhCC--CHHHHHHHHHHh
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLP-VSIVTVARA--------LRNK--RLFEWKDALEQL  372 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlP-lai~~i~~~--------l~~~--~~~~w~~~l~~l  372 (395)
                      +..... .--.++..-|+..+.|.- -.+..+-.+        +.+.  +.+.-+.++..+
T Consensus       284 ~~~~~~-~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~~~l~~~  343 (445)
T PRK12422        284 AEALSI-RIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVDDIKALLHDV  343 (445)
T ss_pred             HHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            853221 112346666777776553 332222222        1122  677777777765

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.82  E-value=0.00031  Score=61.43  Aligned_cols=172  Identities=20%  Similarity=0.303  Sum_probs=100.6

Q ss_pred             ccchhchHHHHHH---HHHHhcCC------CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHH
Q 047930          153 YEAFESRMSTLND---ILDALKNP------DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQ  223 (395)
Q Consensus       153 ~~~~~gr~~~~~~---l~~~l~~~------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~  223 (395)
                      ..+.+|.++...+   |+..|.++      .++.|..+|++|+|||.+|+.+.+..++.  |     +.+.    ..+++
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp--~-----l~vk----at~li  188 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP--L-----LLVK----ATELI  188 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCc--e-----EEec----hHHHH
Confidence            3456777665543   56666644      37889999999999999999999987753  2     2221    12222


Q ss_pred             HHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc---ccc-----------hhcccc--CCCCCCcEEEE
Q 047930          224 GEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL---DFQ-----------AVGIPH--GDGHKGSKVLL  287 (395)
Q Consensus       224 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---~~~-----------~l~~~l--~~~~~gs~iiv  287 (395)
                      .+   ..|      .....+.++.++..+--+|+++||.++...   .++           .+.--+  ...+.|...|-
T Consensus       189 Ge---hVG------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIa  259 (368)
T COG1223         189 GE---HVG------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIA  259 (368)
T ss_pred             HH---Hhh------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEe
Confidence            21   111      123345566666666679999999986431   111           111111  12345666666


Q ss_pred             eecchhhhhhc--CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          288 TARSLDVLSRK--MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       288 TtR~~~va~~~--~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      .|.+.......  ......|+..--+++|-.+++...+..-..+.+.  -.+.++++.+|+
T Consensus       260 aTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~--~~~~~~~~t~g~  318 (368)
T COG1223         260 ATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDA--DLRYLAAKTKGM  318 (368)
T ss_pred             ecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCcccc--CHHHHHHHhCCC
Confidence            66665443111  1223467788788899999998887432222211  145667777765

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.82  E-value=0.00078  Score=63.00  Aligned_cols=175  Identities=11%  Similarity=0.030  Sum_probs=98.3

Q ss_pred             HHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC-----cc-
Q 047930          163 LNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT-----LH-  235 (395)
Q Consensus       163 ~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~-----~~-  235 (395)
                      -+++...+..++ ..-+.+.|+.|+||+++|..+....-.....+..   .+...    .-.+.+...-..+     .. 
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~---~Cg~C----~sC~~~~~g~HPD~~~i~p~~   83 (334)
T PRK07993         11 YEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHK---SCGHC----RGCQLMQAGTHPDYYTLTPEK   83 (334)
T ss_pred             HHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCC---CCCCC----HHHHHHHcCCCCCEEEEeccc
Confidence            456666666544 4667799999999999999988765322111000   00000    0000010000000     00 


Q ss_pred             --ccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceee
Q 047930          236 --EETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFS  306 (395)
Q Consensus       236 --~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~  306 (395)
                        ..-..+.+..+.+.+.    .+++-++|||+++..  ..-+.+...+-....++.+|++|.+ ..+.....+....+.
T Consensus        84 ~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~  163 (334)
T PRK07993         84 GKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHY  163 (334)
T ss_pred             ccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcccccc
Confidence              0011223334444442    256779999999754  3445555555444456666666665 445544456677899


Q ss_pred             cCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH
Q 047930          307 FDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       307 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai  350 (395)
                      +.++++++....+....+   .++   +.+..++..++|.|...
T Consensus       164 ~~~~~~~~~~~~L~~~~~---~~~---~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        164 LAPPPEQYALTWLSREVT---MSQ---DALLAALRLSAGAPGAA  201 (334)
T ss_pred             CCCCCHHHHHHHHHHccC---CCH---HHHHHHHHHcCCCHHHH
Confidence            999999999988865432   111   23567899999999743

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.82  E-value=0.00032  Score=72.83  Aligned_cols=158  Identities=18%  Similarity=0.225  Sum_probs=90.1

Q ss_pred             cchhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      ...+|.+...+.+++++.      .....++.++|++|+||||+++.+.......  |   +-++.+...+..++...-.
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~--~---~~i~~~~~~d~~~i~g~~~  396 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRK--Y---VRMALGGVRDEAEIRGHRR  396 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCC--E---EEEEcCCCCCHHHhccchh
Confidence            346788888888888775      2345689999999999999999999865421  2   2233444333332221111


Q ss_pred             HHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc------cchhccccC---------------CCCCCcEEE
Q 047930          228 DKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD------FQAVGIPHG---------------DGHKGSKVL  286 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~------~~~l~~~l~---------------~~~~gs~ii  286 (395)
                      ...+.     ........+.. .. ...-+++||+++....      ...+...+.               ..-.+.-+|
T Consensus       397 ~~~g~-----~~G~~~~~l~~-~~-~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i  469 (784)
T PRK10787        397 TYIGS-----MPGKLIQKMAK-VG-VKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFV  469 (784)
T ss_pred             ccCCC-----CCcHHHHHHHh-cC-CCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEE
Confidence            11111     01111222211 11 2345789999964321      111221111               111344456


Q ss_pred             EeecchhhhhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          287 LTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       287 vTtR~~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      .|+.+..+.....+...++++.+++++|-.++.++++
T Consensus       470 ~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        470 ATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            6666555544455667789999999999999888776

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.81  E-value=0.0017  Score=60.78  Aligned_cols=101  Identities=16%  Similarity=0.177  Sum_probs=65.0

Q ss_pred             hHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceeecCCCChHH
Q 047930          242 RARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFSFDVLKEDE  314 (395)
Q Consensus       242 ~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~l~~L~~~e  314 (395)
                      .+..+.+.+.    .+++-++|||+++..  ...+.+...+-...+++.+|++|.+ ..+.....+....+.+.+++.++
T Consensus       116 qiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~  195 (342)
T PRK06964        116 QVRALLDFCGVGTHRGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEA  195 (342)
T ss_pred             HHHHHHHHhccCCccCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHH
Confidence            3444445443    245568899999755  4566665555444556666655555 55554455667899999999999


Q ss_pred             HHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          315 AWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       315 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      ..+.+....   . ++     ...++..++|.|+...
T Consensus       196 ~~~~L~~~~---~-~~-----~~~~l~~~~Gsp~~Al  223 (342)
T PRK06964        196 AAAWLAAQG---V-AD-----ADALLAEAGGAPLAAL  223 (342)
T ss_pred             HHHHHHHcC---C-Ch-----HHHHHHHcCCCHHHHH
Confidence            999987751   1 11     1235778899997544

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.00054  Score=69.22  Aligned_cols=191  Identities=23%  Similarity=0.220  Sum_probs=114.9

Q ss_pred             HHHHHHHHHHhcCC---------CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHh
Q 047930          160 MSTLNDILDALKNP---------DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKL  230 (395)
Q Consensus       160 ~~~~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l  230 (395)
                      .+|++++++.|.++         -++=+.++|++|+|||-||+.++-...+.       |++++..    +    .++-+
T Consensus       320 K~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-------F~svSGS----E----FvE~~  384 (774)
T KOG0731|consen  320 KEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-------FFSVSGS----E----FVEMF  384 (774)
T ss_pred             HHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-------eeeechH----H----HHHHh
Confidence            45677778888753         25667899999999999999999887754       4455442    1    11111


Q ss_pred             CCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc-----------------cchhccccCCCC---CCcEEEEeec
Q 047930          231 GLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD-----------------FQAVGIPHGDGH---KGSKVLLTAR  290 (395)
Q Consensus       231 ~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-----------------~~~l~~~l~~~~---~gs~iivTtR  290 (395)
                      ...     ....+..+....+...++++.+|+++....                 ++.+..-+ ++.   .+.-++-+|+
T Consensus       385 ~g~-----~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~em-Dgf~~~~~vi~~a~tn  458 (774)
T KOG0731|consen  385 VGV-----GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEM-DGFETSKGVIVLAATN  458 (774)
T ss_pred             ccc-----chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHh-cCCcCCCcEEEEeccC
Confidence            110     123455666666667889999999864311                 11221111 221   2233344555


Q ss_pred             chhhhhhc----CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH----HHHhh--C-
Q 047930          291 SLDVLSRK----MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV----ARALR--N-  359 (395)
Q Consensus       291 ~~~va~~~----~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i----~~~l~--~-  359 (395)
                      ..++.+..    ..-...+.++.-+.....++|.-++.....+.+..++++ |+....|.+=|...-    +.++.  + 
T Consensus       459 r~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~-~a~~t~gf~gadl~n~~neaa~~a~r~~  537 (774)
T KOG0731|consen  459 RPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSK-LASLTPGFSGADLANLCNEAALLAARKG  537 (774)
T ss_pred             CccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHH-HHhcCCCCcHHHHHhhhhHHHHHHHHhc
Confidence            55543211    123457888888888999999999865544455566677 999999988765433    23332  1 


Q ss_pred             ---CCHHHHHHHHHHh
Q 047930          360 ---KRLFEWKDALEQL  372 (395)
Q Consensus       360 ---~~~~~w~~~l~~l  372 (395)
                         -+..+...+++++
T Consensus       538 ~~~i~~~~~~~a~~Rv  553 (774)
T KOG0731|consen  538 LREIGTKDLEYAIERV  553 (774)
T ss_pred             cCccchhhHHHHHHHH
Confidence               1556666666643

>TIGR00763 lon ATP-dependent protease La

Probab=97.77  E-value=0.00052  Score=71.78  Aligned_cols=157  Identities=22%  Similarity=0.240  Sum_probs=82.3

Q ss_pred             chhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .++|.+...+.+.+++.      ..+.+++.++|++|+|||++|+.+.+.....  |   +-++++...+..++...   
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~--~---~~i~~~~~~~~~~i~g~---  392 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRK--F---VRFSLGGVRDEAEIRGH---  392 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC--e---EEEeCCCcccHHHHcCC---
Confidence            35677777777777553      2234579999999999999999999886432  3   22333333233222110   


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc------cchhcc--------ccCCC-------CCCcEEEE
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD------FQAVGI--------PHGDG-------HKGSKVLL  287 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~------~~~l~~--------~l~~~-------~~gs~iiv  287 (395)
                        ...............+.. .. ..+-+|+||+++....      ...+..        .|.+.       ..+..+|.
T Consensus       393 --~~~~~g~~~g~i~~~l~~-~~-~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~  468 (775)
T TIGR00763       393 --RRTYVGAMPGRIIQGLKK-AK-TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIA  468 (775)
T ss_pred             --CCceeCCCCchHHHHHHH-hC-cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEE
Confidence              000001111111222222 12 2345889999865421      011111        11111       12333445


Q ss_pred             eecchh-hhhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          288 TARSLD-VLSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       288 TtR~~~-va~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      ||.... +..........+++.+++.++-.+++++..
T Consensus       469 TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       469 TANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             ecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            554432 222334555689999999999988887654

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.75  E-value=0.00022  Score=71.15  Aligned_cols=49  Identities=29%  Similarity=0.447  Sum_probs=40.0

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .....++|.+..++.+...+..+....+.|+|+.|+|||++|+.+++..
T Consensus        62 ~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        62 KSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             CCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4455688998888888877766666677899999999999999998753

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.

>PRK08118 topology modulation protein; Reviewed

Probab=97.75  E-value=1.9e-05  Score=66.29  Aligned_cols=34  Identities=29%  Similarity=0.531  Sum_probs=28.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhccc-CCCCEEEE
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENE-KLFDQVIF  210 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~w  210 (395)
                      -|.|+|++|+||||||+.+++..... -+||..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            48899999999999999999986654 35677775

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.74  E-value=0.0015  Score=57.68  Aligned_cols=207  Identities=15%  Similarity=0.128  Sum_probs=116.3

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCc----------C-
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIFVEVSQI----------Q-  217 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~s~~----------~-  217 (395)
                      .....++++.-..+......+..+...++|++|.||-|.+..+.+..-..    -.-+...|.+-|..          + 
T Consensus        12 l~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yH   91 (351)
T KOG2035|consen   12 LDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYH   91 (351)
T ss_pred             hhhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccce
Confidence            34455666666666665556778899999999999999888887764321    12334455543332          1 


Q ss_pred             ----------CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeE-EEEEeCCCCc--cccchhccccCCCCCCcE
Q 047930          218 ----------DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRI-LVILDNIWEN--LDFQAVGIPHGDGHKGSK  284 (395)
Q Consensus       218 ----------~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~-LlVlDdv~~~--~~~~~l~~~l~~~~~gs~  284 (395)
                                .-+-+.++++++.....+-+.            ...+.| ++||-.+++.  +.-..+......-.+.+|
T Consensus        92 lEitPSDaG~~DRvViQellKevAQt~qie~------------~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~R  159 (351)
T KOG2035|consen   92 LEITPSDAGNYDRVVIQELLKEVAQTQQIET------------QGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCR  159 (351)
T ss_pred             EEeChhhcCcccHHHHHHHHHHHHhhcchhh------------ccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCce
Confidence                      112344444444432211110            113445 4556555443  121223222222334667


Q ss_pred             EEEeecchh-hhhhcCCCcceeecCCCChHHHHHHHHHhhCCCC-CCCchHHHHHHHHHHcCCchHHHHHHHHHhh--C-
Q 047930          285 VLLTARSLD-VLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYI-EGSEFKWVAREVAKECAGLPVSIVTVARALR--N-  359 (395)
Q Consensus       285 iivTtR~~~-va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~-~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~--~-  359 (395)
                      +|+...+.. +-...-...-.+++...+++|....+++.+.... .-|  ++++.+|+++|+|.---...+-..++  + 
T Consensus       160 lIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~n~  237 (351)
T KOG2035|consen  160 LILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVNNE  237 (351)
T ss_pred             EEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhccc
Confidence            777544321 1111223445789999999999999999885322 222  56899999999998554434433332  1 


Q ss_pred             ------C--CHHHHHHHHHHhc
Q 047930          360 ------K--RLFEWKDALEQLR  373 (395)
Q Consensus       360 ------~--~~~~w~~~l~~l~  373 (395)
                            .  +.-+|+-++.++.
T Consensus       238 ~~~a~~~~i~~~dWe~~i~e~a  259 (351)
T KOG2035|consen  238 PFTANSQVIPKPDWEIYIQEIA  259 (351)
T ss_pred             cccccCCCCCCccHHHHHHHHH
Confidence                  1  4568998887754

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.72  E-value=0.0004  Score=72.31  Aligned_cols=175  Identities=17%  Similarity=0.194  Sum_probs=92.4

Q ss_pred             cccchhchHHHHHHHHHHhc----C---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          152 DYEAFESRMSTLNDILDALK----N---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      ...++.|.+..++++.+.+.    .         ...+.+.++|++|+|||+||+.+++.....  |   +.++.+    
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~--~---i~i~~~----  246 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY--F---ISINGP----  246 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe--E---EEEecH----
Confidence            34457788887777766542    1         234568899999999999999999876421  2   223221    


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--------c-----cchhccccCC-CCCCcE
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--------D-----FQAVGIPHGD-GHKGSK  284 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--------~-----~~~l~~~l~~-~~~gs~  284 (395)
                        ++.    ...    .. .....+..+.+......+.+|+|||++...        .     ...+...+.. ...+..
T Consensus       247 --~i~----~~~----~g-~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~v  315 (733)
T TIGR01243       247 --EIM----SKY----YG-ESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRV  315 (733)
T ss_pred             --HHh----ccc----cc-HHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCE
Confidence              111    000    00 011223344444444567899999985421        0     1112111111 122333


Q ss_pred             EEE-eecchh-hhhhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          285 VLL-TARSLD-VLSRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       285 iiv-TtR~~~-va~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      ++| ||.... +.....   .....+.+...+.++-.+++..........++.  ....+++.+.|..-
T Consensus       316 ivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~--~l~~la~~t~G~~g  382 (733)
T TIGR01243       316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDV--DLDKLAEVTHGFVG  382 (733)
T ss_pred             EEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcccc--CHHHHHHhCCCCCH
Confidence            444 444322 111111   123467888888888888888665432222111  24678888888753

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.71  E-value=0.00042  Score=72.79  Aligned_cols=46  Identities=22%  Similarity=0.345  Sum_probs=34.8

Q ss_pred             chhchHHHHHHHHHHhc-------CC--CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALK-------NP--DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~-------~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.+..++.+.+.+.       .+  ...++.++|+.|+|||.||+.+.....
T Consensus       567 ~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~  621 (852)
T TIGR03345       567 RVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLY  621 (852)
T ss_pred             eEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45677777777777653       12  235789999999999999999987753

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.

>PHA00729 NTP-binding motif containing protein

Probab=97.70  E-value=0.00041  Score=60.42  Aligned_cols=35  Identities=40%  Similarity=0.482  Sum_probs=28.4

Q ss_pred             HHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          165 DILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       165 ~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++..+...+...|.|.|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34455556666789999999999999999999875

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=0.00088  Score=65.96  Aligned_cols=151  Identities=19%  Similarity=0.217  Sum_probs=79.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      ..++-|..+|++|+|||++|+.+.+.....       |++++.+    +++....        .. ....+..+.+.-.+
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~~~n-------Flsvkgp----EL~sk~v--------Ge-SEr~ir~iF~kAR~  525 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEAGMN-------FLSVKGP----ELFSKYV--------GE-SERAIREVFRKARQ  525 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhhcCC-------eeeccCH----HHHHHhc--------Cc-hHHHHHHHHHHHhh
Confidence            356778899999999999999999987654       3444332    1111111        11 11233444444444


Q ss_pred             CCeEEEEEeCCCCccc-------------cchhccccCCCC-CCcEEEE---eecchhhhhhcCC---CcceeecCCCCh
Q 047930          253 EKRILVILDNIWENLD-------------FQAVGIPHGDGH-KGSKVLL---TARSLDVLSRKMD---SQQNFSFDVLKE  312 (395)
Q Consensus       253 ~kr~LlVlDdv~~~~~-------------~~~l~~~l~~~~-~gs~iiv---TtR~~~va~~~~~---~~~~~~l~~L~~  312 (395)
                      --+++|+||+++....             +..+..-+ ++. ....|+|   |.|...+-...+.   ....+.+++-+.
T Consensus       526 ~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEm-DG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~  604 (693)
T KOG0730|consen  526 VAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEM-DGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDL  604 (693)
T ss_pred             cCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHc-ccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccH
Confidence            5679999999865411             11111111 222 1223433   3343332222333   345666766666


Q ss_pred             HHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          313 DEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       313 ~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      +.-.++|+.++..-.-+++.  -.++|+++..|.
T Consensus       605 ~aR~~Ilk~~~kkmp~~~~v--dl~~La~~T~g~  636 (693)
T KOG0730|consen  605 EARLEILKQCAKKMPFSEDV--DLEELAQATEGY  636 (693)
T ss_pred             HHHHHHHHHHHhcCCCCccc--cHHHHHHHhccC
Confidence            77789999988543332221  133455554444

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.67  E-value=8.9e-05  Score=65.26  Aligned_cols=35  Identities=31%  Similarity=0.459  Sum_probs=28.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEV  213 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  213 (395)
                      .++|+|.+|+|||||+..+......  .|.++++++-
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~--~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRH--KFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcc--cCCEEEEEec
Confidence            5779999999999999999987663  4877766654

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

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.65  E-value=0.00042  Score=64.82  Aligned_cols=100  Identities=12%  Similarity=0.183  Sum_probs=64.2

Q ss_pred             HHHHHHhcC-CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCC-cCCHHHHHHHHHHHhCCCccccchh
Q 047930          164 NDILDALKN-PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VIFVEVSQ-IQDIRKIQGEFADKLGLTLHEETES  240 (395)
Q Consensus       164 ~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~  240 (395)
                      .++++.+.. ..-.-+.|+|..|+|||||++.+.+....+ +-+. ++|+.+.+ ...+.++++.+...+.....+.+..
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~  199 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPD  199 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHH
Confidence            346666652 222346899999999999999999876543 3344 46767765 4567888888887765433221111


Q ss_pred             h------hHHHHHHHH-hcCCeEEEEEeCCC
Q 047930          241 G------RARSLCNRL-KKEKRILVILDNIW  264 (395)
Q Consensus       241 ~------~~~~l~~~l-~~~kr~LlVlDdv~  264 (395)
                      .      .+..+.+++ .++++.+||+|++.
T Consensus       200 ~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        200 EHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            1      122333333 35899999999984

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.64  E-value=0.0011  Score=68.99  Aligned_cols=151  Identities=18%  Similarity=0.210  Sum_probs=83.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      .+-+.++|++|+|||+||+.+++.....  |     +.+...    ++    ....    ... ....+..+.+......
T Consensus       487 ~~giLL~GppGtGKT~lakalA~e~~~~--f-----i~v~~~----~l----~~~~----vGe-se~~i~~~f~~A~~~~  546 (733)
T TIGR01243       487 PKGVLLFGPPGTGKTLLAKAVATESGAN--F-----IAVRGP----EI----LSKW----VGE-SEKAIREIFRKARQAA  546 (733)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhcCCC--E-----EEEehH----HH----hhcc----cCc-HHHHHHHHHHHHHhcC
Confidence            4558899999999999999999986532  2     222211    11    1111    011 1123445555554467


Q ss_pred             eEEEEEeCCCCcc--------c------cchhccccCC--CCCCcEEEEeecchhhh-hhcC---CCcceeecCCCChHH
Q 047930          255 RILVILDNIWENL--------D------FQAVGIPHGD--GHKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDE  314 (395)
Q Consensus       255 r~LlVlDdv~~~~--------~------~~~l~~~l~~--~~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e  314 (395)
                      +.+|+||+++...        .      ...+...+..  ...+.-||.||...... ....   .....+.++..+.++
T Consensus       547 p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~  626 (733)
T TIGR01243       547 PAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEA  626 (733)
T ss_pred             CEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHH
Confidence            8999999986421        0      0112111111  12344566666554332 1111   234578888889999


Q ss_pred             HHHHHHHhhCCCCCCCchHHHHHHHHHHcCCch
Q 047930          315 AWSLFKKMAGDYIEGSEFKWVAREVAKECAGLP  347 (395)
Q Consensus       315 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP  347 (395)
                      -.++|+.........++..  ...+++.|.|.-
T Consensus       627 R~~i~~~~~~~~~~~~~~~--l~~la~~t~g~s  657 (733)
T TIGR01243       627 RKEIFKIHTRSMPLAEDVD--LEELAEMTEGYT  657 (733)
T ss_pred             HHHHHHHHhcCCCCCccCC--HHHHHHHcCCCC
Confidence            9999987764332222211  456777888764

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.62  E-value=0.00026  Score=59.66  Aligned_cols=34  Identities=29%  Similarity=0.507  Sum_probs=25.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhccc-CCCCEEEE
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENE-KLFDQVIF  210 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~w  210 (395)
                      .|.|+|++|+||||||+.+....... -+.|...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            47899999999999999998764322 13455555

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

Probab=97.62  E-value=0.0013  Score=62.34  Aligned_cols=181  Identities=17%  Similarity=0.154  Sum_probs=102.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      ...+.|+|..|.|||-|++.+.+.......=..+++++      .+.....++..+..        ...+...+.. +  
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~------se~f~~~~v~a~~~--------~~~~~Fk~~y-~--  175 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT------SEDFTNDFVKALRD--------NEMEKFKEKY-S--  175 (408)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEecc------HHHHHHHHHHHHHh--------hhHHHHHHhh-c--
Confidence            56789999999999999999999876532222344442      34444555544432        1233444443 1  


Q ss_pred             eEEEEEeCCCCc---cccch-h---ccccCCCCCCcEEEEeecchhhh--------hhcCCCcceeecCCCChHHHHHHH
Q 047930          255 RILVILDNIWEN---LDFQA-V---GIPHGDGHKGSKVLLTARSLDVL--------SRKMDSQQNFSFDVLKEDEAWSLF  319 (395)
Q Consensus       255 r~LlVlDdv~~~---~~~~~-l---~~~l~~~~~gs~iivTtR~~~va--------~~~~~~~~~~~l~~L~~~e~~~lf  319 (395)
                      -=++++||++-.   +.|+. +   ...+..  .|-.||+|++...-.        .......-++++.+++.+....++
T Consensus       176 ~dlllIDDiq~l~gk~~~qeefFh~FN~l~~--~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL  253 (408)
T COG0593         176 LDLLLIDDIQFLAGKERTQEEFFHTFNALLE--NGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAIL  253 (408)
T ss_pred             cCeeeechHhHhcCChhHHHHHHHHHHHHHh--cCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHH
Confidence            238999999653   22322 2   233322  233799988642211        112344578999999999999999


Q ss_pred             HHhhCCC--CCCCchHHHHHHHHHHcCCc----hHHHHHHHHHhh--C-C-CHHHHHHHHHHhcCCCC
Q 047930          320 KKMAGDY--IEGSEFKWVAREVAKECAGL----PVSIVTVARALR--N-K-RLFEWKDALEQLRRPSS  377 (395)
Q Consensus       320 ~~~~~~~--~~~~~~~~~~~~i~~~c~Gl----Plai~~i~~~l~--~-~-~~~~w~~~l~~l~~~~~  377 (395)
                      .+.+...  ..++   ++..-|++.....    .-|+..+..+-.  . . +...-..+++.+.....
T Consensus       254 ~kka~~~~~~i~~---ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~~~  318 (408)
T COG0593         254 RKKAEDRGIEIPD---EVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRAGE  318 (408)
T ss_pred             HHHHHhcCCCCCH---HHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHhhcccc
Confidence            9977422  2222   2344444444333    233333322221  2 2 67777777777655433

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

Probab=97.61  E-value=0.00067  Score=70.51  Aligned_cols=101  Identities=20%  Similarity=0.283  Sum_probs=55.2

Q ss_pred             hhchHHHHHHHHHHhc-------CC--CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          156 FESRMSTLNDILDALK-------NP--DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~-------~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ++|.+..++.+...+.       ++  ...++.++|+.|+|||+||+.++....     ...+.++.+......    .+
T Consensus       456 v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~-----~~~~~~d~se~~~~~----~~  526 (731)
T TIGR02639       456 IFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG-----VHLERFDMSEYMEKH----TV  526 (731)
T ss_pred             eeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc-----CCeEEEeCchhhhcc----cH
Confidence            4555666666665554       11  234688999999999999999998653     223445544322111    11


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      ..-++.+.... ..+....+.+.+.....-+|+||+++..
T Consensus       527 ~~lig~~~gyv-g~~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       527 SRLIGAPPGYV-GFEQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             HHHhcCCCCCc-ccchhhHHHHHHHhCCCeEEEEechhhc
Confidence            11122221110 1112234455555444569999999754

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.61  E-value=0.00079  Score=62.96  Aligned_cols=140  Identities=19%  Similarity=0.169  Sum_probs=81.5

Q ss_pred             hchHHHHHHHHHHhc-CCCceE-EEEEecCCCcHHHHHHHHHHHhcccCC-------------------CCEEEEEEeCC
Q 047930          157 ESRMSTLNDILDALK-NPDVNM-LGIYGMGGIGKTTLAKEVARKAENEKL-------------------FDQVIFVEVSQ  215 (395)
Q Consensus       157 ~gr~~~~~~l~~~l~-~~~~~v-i~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------f~~~~wv~~s~  215 (395)
                      ++-+.....+..+.. .++.+. +.++|+.|+||||+|..+.+.......                   ...+..++.+.
T Consensus         4 ~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~   83 (325)
T COG0470           4 VPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSD   83 (325)
T ss_pred             ccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccc
Confidence            445556666777766 344444 899999999999999999987653221                   12344444444


Q ss_pred             cCC---HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeec
Q 047930          216 IQD---IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTAR  290 (395)
Q Consensus       216 ~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR  290 (395)
                      ...   ..+..+++.+.......                .++.-+++||+++...  .-..+...+......+++|++|.
T Consensus        84 ~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n  147 (325)
T COG0470          84 LRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITN  147 (325)
T ss_pred             cCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcC
Confidence            333   23333344333322111                2567899999997653  23334444444455677777777


Q ss_pred             c-hhhhhhcCCCcceeecCCCCh
Q 047930          291 S-LDVLSRKMDSQQNFSFDVLKE  312 (395)
Q Consensus       291 ~-~~va~~~~~~~~~~~l~~L~~  312 (395)
                      . ..+.......+..+++.+.+.
T Consensus       148 ~~~~il~tI~SRc~~i~f~~~~~  170 (325)
T COG0470         148 DPSKILPTIRSRCQRIRFKPPSR  170 (325)
T ss_pred             ChhhccchhhhcceeeecCCchH
Confidence            4 334333445566788877443

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.60  E-value=0.00026  Score=70.29  Aligned_cols=75  Identities=20%  Similarity=0.324  Sum_probs=56.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      .-++..++|++|.||||||..++....    | .++-+++|...+...+-..|...+.....-.             ...
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s~l~-------------ads  386 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHSVLD-------------ADS  386 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhccccc-------------cCC
Confidence            468999999999999999999998764    3 2678999998888887777766554321111             025


Q ss_pred             CeEEEEEeCCCCc
Q 047930          254 KRILVILDNIWEN  266 (395)
Q Consensus       254 kr~LlVlDdv~~~  266 (395)
                      ++.-||+|+++..
T Consensus       387 rP~CLViDEIDGa  399 (877)
T KOG1969|consen  387 RPVCLVIDEIDGA  399 (877)
T ss_pred             CcceEEEecccCC
Confidence            7888999999765

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.59  E-value=0.0008  Score=62.50  Aligned_cols=29  Identities=31%  Similarity=0.331  Sum_probs=25.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ..+..+.|+|++|+|||.+|+.+++....
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~  174 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGI  174 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCC
Confidence            45788999999999999999999998764

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.56  E-value=0.00034  Score=64.55  Aligned_cols=116  Identities=18%  Similarity=0.216  Sum_probs=67.8

Q ss_pred             chHHHHHHHHHHhcC----CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC
Q 047930          158 SRMSTLNDILDALKN----PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       158 gr~~~~~~l~~~l~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~  233 (395)
                      ++........+++..    +..+-+.++|..|+|||.||..+++....+ .+. +.|+++      .+++.++.......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~-g~~-v~~~~~------~~l~~~lk~~~~~~  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKK-GVS-STLLHF------PEFIRELKNSISDG  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHc-CCC-EEEEEH------HHHHHHHHHHHhcC
Confidence            344444444555441    234678899999999999999999987633 232 456654      35566665554311


Q ss_pred             ccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccch--hcccc-CCC-CCCcEEEEeecc
Q 047930          234 LHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQA--VGIPH-GDG-HKGSKVLLTARS  291 (395)
Q Consensus       234 ~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~--l~~~l-~~~-~~gs~iivTtR~  291 (395)
                              ......+.+.  +-=||||||+...  ..|..  +...+ ... .++..+|+||.-
T Consensus       207 --------~~~~~l~~l~--~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        207 --------SVKEKIDAVK--EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             --------cHHHHHHHhc--CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence                    1234444453  4679999999543  45643  33322 111 234457777763

>PRK12377 putative replication protein; Provisional

Probab=97.56  E-value=0.0003  Score=62.68  Aligned_cols=74  Identities=22%  Similarity=0.238  Sum_probs=48.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      ...+.++|..|+|||.||..+++....+  ...++++++      .+++..+.......       .....+.+.+.  +
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~--g~~v~~i~~------~~l~~~l~~~~~~~-------~~~~~~l~~l~--~  163 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAK--GRSVIVVTV------PDVMSRLHESYDNG-------QSGEKFLQELC--K  163 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEH------HHHHHHHHHHHhcc-------chHHHHHHHhc--C
Confidence            4578899999999999999999987643  233566654      34555554443211       11224445553  4


Q ss_pred             eEEEEEeCCCC
Q 047930          255 RILVILDNIWE  265 (395)
Q Consensus       255 r~LlVlDdv~~  265 (395)
                      --||||||+..
T Consensus       164 ~dLLiIDDlg~  174 (248)
T PRK12377        164 VDLLVLDEIGI  174 (248)
T ss_pred             CCEEEEcCCCC
Confidence            67999999943

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.54  E-value=0.0029  Score=61.89  Aligned_cols=131  Identities=18%  Similarity=0.282  Sum_probs=80.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      +.-|.+||++|+|||-||+.++|.....       |+++-.+    +++...+   |      .....+..+.++-+..-
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~N-------FisVKGP----ELlNkYV---G------ESErAVR~vFqRAR~sa  604 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGAN-------FISVKGP----ELLNKYV---G------ESERAVRQVFQRARASA  604 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCc-------eEeecCH----HHHHHHh---h------hHHHHHHHHHHHhhcCC
Confidence            5567899999999999999999998754       4555443    2222222   1      11224556666666678


Q ss_pred             eEEEEEeCCCCcc-------cc------chhccccC--CCCCCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHH
Q 047930          255 RILVILDNIWENL-------DF------QAVGIPHG--DGHKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEA  315 (395)
Q Consensus       255 r~LlVlDdv~~~~-------~~------~~l~~~l~--~~~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~  315 (395)
                      +|+|+||+++...       .|      ..+..-+-  ....|.-||-.|...++. ...+   .-...+-+..-+.+|-
T Consensus       605 PCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR  684 (802)
T KOG0733|consen  605 PCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEER  684 (802)
T ss_pred             CeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHH
Confidence            9999999997541       11      12221221  123455566655544432 1111   1234666777788999


Q ss_pred             HHHHHHhhCC
Q 047930          316 WSLFKKMAGD  325 (395)
Q Consensus       316 ~~lf~~~~~~  325 (395)
                      ..+++....+
T Consensus       685 ~~ILK~~tkn  694 (802)
T KOG0733|consen  685 VAILKTITKN  694 (802)
T ss_pred             HHHHHHHhcc
Confidence            9999988863

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.53  E-value=0.00036  Score=66.89  Aligned_cols=88  Identities=28%  Similarity=0.353  Sum_probs=59.2

Q ss_pred             hHHHHHHHHHHhcCCC---------ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          159 RMSTLNDILDALKNPD---------VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       159 r~~~~~~l~~~l~~~~---------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      -.+|++++++.|.++.         ++-|.++|++|+|||-||+.++-+..+.  |    |......|+      ++.--
T Consensus       312 AK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP--F----F~~sGSEFd------Em~VG  379 (752)
T KOG0734|consen  312 AKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP--F----FYASGSEFD------EMFVG  379 (752)
T ss_pred             HHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC--e----Eeccccchh------hhhhc
Confidence            4567899999998542         5668899999999999999999887764  2    222222222      11111


Q ss_pred             hCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          230 LGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      .        ...++..|...-+..-+|+|+||+++..
T Consensus       380 v--------GArRVRdLF~aAk~~APcIIFIDEiDav  408 (752)
T KOG0734|consen  380 V--------GARRVRDLFAAAKARAPCIIFIDEIDAV  408 (752)
T ss_pred             c--------cHHHHHHHHHHHHhcCCeEEEEechhhh
Confidence            1        1234556666666677999999998754

>PRK08181 transposase; Validated

Probab=97.52  E-value=0.00022  Score=64.39  Aligned_cols=105  Identities=20%  Similarity=0.119  Sum_probs=58.4

Q ss_pred             HHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHH
Q 047930          168 DALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLC  247 (395)
Q Consensus       168 ~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~  247 (395)
                      +|+..  ...+.++|++|+|||.||..+.+....+  ...++|++      ..+++..+.....    .    .....+.
T Consensus       101 ~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~~~--g~~v~f~~------~~~L~~~l~~a~~----~----~~~~~~l  162 (269)
T PRK08181        101 SWLAK--GANLLLFGPPGGGKSHLAAAIGLALIEN--GWRVLFTR------TTDLVQKLQVARR----E----LQLESAI  162 (269)
T ss_pred             HHHhc--CceEEEEecCCCcHHHHHHHHHHHHHHc--CCceeeee------HHHHHHHHHHHHh----C----CcHHHHH
Confidence            45543  3458899999999999999999876433  22345554      3455555543321    0    1222344


Q ss_pred             HHHhcCCeEEEEEeCCCCc--ccc-c-hhccccCCCCCCcEEEEeecch
Q 047930          248 NRLKKEKRILVILDNIWEN--LDF-Q-AVGIPHGDGHKGSKVLLTARSL  292 (395)
Q Consensus       248 ~~l~~~kr~LlVlDdv~~~--~~~-~-~l~~~l~~~~~gs~iivTtR~~  292 (395)
                      +.+.  +-=||||||+...  ..+ . .+...+.....+..+||||...
T Consensus       163 ~~l~--~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        163 AKLD--KFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             HHHh--cCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            4443  3459999999543  222 1 1222221111123588888753

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.50  E-value=0.0032  Score=54.65  Aligned_cols=115  Identities=14%  Similarity=0.238  Sum_probs=68.5

Q ss_pred             cccchhchHHHHHHHHHH----hcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDA----LKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~----l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      +...++|-+...+.|++.    +.....-.+.+||..|+|||+|++.+.+....+  .-..+  .++..           
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~--glrLV--EV~k~-----------  122 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE--GLRLV--EVDKE-----------  122 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc--CCeEE--EEcHH-----------
Confidence            344566766666555543    334445668899999999999999999987643  22222  22211           


Q ss_pred             HHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCC---ccccchhccccCC---CCCCcEEEEeecch
Q 047930          228 DKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWE---NLDFQAVGIPHGD---GHKGSKVLLTARSL  292 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~---~~~~~~l~~~l~~---~~~gs~iivTtR~~  292 (395)
                                 +...+..+.+.|+ ...||+|+.||+.-   ...+..++..+-.   ..+..-++..|.+.
T Consensus       123 -----------dl~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNR  183 (287)
T COG2607         123 -----------DLATLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNR  183 (287)
T ss_pred             -----------HHhhHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCC
Confidence                       1112334555554 36799999999942   3456666666532   22344455555554

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.49  E-value=0.00036  Score=70.96  Aligned_cols=161  Identities=14%  Similarity=0.166  Sum_probs=96.4

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCC----CEEEEEEeCCcCCHHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLF----DQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f----~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ....+.+||++|+..+++.|....-..-.++|.+|+|||+++.-++......+-.    +..++.     .++       
T Consensus       167 gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~s-----LD~-------  234 (786)
T COG0542         167 GKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYS-----LDL-------  234 (786)
T ss_pred             CCCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEE-----ecH-------
Confidence            3457789999999999999984332334578999999999999988875433211    111110     011       


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--------ccc--hhccccCCCCCCcEEEEeecchhh--
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--------DFQ--AVGIPHGDGHKGSKVLLTARSLDV--  294 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--------~~~--~l~~~l~~~~~gs~iivTtR~~~v--  294 (395)
                      ..-.....-...-.+.+..+.+.+.+.++.+|++|.+....        ..+  .+..|....+.--.|-.||-++.-  
T Consensus       235 g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~EYRk~  314 (786)
T COG0542         235 GSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEYRKY  314 (786)
T ss_pred             HHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHHHHHH
Confidence            11111111223344567777777776569999999986431        122  122222222223346667765432  


Q ss_pred             h---hhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          295 L---SRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       295 a---~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      .   .........+.+...+.+++..+++...
T Consensus       315 iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         315 IEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             hhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            0   1123355688999999999999997654

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.49  E-value=0.00073  Score=58.95  Aligned_cols=86  Identities=16%  Similarity=0.247  Sum_probs=53.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHh-C---CC----cc--ccchhhhHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKL-G---LT----LH--EETESGRAR  244 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l-~---~~----~~--~~~~~~~~~  244 (395)
                      -.++.|+|++|+|||+++.++.......  -..++|++... ++...+.+ ++... .   ..    ..  .......+.
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~~~   87 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQ-IAEDRPERALSNFIVFEVFDFDEQGVAIQ   87 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHH-HHHhChHHHhcCEEEEECCCHHHHHHHHH
Confidence            4789999999999999999988775432  45689999875 56555444 33321 0   00    00  001112244


Q ss_pred             HHHHHHhcCCeEEEEEeCCC
Q 047930          245 SLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       245 ~l~~~l~~~kr~LlVlDdv~  264 (395)
                      .+.+.+..++.-+||+|.+.
T Consensus        88 ~l~~~~~~~~~~lvVIDSis  107 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFT  107 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcH
Confidence            44444544456799999985

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

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.47  E-value=0.0021  Score=59.85  Aligned_cols=89  Identities=10%  Similarity=0.044  Sum_probs=50.5

Q ss_pred             CCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-hhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCC
Q 047930          253 EKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEG  329 (395)
Q Consensus       253 ~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~  329 (395)
                      +++-++|+|++...+  .-..+...+.....++.+|++|.+. .+..........+.+.+++.+++.+.+....    .+
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~~  187 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRERG----VA  187 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhcC----CC
Confidence            344455668876543  2223332332222356577777764 4444444556789999999999988886541    11


Q ss_pred             CchHHHHHHHHHHcCCchHHH
Q 047930          330 SEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       330 ~~~~~~~~~i~~~c~GlPlai  350 (395)
                      .. .    ..+..++|.|+..
T Consensus       188 ~~-~----~~l~~~~g~p~~~  203 (325)
T PRK08699        188 EP-E----ERLAFHSGAPLFD  203 (325)
T ss_pred             cH-H----HHHHHhCCChhhh
Confidence            11 1    1235688888643

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

Probab=97.47  E-value=0.0046  Score=59.54  Aligned_cols=161  Identities=17%  Similarity=0.277  Sum_probs=90.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ....+.+.|++|+|||+||..++....    |..+--++      ++++       ++.  .+.....-+..+.+---+.
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S~----FPFvKiiS------pe~m-------iG~--sEsaKc~~i~k~F~DAYkS  597 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSSD----FPFVKIIS------PEDM-------IGL--SESAKCAHIKKIFEDAYKS  597 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhcC----CCeEEEeC------hHHc-------cCc--cHHHHHHHHHHHHHHhhcC
Confidence            456778999999999999999998754    55433222      1110       000  0000001111222211124


Q ss_pred             CeEEEEEeCCCCccccchhcccc---------------CCCCCCcEEEEeecchhhhhhcCC----CcceeecCCCCh-H
Q 047930          254 KRILVILDNIWENLDFQAVGIPH---------------GDGHKGSKVLLTARSLDVLSRKMD----SQQNFSFDVLKE-D  313 (395)
Q Consensus       254 kr~LlVlDdv~~~~~~~~l~~~l---------------~~~~~gs~iivTtR~~~va~~~~~----~~~~~~l~~L~~-~  313 (395)
                      .--.||+||+....+|-.+...|               |+.++.--|+-||....+.. .++    ....|+++.++. +
T Consensus       598 ~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~-~m~i~~~F~~~i~Vpnl~~~~  676 (744)
T KOG0741|consen  598 PLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQ-EMGILDCFSSTIHVPNLTTGE  676 (744)
T ss_pred             cceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHH-HcCHHHhhhheeecCccCchH
Confidence            55689999998777766554332               22233333444666565542 121    234789999988 7


Q ss_pred             HHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhh
Q 047930          314 EAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALR  358 (395)
Q Consensus       314 e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~  358 (395)
                      +..+.++..-  ...+.+...++.+...+|  .-.+|+.+-.++.
T Consensus       677 ~~~~vl~~~n--~fsd~~~~~~~~~~~~~~--~~vgIKklL~lie  717 (744)
T KOG0741|consen  677 QLLEVLEELN--IFSDDEVRAIAEQLLSKK--VNVGIKKLLMLIE  717 (744)
T ss_pred             HHHHHHHHcc--CCCcchhHHHHHHHhccc--cchhHHHHHHHHH
Confidence            7788777653  122344455677777777  4455666666654

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.45  E-value=0.0017  Score=64.43  Aligned_cols=151  Identities=16%  Similarity=0.094  Sum_probs=84.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc--CCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI--QDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      .+.|.|.|+.|+|||+||+.+++... +.+.-++.+++++.-  ...+.+++.+-..                ..+.+. 
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~v----------------fse~~~-  492 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNV----------------FSEALW-  492 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHHH----------------HHHHHh-
Confidence            45688999999999999999999877 344555667776542  1233333222211                222333 


Q ss_pred             CCeEEEEEeCCCCc--------cccch-----------hccccCCCCCCc--EEEEeecchhhh-hh---cCCCcceeec
Q 047930          253 EKRILVILDNIWEN--------LDFQA-----------VGIPHGDGHKGS--KVLLTARSLDVL-SR---KMDSQQNFSF  307 (395)
Q Consensus       253 ~kr~LlVlDdv~~~--------~~~~~-----------l~~~l~~~~~gs--~iivTtR~~~va-~~---~~~~~~~~~l  307 (395)
                      ..+-++||||++..        .+|..           +...+  ...+.  .+|.|.....-. ..   ..-...++.|
T Consensus       493 ~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y--~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L  570 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIY--LKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIAL  570 (952)
T ss_pred             hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHH--HccCcEEEEEEechhhhhcChhhcCccceEEEEec
Confidence            56899999999643        12211           11111  22233  344454432211 11   1122347889


Q ss_pred             CCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          308 DVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       308 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      .++...+--++++........ ....+...-+..+|+|.
T Consensus       571 ~ap~~~~R~~IL~~~~s~~~~-~~~~~dLd~ls~~TEGy  608 (952)
T KOG0735|consen  571 PAPAVTRRKEILTTIFSKNLS-DITMDDLDFLSVKTEGY  608 (952)
T ss_pred             CCcchhHHHHHHHHHHHhhhh-hhhhHHHHHHHHhcCCc
Confidence            999988888888777643221 11122334477788886

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.42  E-value=0.00085  Score=59.68  Aligned_cols=90  Identities=20%  Similarity=0.279  Sum_probs=56.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-------------c
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-------------E  237 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------------~  237 (395)
                      -.++.|+|.+|+|||+|+.+++-.......    ...++|++....++...+ .++++..+.....             .
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~~~   97 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAERFGLDPEEVLDNIYVARAYNSD   97 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHHhccChHhHhcCEEEEecCCHH
Confidence            468899999999999999999755332221    256899998887765544 3344443321110             0


Q ss_pred             chhhhHHHHHHHHhcC-CeEEEEEeCCCC
Q 047930          238 TESGRARSLCNRLKKE-KRILVILDNIWE  265 (395)
Q Consensus       238 ~~~~~~~~l~~~l~~~-kr~LlVlDdv~~  265 (395)
                      .....+..+.+.+.+. +.-|||+|.+..
T Consensus        98 ~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          98 HQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence            1112334455555555 778999999853

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

>PRK06526 transposase; Provisional

Probab=97.42  E-value=0.00023  Score=63.90  Aligned_cols=74  Identities=23%  Similarity=0.240  Sum_probs=43.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      ...+.++|++|+|||+||..+......++ +. +.|+      +..+++..+......        .........+.  +
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g-~~-v~f~------t~~~l~~~l~~~~~~--------~~~~~~l~~l~--~  159 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAG-HR-VLFA------TAAQWVARLAAAHHA--------GRLQAELVKLG--R  159 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCC-Cc-hhhh------hHHHHHHHHHHHHhc--------CcHHHHHHHhc--c
Confidence            34688999999999999999988754332 22 3332      344555555433210        11122233332  3


Q ss_pred             eEEEEEeCCCCc
Q 047930          255 RILVILDNIWEN  266 (395)
Q Consensus       255 r~LlVlDdv~~~  266 (395)
                      .-||||||+...
T Consensus       160 ~dlLIIDD~g~~  171 (254)
T PRK06526        160 YPLLIVDEVGYI  171 (254)
T ss_pred             CCEEEEcccccC
Confidence            468999999643

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

Probab=97.42  E-value=0.00026  Score=59.99  Aligned_cols=74  Identities=31%  Similarity=0.457  Sum_probs=45.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      ...+.++|..|+|||.||..+.+....+. + .+.|++      ..+++..+-..    ...    .....+.+.+.  +
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g-~-~v~f~~------~~~L~~~l~~~----~~~----~~~~~~~~~l~--~  108 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKG-Y-SVLFIT------ASDLLDELKQS----RSD----GSYEELLKRLK--R  108 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEE------HHHHHHHHHCC----HCC----TTHCHHHHHHH--T
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCC-c-ceeEee------cCceecccccc----ccc----cchhhhcCccc--c
Confidence            35689999999999999999998765432 2 355664      34455554322    111    11234455555  3


Q ss_pred             eEEEEEeCCCCc
Q 047930          255 RILVILDNIWEN  266 (395)
Q Consensus       255 r~LlVlDdv~~~  266 (395)
                      -=||||||+-..
T Consensus       109 ~dlLilDDlG~~  120 (178)
T PF01695_consen  109 VDLLILDDLGYE  120 (178)
T ss_dssp             SSCEEEETCTSS
T ss_pred             ccEeccccccee
Confidence            468889999543

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.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.40  E-value=0.0022  Score=65.63  Aligned_cols=149  Identities=19%  Similarity=0.253  Sum_probs=79.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      +-+.++|++|+|||++++.+.......  |   +.++.+.      +.. +.  .+.      .......+.+......+
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~--f---~~is~~~------~~~-~~--~g~------~~~~~~~~f~~a~~~~P  245 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVP--F---FTISGSD------FVE-MF--VGV------GASRVRDMFEQAKKAAP  245 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCC--E---EEEehHH------hHH-hh--hcc------cHHHHHHHHHHHHhcCC
Confidence            458899999999999999998876532  2   2222221      111 00  000      11122333333344568


Q ss_pred             EEEEEeCCCCcc------------cc----chhccccC--CCCCCcEEEEeecchhhhh-hcC---CCcceeecCCCChH
Q 047930          256 ILVILDNIWENL------------DF----QAVGIPHG--DGHKGSKVLLTARSLDVLS-RKM---DSQQNFSFDVLKED  313 (395)
Q Consensus       256 ~LlVlDdv~~~~------------~~----~~l~~~l~--~~~~gs~iivTtR~~~va~-~~~---~~~~~~~l~~L~~~  313 (395)
                      ++|+||+++...            ..    ..+...+.  ....+.-+|.||...+... ...   .....+.+...+.+
T Consensus       246 ~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~  325 (644)
T PRK10733        246 CIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVR  325 (644)
T ss_pred             cEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHH
Confidence            999999986531            01    11111111  1223445555776544321 111   23467888888888


Q ss_pred             HHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          314 EAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       314 e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      +-.++++.........++..  ...+++.+.|.
T Consensus       326 ~R~~Il~~~~~~~~l~~~~d--~~~la~~t~G~  356 (644)
T PRK10733        326 GREQILKVHMRRVPLAPDID--AAIIARGTPGF  356 (644)
T ss_pred             HHHHHHHHHhhcCCCCCcCC--HHHHHhhCCCC
Confidence            88888888775432222211  33566777663

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

Probab=97.37  E-value=0.0016  Score=67.22  Aligned_cols=101  Identities=15%  Similarity=0.208  Sum_probs=55.0

Q ss_pred             hhchHHHHHHHHHHhc-------C--CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          156 FESRMSTLNDILDALK-------N--PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~-------~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ++|.++.++.+...+.       +  .....+.++|+.|+|||++|+.+......  .   .+.++.+......    .+
T Consensus       460 ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~--~---~i~id~se~~~~~----~~  530 (758)
T PRK11034        460 VFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI--E---LLRFDMSEYMERH----TV  530 (758)
T ss_pred             EeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCC--C---cEEeechhhcccc----cH
Confidence            4566666666666654       1  12357889999999999999999887631  1   2334443321111    11


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      ..-++.+..... ......+.+.+......+|+||++...
T Consensus       531 ~~LiG~~~gyvg-~~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        531 SRLIGAPPGYVG-FDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             HHHcCCCCCccc-ccccchHHHHHHhCCCcEEEeccHhhh
Confidence            112232211110 111123344444344579999999754

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.36  E-value=0.004  Score=55.67  Aligned_cols=151  Identities=23%  Similarity=0.258  Sum_probs=79.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      -+-|.++|++|+||+.||+.|+.....       .|.++|.+.-+.       +.++.      ...++..|.+-.++++
T Consensus       166 wrgiLLyGPPGTGKSYLAKAVATEAnS-------TFFSvSSSDLvS-------KWmGE------SEkLVknLFemARe~k  225 (439)
T KOG0739|consen  166 WRGILLYGPPGTGKSYLAKAVATEANS-------TFFSVSSSDLVS-------KWMGE------SEKLVKNLFEMARENK  225 (439)
T ss_pred             ceeEEEeCCCCCcHHHHHHHHHhhcCC-------ceEEeehHHHHH-------HHhcc------HHHHHHHHHHHHHhcC
Confidence            467899999999999999999987652       244555431111       11221      1234556666666789


Q ss_pred             eEEEEEeCCCCc---------cccchhc----c---ccCCCCCCcEEEEeecchhhhhhc--CCCcceeecCCCChHHHH
Q 047930          255 RILVILDNIWEN---------LDFQAVG----I---PHGDGHKGSKVLLTARSLDVLSRK--MDSQQNFSFDVLKEDEAW  316 (395)
Q Consensus       255 r~LlVlDdv~~~---------~~~~~l~----~---~l~~~~~gs~iivTtR~~~va~~~--~~~~~~~~l~~L~~~e~~  316 (395)
                      +-+|++|+++..         +.-..+.    .   ....+..|.-|+-.|...-+....  ......|-+ ||++..|.
T Consensus       226 PSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR  304 (439)
T KOG0739|consen  226 PSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHAR  304 (439)
T ss_pred             CcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCchhHHHHHHHHhhcceec-cCCcHHHh
Confidence            999999999753         1111111    1   122333455555555543332100  011112222 56666664


Q ss_pred             -HHHHHhhCCCCCCCchHHHHHHHHHHcCCch
Q 047930          317 -SLFKKMAGDYIEGSEFKWVAREVAKECAGLP  347 (395)
Q Consensus       317 -~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP  347 (395)
                       .+|+-+++.-.. .-.+.-.+++.++..|..
T Consensus       305 ~~MF~lhlG~tp~-~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  305 ARMFKLHLGDTPH-VLTEQDFKELARKTEGYS  335 (439)
T ss_pred             hhhheeccCCCcc-ccchhhHHHHHhhcCCCC
Confidence             556666654222 112223456677776653

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.36  E-value=0.0056  Score=62.51  Aligned_cols=101  Identities=20%  Similarity=0.320  Sum_probs=59.0

Q ss_pred             hhchHHHHHHHHHHhc-------CC--CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          156 FESRMSTLNDILDALK-------NP--DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~-------~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ++|.+..+..+.+.+.       ++  ...+....|+.|+|||-||+.++......+  +..+-+      ++.+...+-
T Consensus       493 ViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~------DMSEy~EkH  564 (786)
T COG0542         493 VIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRI------DMSEYMEKH  564 (786)
T ss_pred             eeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceee------chHHHHHHH
Confidence            5677777777777664       22  346788899999999999999998763211  223333      333333222


Q ss_pred             --HHHhCCCccccchhhhHHHHHHHHhcCCeE-EEEEeCCCCc
Q 047930          227 --ADKLGLTLHEETESGRARSLCNRLKKEKRI-LVILDNIWEN  266 (395)
Q Consensus       227 --~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~-LlVlDdv~~~  266 (395)
                        .+-+|.++.-... +....|-+.+. .++| +|.||++...
T Consensus       565 sVSrLIGaPPGYVGy-eeGG~LTEaVR-r~PySViLlDEIEKA  605 (786)
T COG0542         565 SVSRLIGAPPGYVGY-EEGGQLTEAVR-RKPYSVILLDEIEKA  605 (786)
T ss_pred             HHHHHhCCCCCCcee-ccccchhHhhh-cCCCeEEEechhhhc
Confidence              2223433322111 11335556665 4666 8889999643

>PRK06921 hypothetical protein; Provisional

Probab=97.36  E-value=0.00068  Score=61.36  Aligned_cols=71  Identities=24%  Similarity=0.346  Sum_probs=44.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ....+.++|..|+|||.|+..+++....+. -..++|++.      .+++..+...+          .......+.+.  
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~~------~~l~~~l~~~~----------~~~~~~~~~~~--  176 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFPF------VEGFGDLKDDF----------DLLEAKLNRMK--  176 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEEH------HHHHHHHHHHH----------HHHHHHHHHhc--
Confidence            356789999999999999999999865331 234566654      23334433222          01122333443  


Q ss_pred             CeEEEEEeCC
Q 047930          254 KRILVILDNI  263 (395)
Q Consensus       254 kr~LlVlDdv  263 (395)
                      +-=||||||+
T Consensus       177 ~~dlLiIDDl  186 (266)
T PRK06921        177 KVEVLFIDDL  186 (266)
T ss_pred             CCCEEEEecc
Confidence            3569999999

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.35  E-value=0.0014  Score=64.68  Aligned_cols=60  Identities=20%  Similarity=0.318  Sum_probs=43.2

Q ss_pred             cccccchhchHHHHHHHHHHhcC-----CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 047930          150 NKDYEAFESRMSTLNDILDALKN-----PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEV  213 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  213 (395)
                      |....++.-....++++..||..     ...+++.+.|++|+||||.++.++++..    |+.+=|.+-
T Consensus        15 P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~np   79 (519)
T PF03215_consen   15 PKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWINP   79 (519)
T ss_pred             CCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecCC
Confidence            33444444455667788888762     3357899999999999999999998864    566667643

>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=97.35  E-value=0.0012  Score=56.79  Aligned_cols=87  Identities=20%  Similarity=0.295  Sum_probs=52.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCccccc----hhhhHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTLHEET----ESGRARSLCNR  249 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~----~~~~~~~l~~~  249 (395)
                      +++|.++|+.|+||||.+.+++.....+  -..+..++.... ....+-++..++.++.+.....    ....+....+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~   78 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEK   78 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHH
Confidence            4689999999999999998888776654  344677776432 3456677788888876533211    12223233333


Q ss_pred             HhcCCeEEEEEeCC
Q 047930          250 LKKEKRILVILDNI  263 (395)
Q Consensus       250 l~~~kr~LlVlDdv  263 (395)
                      ...++.=++++|=.
T Consensus        79 ~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   79 FRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHTTSSEEEEEE-
T ss_pred             HhhcCCCEEEEecC
Confidence            33222336677755

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 ....

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.35  E-value=0.0073  Score=57.26  Aligned_cols=153  Identities=15%  Similarity=0.171  Sum_probs=83.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      +-=.++||+|+||||++.++++...    |+.+ =+..+...+-.+                     +..|...  ...+
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~----ydIy-dLeLt~v~~n~d---------------------Lr~LL~~--t~~k  287 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLN----YDIY-DLELTEVKLDSD---------------------LRHLLLA--TPNK  287 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcC----CceE-EeeeccccCcHH---------------------HHHHHHh--CCCC
Confidence            3345899999999999999998765    5432 122222111111                     2222222  1346


Q ss_pred             EEEEEeCCCCccc-----------cc---------hhcccc--CCCCC-CcEEE-Eeecchhhh-hhcC---CCcceeec
Q 047930          256 ILVILDNIWENLD-----------FQ---------AVGIPH--GDGHK-GSKVL-LTARSLDVL-SRKM---DSQQNFSF  307 (395)
Q Consensus       256 ~LlVlDdv~~~~~-----------~~---------~l~~~l--~~~~~-gs~ii-vTtR~~~va-~~~~---~~~~~~~l  307 (395)
                      -+|||.|++...+           ..         .|...+  .+.++ +-||| .||...+-. +..+   .....+.|
T Consensus       288 SIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~m  367 (457)
T KOG0743|consen  288 SILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYM  367 (457)
T ss_pred             cEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEc
Confidence            7788888764311           11         011111  12223 23554 466553321 1111   23457889


Q ss_pred             CCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHH-hhCC
Q 047930          308 DVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARA-LRNK  360 (395)
Q Consensus       308 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~-l~~~  360 (395)
                      .-=+.+....||.+.++...+++    +..+|.+.-.|.-+.=..++.. |.++
T Consensus       368 gyCtf~~fK~La~nYL~~~~~h~----L~~eie~l~~~~~~tPA~V~e~lm~~~  417 (457)
T KOG0743|consen  368 GYCTFEAFKTLASNYLGIEEDHR----LFDEIERLIEETEVTPAQVAEELMKNK  417 (457)
T ss_pred             CCCCHHHHHHHHHHhcCCCCCcc----hhHHHHHHhhcCccCHHHHHHHHhhcc
Confidence            99999999999999997544333    4455555555554444455444 4555

>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=97.34  E-value=0.00021  Score=56.39  Aligned_cols=23  Identities=48%  Similarity=0.616  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +|.|.|++|+||||+|+.+.+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999875

...

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.33  E-value=0.0016  Score=58.51  Aligned_cols=81  Identities=22%  Similarity=0.308  Sum_probs=52.8

Q ss_pred             HHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHH
Q 047930          166 ILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARS  245 (395)
Q Consensus       166 l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~  245 (395)
                      +.+++.  +..-+.++|.+|+|||.||..+.++.. +..+ .+.+++      ..+++.++......       ......
T Consensus        98 ~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~-sv~f~~------~~el~~~Lk~~~~~-------~~~~~~  160 (254)
T COG1484          98 LVEFFE--RGENLVLLGPPGVGKTHLAIAIGNELL-KAGI-SVLFIT------APDLLSKLKAAFDE-------GRLEEK  160 (254)
T ss_pred             HHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCC-eEEEEE------HHHHHHHHHHHHhc-------CchHHH
Confidence            344444  556789999999999999999999977 3223 355554      45666666665543       112233


Q ss_pred             HHHHHhcCCeEEEEEeCCCC
Q 047930          246 LCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       246 l~~~l~~~kr~LlVlDdv~~  265 (395)
                      +.+.+.  +-=||||||+-.
T Consensus       161 l~~~l~--~~dlLIiDDlG~  178 (254)
T COG1484         161 LLRELK--KVDLLIIDDIGY  178 (254)
T ss_pred             HHHHhh--cCCEEEEecccC
Confidence            444343  345999999954

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.32  E-value=0.00095  Score=70.35  Aligned_cols=105  Identities=15%  Similarity=0.290  Sum_probs=56.1

Q ss_pred             chhchHHHHHHHHHHhc-------CCC--ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK-------NPD--VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~-------~~~--~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++|.+..++.+...+.       +++  ..++.++|+.|+|||+||+.+++.....  -...+.+.++.... ..   .
T Consensus       569 ~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~--~~~~i~id~se~~~-~~---~  642 (857)
T PRK10865        569 RVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS--DDAMVRIDMSEFME-KH---S  642 (857)
T ss_pred             eEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC--CCcEEEEEhHHhhh-hh---h
Confidence            35677777777666654       122  2478899999999999999999765322  12234444433211 11   1


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      ...-++.+.... .......+.+.+.....-+|+|||+...
T Consensus       643 ~~~LiG~~pgy~-g~~~~g~l~~~v~~~p~~vLllDEieka  682 (857)
T PRK10865        643 VSRLVGAPPGYV-GYEEGGYLTEAVRRRPYSVILLDEVEKA  682 (857)
T ss_pred             HHHHhCCCCccc-ccchhHHHHHHHHhCCCCeEEEeehhhC
Confidence            111123221111 1111123444444333469999999743

>PRK09183 transposase/IS protein; Provisional

Probab=97.31  E-value=0.00077  Score=60.82  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+.|+|++|+|||+||..+.....
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~  127 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAV  127 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4677999999999999999987654

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.30  E-value=0.0026  Score=57.55  Aligned_cols=28  Identities=32%  Similarity=0.424  Sum_probs=24.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      -++|.++|++|+|||+|.+.+++...++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR  204 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIR  204 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheee
Confidence            4789999999999999999999986553

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.29  E-value=0.001  Score=70.30  Aligned_cols=105  Identities=18%  Similarity=0.287  Sum_probs=58.0

Q ss_pred             chhchHHHHHHHHHHhcC-------C--CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          155 AFESRMSTLNDILDALKN-------P--DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++|.+..++.+...+..       +  ...++.++|+.|+|||++|+.+.......  -...+.++.+.......    
T Consensus       566 ~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~--~~~~i~~d~s~~~~~~~----  639 (852)
T TIGR03346       566 RVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD--EDAMVRIDMSEYMEKHS----  639 (852)
T ss_pred             ccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhhcccch----
Confidence            367777777777776642       1  13568899999999999999999875422  12334444443222111    


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      ...-++.+.... .......+.+.+......+|+||++...
T Consensus       640 ~~~l~g~~~g~~-g~~~~g~l~~~v~~~p~~vlllDeieka  679 (852)
T TIGR03346       640 VARLIGAPPGYV-GYEEGGQLTEAVRRKPYSVVLFDEVEKA  679 (852)
T ss_pred             HHHhcCCCCCcc-CcccccHHHHHHHcCCCcEEEEeccccC
Confidence            111122221110 1111123444444334459999999754

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.

>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=97.29  E-value=0.00023  Score=61.23  Aligned_cols=48  Identities=31%  Similarity=0.381  Sum_probs=32.7

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE  212 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  212 (395)
                      -...++.|.  ...++.+.|++|+|||.||....-+.-....|+.++++.
T Consensus         9 Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    9 QKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             HHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             HHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            344455554  445889999999999999999887765557788877764

; GO: 0005524 ATP binding; PDB: 3B85_A.

>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=97.26  E-value=0.034  Score=51.99  Aligned_cols=40  Identities=23%  Similarity=0.482  Sum_probs=31.4

Q ss_pred             HHHHHHHhcC---CCceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          163 LNDILDALKN---PDVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       163 ~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      .+.|.+.+.+   ....+|+|.|.=|+||||+.+.+.+.....
T Consensus         5 a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    5 AKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             HHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            3445555543   567899999999999999999999887654

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 [].

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.25  E-value=0.02  Score=57.78  Aligned_cols=94  Identities=21%  Similarity=0.337  Sum_probs=62.8

Q ss_pred             ccchhchHHHHHHHHHHhcC---------C---CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          153 YEAFESRMSTLNDILDALKN---------P---DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~---------~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      -.++-|-++.+.+|.+.+.-         .   .+.-|.++|++|+|||-||+.|+.+..-       -|++|-.+    
T Consensus       671 WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL-------~FlSVKGP----  739 (953)
T KOG0736|consen  671 WDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSL-------NFLSVKGP----  739 (953)
T ss_pred             hhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhcee-------eEEeecCH----
Confidence            34455667777777776541         1   2456789999999999999999987653       46666554    


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      +++...+   |      .....+.++.++-++.++|+|+||++++.
T Consensus       740 ELLNMYV---G------qSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 ELLNMYV---G------QSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             HHHHHHh---c------chHHHHHHHHHHhhccCCeEEEecccccc
Confidence            2222211   1      11234567777777789999999999875

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.22  E-value=0.0074  Score=55.02  Aligned_cols=168  Identities=17%  Similarity=0.162  Sum_probs=95.6

Q ss_pred             cchhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH-HHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI-RKIQGEFAD  228 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~-~~~~~~i~~  228 (395)
                      .+++|-.++-.++-.++.    .+....+.|+|+.|.|||+|......+.  +..-...+-|...+..-. .-.++.|..
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~--q~~~E~~l~v~Lng~~~~dk~al~~I~r  101 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDI--QENGENFLLVRLNGELQTDKIALKGITR  101 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhH--HhcCCeEEEEEECccchhhHHHHHHHHH
Confidence            346677666666666654    3444567799999999999999888872  121233444555443322 224455555


Q ss_pred             HhCCCcc-----ccchhhhHHHHHHHHhc-----CCeEEEEEeCCCCccc-------cchhccccCCCCCCcEEEEeecc
Q 047930          229 KLGLTLH-----EETESGRARSLCNRLKK-----EKRILVILDNIWENLD-------FQAVGIPHGDGHKGSKVLLTARS  291 (395)
Q Consensus       229 ~l~~~~~-----~~~~~~~~~~l~~~l~~-----~kr~LlVlDdv~~~~~-------~~~l~~~l~~~~~gs~iivTtR~  291 (395)
                      ++.....     ..+-.+.+..+.+.|+.     +.++++|+|+++--..       +.-+...-....|-|-|-+|||-
T Consensus       102 ql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrl  181 (408)
T KOG2228|consen  102 QLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRL  181 (408)
T ss_pred             HHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccc
Confidence            4432211     12334456677777763     3468888888753311       11111111123455667889985


Q ss_pred             hhhh------hhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          292 LDVL------SRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       292 ~~va------~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      ...-      ......-.++-+++++-++...++++.+
T Consensus       182 d~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  182 DILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             cHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            3221      1112222356667788899999999887

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.21  E-value=0.0025  Score=60.13  Aligned_cols=88  Identities=19%  Similarity=0.282  Sum_probs=53.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ..++.++|+.|+||||++..+......+.....+..++... .....+-++...+.++.+.........+......+. +
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~-~  215 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELR-N  215 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhc-C
Confidence            46899999999999999999988754221123455665432 224556666667777765443333223334444443 3


Q ss_pred             CeEEEEEeCCC
Q 047930          254 KRILVILDNIW  264 (395)
Q Consensus       254 kr~LlVlDdv~  264 (395)
                       +-++++|..-
T Consensus       216 -~DlVLIDTaG  225 (374)
T PRK14722        216 -KHMVLIDTIG  225 (374)
T ss_pred             -CCEEEEcCCC
Confidence             4566699884

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=97.21  E-value=0.0058  Score=49.68  Aligned_cols=110  Identities=12%  Similarity=0.153  Sum_probs=76.7

Q ss_pred             hhhH-HHHHHHHHHhhhHHHhhhhcccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHH
Q 047930            2 ADII-LSVIVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNG   80 (395)
Q Consensus         2 a~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~i~~l~~~l~~i~~~l~~a~~~~~~~~~~~~~Wl~~lr~   80 (395)
                      |+.+ +++++.+++.|...+.+.....         ...+.-++.|...++.|..++++.+..+...+..-+.-++++.+
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~---------~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~   73 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKS---------LSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKE   73 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---------HhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHH
Confidence            3444 3467777777777776665544         33455566666677777777777776655555555777889999


Q ss_pred             HHHHHHhhhhhhHhhccccccCCCcchhHhhHHHHHHHHHHHHHHHH
Q 047930           81 VIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKV  127 (395)
Q Consensus        81 ~a~d~ed~ld~~~~~~~~~~~~~~~~~~~r~~i~~~i~~~~~~l~~i  127 (395)
                      ...+++++++.+...+       ++++...++.+++|+++.+.+...
T Consensus        74 ~L~~g~~LV~k~sk~~-------r~n~~kk~~y~~Ki~~le~~l~~f  113 (147)
T PF05659_consen   74 LLEKGKELVEKCSKVR-------RWNLYKKPRYARKIEELEESLRRF  113 (147)
T ss_pred             HHHHHHHHHHHhcccc-------HHHHHhhHhHHHHHHHHHHHHHHH
Confidence            9999999998765432       355666778889999888887765

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.20  E-value=0.00054  Score=63.83  Aligned_cols=47  Identities=21%  Similarity=0.303  Sum_probs=39.8

Q ss_pred             chhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          155 AFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .++|.++.++++++++.      ....+++.++|++|+||||||+.+.+....
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            57899999999998885      234688999999999999999999987643

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

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.16  E-value=0.0038  Score=55.56  Aligned_cols=76  Identities=21%  Similarity=0.280  Sum_probs=47.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      ...+.++|.+|+|||+|+..+++....+  -..+++++      ..+++..+......  ..    .....+.+.+.  +
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~--g~~v~~it------~~~l~~~l~~~~~~--~~----~~~~~~l~~l~--~  162 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLR--GKSVLIIT------VADIMSAMKDTFSN--SE----TSEEQLLNDLS--N  162 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEE------HHHHHHHHHHHHhh--cc----ccHHHHHHHhc--c
Confidence            3578899999999999999999987543  23455553      44555555544321  11    11234455554  3


Q ss_pred             eEEEEEeCCCCc
Q 047930          255 RILVILDNIWEN  266 (395)
Q Consensus       255 r~LlVlDdv~~~  266 (395)
                      .=||||||+...
T Consensus       163 ~dlLvIDDig~~  174 (244)
T PRK07952        163 VDLLVIDEIGVQ  174 (244)
T ss_pred             CCEEEEeCCCCC
Confidence            458999999543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.15  E-value=0.0023  Score=67.44  Aligned_cols=105  Identities=19%  Similarity=0.271  Sum_probs=56.4

Q ss_pred             chhchHHHHHHHHHHhc-------CCC--ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK-------NPD--VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~-------~~~--~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++|.+..++.+...+.       +++  ..++.++|+.|+|||+||+.+.+.....  -...+-+..+.-.....+   
T Consensus       510 ~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~--~~~~~~~d~s~~~~~~~~---  584 (821)
T CHL00095        510 RIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS--EDAMIRLDMSEYMEKHTV---  584 (821)
T ss_pred             cCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC--ccceEEEEchhccccccH---
Confidence            35677777777766654       122  3457799999999999999999865321  122333444332211111   


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                       ..-++.+.... .......+.+.+......+++||++...
T Consensus       585 -~~l~g~~~gyv-g~~~~~~l~~~~~~~p~~VvllDeieka  623 (821)
T CHL00095        585 -SKLIGSPPGYV-GYNEGGQLTEAVRKKPYTVVLFDEIEKA  623 (821)
T ss_pred             -HHhcCCCCccc-CcCccchHHHHHHhCCCeEEEECChhhC
Confidence             11122211100 1111224555555333468999999754

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.15  E-value=0.0027  Score=58.11  Aligned_cols=88  Identities=19%  Similarity=0.325  Sum_probs=48.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      +.+++.++|++|+||||++..++.....+..-..+..++..... ...+.+....+.++.+.........+....+.+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~-  271 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLR-  271 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHcc-
Confidence            45699999999999999999998776432111235556553311 2233344444445544332222223334444443 


Q ss_pred             CCeEEEEEeCC
Q 047930          253 EKRILVILDNI  263 (395)
Q Consensus       253 ~kr~LlVlDdv  263 (395)
                      + .=+|++|..
T Consensus       272 ~-~d~vliDt~  281 (282)
T TIGR03499       272 D-KDLILIDTA  281 (282)
T ss_pred             C-CCEEEEeCC
Confidence            2 347777753

>PRK06696 uridine kinase; Validated

Probab=97.14  E-value=0.0008  Score=59.38  Aligned_cols=43  Identities=26%  Similarity=0.349  Sum_probs=34.4

Q ss_pred             chHHHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          158 SRMSTLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       158 gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.+.+++|.+.+.   .+++.+|+|.|.+|+||||||+.+.....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~   47 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIK   47 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35566666766664   45688999999999999999999998764

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=97.13  E-value=0.035  Score=51.05  Aligned_cols=143  Identities=12%  Similarity=0.077  Sum_probs=83.0

Q ss_pred             HHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhc--------ccCCCCEEEEEEe-CCcCCHHHHHHHHHHHhCCC
Q 047930          164 NDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAE--------NEKLFDQVIFVEV-SQIQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       164 ~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~--------~~~~f~~~~wv~~-s~~~~~~~~~~~i~~~l~~~  233 (395)
                      ..+.+.+..++ .++..++|..|.||+++|..+.+..-        ...|.+.+.++.. ......+++. ++.+.+...
T Consensus         6 ~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~~~   84 (299)
T PRK07132          6 KFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLYFS   84 (299)
T ss_pred             HHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhccC
Confidence            34445555544 45666999999999999999988752        1122222333321 1222233322 333333221


Q ss_pred             ccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceeecCCC
Q 047930          234 LHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFSFDVL  310 (395)
Q Consensus       234 ~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~l~~L  310 (395)
                      .-               .++.+-++|+|++....  ....+...+....+++.+|++|.+ ..+.......+..+++.++
T Consensus        85 ~~---------------~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l  149 (299)
T PRK07132         85 SF---------------VQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEP  149 (299)
T ss_pred             Cc---------------ccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCC
Confidence            10               01467788999986543  344555555444456666665544 4444444566789999999


Q ss_pred             ChHHHHHHHHHh
Q 047930          311 KEDEAWSLFKKM  322 (395)
Q Consensus       311 ~~~e~~~lf~~~  322 (395)
                      ++++....+...
T Consensus       150 ~~~~l~~~l~~~  161 (299)
T PRK07132        150 DQQKILAKLLSK  161 (299)
T ss_pred             CHHHHHHHHHHc
Confidence            999998887764

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

Probab=97.12  E-value=0.0028  Score=55.93  Aligned_cols=48  Identities=23%  Similarity=0.334  Sum_probs=35.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIRKI  222 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~~~  222 (395)
                      -.++.|+|++|+|||+|+.++........    .-..++|++....++...+
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl   70 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERL   70 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHH
Confidence            46899999999999999999987643221    0145789988777665544

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

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.006  Score=60.69  Aligned_cols=152  Identities=20%  Similarity=0.173  Sum_probs=82.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ..+.+.++|++|+|||.||+.+++.....  |     +.+...    +++..        .-.. ....+..+...-.+.
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~--f-----i~v~~~----~l~sk--------~vGe-sek~ir~~F~~A~~~  334 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSR--F-----ISVKGS----ELLSK--------WVGE-SEKNIRELFEKARKL  334 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCe--E-----EEeeCH----HHhcc--------ccch-HHHHHHHHHHHHHcC
Confidence            45688999999999999999999965432  3     222221    11110        0001 112233444444446


Q ss_pred             CeEEEEEeCCCCccccc-------------hhccccC--CCCCCcEEEEeecchhhhhh-c---CCCcceeecCCCChHH
Q 047930          254 KRILVILDNIWENLDFQ-------------AVGIPHG--DGHKGSKVLLTARSLDVLSR-K---MDSQQNFSFDVLKEDE  314 (395)
Q Consensus       254 kr~LlVlDdv~~~~~~~-------------~l~~~l~--~~~~gs~iivTtR~~~va~~-~---~~~~~~~~l~~L~~~e  314 (395)
                      .++.|++|+++....+.             .+...+.  ....+..||-+|........ .   ..-...+.+.+-+.++
T Consensus       335 ~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~  414 (494)
T COG0464         335 APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEE  414 (494)
T ss_pred             CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHH
Confidence            78999999997542221             1111221  22233344555544332211 1   1234588899999999


Q ss_pred             HHHHHHHhhCCCCCCCchHHHHHHHHHHcCC
Q 047930          315 AWSLFKKMAGDYIEGSEFKWVAREVAKECAG  345 (395)
Q Consensus       315 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~G  345 (395)
                      ..+.|+.+......+....-..+++++.+.|
T Consensus       415 r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~  445 (494)
T COG0464         415 RLEIFKIHLRDKKPPLAEDVDLEELAEITEG  445 (494)
T ss_pred             HHHHHHHHhcccCCcchhhhhHHHHHHHhcC
Confidence            9999999986333211111123455555555

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.044  Score=54.91  Aligned_cols=150  Identities=18%  Similarity=0.259  Sum_probs=85.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEK  254 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  254 (395)
                      ..-|.++|++|+|||.||..+......+       ++++-++    +++.+.+   |.      ..+.+..+..+.+.-+
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~~~-------fisvKGP----ElL~KyI---Ga------SEq~vR~lF~rA~~a~  760 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSNLR-------FISVKGP----ELLSKYI---GA------SEQNVRDLFERAQSAK  760 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCCee-------EEEecCH----HHHHHHh---cc------cHHHHHHHHHHhhccC
Confidence            4558899999999999999999876533       5666554    2333222   21      1234556777766679


Q ss_pred             eEEEEEeCCCCcc-------------ccchhccccCCC---CCCcEEEE-eecchhhhhhcCCC---cceeecCCCChHH
Q 047930          255 RILVILDNIWENL-------------DFQAVGIPHGDG---HKGSKVLL-TARSLDVLSRKMDS---QQNFSFDVLKEDE  314 (395)
Q Consensus       255 r~LlVlDdv~~~~-------------~~~~l~~~l~~~---~~gs~iiv-TtR~~~va~~~~~~---~~~~~l~~L~~~e  314 (395)
                      +|+|+||+.++..             ..+.+.-.+ ++   -.|.-|+- |||..-+-......   .+.+.-+.-++.+
T Consensus       761 PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTel-DG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~e  839 (952)
T KOG0735|consen  761 PCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTEL-DGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPE  839 (952)
T ss_pred             CeEEEeccccccCcccCCCCCCchHHHHHHHHHhh-ccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHH
Confidence            9999999997641             112222222 22   34555554 55543221111111   2233334445667


Q ss_pred             HHHHHHHhhCCCC--CCCchHHHHHHHHHHcCCchHH
Q 047930          315 AWSLFKKMAGDYI--EGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       315 ~~~lf~~~~~~~~--~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      -.++|........  ...+    .+.++.+.+|.--|
T Consensus       840 Rl~il~~ls~s~~~~~~vd----l~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  840 RLEILQVLSNSLLKDTDVD----LECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHHhhccCCccccc----hHHHhhhcCCCchh
Confidence            7788877664222  2233    45678888887654

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=0.013  Score=51.25  Aligned_cols=179  Identities=18%  Similarity=0.267  Sum_probs=96.4

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      .+++-+.++|++|.|||-||+.++++.       ++.|+.+|..    ++.+..+-.         .......+.--...
T Consensus       179 aQPKGvlLygppgtGktLlaraVahht-------~c~firvsgs----elvqk~ige---------gsrmvrelfvmare  238 (404)
T KOG0728|consen  179 AQPKGVLLYGPPGTGKTLLARAVAHHT-------DCTFIRVSGS----ELVQKYIGE---------GSRMVRELFVMARE  238 (404)
T ss_pred             CCCcceEEecCCCCchhHHHHHHHhhc-------ceEEEEechH----HHHHHHhhh---------hHHHHHHHHHHHHh
Confidence            467778899999999999999999753       3456777654    222222210         11122333333334


Q ss_pred             CCeEEEEEeCCCCccc----------------cchhccccC--CCCCCcEEEEeecchhhh-hhcC---CCcceeecCCC
Q 047930          253 EKRILVILDNIWENLD----------------FQAVGIPHG--DGHKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVL  310 (395)
Q Consensus       253 ~kr~LlVlDdv~~~~~----------------~~~l~~~l~--~~~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L  310 (395)
                      +-+-+|+.|++++.-.                .-++...+.  ...+.-+||+.|..-++. +...   .....|+.++-
T Consensus       239 hapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~p  318 (404)
T KOG0728|consen  239 HAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPP  318 (404)
T ss_pred             cCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCCCC
Confidence            6688999998875410                011222221  123456788877654443 1112   23457888888


Q ss_pred             ChHHHHHHHHHhhCC--CCCCCchHHHHHHHHHHcCCchHHHHHHHHHh--hCC----CHHHHHHHHHH
Q 047930          311 KEDEAWSLFKKMAGD--YIEGSEFKWVAREVAKECAGLPVSIVTVARAL--RNK----RLFEWKDALEQ  371 (395)
Q Consensus       311 ~~~e~~~lf~~~~~~--~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l--~~~----~~~~w~~~l~~  371 (395)
                      +++.-.++++-+...  ...--++..+++++.-..|.--.++-+=|+..  +++    +.++++-+...
T Consensus       319 ~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcteagm~alrerrvhvtqedfemav~k  387 (404)
T KOG0728|consen  319 NEEARLDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAK  387 (404)
T ss_pred             CHHHHHHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhhhhHHHHHHhhccccHHHHHHHHHH
Confidence            887778888755532  12223444444444332222223333334443  332    66777766554

>TIGR02012 tigrfam_recA protein RecA

Probab=97.09  E-value=0.0022  Score=59.26  Aligned_cols=85  Identities=21%  Similarity=0.317  Sum_probs=53.0

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLC  247 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~  247 (395)
                      .-+++-|+|++|+|||||+.++.......  -..++|+...+.++..     .+++++...+.      ....+.+..+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34688899999999999999987765432  3457788776655542     35555543221      11222233333


Q ss_pred             HHHhcCCeEEEEEeCCCC
Q 047930          248 NRLKKEKRILVILDNIWE  265 (395)
Q Consensus       248 ~~l~~~kr~LlVlDdv~~  265 (395)
                      ..+..+..-++|+|.+..
T Consensus       127 ~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       127 TLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HHhhccCCcEEEEcchhh
Confidence            333445667999999853

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.06  E-value=0.0041  Score=51.99  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++.|.|++|+|||||++.++.+.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            578899999999999999999876

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.06  E-value=0.0046  Score=51.14  Aligned_cols=39  Identities=28%  Similarity=0.454  Sum_probs=30.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      ++.|+|++|+||||++..+......  .-..++|++.....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcch
Confidence            3679999999999999999887653  23557788776554

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

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.05  E-value=0.0039  Score=57.77  Aligned_cols=89  Identities=19%  Similarity=0.280  Sum_probs=56.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcccc----------c--
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEE----------T--  238 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~----------~--  238 (395)
                      -.++-|+|++|+|||+|+.+++-.....    ..-..++|++....++++.+. ++++.++......          +  
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~~e  174 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYTSE  174 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCCHH
Confidence            4678899999999999999877543211    112358999999988888765 4566665432210          0  


Q ss_pred             -hhhhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          239 -ESGRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       239 -~~~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                       ....+..+...+..++--|||+|.+.
T Consensus       175 ~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       175 HQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEEcch
Confidence             11123334444444455689999985

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

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.04  E-value=0.049  Score=54.46  Aligned_cols=198  Identities=19%  Similarity=0.206  Sum_probs=117.7

Q ss_pred             hhchHHHHHHHHHHhc----C-CCceEEEEEecCCCcHHHHHHHHHHHhc---cc---CCCCEEEEEEeCCcCCHHHHHH
Q 047930          156 FESRMSTLNDILDALK----N-PDVNMLGIYGMGGIGKTTLAKEVARKAE---NE---KLFDQVIFVEVSQIQDIRKIQG  224 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~----~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~---~~---~~f~~~~wv~~s~~~~~~~~~~  224 (395)
                      +.+|+.+..+|-..+.    + ..-..+-|.|-+|+|||..+..|.+...   .+   ..|+ .+.++.-.-..+.+++.
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~~Y~  476 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPREIYE  476 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHHHHH
Confidence            4567777777766654    3 3345899999999999999999998543   11   1243 45666666667999999


Q ss_pred             HHHHHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCccc-cch-hccccC-CCCCCcEEEEeec--chhhh
Q 047930          225 EFADKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWENLD-FQA-VGIPHG-DGHKGSKVLLTAR--SLDVL  295 (395)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~~-~~~-l~~~l~-~~~~gs~iivTtR--~~~va  295 (395)
                      .|..++.......  ...+..+..+..    ..+.+++++|+++..-. -++ +...|. ...++|+++|.+=  ..+.+
T Consensus       477 ~I~~~lsg~~~~~--~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTmdlP  554 (767)
T KOG1514|consen  477 KIWEALSGERVTW--DAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTMDLP  554 (767)
T ss_pred             HHHHhcccCcccH--HHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccccCH
Confidence            9999987543321  222334444443    25678999999865422 111 222332 2456777665442  22222


Q ss_pred             hhcC-------CCcceeecCCCChHHHHHHHHHhhCCC--CCCCchHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          296 SRKM-------DSQQNFSFDVLKEDEAWSLFKKMAGDY--IEGSEFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       296 ~~~~-------~~~~~~~l~~L~~~e~~~lf~~~~~~~--~~~~~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      ...+       -....+.+.|.+.++..++...++.+.  ..+...+-++++++...|-.-.|+...-+.
T Consensus       555 Er~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA  624 (767)
T KOG1514|consen  555 ERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRA  624 (767)
T ss_pred             HHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            1111       123467888888888888888777432  223333445566666565555555554443

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

Probab=97.01  E-value=0.0052  Score=57.56  Aligned_cols=85  Identities=28%  Similarity=0.371  Sum_probs=58.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc--cchhhhHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE--ETESGRARSLCNRLKK  252 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~l~~~l~~  252 (395)
                      -.+|.|-|.+|+|||||.-++..+...+.   .++||+-..+  ..+ .+--++.++.+.+.  .-....++.+.+.+.+
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEES--~~Q-iklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~  166 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEES--LQQ-IKLRADRLGLPTNNLYLLAETNLEDIIAELEQ  166 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCcC--HHH-HHHHHHHhCCCccceEEehhcCHHHHHHHHHh
Confidence            35788999999999999999999887553   5777765443  322 22334556543322  1123346677788877


Q ss_pred             CCeEEEEEeCCCC
Q 047930          253 EKRILVILDNIWE  265 (395)
Q Consensus       253 ~kr~LlVlDdv~~  265 (395)
                      .++-|+|+|-+..
T Consensus       167 ~~p~lvVIDSIQT  179 (456)
T COG1066         167 EKPDLVVIDSIQT  179 (456)
T ss_pred             cCCCEEEEeccce
Confidence            8899999999854

>PRK09354 recA recombinase A; Provisional

Probab=97.01  E-value=0.0029  Score=58.99  Aligned_cols=85  Identities=22%  Similarity=0.320  Sum_probs=54.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLC  247 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~  247 (395)
                      .-+++-|+|++|+|||||+.+++......  -..++|+.....++.     ..++.++.+.+.      ......+..+.
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~-----~~a~~lGvdld~lli~qp~~~Eq~l~i~~  131 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDP-----VYAKKLGVDIDNLLVSQPDTGEQALEIAD  131 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHH-----HHHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34688899999999999999988765432  355789988777665     245555543211      11222233333


Q ss_pred             HHHhcCCeEEEEEeCCCC
Q 047930          248 NRLKKEKRILVILDNIWE  265 (395)
Q Consensus       248 ~~l~~~kr~LlVlDdv~~  265 (395)
                      ..+..+..-+||+|.+-.
T Consensus       132 ~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        132 TLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HHhhcCCCCEEEEeChhh
Confidence            333445667999999853

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

Probab=97.01  E-value=0.007  Score=54.49  Aligned_cols=90  Identities=24%  Similarity=0.335  Sum_probs=56.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-------------c
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-------------E  237 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------------~  237 (395)
                      -.+.=|+|.+|+|||.|+.+++-.....    ..-..++|++....++...+. +|++..+.....             .
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~  116 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLE  116 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHH
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHH
Confidence            4578899999999999999887654321    112459999999999887764 566665433211             0


Q ss_pred             chhhhHHHHHHHHhcCCeEEEEEeCCCC
Q 047930          238 TESGRARSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       238 ~~~~~~~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                      .....+..+...+.+++=-|||+|.+-.
T Consensus       117 ~l~~~L~~l~~~l~~~~ikLIVIDSIaa  144 (256)
T PF08423_consen  117 ELLELLEQLPKLLSESKIKLIVIDSIAA  144 (256)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSH
T ss_pred             HHHHHHHHHHhhccccceEEEEecchHH
Confidence            0111233344444445666999999843

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

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.00  E-value=0.0039  Score=55.08  Aligned_cols=45  Identities=24%  Similarity=0.379  Sum_probs=34.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKI  222 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~  222 (395)
                      -.++.|+|.+|+|||+++.+++......  -..++|++.. .++...+
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC-CCCHHHH
Confidence            4689999999999999999998776432  3568899887 5554443

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

Probab=97.00  E-value=0.0027  Score=58.70  Aligned_cols=84  Identities=25%  Similarity=0.339  Sum_probs=52.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLC  247 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~  247 (395)
                      .-+++-|+|++|+|||||+.+++-.....  -..++|++....+++.     .++.++.+.+.      .+..+.+..+.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~  126 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIAD  126 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHH
Confidence            34688899999999999999988665432  3457899887766542     34445433211      11222233333


Q ss_pred             HHHhcCCeEEEEEeCCC
Q 047930          248 NRLKKEKRILVILDNIW  264 (395)
Q Consensus       248 ~~l~~~kr~LlVlDdv~  264 (395)
                      ..+..+.--++|+|.+-
T Consensus       127 ~li~s~~~~lIVIDSva  143 (325)
T cd00983         127 SLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHhccCCCEEEEcchH
Confidence            33344566799999975

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.00  E-value=0.0025  Score=59.42  Aligned_cols=100  Identities=17%  Similarity=0.223  Sum_probs=55.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.++|..|+|||.||..+++....+.  ..++|+++      .+++..+...-. .  ..  . ......+.+.  .-
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~------~~l~~~l~~~~~-~--~~--~-~~~~~~~~l~--~~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTA------DELIEILREIRF-N--ND--K-ELEEVYDLLI--NC  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEH------HHHHHHHHHHHh-c--cc--h-hHHHHHHHhc--cC
Confidence            6789999999999999999999876432  34666654      334444433211 0  00  0 1111134443  23


Q ss_pred             EEEEEeCCCCc--cccc--hhccccCC-CCCCcEEEEeecc
Q 047930          256 ILVILDNIWEN--LDFQ--AVGIPHGD-GHKGSKVLLTARS  291 (395)
Q Consensus       256 ~LlVlDdv~~~--~~~~--~l~~~l~~-~~~gs~iivTtR~  291 (395)
                      =||||||+...  ..|.  .+...+.. -..+..+||||..
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            58999999543  2332  22222211 1124458888874

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.99  E-value=0.0027  Score=53.73  Aligned_cols=36  Identities=31%  Similarity=0.551  Sum_probs=28.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFV  211 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv  211 (395)
                      +..+|.+.|+.|+||||+++.++......  +...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~--~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLK--YSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEE
Confidence            45689999999999999999999887533  4455554

>PHA02244 ATPase-like protein

Probab=96.97  E-value=0.012  Score=55.13  Aligned_cols=35  Identities=23%  Similarity=0.315  Sum_probs=25.8

Q ss_pred             HHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          164 NDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       164 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+..++..+.  -|.|+|+.|+|||+||+.++....
T Consensus       110 ~ri~r~l~~~~--PVLL~GppGtGKTtLA~aLA~~lg  144 (383)
T PHA02244        110 ADIAKIVNANI--PVFLKGGAGSGKNHIAEQIAEALD  144 (383)
T ss_pred             HHHHHHHhcCC--CEEEECCCCCCHHHHHHHHHHHhC
Confidence            34445554433  367899999999999999998754

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.97  E-value=0.0066  Score=53.76  Aligned_cols=52  Identities=19%  Similarity=0.212  Sum_probs=34.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLG  231 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~  231 (395)
                      -.++.|.|..|+||||++.++......+.  ..++|++..  .+..++++.+ .+++
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~~e--~~~~~~~~~~-~~~g   75 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQNG--YSVSYVSTQ--LTTTEFIKQM-MSLG   75 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEeCC--CCHHHHHHHH-HHhC
Confidence            34899999999999999877665543222  335666643  3456666666 3344

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

Probab=96.95  E-value=0.007  Score=54.50  Aligned_cols=89  Identities=19%  Similarity=0.364  Sum_probs=55.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccchh-----h
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEETES-----G  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~~~-----~  241 (395)
                      .-++|.|.+|+|||||+..+++....+ +-+.++++.+.+.. ...++.+++...-...        .++....     .
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~i~~~-~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~  148 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINNIAKA-HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVAL  148 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            348899999999999999999987653 12456677776654 3456666665432111        1111111     1


Q ss_pred             hHHHHHHHHh-c-CCeEEEEEeCCCC
Q 047930          242 RARSLCNRLK-K-EKRILVILDNIWE  265 (395)
Q Consensus       242 ~~~~l~~~l~-~-~kr~LlVlDdv~~  265 (395)
                      ..-.+.+++. + ++.+||++||+-.
T Consensus       149 ~a~~~AEyfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         149 TGLTMAEYFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHHHHHHHHhcCCeEEEEEeChhH
Confidence            1224455553 3 8999999999943

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

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

Probab=96.92  E-value=0.0052  Score=51.52  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=22.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ..+.++|++|.||||+.+.+|...+.
T Consensus        29 ef~fl~GpSGAGKSTllkLi~~~e~p   54 (223)
T COG2884          29 EFVFLTGPSGAGKSTLLKLIYGEERP   54 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhhcC
Confidence            46889999999999999999987653

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.92  E-value=0.0064  Score=56.90  Aligned_cols=89  Identities=17%  Similarity=0.212  Sum_probs=56.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcccc---------ch-h
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEE---------TE-S  240 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---------~~-~  240 (395)
                      -.+.-|+|.+|+|||+|+.+++-.....    ..-..++|++....|+++.+.+ +++.++......         .+ .
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~e  204 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTYE  204 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCHH
Confidence            4677799999999999999986443211    1124589999999998887654 566665542210         01 1


Q ss_pred             ---hhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          241 ---GRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       241 ---~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                         ..+..+...+...+--|||+|.+-
T Consensus       205 ~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        205 HQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence               122333333433445689999985

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.90  E-value=0.0082  Score=55.85  Aligned_cols=91  Identities=18%  Similarity=0.271  Sum_probs=55.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-------------
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-------------  236 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------------  236 (395)
                      .-.++-|+|++|+|||+++.+++-......    .-..++|++....++...+. ++++.++.....             
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~~  172 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYNS  172 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCCH
Confidence            357888999999999999999987643211    11268999998888877654 445555433211             


Q ss_pred             cchhhhHHHHHHHHhcCC--eEEEEEeCCCC
Q 047930          237 ETESGRARSLCNRLKKEK--RILVILDNIWE  265 (395)
Q Consensus       237 ~~~~~~~~~l~~~l~~~k--r~LlVlDdv~~  265 (395)
                      ......++.+.+.+...+  .-+||+|.+-.
T Consensus       173 ~~~~~lld~l~~~i~~~~~~~~lVVIDSisa  203 (310)
T TIGR02236       173 NHQMLLVEKAEDLIKELNNPVKLLIVDSLTS  203 (310)
T ss_pred             HHHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence            001112334444554322  44888988743

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

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.90  E-value=0.0068  Score=55.91  Aligned_cols=29  Identities=38%  Similarity=0.521  Sum_probs=24.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ..+-|.++|++|+|||-||+.+..+....
T Consensus       126 p~kGiLL~GPpG~GKTmlAKA~Akeaga~  154 (386)
T KOG0737|consen  126 PPKGILLYGPPGTGKTMLAKAIAKEAGAN  154 (386)
T ss_pred             CCccceecCCCCchHHHHHHHHHHHcCCC
Confidence            35668899999999999999999987643

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.88  E-value=0.0084  Score=53.13  Aligned_cols=29  Identities=31%  Similarity=0.425  Sum_probs=25.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++..+++|.|+.|+|||||++.+......
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            56789999999999999999999987654

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.88  E-value=0.0088  Score=53.29  Aligned_cols=49  Identities=14%  Similarity=0.253  Sum_probs=35.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      .-.++.|.|.+|+|||+++.++......+  -..++|++...  ++.++.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEeeC--CHHHHHHHH
Confidence            34688999999999999999987654322  34578888755  455655553

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.

>PRK04296 thymidine kinase; Provisional

Probab=96.88  E-value=0.0016  Score=55.88  Aligned_cols=110  Identities=19%  Similarity=0.143  Sum_probs=59.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc---cchhhhHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE---ETESGRARSLCNRLKK  252 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~l~~~l~~  252 (395)
                      .++.|+|+.|.||||++..+.......  -..++.+.  ..++.......+++.++.....   ....+....+.+  ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~--g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER--GMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc--CCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--hC
Confidence            467899999999999999998876533  22233332  1112222233455555543222   111122222222  22


Q ss_pred             CCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecchh
Q 047930          253 EKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSLD  293 (395)
Q Consensus       253 ~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~~  293 (395)
                      ++.-+||+|.+.-.  ++...+...+  ...|..||+|.++.+
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            34458999999543  2222222221  235778999999743

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.88  E-value=0.0055  Score=59.99  Aligned_cols=88  Identities=23%  Similarity=0.327  Sum_probs=47.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ..+|+|+|++|+||||++..+......+.....+..++.... ....+.+......++...........+..+.+.+.  
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~--  427 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR--  427 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc--
Confidence            478999999999999999998876443221233555554221 11223333334444433322222223334444443  


Q ss_pred             CeEEEEEeCCC
Q 047930          254 KRILVILDNIW  264 (395)
Q Consensus       254 kr~LlVlDdv~  264 (395)
                      ..=+|++|..-
T Consensus       428 ~~DLVLIDTaG  438 (559)
T PRK12727        428 DYKLVLIDTAG  438 (559)
T ss_pred             cCCEEEecCCC
Confidence            24577888773

>TIGR01069 mutS2 MutS2 family protein

Probab=96.87  E-value=0.0012  Score=68.48  Aligned_cols=184  Identities=18%  Similarity=0.141  Sum_probs=88.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh-cccCCCCEEEEEEeCCc--CC-HHHHH------HHHHHHhCCCccccchhhhH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA-ENEKLFDQVIFVEVSQI--QD-IRKIQ------GEFADKLGLTLHEETESGRA  243 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~-~~~~~f~~~~wv~~s~~--~~-~~~~~------~~i~~~l~~~~~~~~~~~~~  243 (395)
                      +..++.|+|+.|.||||+.+.+.... ..+..    ++|.+...  .. ...++      ..+...+..-   .......
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~~l~aq~G----~~Vpa~~~~~~~~~d~i~~~i~~~~si~~~LStf---S~~m~~~  393 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLLALMFQSG----IPIPANEHSEIPYFEEIFADIGDEQSIEQNLSTF---SGHMKNI  393 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHHHHHHHhC----CCccCCccccccchhheeeecChHhHHhhhhhHH---HHHHHHH
Confidence            44689999999999999999987651 11110    01111110  00 00000      1111111000   0011112


Q ss_pred             HHHHHHHhcCCeEEEEEeCCCCcccc---chh----ccccCCCCCCcEEEEeecchhhhhhcCCCcceeecC-CCChHHH
Q 047930          244 RSLCNRLKKEKRILVILDNIWENLDF---QAV----GIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFD-VLKEDEA  315 (395)
Q Consensus       244 ~~l~~~l~~~kr~LlVlDdv~~~~~~---~~l----~~~l~~~~~gs~iivTtR~~~va~~~~~~~~~~~l~-~L~~~e~  315 (395)
                      ..+...+  ..+-|++||+.-...+.   ..+    ...+  ...|+.+|+||....+.........+.... .++ ++.
T Consensus       394 ~~il~~~--~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l--~~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d-~~~  468 (771)
T TIGR01069       394 SAILSKT--TENSLVLFDELGAGTDPDEGSALAISILEYL--LKQNAQVLITTHYKELKALMYNNEGVENASVLFD-EET  468 (771)
T ss_pred             HHHHHhc--CCCcEEEecCCCCCCCHHHHHHHHHHHHHHH--HhcCCEEEEECChHHHHHHhcCCCCeEEeEEEEc-CCC
Confidence            2222222  46899999998654221   112    2222  135788999999876642211111111110 011 111


Q ss_pred             HHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHHhcC
Q 047930          316 WSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRR  374 (395)
Q Consensus       316 ~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~l~~  374 (395)
                      .. |..++-...+.   ...+-+|++++ |+|-.+..-|..+......+++.++..|..
T Consensus       469 l~-p~Ykl~~G~~g---~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L~~  522 (771)
T TIGR01069       469 LS-PTYKLLKGIPG---ESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKLSA  522 (771)
T ss_pred             Cc-eEEEECCCCCC---CcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            11 11111111111   12477788877 899999888888875555567777766543

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.86  E-value=0.0075  Score=55.07  Aligned_cols=28  Identities=21%  Similarity=0.213  Sum_probs=23.5

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+.+|+|.|..|+||||+|+.+..-.
T Consensus        59 ~~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        59 AKIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3567899999999999999998876544

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.

>PRK06547 hypothetical protein; Provisional

Probab=96.85  E-value=0.0019  Score=54.39  Aligned_cols=35  Identities=34%  Similarity=0.336  Sum_probs=28.4

Q ss_pred             HHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          166 ILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       166 l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +...+......+|.|.|++|+||||+|+.+.+...
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            33445567788999999999999999999988643

>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=96.85  E-value=0.0066  Score=53.34  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+|.|.+|+||||+|+.+.....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999998764

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

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.84  E-value=0.0018  Score=52.68  Aligned_cols=46  Identities=33%  Similarity=0.453  Sum_probs=36.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH  235 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  235 (395)
                      +|.|.|++|+||||+|+.+.++..-.    +         .+...++++|++..+.+..
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~----~---------vsaG~iFR~~A~e~gmsl~   47 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK----L---------VSAGTIFREMARERGMSLE   47 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc----e---------eeccHHHHHHHHHcCCCHH
Confidence            68999999999999999999886532    1         1345788999998887543

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.84  E-value=0.0085  Score=54.22  Aligned_cols=123  Identities=22%  Similarity=0.184  Sum_probs=66.7

Q ss_pred             HHHHHhc-CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCC-Ccc-------
Q 047930          165 DILDALK-NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGL-TLH-------  235 (395)
Q Consensus       165 ~l~~~l~-~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~-~~~-------  235 (395)
                      .++..+. ..+...++|.|+.|+|||||.+.+......   ....+++.-..- ...+-..++...... +..       
T Consensus       100 ~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~---~~G~i~~~g~~v-~~~d~~~ei~~~~~~~~q~~~~~r~~  175 (270)
T TIGR02858       100 KLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILST---GISQLGLRGKKV-GIVDERSEIAGCVNGVPQHDVGIRTD  175 (270)
T ss_pred             HHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCC---CCceEEECCEEe-ecchhHHHHHHHhccccccccccccc
Confidence            3333343 344578999999999999999999976542   223333321110 000111233322211 111       


Q ss_pred             ccchhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhh
Q 047930          236 EETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDV  294 (395)
Q Consensus       236 ~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~v  294 (395)
                      ..........+...+....+-++++|++...+.+..+...+   ..|..+|+||.+..+
T Consensus       176 v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~  231 (270)
T TIGR02858       176 VLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDV  231 (270)
T ss_pred             ccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHH
Confidence            01111112234444444568899999997666555554443   247789999997655

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.

>PRK07667 uridine kinase; Provisional

Probab=96.80  E-value=0.0019  Score=55.56  Aligned_cols=37  Identities=27%  Similarity=0.530  Sum_probs=28.8

Q ss_pred             HHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          164 NDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       164 ~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.+.+.+.  .++..+|+|.|.+|+||||+|+.+.....
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~   42 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMK   42 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34444444  34568999999999999999999998764

>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=96.79  E-value=0.0011  Score=60.07  Aligned_cols=87  Identities=18%  Similarity=0.270  Sum_probs=46.2

Q ss_pred             HHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH-hCCCccccchhhhH
Q 047930          165 DILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK-LGLTLHEETESGRA  243 (395)
Q Consensus       165 ~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~-l~~~~~~~~~~~~~  243 (395)
                      .+++.+...+. -+.++|+.|+|||++++......... .| ...-++.+...+...++ .+++. +...... .-..  
T Consensus        24 ~ll~~l~~~~~-pvLl~G~~GtGKT~li~~~l~~l~~~-~~-~~~~~~~s~~Tts~~~q-~~ie~~l~k~~~~-~~gP--   96 (272)
T PF12775_consen   24 YLLDLLLSNGR-PVLLVGPSGTGKTSLIQNFLSSLDSD-KY-LVITINFSAQTTSNQLQ-KIIESKLEKRRGR-VYGP--   96 (272)
T ss_dssp             HHHHHHHHCTE-EEEEESSTTSSHHHHHHHHHHCSTTC-CE-EEEEEES-TTHHHHHHH-HCCCTTECECTTE-EEEE--
T ss_pred             HHHHHHHHcCC-cEEEECCCCCchhHHHHhhhccCCcc-cc-ceeEeeccCCCCHHHHH-HHHhhcEEcCCCC-CCCC--
Confidence            34454444444 45799999999999999988754322 11 23345555544444332 22221 1100000 0000  


Q ss_pred             HHHHHHHhcCCeEEEEEeCCCC
Q 047930          244 RSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       244 ~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                             ..+|+.++++||+.-
T Consensus        97 -------~~~k~lv~fiDDlN~  111 (272)
T PF12775_consen   97 -------PGGKKLVLFIDDLNM  111 (272)
T ss_dssp             -------ESSSEEEEEEETTT-
T ss_pred             -------CCCcEEEEEecccCC
Confidence                   137899999999954

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.79  E-value=0.0077  Score=57.16  Aligned_cols=86  Identities=27%  Similarity=0.325  Sum_probs=54.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcccc--chhhhHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEE--TESGRARSLCNRLKK  252 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  252 (395)
                      -.++.|.|.+|+|||||+.+++......  -..++|++....  ..++. .-+..++...+..  .....+..+.+.+..
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~  156 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLAETNLEDILASIEE  156 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHHHh
Confidence            3588999999999999999998775532  245778776433  33332 2234555432221  111234566666655


Q ss_pred             CCeEEEEEeCCCC
Q 047930          253 EKRILVILDNIWE  265 (395)
Q Consensus       253 ~kr~LlVlDdv~~  265 (395)
                      .+.-+||+|.+..
T Consensus       157 ~~~~lVVIDSIq~  169 (372)
T cd01121         157 LKPDLVIIDSIQT  169 (372)
T ss_pred             cCCcEEEEcchHH
Confidence            5677999999843

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.

>cd01394 radB RadB

Probab=96.79  E-value=0.0075  Score=52.96  Aligned_cols=43  Identities=21%  Similarity=0.407  Sum_probs=32.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .-.++.|.|.+|+||||++.+++.....+  -..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCCH
Confidence            35688899999999999999998776432  33577887655443

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

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.78  E-value=0.019  Score=54.12  Aligned_cols=99  Identities=22%  Similarity=0.291  Sum_probs=56.1

Q ss_pred             HHHHHHHHhcCC----CceEEEEEecCCCcHHH-HHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCcc
Q 047930          162 TLNDILDALKNP----DVNMLGIYGMGGIGKTT-LAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTLH  235 (395)
Q Consensus       162 ~~~~l~~~l~~~----~~~vi~I~G~~GiGKTt-La~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~  235 (395)
                      .+..+..++.++    +.++|.++|+.|+|||| ||+..+.-....+ -..+..++.... ....+-++..++-++.+..
T Consensus       186 ~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~  264 (407)
T COG1419         186 KLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKK-KKKVAIITTDTYRIGAVEQLKTYADIMGVPLE  264 (407)
T ss_pred             HHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhcc-CcceEEEEeccchhhHHHHHHHHHHHhCCceE
Confidence            344455555544    47899999999999995 5554444331111 234666665432 2345566677777777655


Q ss_pred             ccchhhhHHHHHHHHhcCCeEEEEEeCC
Q 047930          236 EETESGRARSLCNRLKKEKRILVILDNI  263 (395)
Q Consensus       236 ~~~~~~~~~~l~~~l~~~kr~LlVlDdv  263 (395)
                      .......+......+. +. =++.+|=+
T Consensus       265 vv~~~~el~~ai~~l~-~~-d~ILVDTa  290 (407)
T COG1419         265 VVYSPKELAEAIEALR-DC-DVILVDTA  290 (407)
T ss_pred             EecCHHHHHHHHHHhh-cC-CEEEEeCC
Confidence            4434344444444444 22 45556655

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

Probab=96.77  E-value=0.0069  Score=51.61  Aligned_cols=44  Identities=18%  Similarity=0.194  Sum_probs=30.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      +.|.|++|+|||+|+.++.......  =..++|++...  +..++.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~--g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLAR--GEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHC--CCcEEEEECCC--CHHHHHHH
Confidence            6789999999999999987765422  23477887654  34555444

A related protein is found in archaea.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.76  E-value=0.0033  Score=54.32  Aligned_cols=108  Identities=10%  Similarity=0.117  Sum_probs=56.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHH---HHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQG---EFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~---~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      ++|.|+|+.|+||||++..+.......  ....++. +..+.  +....   .+..+-..   ..........+...+. 
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~--~~~~i~t-~e~~~--E~~~~~~~~~i~q~~v---g~~~~~~~~~i~~aLr-   72 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKN--KTHHILT-IEDPI--EFVHESKRSLINQREV---GLDTLSFENALKAALR-   72 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhc--CCcEEEE-EcCCc--cccccCccceeeeccc---CCCccCHHHHHHHHhc-
Confidence            478999999999999999887765422  2333332 21111  10000   01100000   0011122334455555 


Q ss_pred             CCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhh
Q 047930          253 EKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVL  295 (395)
Q Consensus       253 ~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va  295 (395)
                      ..+=++++|++.+.+.........   ..|..++.|+...++.
T Consensus        73 ~~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          73 QDPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSAA  112 (198)
T ss_pred             CCcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcHH
Confidence            346699999998766544432221   2355577777766543

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.

>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=96.75  E-value=0.0037  Score=50.55  Aligned_cols=75  Identities=27%  Similarity=0.321  Sum_probs=44.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEE
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRIL  257 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~L  257 (395)
                      |.++|++|+|||+||+.++.....     ...-+.++...+..+++...--.-  ........    .+.+.+  .+..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~-----~~~~i~~~~~~~~~dl~g~~~~~~--~~~~~~~~----~l~~a~--~~~~i   68 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGR-----PVIRINCSSDTTEEDLIGSYDPSN--GQFEFKDG----PLVRAM--RKGGI   68 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTC-----EEEEEE-TTTSTHHHHHCEEET-T--TTTCEEE-----CCCTTH--HEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhc-----ceEEEEeccccccccceeeeeecc--cccccccc----cccccc--cceeE
Confidence            579999999999999999987732     245567777777776554322110  00000011    111111  15899


Q ss_pred             EEEeCCCC
Q 047930          258 VILDNIWE  265 (395)
Q Consensus       258 lVlDdv~~  265 (395)
                      +|||++..
T Consensus        69 l~lDEin~   76 (139)
T PF07728_consen   69 LVLDEINR   76 (139)
T ss_dssp             EEESSCGG
T ss_pred             EEECCccc
Confidence            99999974

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.

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

Probab=96.74  E-value=0.019  Score=53.08  Aligned_cols=85  Identities=25%  Similarity=0.328  Sum_probs=51.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLCN  248 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  248 (395)
                      -+++-|+|+.|+||||||..+.......  -..++|+.....+++     ..++.++.+.+.      ....+.+..+.+
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~-----~~a~~lGvdl~rllv~~P~~~E~al~~~e~  125 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDP-----EYAESLGVDLDRLLVVQPDTGEQALWIAEQ  125 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---H-----HHHHHTT--GGGEEEEE-SSHHHHHHHHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhhhcc--cceeEEecCcccchh-----hHHHhcCccccceEEecCCcHHHHHHHHHH
Confidence            4689999999999999999998775433  455899998877665     345566654332      122223333333


Q ss_pred             HHhcCCeEEEEEeCCCCc
Q 047930          249 RLKKEKRILVILDNIWEN  266 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~~  266 (395)
                      .++.+.--++|+|.|-..
T Consensus       126 lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  126 LIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHTTSESEEEEE-CTT-
T ss_pred             HhhcccccEEEEecCccc
Confidence            345455569999998654

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

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.74  E-value=0.013  Score=54.68  Aligned_cols=91  Identities=22%  Similarity=0.314  Sum_probs=55.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc---------c-c-
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE---------E-T-  238 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---------~-~-  238 (395)
                      ...++-|+|++|+|||+++.+++-.......    =..++|++....+++..+. ++++.++.....         . + 
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~-~~~~~~g~~~~~~l~~i~~~~~~~~  179 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIE-QMAEALGLDPDEVLDNIHVARAYNS  179 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHH-HHHHHcCCChHhhhccEEEEeCCCH
Confidence            3567889999999999999999866432211    1368999998888877654 444555432211         0 0 


Q ss_pred             --hhhhHHHHHHHHhc-CCeEEEEEeCCCC
Q 047930          239 --ESGRARSLCNRLKK-EKRILVILDNIWE  265 (395)
Q Consensus       239 --~~~~~~~l~~~l~~-~kr~LlVlDdv~~  265 (395)
                        ....+..+...+.. .+--|||+|.+-.
T Consensus       180 ~~~~~~~~~l~~~i~~~~~~~lvVIDSisa  209 (317)
T PRK04301        180 DHQMLLAEKAEELIKEGENIKLVIVDSLTA  209 (317)
T ss_pred             HHHHHHHHHHHHHHhccCceeEEEEECchH
Confidence              01123334444433 3445899998743

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.73  E-value=0.047  Score=49.73  Aligned_cols=128  Identities=11%  Similarity=0.040  Sum_probs=71.9

Q ss_pred             HHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhccc------------CCCCEEEEEEeCCc--CCHHHHHHHHH
Q 047930          163 LNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENE------------KLFDQVIFVEVSQI--QDIRKIQGEFA  227 (395)
Q Consensus       163 ~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~------------~~f~~~~wv~~s~~--~~~~~~~~~i~  227 (395)
                      -++|...+..++ .....++|+.|+||+++|..+....-..            .|.|..........  ..+        
T Consensus         6 ~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~i--------   77 (290)
T PRK05917          6 WEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSI--------   77 (290)
T ss_pred             HHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcH--------
Confidence            345666666555 4556699999999999999988765331            13332211111100  111        


Q ss_pred             HHhCCCccccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCC
Q 047930          228 DKLGLTLHEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMD  300 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~  300 (395)
                                   +.+..+.+.+.    .++.-++|+|+++..  ..+..+...+-...+++.+|++|.+ ..+.....+
T Consensus        78 -------------dqiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~S  144 (290)
T PRK05917         78 -------------ETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRS  144 (290)
T ss_pred             -------------HHHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHh
Confidence                         12223333332    255568899999754  4566666555444456666666665 445444445


Q ss_pred             CcceeecCCCC
Q 047930          301 SQQNFSFDVLK  311 (395)
Q Consensus       301 ~~~~~~l~~L~  311 (395)
                      .+..+.+.++.
T Consensus       145 Rcq~~~~~~~~  155 (290)
T PRK05917        145 RSLSIHIPMEE  155 (290)
T ss_pred             cceEEEccchh
Confidence            56677777653

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.73  E-value=0.022  Score=53.01  Aligned_cols=26  Identities=38%  Similarity=0.415  Sum_probs=23.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +-+..+|++|+|||-||+.|+.....
T Consensus       246 kgvLm~GPPGTGKTlLAKAvATEc~t  271 (491)
T KOG0738|consen  246 KGVLMVGPPGTGKTLLAKAVATECGT  271 (491)
T ss_pred             ceeeeeCCCCCcHHHHHHHHHHhhcC
Confidence            56789999999999999999998764

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.72  E-value=0.0093  Score=54.99  Aligned_cols=41  Identities=29%  Similarity=0.403  Sum_probs=33.1

Q ss_pred             hchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHH
Q 047930          157 ESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       157 ~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      -+|..+-.--++.|.++....+.+.|.+|+|||-||-...-
T Consensus       227 ~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgl  267 (436)
T COG1875         227 RPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGL  267 (436)
T ss_pred             CcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHH
Confidence            34555556667888899999999999999999998877653

>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=96.71  E-value=0.0015  Score=51.79  Aligned_cols=22  Identities=55%  Similarity=0.859  Sum_probs=20.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|.|..|+||||+|+.+.+..
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999874

...

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.70  E-value=0.0075  Score=57.53  Aligned_cols=85  Identities=18%  Similarity=0.181  Sum_probs=44.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      ...++.++|++|+||||++.+++........+ .+..++... .......+...++.++.+....   .....+.+.+..
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~-~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~---~~~~~l~~~l~~  297 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGK-SVSLYTTDNYRIAAIEQLKRYADTMGMPFYPV---KDIKKFKETLAR  297 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCC-eEEEecccchhhhHHHHHHHHHHhcCCCeeeh---HHHHHHHHHHHh
Confidence            35689999999999999999998754221112 233333321 1122334444455555433211   112344444432


Q ss_pred             CCeEEEEEeC
Q 047930          253 EKRILVILDN  262 (395)
Q Consensus       253 ~kr~LlVlDd  262 (395)
                      ...=++++|-
T Consensus       298 ~~~D~VLIDT  307 (432)
T PRK12724        298 DGSELILIDT  307 (432)
T ss_pred             CCCCEEEEeC
Confidence            2334577883

>PTZ00301 uridine kinase; Provisional

Probab=96.70  E-value=0.0044  Score=53.95  Aligned_cols=25  Identities=28%  Similarity=0.622  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999988765

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.69  E-value=0.012  Score=55.64  Aligned_cols=88  Identities=17%  Similarity=0.295  Sum_probs=46.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      +.++|+++|++|+||||++..++.....+. + .+..++.... ....+-+...++.++.+.....+...+....+.+..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~G-k-kVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~  317 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK-K-TVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  317 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcC-C-cEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHh
Confidence            457999999999999999999987654321 2 2444544321 122333444444555443222222222333333332


Q ss_pred             C-CeEEEEEeCC
Q 047930          253 E-KRILVILDNI  263 (395)
Q Consensus       253 ~-kr~LlVlDdv  263 (395)
                      . +.=++++|-.
T Consensus       318 ~~~~DvVLIDTa  329 (436)
T PRK11889        318 EARVDYILIDTA  329 (436)
T ss_pred             ccCCCEEEEeCc
Confidence            1 2236677766

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.68  E-value=0.0023  Score=63.02  Aligned_cols=47  Identities=23%  Similarity=0.355  Sum_probs=40.1

Q ss_pred             cchhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          154 EAFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++|.++.++++++.|.      +...+++.++|+.|+||||||+.+.+-..
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            357899999999998882      55678999999999999999999998654

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.68  E-value=0.016  Score=54.55  Aligned_cols=89  Identities=17%  Similarity=0.249  Sum_probs=53.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      +.+++.++|+.|+||||++..++.....+.  ..+.+++..... ...+-++...+.++.+.....+...+....+.+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~  282 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTY  282 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHh
Confidence            467899999999999999999987654332  346666664322 23555666677666543322222233333344431


Q ss_pred             -CCeEEEEEeCCC
Q 047930          253 -EKRILVILDNIW  264 (395)
Q Consensus       253 -~kr~LlVlDdv~  264 (395)
                       +..=++++|-.-
T Consensus       283 ~~~~D~VLIDTAG  295 (407)
T PRK12726        283 VNCVDHILIDTVG  295 (407)
T ss_pred             cCCCCEEEEECCC
Confidence             234577888774

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.67  E-value=0.036  Score=57.45  Aligned_cols=60  Identities=13%  Similarity=0.245  Sum_probs=39.6

Q ss_pred             cchhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          154 EAFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      ..++|+...+..+.+.+.  ......|.|+|..|+|||++|+.+++.....  -...+.+++..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~  437 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAA  437 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEeccc
Confidence            357787777776655443  2233457799999999999999999865322  12345555544

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.66  E-value=0.01  Score=55.12  Aligned_cols=91  Identities=14%  Similarity=0.181  Sum_probs=54.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc---C-CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc----------cch
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE---K-LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE----------ETE  239 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~-~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~----------~~~  239 (395)
                      .-.++.|+|.+|+|||+|+.+++......   . .-..++|++....++... +.++++.++.....          .+.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R-l~~ia~~~~~~~~~~l~~i~~~~~~~~  173 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER-LLAIAERYGLNPEDVLDNVAYARAYNT  173 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH-HHHHHHHcCCChHHhhccEEEEecCCh
Confidence            35788899999999999999987643211   1 113579999888777776 44455555443211          000


Q ss_pred             h---hhHHHHHHHHhcCCeEEEEEeCCCC
Q 047930          240 S---GRARSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       240 ~---~~~~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                      .   ..+..+...+...+--|||+|.+-.
T Consensus       174 ~~~~~~l~~~~~~~~~~~~~LvVIDSI~a  202 (316)
T TIGR02239       174 DHQLQLLQQAAAMMSESRFALLIVDSATA  202 (316)
T ss_pred             HHHHHHHHHHHHhhccCCccEEEEECcHH
Confidence            1   1122233333334566899998843

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

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

Probab=96.66  E-value=0.002  Score=55.50  Aligned_cols=25  Identities=48%  Similarity=0.694  Sum_probs=22.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ||+|.|++|+||||+|+.+......
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            6999999999999999999988764

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 ....

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.66  E-value=0.0052  Score=52.28  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +|.|+|++|+||||+|+.+....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999998765

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.

>PRK05439 pantothenate kinase; Provisional

Probab=96.65  E-value=0.017  Score=53.19  Aligned_cols=28  Identities=25%  Similarity=0.281  Sum_probs=24.2

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.+-+|+|.|.+|+||||+|+.+.....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~  111 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLS  111 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4578999999999999999999887543

>PTZ00035 Rad51 protein; Provisional

Probab=96.65  E-value=0.017  Score=54.25  Aligned_cols=90  Identities=14%  Similarity=0.222  Sum_probs=54.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc---cC-CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc----------cch-
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN---EK-LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE----------ETE-  239 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~-~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~----------~~~-  239 (395)
                      -.++.|+|..|+|||||+.+++-....   .. .-..++|++....++++. +.++++.++.....          .+. 
T Consensus       118 G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~er-i~~ia~~~g~~~~~~l~nI~~~~~~~~e  196 (337)
T PTZ00035        118 GSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPER-IVQIAERFGLDPEDVLDNIAYARAYNHE  196 (337)
T ss_pred             CeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHH-HHHHHHHhCCChHhHhhceEEEccCCHH
Confidence            468889999999999999988755431   01 123477999888777766 44455555443210          000 


Q ss_pred             --hhhHHHHHHHHhcCCeEEEEEeCCCC
Q 047930          240 --SGRARSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       240 --~~~~~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                        ...+..+...+...+--|||+|.+..
T Consensus       197 ~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        197 HQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHhhccCccEEEEECcHH
Confidence              11222233333334556999999854

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.64  E-value=0.0028  Score=55.44  Aligned_cols=24  Identities=29%  Similarity=0.319  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++.|+|+.|.||||+.+.+...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~   52 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALI   52 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHH
Confidence            478899999999999999998743

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

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.64  E-value=0.0038  Score=52.79  Aligned_cols=24  Identities=46%  Similarity=0.581  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+|+.+.+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~   25 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999999854

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.022  Score=56.64  Aligned_cols=202  Identities=21%  Similarity=0.241  Sum_probs=101.6

Q ss_pred             cchhchH---HHHHHHHHHhcCCC---------ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHH
Q 047930          154 EAFESRM---STLNDILDALKNPD---------VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRK  221 (395)
Q Consensus       154 ~~~~gr~---~~~~~l~~~l~~~~---------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~  221 (395)
                      .+.-|.+   +++.++++.|.++.         ++-+.++|++|+|||.||+.+..+..+.  |     .+.|.+.-   
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS~F---  219 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGSDF---  219 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccchhh---
Confidence            3344554   45566777777543         5668899999999999999999988765  3     22222110   


Q ss_pred             HHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc------------cccchhcccc---CCCC---CCc
Q 047930          222 IQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN------------LDFQAVGIPH---GDGH---KGS  283 (395)
Q Consensus       222 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~------------~~~~~l~~~l---~~~~---~gs  283 (395)
                           ++.+-     .-.......+...-++.-++++++|.++..            +.++.....+   .++.   .|-
T Consensus       220 -----VemfV-----GvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gv  289 (596)
T COG0465         220 -----VEMFV-----GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGV  289 (596)
T ss_pred             -----hhhhc-----CCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCce
Confidence                 11000     001123444444444456899999988643            1122211111   1222   233


Q ss_pred             EEEEeecchhhh-h---hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHH--HHH--HH
Q 047930          284 KVLLTARSLDVL-S---RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI--VTV--AR  355 (395)
Q Consensus       284 ~iivTtR~~~va-~---~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai--~~i--~~  355 (395)
                      .||..|.-.+|. .   +.......+.++.-+-..-.++++-++......++..  ...|++.+-|.-.|-  +.+  |.
T Consensus       290 iviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vd--l~~iAr~tpGfsGAdL~nl~NEAa  367 (596)
T COG0465         290 IVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVD--LKKIARGTPGFSGADLANLLNEAA  367 (596)
T ss_pred             EEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCC--HHHHhhhCCCcccchHhhhHHHHH
Confidence            333333333343 1   1112234555555554566666665553322222211  223888888775442  222  44


Q ss_pred             Hhh---CC---CHHHHHHHHHHhcCCCC
Q 047930          356 ALR---NK---RLFEWKDALEQLRRPSS  377 (395)
Q Consensus       356 ~l~---~~---~~~~w~~~l~~l~~~~~  377 (395)
                      ++.   ++   +..+.....+++-....
T Consensus       368 l~aar~n~~~i~~~~i~ea~drv~~G~e  395 (596)
T COG0465         368 LLAARRNKKEITMRDIEEAIDRVIAGPE  395 (596)
T ss_pred             HHHHHhcCeeEeccchHHHHHHHhcCcC
Confidence            443   22   55667777777655443

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.62  E-value=0.0021  Score=52.19  Aligned_cols=24  Identities=38%  Similarity=0.587  Sum_probs=21.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|.++|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            578999999999999999986643

...

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=96.62  E-value=0.013  Score=61.24  Aligned_cols=181  Identities=22%  Similarity=0.238  Sum_probs=90.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc--ccC------------CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccch
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE--NEK------------LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETE  239 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~~------------~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~  239 (395)
                      +.+++.|.|+.+.||||+.+.+.-..-  ...            .|+ .++..++...++..-+..+..          .
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~-~i~~~ig~~~si~~~lStfS~----------~  394 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFK-EIFADIGDEQSIEQSLSTFSG----------H  394 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccc-eEEEecCCccchhhchhHHHH----------H
Confidence            456789999999999999998864411  001            112 223333332222211111111          0


Q ss_pred             hhhHHHHHHHHhcCCeEEEEEeCCCCcccc---chh----ccccCCCCCCcEEEEeecchhhhhhcCCCcceeecCCCCh
Q 047930          240 SGRARSLCNRLKKEKRILVILDNIWENLDF---QAV----GIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKE  312 (395)
Q Consensus       240 ~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~---~~l----~~~l~~~~~gs~iivTtR~~~va~~~~~~~~~~~l~~L~~  312 (395)
                      ......+...+  ..+-|++||+.-...+.   ..+    ...+  ...|+.+|+||....+.........+......-+
T Consensus       395 m~~~~~Il~~~--~~~sLvLlDE~~~GtDp~eg~ala~aile~l--~~~~~~vIitTH~~el~~~~~~~~~v~~~~~~~d  470 (782)
T PRK00409        395 MTNIVRILEKA--DKNSLVLFDELGAGTDPDEGAALAISILEYL--RKRGAKIIATTHYKELKALMYNREGVENASVEFD  470 (782)
T ss_pred             HHHHHHHHHhC--CcCcEEEecCCCCCCCHHHHHHHHHHHHHHH--HHCCCEEEEECChHHHHHHHhcCCCeEEEEEEEe
Confidence            01112222222  36789999998644221   122    2222  1247889999998766532222111111111111


Q ss_pred             HHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHHhcC
Q 047930          313 DEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRR  374 (395)
Q Consensus       313 ~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~l~~  374 (395)
                      .+......+...+. +.   ...|-+|++++ |+|-.+..-|.-+......+.+.++..|..
T Consensus       471 ~~~l~~~Ykl~~G~-~g---~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~l~~  527 (782)
T PRK00409        471 EETLRPTYRLLIGI-PG---KSNAFEIAKRL-GLPENIIEEAKKLIGEDKEKLNELIASLEE  527 (782)
T ss_pred             cCcCcEEEEEeeCC-CC---CcHHHHHHHHh-CcCHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            11111111111111 11   22467788877 899999988888876555677777776543

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.61  E-value=0.016  Score=51.54  Aligned_cols=86  Identities=13%  Similarity=0.217  Sum_probs=53.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-----------------
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-----------------  236 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-----------------  236 (395)
                      .-.++.|.|.+|+|||+++.++....-.+  =..++|++....  +.++.+.+ .+++....+                 
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~   98 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEGF   98 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEecccccc
Confidence            35688999999999999999996553222  345788888653  45555554 333322110                 


Q ss_pred             ----cchhhhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          237 ----ETESGRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       237 ----~~~~~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                          ......+..+.+.+.+.+.-++|+|.+.
T Consensus        99 ~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         99 EWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             ccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence                1112344555555554456689999975

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.61  E-value=0.0039  Score=60.45  Aligned_cols=50  Identities=20%  Similarity=0.258  Sum_probs=39.6

Q ss_pred             chhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCC
Q 047930          155 AFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFD  206 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~  206 (395)
                      .++||++.++.+...+..++  .+.|.|++|+|||+||+.+.........|.
T Consensus        21 ~i~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~~~~~~F~   70 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQNARAFE   70 (498)
T ss_pred             hccCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHhcccCcce
Confidence            47899999999888877554  378999999999999999998754333343

>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=96.60  E-value=0.011  Score=51.65  Aligned_cols=85  Identities=24%  Similarity=0.490  Sum_probs=52.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCC-------ccccchhh------
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLT-------LHEETESG------  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~-------~~~~~~~~------  241 (395)
                      .-+.|.|..|+|||+|+..+.+...    -+.++++.+.+. ....++.+++...-...       ....+...      
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~   91 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY   91 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence            3588999999999999999998874    345588888754 44566666664431111       00111000      


Q ss_pred             hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 ~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                      ..-.+.+++. ++++.|+++||+.
T Consensus        92 ~a~t~AEyfrd~G~dVlli~Dslt  115 (215)
T PF00006_consen   92 TALTIAEYFRDQGKDVLLIIDSLT  115 (215)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEETHH
T ss_pred             cchhhhHHHhhcCCceeehhhhhH
Confidence            1112333332 4899999999984

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 ....

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.59  E-value=0.012  Score=55.13  Aligned_cols=90  Identities=14%  Similarity=0.199  Sum_probs=55.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc---C-CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcccc---------chhh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE---K-LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEE---------TESG  241 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~-~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~---------~~~~  241 (395)
                      -.++-|+|.+|+|||+|+..++-.....   . .-..++|++....++++.+ .+|++.++......         .+.+
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~~e  201 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYNTD  201 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCCHH
Confidence            4678899999999999999887543211   1 1136899999999888775 45666665432110         0111


Q ss_pred             ----hHHHHHHHHhcCCeEEEEEeCCCC
Q 047930          242 ----RARSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       242 ----~~~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                          .+..+...+...+--|||+|.+-.
T Consensus       202 ~~~~ll~~~~~~~~~~~~~LIVIDSI~a  229 (342)
T PLN03186        202 HQSELLLEAASMMAETRFALMIVDSATA  229 (342)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEeCcHH
Confidence                122222223334566899999843

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.59  E-value=0.023  Score=57.09  Aligned_cols=49  Identities=14%  Similarity=0.270  Sum_probs=36.7

Q ss_pred             cccchhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          152 DYEAFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....++|....+.++.+.+.  ......|.|+|..|+|||++|+.+++...
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~  244 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSP  244 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCC
Confidence            34567888887777776654  22334567999999999999999998754

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.58  E-value=0.0024  Score=55.75  Aligned_cols=27  Identities=33%  Similarity=0.465  Sum_probs=24.2

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+..+|+|.|.+|+|||||++.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999875

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.58  E-value=0.0031  Score=51.27  Aligned_cols=29  Identities=34%  Similarity=0.421  Sum_probs=24.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK  203 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  203 (395)
                      ..-|.|.|++|+||||+++.+.+..+...
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g   33 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKG   33 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcC
Confidence            34688999999999999999998877643

>PRK08233 hypothetical protein; Provisional

Probab=96.57  E-value=0.0022  Score=54.46  Aligned_cols=26  Identities=31%  Similarity=0.496  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|+|.|.+|+||||||..+.....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999998754

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.56  E-value=0.014  Score=56.47  Aligned_cols=58  Identities=24%  Similarity=0.347  Sum_probs=38.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLT  233 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~  233 (395)
                      .+.+|.++|..|+||||++..++.....+. + .+..+++... +...+.+..++..++.+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g-~-kV~lV~~D~~R~aa~eQL~~la~~~gvp  152 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKG-L-KVGLVAADTYRPAAYDQLKQLAEKIGVP  152 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcC-C-eEEEecCCCCCHHHHHHHHHHHHHcCCc
Confidence            467999999999999999999988765432 2 3444444321 12345566666666544

>PRK04328 hypothetical protein; Provisional

Probab=96.56  E-value=0.014  Score=52.40  Aligned_cols=41  Identities=15%  Similarity=0.250  Sum_probs=30.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI  216 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~  216 (395)
                      .-.++.|.|.+|+|||+|+.++....-.+  -..++|++....
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEEeeCC
Confidence            35688899999999999999987664322  345788887653

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.56  E-value=0.028  Score=56.07  Aligned_cols=61  Identities=10%  Similarity=0.253  Sum_probs=41.5

Q ss_pred             cchhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc
Q 047930          154 EAFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI  216 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~  216 (395)
                      ..++|+...+.++.+.+.  ......|.|+|..|+|||++|+.++......  -...+.++++..
T Consensus       187 ~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~--~~p~v~v~c~~~  249 (509)
T PRK05022        187 GEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRA--DKPLVYLNCAAL  249 (509)
T ss_pred             CceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCcC--CCCeEEEEcccC
Confidence            457787777777666654  2333457799999999999999999875422  123455666543

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

Probab=96.55  E-value=0.014  Score=48.92  Aligned_cols=80  Identities=18%  Similarity=0.188  Sum_probs=46.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC-CeE
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE-KRI  256 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~-kr~  256 (395)
                      +.|.|..|+|||++|.++....     ...++|+.....++. ++.+.|...-..........+....+.+.+... +.-
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~-----~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~   75 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL-----GGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGD   75 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCC
Confidence            6789999999999999998652     234677766666654 344444332222222222223333455555321 233


Q ss_pred             EEEEeCC
Q 047930          257 LVILDNI  263 (395)
Q Consensus       257 LlVlDdv  263 (395)
                      .+++|.+
T Consensus        76 ~VLIDcl   82 (169)
T cd00544          76 VVLIDCL   82 (169)
T ss_pred             EEEEEcH
Confidence            7999987

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.55  E-value=0.0023  Score=44.88  Aligned_cols=23  Identities=39%  Similarity=0.631  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +|.|.|..|+||||+++.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999874

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.

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

Probab=96.52  E-value=0.014  Score=50.05  Aligned_cols=50  Identities=26%  Similarity=0.385  Sum_probs=32.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCC--------CEEEEEEeCCcCCHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLF--------DQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f--------~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .+..|.|++|+||||++.++.........|        ..++|++...+  ..++.+.+.
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~--~~~~~~rl~   90 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS--ESQIARRLR   90 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS---HHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC--HHHHHHHHH
Confidence            468899999999999999998775532222        25788877655  334444443

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.49  E-value=0.013  Score=56.81  Aligned_cols=87  Identities=14%  Similarity=0.212  Sum_probs=46.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      .+++.++|++|+||||++..++........-..+..++..... ...+-+....+.++.+.........+......+.  
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~--  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLR--  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhC--
Confidence            3589999999999999999887665411112346666653321 1223344444445544322222222222223332  


Q ss_pred             CeEEEEEeCC
Q 047930          254 KRILVILDNI  263 (395)
Q Consensus       254 kr~LlVlDdv  263 (395)
                      ..=++++|..
T Consensus       299 ~~DlVlIDt~  308 (424)
T PRK05703        299 DCDVILIDTA  308 (424)
T ss_pred             CCCEEEEeCC
Confidence            3457888866

>PRK06762 hypothetical protein; Provisional

Probab=96.48  E-value=0.0027  Score=53.12  Aligned_cols=25  Identities=36%  Similarity=0.558  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.+|.|+|+.|+||||+|+.+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999875

>PRK06217 hypothetical protein; Validated

Probab=96.48  E-value=0.016  Score=49.37  Aligned_cols=25  Identities=32%  Similarity=0.464  Sum_probs=22.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .|.|.|.+|+||||+++.+......
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~   27 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI   27 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            4889999999999999999987643

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.47  E-value=0.014  Score=48.18  Aligned_cols=115  Identities=23%  Similarity=0.183  Sum_probs=61.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE---eCCcCCHHHHHHHHHHHh-----CCC--cc-ccchh----
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE---VSQIQDIRKIQGEFADKL-----GLT--LH-EETES----  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~---~s~~~~~~~~~~~i~~~l-----~~~--~~-~~~~~----  240 (395)
                      ..|-|++..|.||||+|....-....+. + .+.++.   -........+++.+ ..+     +..  .. .....    
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g-~-~v~~vQFlKg~~~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHG-Y-RVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            4677888889999999998887755432 2 233332   22233444444443 011     100  00 00111    


Q ss_pred             --hhHHHHHHHHhcCCeEEEEEeCCCCc-----cccchhccccCCCCCCcEEEEeecchh
Q 047930          241 --GRARSLCNRLKKEKRILVILDNIWEN-----LDFQAVGIPHGDGHKGSKVLLTARSLD  293 (395)
Q Consensus       241 --~~~~~l~~~l~~~kr~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtR~~~  293 (395)
                        .......+.+..+.-=|||||++-..     ...+.+...+....++.-+|+|.|+..
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence              11223334444344459999998543     233344444444455678999999843

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.

>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=96.46  E-value=0.016  Score=48.86  Aligned_cols=25  Identities=32%  Similarity=0.497  Sum_probs=21.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++.++|++|+||||++..+......
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~   26 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKK   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6789999999999999999887653

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=96.46  E-value=0.041  Score=61.22  Aligned_cols=27  Identities=22%  Similarity=0.222  Sum_probs=23.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++-|.++|++|+|||.||+.++.+..+
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es~V 1656 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNSYV 1656 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhcCC
Confidence            556889999999999999999998764

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.46  E-value=0.025  Score=54.37  Aligned_cols=25  Identities=32%  Similarity=0.503  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+++++|+.|+||||++..+....
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999887653

>TIGR00235 udk uridine kinase

Probab=96.45  E-value=0.003  Score=55.06  Aligned_cols=28  Identities=36%  Similarity=0.547  Sum_probs=24.1

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +...+|+|+|++|+|||||++.+.....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457899999999999999999987654

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

>PRK14974 cell division protein FtsY; Provisional

Probab=96.45  E-value=0.021  Score=53.29  Aligned_cols=57  Identities=23%  Similarity=0.294  Sum_probs=37.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC--CHHHHHHHHHHHhCCC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ--DIRKIQGEFADKLGLT  233 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~--~~~~~~~~i~~~l~~~  233 (395)
                      ++.+|.++|+.|+||||++..++...... .+ .++.++. ..+  ...+.++..+..++.+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~-g~-~V~li~~-Dt~R~~a~eqL~~~a~~lgv~  197 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN-GF-SVVIAAG-DTFRAGAIEQLEEHAERLGVK  197 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc-CC-eEEEecC-CcCcHHHHHHHHHHHHHcCCc
Confidence            46899999999999999988888765532 23 2334432 222  2334456667777654

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.43  E-value=0.32  Score=45.16  Aligned_cols=47  Identities=19%  Similarity=0.160  Sum_probs=34.4

Q ss_pred             eeecCCCChHHHHHHHHHhhCCCCCC--CchHHHHHHHHHHcCCchHHH
Q 047930          304 NFSFDVLKEDEAWSLFKKMAGDYIEG--SEFKWVAREVAKECAGLPVSI  350 (395)
Q Consensus       304 ~~~l~~L~~~e~~~lf~~~~~~~~~~--~~~~~~~~~i~~~c~GlPlai  350 (395)
                      ++++++++.+|+..++.-........  ..-+...+++.-..+|+|.-+
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            78999999999999998877422211  333445677887889999754

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).

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.43  E-value=0.0017  Score=52.63  Aligned_cols=43  Identities=21%  Similarity=0.307  Sum_probs=27.7

Q ss_pred             chHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          158 SRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       158 gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |+...+.++.+.+.  ......|.|+|..|+||+++|+.++....
T Consensus         2 G~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~   46 (138)
T PF14532_consen    2 GKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSG   46 (138)
T ss_dssp             -SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTT
T ss_pred             CCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcC
Confidence            33344444444443  12334567999999999999999988654

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.41  E-value=0.018  Score=57.06  Aligned_cols=87  Identities=14%  Similarity=0.182  Sum_probs=57.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc----------------c
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE----------------E  237 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~----------------~  237 (395)
                      .-.++.|.|++|+|||||+.++......+  -..++|++...  +..++...+ +.++.+..+                .
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~--ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~~  336 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENACAN--KERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPESA  336 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEcccccC
Confidence            34688899999999999999998876433  34567776644  455665554 455433211                1


Q ss_pred             chhhhHHHHHHHHhcCCeEEEEEeCCCC
Q 047930          238 TESGRARSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       238 ~~~~~~~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                      ...+.+..+.+.+...+.-++|+|.+..
T Consensus       337 ~~~~~~~~i~~~i~~~~~~~vvIDsi~~  364 (484)
T TIGR02655       337 GLEDHLQIIKSEIADFKPARIAIDSLSA  364 (484)
T ss_pred             ChHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence            1134566777777655667899999853

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

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.40  E-value=0.031  Score=57.46  Aligned_cols=25  Identities=32%  Similarity=0.526  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++.++|+.|+||||++.++....
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            4699999999999999999988765

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.40  E-value=0.024  Score=47.37  Aligned_cols=115  Identities=21%  Similarity=0.173  Sum_probs=63.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EE-EEEeCCcCCHHHHHHHHHHHh-----CCC--ccccc---hhh-
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VI-FVEVSQIQDIRKIQGEFADKL-----GLT--LHEET---ESG-  241 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~-wv~~s~~~~~~~~~~~i~~~l-----~~~--~~~~~---~~~-  241 (395)
                      ...|-|++..|.||||.|..+.-...... +.. ++ |+.-.........+..+  .+     +..  ....+   +.. 
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g-~~v~ivQFlKg~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRALGHG-KKVGVIQFIKGAWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHHHCC-CeEEEEEEecCCcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHHH
Confidence            35788888899999999999887765433 222 11 34333233444444443  11     110  00001   111 


Q ss_pred             ---hHHHHHHHHhcCCeEEEEEeCCCCc-----cccchhccccCCCCCCcEEEEeecch
Q 047930          242 ---RARSLCNRLKKEKRILVILDNIWEN-----LDFQAVGIPHGDGHKGSKVLLTARSL  292 (395)
Q Consensus       242 ---~~~~l~~~l~~~kr~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtR~~  292 (395)
                         ......+.+..+.-=|||||++-..     ...+.+...+....++.-||+|.|+.
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence               2233444444444459999998533     23334444444455677899999985

Alternate name: corrinoid adenosyltransferase.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.40  E-value=0.024  Score=51.04  Aligned_cols=90  Identities=23%  Similarity=0.328  Sum_probs=56.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc--ccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCc-------cccchh-----
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE--NEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTL-------HEETES-----  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~--~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-------~~~~~~-----  240 (395)
                      .-++|.|-.|+|||+|+..+.++..  .+.+-+.++++-+.+.. ...+++.++...-....       ...+..     
T Consensus        70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a  149 (276)
T cd01135          70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT  149 (276)
T ss_pred             CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHH
Confidence            3478999999999999999887754  11234678888887654 45666666655422110       011111     


Q ss_pred             -hhHHHHHHHHh-c-CCeEEEEEeCCCC
Q 047930          241 -GRARSLCNRLK-K-EKRILVILDNIWE  265 (395)
Q Consensus       241 -~~~~~l~~~l~-~-~kr~LlVlDdv~~  265 (395)
                       ...-.+.+++. + +++.|+++||+-.
T Consensus       150 ~~~a~aiAEyfrd~~g~~VLl~~D~ltr  177 (276)
T cd01135         150 PRMALTTAEYLAYEKGKHVLVILTDMTN  177 (276)
T ss_pred             HHHHHHHHHHHHhccCCeEEEEEcChhH
Confidence             11224555554 2 7899999999954

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>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=96.39  E-value=0.021  Score=48.41  Aligned_cols=114  Identities=21%  Similarity=0.299  Sum_probs=59.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE---eCCcCCHHHHH------HHHHHHhCCCcc------ccchh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE---VSQIQDIRKIQ------GEFADKLGLTLH------EETES  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~---~s~~~~~~~~~------~~i~~~l~~~~~------~~~~~  240 (395)
                      .+++|.|+.|+|||||++.++.....   ..+.+++.   +.. .+.....      .++++.++....      ..+..
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~~~---~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G  101 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLLKP---SSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELSGG  101 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC---CCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence            57999999999999999999875432   33444432   211 1222211      123444443211      11111


Q ss_pred             h-hHHHHHHHHhcCCeEEEEEeCCCCccc---cchhccccCC-CCC-CcEEEEeecchhh
Q 047930          241 G-RARSLCNRLKKEKRILVILDNIWENLD---FQAVGIPHGD-GHK-GSKVLLTARSLDV  294 (395)
Q Consensus       241 ~-~~~~l~~~l~~~kr~LlVlDdv~~~~~---~~~l~~~l~~-~~~-gs~iivTtR~~~v  294 (395)
                      . ..-.+...+. ..+-++++|+.-..-+   ...+...+.. ... +..||++|.+...
T Consensus       102 ~~qrl~laral~-~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~  160 (180)
T cd03214         102 ERQRVLLARALA-QEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNL  160 (180)
T ss_pred             HHHHHHHHHHHh-cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            1 1223444444 4678999999854322   2222222211 112 5678888887554

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.

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

Probab=96.39  E-value=0.02  Score=50.99  Aligned_cols=118  Identities=24%  Similarity=0.289  Sum_probs=64.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-----cCCHHHHHHHHHHHhCCCcc-------ccchhh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-----IQDIRKIQGEFADKLGLTLH-------EETESG  241 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-----~~~~~~~~~~i~~~l~~~~~-------~~~~~~  241 (395)
                      +-.+++|+|.+|+|||||++.+..-...   -.+.++..-.+     .....+...+++..++....       +-+...
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~p---t~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEP---TSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCC---CCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            3457999999999999999999875542   22333332211     12233445566666664321       122222


Q ss_pred             hHH-HHHHHHhcCCeEEEEEeCCCCccc------cchhccccCCCCCCcEEEEeecchhhhh
Q 047930          242 RAR-SLCNRLKKEKRILVILDNIWENLD------FQAVGIPHGDGHKGSKVLLTARSLDVLS  296 (395)
Q Consensus       242 ~~~-~l~~~l~~~kr~LlVlDdv~~~~~------~~~l~~~l~~~~~gs~iivTtR~~~va~  296 (395)
                      ... .+...|. -++-|+|.|+.-+..+      .-.+...+. ...|...+..|.+..++.
T Consensus       115 rQRi~IARALa-l~P~liV~DEpvSaLDvSiqaqIlnLL~dlq-~~~~lt~lFIsHDL~vv~  174 (268)
T COG4608         115 RQRIGIARALA-LNPKLIVADEPVSALDVSVQAQILNLLKDLQ-EELGLTYLFISHDLSVVR  174 (268)
T ss_pred             hhhHHHHHHHh-hCCcEEEecCchhhcchhHHHHHHHHHHHHH-HHhCCeEEEEEEEHHhhh
Confidence            222 2333333 5788999999765422      111222221 123556777777776654

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.39  E-value=0.021  Score=54.35  Aligned_cols=89  Identities=16%  Similarity=0.181  Sum_probs=50.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc--CCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCccccchhhhHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE--KLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTLHEETESGRARSLCNRL  250 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l  250 (395)
                      ..++|.++|+.|+||||.+..++......  ..-..+..+++... .....-++..++.++.+.........+......+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            45789999999999999999988765421  11223555655432 1223336666666665433222222222222232


Q ss_pred             hcCCeEEEEEeCCC
Q 047930          251 KKEKRILVILDNIW  264 (395)
Q Consensus       251 ~~~kr~LlVlDdv~  264 (395)
                        .+.=++++|..-
T Consensus       253 --~~~DlVLIDTaG  264 (388)
T PRK12723        253 --KDFDLVLVDTIG  264 (388)
T ss_pred             --CCCCEEEEcCCC
Confidence              234578888873

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

Probab=96.38  E-value=0.0068  Score=50.60  Aligned_cols=111  Identities=18%  Similarity=0.222  Sum_probs=56.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc--CCHHHHHHHHHHHhCCCccccchhh-hHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI--QDIRKIQGEFADKLGLTLHEETESG-RARSLCNRLKK  252 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~--~~~~~~~~~i~~~l~~~~~~~~~~~-~~~~l~~~l~~  252 (395)
                      .+++|.|+.|+|||||.+.++....   ...+.+++.-...  .+..+..   ...++.-. ..+..+ ..-.+...+. 
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~---~~~G~v~~~g~~~~~~~~~~~~---~~~i~~~~-qLS~G~~qrl~laral~-   98 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYK---PDSGEILVDGKEVSFASPRDAR---RAGIAMVY-QLSVGERQMVEIARALA-   98 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC---CCCeEEEECCEECCcCCHHHHH---hcCeEEEE-ecCHHHHHHHHHHHHHh-
Confidence            4789999999999999999986543   2344455432111  1111111   11111110 111111 1223444444 


Q ss_pred             CCeEEEEEeCCCCccc---cchhccccCC-CCCCcEEEEeecchhh
Q 047930          253 EKRILVILDNIWENLD---FQAVGIPHGD-GHKGSKVLLTARSLDV  294 (395)
Q Consensus       253 ~kr~LlVlDdv~~~~~---~~~l~~~l~~-~~~gs~iivTtR~~~v  294 (395)
                      .++-++++|+.-..-+   ...+...+.. ...|..||++|.+...
T Consensus        99 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~  144 (163)
T cd03216          99 RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDE  144 (163)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence            4678999999854322   2222222211 1236678888888653

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.38  E-value=0.016  Score=54.33  Aligned_cols=44  Identities=18%  Similarity=0.252  Sum_probs=28.8

Q ss_pred             hchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          157 ESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       157 ~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+...+.++.+.+.  .....-|.|.|..|+||+++|+.+++...
T Consensus         2 iG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~   47 (329)
T TIGR02974         2 IGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSK   47 (329)
T ss_pred             CcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcC
Confidence            344444444444433  12233477999999999999999987654

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

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.37  E-value=0.013  Score=49.63  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=21.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|.|+.|+|||||++.+....
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999998754

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.37  E-value=0.023  Score=55.54  Aligned_cols=59  Identities=17%  Similarity=0.227  Sum_probs=35.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~  233 (395)
                      ..+++++|+.|+||||++.+++.....+.....+..++... .....+-++...+.++.+
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVp  315 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVP  315 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCC
Confidence            36999999999999999999997654322122345555432 122334444445555443

>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=96.36  E-value=0.0092  Score=50.46  Aligned_cols=25  Identities=40%  Similarity=0.531  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            3579999999999999999988654

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.

>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=96.35  E-value=0.0053  Score=50.41  Aligned_cols=36  Identities=28%  Similarity=0.403  Sum_probs=27.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE  212 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  212 (395)
                      ..+|-|.|.+|+||||||+.+........  ..+.++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g--~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFARG--IKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHTT--S-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHcC--CcEEEec
Confidence            35899999999999999999999876542  3345553

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 ....

>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=96.34  E-value=0.011  Score=52.34  Aligned_cols=61  Identities=23%  Similarity=0.263  Sum_probs=37.6

Q ss_pred             HHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHH
Q 047930          163 LNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQ  223 (395)
Q Consensus       163 ~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~  223 (395)
                      -.+++..+.  .++..+|+|.|++|.|||||...+......+.+--.++=|.-|++++--.++
T Consensus        15 ~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlL   77 (266)
T PF03308_consen   15 ARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALL   77 (266)
T ss_dssp             HHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS
T ss_pred             HHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCccc
Confidence            334444443  4567899999999999999999999887765444445555556666544443

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.

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=96.33  E-value=0.021  Score=51.38  Aligned_cols=91  Identities=14%  Similarity=0.032  Sum_probs=62.9

Q ss_pred             cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHhhhhhhHhhccccccCCCcchhHh
Q 047930           31 KYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIR  110 (395)
Q Consensus        31 ~~~~~~~~l~~~i~~l~~~l~~i~~~l~~a~~~~~~~~~~~~~Wl~~lr~~a~d~ed~ld~~~~~~~~~~~~~~~~~~~r  110 (395)
                      .+.+.+.-++.+++-++.+++.++.||+..-..+...-.....+..++...||++|.++|..-....    +.+.....-
T Consensus       311 rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaCi~k~~----P~Wcl~~WL  386 (402)
T PF12061_consen  311 RYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDACISKSV----PHWCLERWL  386 (402)
T ss_pred             cccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehhhcCCC----cHHHHHHHH
Confidence            3444568899999999999999999999874442233445899999999999999999996432110    001123334


Q ss_pred             hHHHHHHHHHHHHHH
Q 047930          111 RRLSKEAERQKEAIV  125 (395)
Q Consensus       111 ~~i~~~i~~~~~~l~  125 (395)
                      ..+..+|.-++++++
T Consensus       387 ~dIieei~~ik~~i~  401 (402)
T PF12061_consen  387 LDIIEEITCIKAKIQ  401 (402)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            556666666666654

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.32  E-value=0.0094  Score=50.91  Aligned_cols=48  Identities=25%  Similarity=0.245  Sum_probs=33.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      ..+|+|-||=|+||||||+.+.++....     .++-.+.+++-+..++.++-
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~-----~~~E~vednp~L~~FY~d~~   51 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGFK-----VFYELVEDNPFLDLFYEDPE   51 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCCc-----eeeecccCChHHHHHHHhHH
Confidence            4689999999999999999999987632     23333444444444444443

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.29  E-value=0.017  Score=56.32  Aligned_cols=85  Identities=27%  Similarity=0.345  Sum_probs=53.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc--cchhhhHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE--ETESGRARSLCNRLKK  252 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~l~~~l~~  252 (395)
                      -.++.|.|.+|+|||||+.++......+  -..++|++....  ..++... ++.++.....  ......+..+.+.+.+
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ees--~~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~~~i~~  154 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEES--ASQIKLR-AERLGLPSDNLYLLAETNLEAILATIEE  154 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcccc--HHHHHHH-HHHcCCChhcEEEeCCCCHHHHHHHHHh
Confidence            4588999999999999999998875422  234778776543  3343322 4555542221  0111234566666655


Q ss_pred             CCeEEEEEeCCC
Q 047930          253 EKRILVILDNIW  264 (395)
Q Consensus       253 ~kr~LlVlDdv~  264 (395)
                      .+.-++|+|.+.
T Consensus       155 ~~~~lVVIDSIq  166 (446)
T PRK11823        155 EKPDLVVIDSIQ  166 (446)
T ss_pred             hCCCEEEEechh
Confidence            566799999985

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

Probab=96.28  E-value=0.0046  Score=50.13  Aligned_cols=39  Identities=15%  Similarity=0.290  Sum_probs=28.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      ++|.|+|..|+|||||++.+.+....+ .+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~-g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR-GYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc-CCceEEEEEccC
Confidence            479999999999999999999997654 355555666554

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.28  E-value=0.0021  Score=54.90  Aligned_cols=21  Identities=29%  Similarity=0.260  Sum_probs=18.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      ++.|.|+.|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999884

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.28  E-value=0.0065  Score=54.59  Aligned_cols=61  Identities=28%  Similarity=0.388  Sum_probs=45.3

Q ss_pred             HHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          165 DILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       165 ~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      +++..+.  .++..+|+|.|.+|+|||||.-.+......+.+--.++=|.-|++++--.++.+
T Consensus        39 ~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          39 ELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccccc
Confidence            4444443  567889999999999999999999988876665555666666777765555443

>PRK14527 adenylate kinase; Provisional

Probab=96.27  E-value=0.019  Score=49.23  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=24.1

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....+|.|+|++|+||||+|+.+.+...
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3457899999999999999999987654

>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=96.27  E-value=0.015  Score=47.48  Aligned_cols=24  Identities=38%  Similarity=0.614  Sum_probs=21.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|.|..|.|||||++.+....
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCC
Confidence            578999999999999999998754

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.26  E-value=0.057  Score=42.41  Aligned_cols=27  Identities=22%  Similarity=0.326  Sum_probs=23.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +++-|++.+|.+|+|||.+++.+++..
T Consensus        51 ~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   51 RKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             CCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            457899999999999999999988873

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

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.25  E-value=0.029  Score=50.67  Aligned_cols=40  Identities=23%  Similarity=0.410  Sum_probs=30.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      .-.++.|.|.+|+|||+++.++......+  -..++|++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASR--GNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecC
Confidence            34688899999999999999987654322  23577888764

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

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.25  E-value=0.0043  Score=52.98  Aligned_cols=26  Identities=27%  Similarity=0.356  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.++|.|.|++|+||||+++.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998764

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.

>PRK03839 putative kinase; Provisional

Probab=96.25  E-value=0.004  Score=52.88  Aligned_cols=24  Identities=42%  Similarity=0.638  Sum_probs=21.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+++.+++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999998864

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

Probab=96.25  E-value=0.038  Score=50.00  Aligned_cols=90  Identities=20%  Similarity=0.293  Sum_probs=54.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH-hCCC-ccccchhhhHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK-LGLT-LHEETESGRARSLCNRLK  251 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~-l~~~-~~~~~~~~~~~~l~~~l~  251 (395)
                      .-+++=|+|+.|+||||+|.+++-.....  -..++|++.-+.++++.+.. +... +..- .......+....+.+.+.
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~~~  135 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEKLA  135 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHHHH
Confidence            34678899999999999999988765433  44789999999888876443 3333 2110 001111112222222222


Q ss_pred             c---CCeEEEEEeCCCCc
Q 047930          252 K---EKRILVILDNIWEN  266 (395)
Q Consensus       252 ~---~kr~LlVlDdv~~~  266 (395)
                      .   .+--|+|+|.+-..
T Consensus       136 ~~~~~~i~LvVVDSvaa~  153 (279)
T COG0468         136 RSGAEKIDLLVVDSVAAL  153 (279)
T ss_pred             HhccCCCCEEEEecCccc
Confidence            1   23569999998543

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.25  E-value=0.035  Score=50.47  Aligned_cols=56  Identities=25%  Similarity=0.351  Sum_probs=35.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH--HHHHHHHHHHhC
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI--RKIQGEFADKLG  231 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~i~~~l~  231 (395)
                      .+.+++.++|++|+||||++..++......  -..+..++... +..  .+-+....+..+
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~--g~~V~li~~D~-~r~~a~~ql~~~~~~~~  127 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQ--GKSVLLAAGDT-FRAAAIEQLEEWAKRLG  127 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhc--CCEEEEEeCCC-CCHHHHHHHHHHHHhCC
Confidence            346789999999999999999998776432  23455565432 222  233344455554

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PTZ00494 tuzin-like protein; Provisional

Probab=96.24  E-value=0.1  Score=49.89  Aligned_cols=162  Identities=9%  Similarity=0.100  Sum_probs=96.9

Q ss_pred             cccchhchHHHHH---HHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          152 DYEAFESRMSTLN---DILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       152 ~~~~~~gr~~~~~---~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ....++.|+.+-.   +++..+....++++.+.|..|.||++|.+.........     .++|.+...   ++-++.+.+
T Consensus       369 ~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~p-----aV~VDVRg~---EDtLrsVVK  440 (664)
T PTZ00494        369 AEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGVA-----LVHVDVGGT---EDTLRSVVR  440 (664)
T ss_pred             ccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCCC-----eEEEEecCC---cchHHHHHH
Confidence            3445777776543   44444556678999999999999999999988765533     567777654   456788999


Q ss_pred             HhCCCccccchhhhHHHHHHHH------hcCCeEEEEEe--CCCCcc-ccchhccccCCCCCCcEEEEeecchhh--hhh
Q 047930          229 KLGLTLHEETESGRARSLCNRL------KKEKRILVILD--NIWENL-DFQAVGIPHGDGHKGSKVLLTARSLDV--LSR  297 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l------~~~kr~LlVlD--dv~~~~-~~~~l~~~l~~~~~gs~iivTtR~~~v--a~~  297 (395)
                      .++.+..+. -.+.++.+.+..      ..++.-+||+-  +=.+.. .+.+. ..+.....-|.|++----+.+  +..
T Consensus       441 ALgV~nve~-CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~-vaLacDrRlCHvv~EVplESLT~~n~  518 (664)
T PTZ00494        441 ALGVSNVEV-CGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEV-VSLVSDCQACHIVLAVPMKALTPLNV  518 (664)
T ss_pred             HhCCCChhh-hccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHH-HHHHccchhheeeeechHhhhchhhc
Confidence            998765432 112233222222      12555666653  111111 12221 223334455667664333322  112


Q ss_pred             cCCCcceeecCCCChHHHHHHHHHhh
Q 047930          298 KMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       298 ~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      ..+.-..|-+++++.++|.++-.+..
T Consensus       519 ~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        519 SSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             cCccceeEecCCcCHHHHHHHHhccc
Confidence            33455689999999999998887665

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.24  E-value=0.0046  Score=51.98  Aligned_cols=27  Identities=22%  Similarity=0.382  Sum_probs=23.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +...|.++|++|+||||+|+.+.....
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            346799999999999999999998764

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.22  E-value=0.0049  Score=53.20  Aligned_cols=28  Identities=43%  Similarity=0.590  Sum_probs=24.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++.+|+|.|.+|+||||+|+.++.....
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~   34 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGV   34 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            4578999999999999999999988764

>PRK10867 signal recognition particle protein; Provisional

Probab=96.22  E-value=0.033  Score=53.87  Aligned_cols=28  Identities=29%  Similarity=0.414  Sum_probs=23.2

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+.+|.++|+.|+||||++..++....
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~~l~  125 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAKYLK  125 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            3467999999999999998888876544

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.21  E-value=0.0037  Score=52.96  Aligned_cols=27  Identities=41%  Similarity=0.597  Sum_probs=23.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      +.|.+.|.+|+||||+|+++....+.+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            467889999999999999999876643

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.21  E-value=0.022  Score=55.36  Aligned_cols=88  Identities=20%  Similarity=0.375  Sum_probs=56.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccchh-----h
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEETES-----G  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~~~-----~  241 (395)
                      .-++|.|.+|+|||||+.++......+ +-+.++++-+.... ...++..++...-...        .++....     .
T Consensus       144 QR~gIfa~~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~  222 (461)
T PRK12597        144 GKTGLFGGAGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVL  222 (461)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHH
Confidence            458999999999999999998876643 56778888776543 4566666665432111        1111110     1


Q ss_pred             hHHHHHHHHh-c-CCeEEEEEeCCC
Q 047930          242 RARSLCNRLK-K-EKRILVILDNIW  264 (395)
Q Consensus       242 ~~~~l~~~l~-~-~kr~LlVlDdv~  264 (395)
                      ....+.+++. + ++++||++||+-
T Consensus       223 ~a~tiAEyfrd~~G~~VLl~~DslT  247 (461)
T PRK12597        223 TGLTIAEYLRDEEKEDVLLFIDNIF  247 (461)
T ss_pred             HHHHHHHHHHHhcCCceEEEeccch
Confidence            2234555553 3 799999999993

>TIGR00959 ffh signal recognition particle protein

Probab=96.20  E-value=0.038  Score=53.39  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+.++.++|+.|+||||++..++...
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46789999999999999998888764

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.20  E-value=0.018  Score=55.52  Aligned_cols=87  Identities=21%  Similarity=0.268  Sum_probs=48.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCC-------Cccccchh-----hhH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGL-------TLHEETES-----GRA  243 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~-------~~~~~~~~-----~~~  243 (395)
                      ..++|+|.+|+|||||++.+......   ..++++..-....++.++....+.....       +.++....     ...
T Consensus       166 qri~I~G~SGsGKTTLL~~Ia~l~~p---d~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~a  242 (450)
T PRK06002        166 QRIGIFAGSGVGKSTLLAMLARADAF---DTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLTA  242 (450)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCC---CeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHHH
Confidence            46899999999999999988764431   2334444332344555544444333210       11111110     112


Q ss_pred             HHHHHHHh-cCCeEEEEEeCCCC
Q 047930          244 RSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       244 ~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      -.+.+++. +++..||++||+-.
T Consensus       243 ~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        243 TAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHcCCCEEEeccchHH
Confidence            23444442 48999999999843

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.20  E-value=0.014  Score=51.52  Aligned_cols=63  Identities=21%  Similarity=0.179  Sum_probs=36.8

Q ss_pred             HHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc-----ccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          164 NDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE-----NEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       164 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-----~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.+...+..+.  +..|+|++|+||||++..+.....     ........+-++...+.....++..+.+
T Consensus         8 ~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen    8 EAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             HHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            33444443332  688999999999987777776651     1122344555555555566777777666

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.18  E-value=0.028  Score=54.13  Aligned_cols=87  Identities=18%  Similarity=0.305  Sum_probs=52.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccchh----
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEETES----  240 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~~~----  240 (395)
                      +-..++|.|..|+|||||++.++....    .+.++++-+.... ...++..+.+..-+..        .++....    
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            345689999999999999999987653    3455566665543 3445555444432211        1111100    


Q ss_pred             -hhHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          241 -GRARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       241 -~~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                       ...-.+.+++. +++++||++||+-
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~DslT  258 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSVT  258 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCcH
Confidence             11223455552 5899999999994

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.16  E-value=0.012  Score=59.59  Aligned_cols=77  Identities=16%  Similarity=0.141  Sum_probs=55.7

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHh
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKL  230 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l  230 (395)
                      .....+.|.+..++.|...+...  +.+.++|++|+||||+++.+.+.... .+++..+|..- ...+...+++.++..+
T Consensus        28 ~~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~~-~~~~~~~~~~n-p~~~~~~~~~~v~~~~  103 (637)
T PRK13765         28 RLIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLPK-EELQDILVYPN-PEDPNNPKIRTVPAGK  103 (637)
T ss_pred             ccHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcCh-HhHHHheEeeC-CCcchHHHHHHHHHhc
Confidence            44567889888888777766654  36889999999999999999987532 34566777654 3346667777776655


Q ss_pred             C
Q 047930          231 G  231 (395)
Q Consensus       231 ~  231 (395)
                      +
T Consensus       104 G  104 (637)
T PRK13765        104 G  104 (637)
T ss_pred             C
Confidence            4

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.14  E-value=0.0087  Score=56.05  Aligned_cols=49  Identities=16%  Similarity=0.234  Sum_probs=41.8

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +...++|.++.+..|+..+.++...-+.|.|..|+||||+|+.+++-..
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            4567889998888888888888888888999999999999999987643

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.14  E-value=0.01  Score=47.54  Aligned_cols=35  Identities=31%  Similarity=0.471  Sum_probs=27.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI  216 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~  216 (395)
                      .+-|.|.|-+|+||||++.++.....-       -|+++|.-
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~-------~~i~isd~   41 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGL-------EYIEISDL   41 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCC-------ceEehhhH
Confidence            456889999999999999999965442       36666654

>TIGR00416 sms DNA repair protein RadA

Probab=96.13  E-value=0.03  Score=54.72  Aligned_cols=86  Identities=24%  Similarity=0.355  Sum_probs=52.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcccc--chhhhHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEE--TESGRARSLCNRLKK  252 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  252 (395)
                      -.++.|.|.+|+|||||+.++......+.  ..++|++....  ..++... +..++...+..  ........+.+.+.+
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~EEs--~~qi~~r-a~rlg~~~~~l~~~~e~~~~~I~~~i~~  168 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSGEES--LQQIKMR-AIRLGLPEPNLYVLSETNWEQICANIEE  168 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEECcCC--HHHHHHH-HHHcCCChHHeEEcCCCCHHHHHHHHHh
Confidence            46788999999999999999977654321  34778776443  3333222 33444322110  011234566666665


Q ss_pred             CCeEEEEEeCCCC
Q 047930          253 EKRILVILDNIWE  265 (395)
Q Consensus       253 ~kr~LlVlDdv~~  265 (395)
                      .+.-++|+|.+..
T Consensus       169 ~~~~~vVIDSIq~  181 (454)
T TIGR00416       169 ENPQACVIDSIQT  181 (454)
T ss_pred             cCCcEEEEecchh
Confidence            5667899998853

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

>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=96.13  E-value=0.009  Score=54.10  Aligned_cols=26  Identities=35%  Similarity=0.432  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +.|.|+|.+|+||||+|+++......
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            46889999999999999999987654

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_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=96.11  E-value=0.031  Score=46.73  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|.|||||++.+....
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999998764

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

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.10  E-value=0.0074  Score=53.36  Aligned_cols=29  Identities=24%  Similarity=0.401  Sum_probs=25.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ++.+|.++||+|+||||..+.++.+...+
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~   46 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAK   46 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhc
Confidence            46688899999999999999999887655

>PRK04040 adenylate kinase; Provisional

Probab=96.10  E-value=0.0059  Score=52.21  Aligned_cols=25  Identities=28%  Similarity=0.512  Sum_probs=22.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|+|++|+||||+++.+.+...
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5799999999999999999998763

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.08  E-value=0.026  Score=58.17  Aligned_cols=83  Identities=22%  Similarity=0.304  Sum_probs=54.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLCN  248 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  248 (395)
                      -+++-|.|+.|+|||||+.+++......  -..++|+.....++.     ..+++++.+.+.      .+....+..+.+
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~~--G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i~~  132 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIADM  132 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHHHH
Confidence            4678899999999999998876654322  245789988776663     366777664321      112223333344


Q ss_pred             HHhcCCeEEEEEeCCC
Q 047930          249 RLKKEKRILVILDNIW  264 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~  264 (395)
                      .+..++--|||+|.+.
T Consensus       133 lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        133 LIRSGALDIVVIDSVA  148 (790)
T ss_pred             HhhcCCCeEEEEcchh
Confidence            4444567799999975

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

Probab=96.07  E-value=0.014  Score=51.50  Aligned_cols=87  Identities=18%  Similarity=0.236  Sum_probs=50.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc------------------
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH------------------  235 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~------------------  235 (395)
                      .-.++.|.|.+|+|||+++.++......+ .=..++|++...+  ..++.+.+. .++.+..                  
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~-~ge~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~~   93 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLKN-FGEKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPERI   93 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHH-HT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGGS
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhhh-cCCcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEecccccc
Confidence            34689999999999999999977554322 0124778887554  455555543 3332111                  


Q ss_pred             ---ccchhhhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          236 ---EETESGRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       236 ---~~~~~~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                         ..........+.+.+...+...+|+|.+.
T Consensus        94 ~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls  125 (226)
T PF06745_consen   94 GWSPNDLEELLSKIREAIEELKPDRVVIDSLS  125 (226)
T ss_dssp             T-TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred             cccccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence               01112234455555543445799999874

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

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.07  E-value=0.024  Score=54.46  Aligned_cols=87  Identities=15%  Similarity=0.318  Sum_probs=52.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCc-------cccchh------
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTL-------HEETES------  240 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-------~~~~~~------  240 (395)
                      -..++|.|..|+|||||++.+.....    .+.++++-+.+.. ...++..+++..-+...       .+.+..      
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~~~----~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRGTT----ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC  237 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCCC----CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence            35689999999999999999986432    3566666666544 34556666544322110       011111      


Q ss_pred             hhHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          241 GRARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       241 ~~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      .....+.+++. +++++||++||+-.
T Consensus       238 ~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        238 ETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEcChHH
Confidence            11223444442 48999999999843

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.06  E-value=0.0097  Score=50.69  Aligned_cols=38  Identities=26%  Similarity=0.349  Sum_probs=29.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      .++|.|+|+.|+|||||+..+.....  ..|...+..+..
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~--~~~~~~v~~TTR   39 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFP--DKFGRVVSHTTR   39 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHST--TTEEEEEEEESS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcc--cccccceeeccc
Confidence            46899999999999999999998765  337555555543

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.06  E-value=0.0046  Score=53.42  Aligned_cols=23  Identities=43%  Similarity=0.707  Sum_probs=20.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +|+|.|++|+|||||++.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998765

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.

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

Probab=96.06  E-value=0.0049  Score=47.46  Aligned_cols=23  Identities=57%  Similarity=0.785  Sum_probs=20.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |-|+|++|+|||+||..+..+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999887754

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

>PRK01184 hypothetical protein; Provisional

Probab=96.05  E-value=0.039  Score=46.91  Aligned_cols=21  Identities=43%  Similarity=0.855  Sum_probs=17.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+|.|+|+.|+||||+++ +..
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~   22 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IAR   22 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHH
Confidence            478999999999999987 444

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

Probab=96.04  E-value=0.0057  Score=51.87  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++|+|++|+|||||++.+.....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3689999999999999999987653

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.04  E-value=0.0071  Score=50.68  Aligned_cols=28  Identities=32%  Similarity=0.375  Sum_probs=24.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...+++|+|..|+|||||++.+......
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            4678999999999999999999987654

>PRK08149 ATP synthase SpaL; Validated

Probab=96.03  E-value=0.027  Score=54.15  Aligned_cols=86  Identities=15%  Similarity=0.276  Sum_probs=50.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCC--------ccccch-----hh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLT--------LHEETE-----SG  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~--------~~~~~~-----~~  241 (395)
                      ..++|.|.+|+|||||+..++....    .+.+++..+.. .....++..+........        .+....     ..
T Consensus       152 q~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~~  227 (428)
T PRK08149        152 QRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAAL  227 (428)
T ss_pred             CEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHHH
Confidence            4689999999999999999886543    23434444433 334556666665543211        111110     01


Q ss_pred             hHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          242 RARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       242 ~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      ....+.+++. +++++||++||+-.
T Consensus       228 ~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        228 VATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHcCCCEEEEccchHH
Confidence            2223444442 48999999999843

>PRK00625 shikimate kinase; Provisional

Probab=96.02  E-value=0.0063  Score=51.26  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.++|+.|+||||+++.+.+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999988754

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.01  E-value=0.0079  Score=50.56  Aligned_cols=43  Identities=26%  Similarity=0.273  Sum_probs=31.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      ..++.+.|+.|+|||.||+.+.+.... +.....+-++.+.-..
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~-~~~~~~~~~d~s~~~~   45 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFV-GSERPLIRIDMSEYSE   45 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT--SSCCEEEEEEGGGHCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhcc-CCccchHHHhhhcccc
Confidence            457889999999999999999988763 1234556666655433

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 ATPase AAA-2 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 []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.01  E-value=0.027  Score=52.03  Aligned_cols=158  Identities=17%  Similarity=0.121  Sum_probs=82.0

Q ss_pred             chhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCc
Q 047930          155 AFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTL  234 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~  234 (395)
                      .|+=..+....++.++..+  +.|.|.|+.|+||||+++.++......     .+.|+++...+..++...-.-.+... 
T Consensus        46 ~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~~~-----~~rV~~~~~l~~~DliG~~~~~l~~g-  117 (327)
T TIGR01650        46 AYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLNWP-----CVRVNLDSHVSRIDLVGKDAIVLKDG-  117 (327)
T ss_pred             CccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHCCC-----eEEEEecCCCChhhcCCCceeeccCC-
Confidence            3433444556677777543  358899999999999999999887532     34566655555444333211001000 


Q ss_pred             cccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cc---cchhcc-----ccC------CCCCCcEEEEeecchhhh---
Q 047930          235 HEETESGRARSLCNRLKKEKRILVILDNIWEN--LD---FQAVGI-----PHG------DGHKGSKVLLTARSLDVL---  295 (395)
Q Consensus       235 ~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~---~~~l~~-----~l~------~~~~gs~iivTtR~~~va---  295 (395)
                       .......-..+.....  +.+.|++|++...  +.   +..+..     .++      ..++..++|.|.....-.   
T Consensus       118 -~~~~~f~~GpL~~A~~--~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~  194 (327)
T TIGR01650       118 -KQITEFRDGILPWALQ--HNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTT  194 (327)
T ss_pred             -cceeEEecCcchhHHh--CCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCC
Confidence             0000000001222222  4578999988643  11   111111     111      123456777777643200   


Q ss_pred             ----------hhcCCCcc-eeecCCCChHHHHHHHHHhh
Q 047930          296 ----------SRKMDSQQ-NFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       296 ----------~~~~~~~~-~~~l~~L~~~e~~~lf~~~~  323 (395)
                                ...++... .+.++.++.++=.+++....
T Consensus       195 G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~  233 (327)
T TIGR01650       195 GLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKA  233 (327)
T ss_pred             cceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhc
Confidence                      01122232 45788899988888887765

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PF13245 AAA_19: Part of AAA domain

Probab=96.01  E-value=0.018  Score=41.20  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=17.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +.+++.|.|++|+|||+++......
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3457788999999999555544443

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.00  E-value=0.0064  Score=51.41  Aligned_cols=25  Identities=16%  Similarity=0.332  Sum_probs=22.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ++|.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5799999999999999999987753

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

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.00  E-value=0.045  Score=53.24  Aligned_cols=40  Identities=25%  Similarity=0.429  Sum_probs=31.2

Q ss_pred             HHHHHHHHHhc-----CC--CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          161 STLNDILDALK-----NP--DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       161 ~~~~~l~~~l~-----~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+.++-.||.     .+  +.+++.|+|++|+||||.++.+.....
T Consensus        89 kKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg  135 (634)
T KOG1970|consen   89 KKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELG  135 (634)
T ss_pred             HhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhC
Confidence            34566666766     34  346999999999999999999998765

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=95.98  E-value=0.021  Score=54.39  Aligned_cols=40  Identities=20%  Similarity=0.342  Sum_probs=32.4

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .++.+++.+...+...+.|.|.||+|||+|.+.+.+..+.
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            4556666666666778999999999999999999988764

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.98  E-value=0.031  Score=56.18  Aligned_cols=26  Identities=27%  Similarity=0.276  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-..++|+|+.|+|||||++.+..-.
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34579999999999999999997543

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.98  E-value=0.012  Score=54.94  Aligned_cols=47  Identities=19%  Similarity=0.268  Sum_probs=38.7

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...++|.+..+..|+-.+.++...-+.|.|..|+|||||++.+..-.
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            34578888888888777777777778899999999999999998654

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.

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

Probab=95.96  E-value=0.0057  Score=52.08  Aligned_cols=23  Identities=48%  Similarity=0.628  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +|+|.|.+|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999875

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=95.96  E-value=0.0076  Score=52.81  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .++.|.|+.|.||||+.+.+..
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7899999999999999999864

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam

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

Probab=95.93  E-value=0.0066  Score=52.00  Aligned_cols=25  Identities=28%  Similarity=0.336  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.|++|+|++|+|||||.+.+..-.
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCc
Confidence            3589999999999999999987543

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=95.92  E-value=0.0055  Score=53.81  Aligned_cols=23  Identities=26%  Similarity=0.104  Sum_probs=20.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      ..++.|.|+.|.||||+.+.+.-
T Consensus        31 g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999999876

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

>COG4240 Predicted kinase [General function prediction only]

Probab=95.91  E-value=0.053  Score=46.84  Aligned_cols=82  Identities=16%  Similarity=0.194  Sum_probs=52.2

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCC-----CccccchhhhHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGL-----TLHEETESGRARSL  246 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~-----~~~~~~~~~~~~~l  246 (395)
                      .+++-+++|.|+-|+||||++..+++....+.. ..++..++..-+-...-...++++...     ..+...+......+
T Consensus        47 ~grPli~gisGpQGSGKStls~~i~~~L~~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnV  125 (300)
T COG4240          47 RGRPLIVGISGPQGSGKSTLSALIVRLLAAKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNV  125 (300)
T ss_pred             cCCceEEEeecCCCCchhhHHHHHHHHHHHhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHH
Confidence            456789999999999999999999998775532 356666655544444444455555321     12223344456667


Q ss_pred             HHHHhcCC
Q 047930          247 CNRLKKEK  254 (395)
Q Consensus       247 ~~~l~~~k  254 (395)
                      .+.+.+++
T Consensus       126 Lnai~~g~  133 (300)
T COG4240         126 LNAIARGG  133 (300)
T ss_pred             HHHHhcCC
Confidence            77776554

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=95.91  E-value=0.037  Score=53.50  Aligned_cols=89  Identities=20%  Similarity=0.363  Sum_probs=56.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC-------ccccchh------h
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT-------LHEETES------G  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~-------~~~~~~~------~  241 (395)
                      .-++|.|.+|+|||+|+.++....... +-+.++|+-+.... ...++++++...-...       ..+.+..      .
T Consensus       139 Qr~~Ifg~~G~GKt~l~~~~~~~~~~~-~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~  217 (449)
T TIGR03305       139 GKAGLFGGAGVGKTVLLTEMIHNMVGQ-HQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGH  217 (449)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHH
Confidence            358899999999999999998775432 34678888886654 4566666665432111       0011111      1


Q ss_pred             hHHHHHHHHh--cCCeEEEEEeCCCC
Q 047930          242 RARSLCNRLK--KEKRILVILDNIWE  265 (395)
Q Consensus       242 ~~~~l~~~l~--~~kr~LlVlDdv~~  265 (395)
                      ..-.+.+++.  +++++||++||+-.
T Consensus       218 ~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       218 TALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHhcCCceEEEecChHH
Confidence            2234556654  47999999999843

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

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

Probab=95.90  E-value=0.025  Score=51.15  Aligned_cols=51  Identities=22%  Similarity=0.281  Sum_probs=39.6

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      +.-+++.|.|.+|+|||+++.++.......  ...++||+....  ..++.+.+.
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~--~~~l~~~~~   71 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEES--PEELLENAR   71 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCC--HHHHHHHHH
Confidence            345789999999999999999999887643  777999998764  445555443

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=95.89  E-value=0.019  Score=49.84  Aligned_cols=41  Identities=27%  Similarity=0.485  Sum_probs=28.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .|+|+|-||+||||+|..+......++.|+ ++=|....+++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~-VLvVDaDpd~n   42 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYN-VLVVDADPDSN   42 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCce-EEEEeCCCCCC
Confidence            589999999999999999666654443333 34455544443

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.88  E-value=0.0096  Score=50.29  Aligned_cols=27  Identities=33%  Similarity=0.443  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|.|+|++|+||||+|+.+.....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            346899999999999999999998764

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.88  E-value=0.042  Score=52.87  Aligned_cols=27  Identities=30%  Similarity=0.395  Sum_probs=23.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+.+|.++|+.|+||||++..++....
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~  125 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQ  125 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            468999999999999999999887654

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.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=95.87  E-value=0.073  Score=51.96  Aligned_cols=90  Identities=17%  Similarity=0.157  Sum_probs=51.7

Q ss_pred             eEEEEEecCCCcHHHHH-HHHHHHhcc-----cCCCCEEEEEEeCCcCCHHHHHHHHHHHhC-CCc-------cccchhh
Q 047930          176 NMLGIYGMGGIGKTTLA-KEVARKAEN-----EKLFDQVIFVEVSQIQDIRKIQGEFADKLG-LTL-------HEETESG  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa-~~v~~~~~~-----~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~-~~~-------~~~~~~~  241 (395)
                      .-++|.|..|+|||+|| ..+.+....     .+.-+.++++.+.+..+...-+.+.+++-+ ...       ...+...
T Consensus       190 QR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~  269 (574)
T PTZ00185        190 QRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGL  269 (574)
T ss_pred             CEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHH
Confidence            34789999999999996 666666522     123456888888876543332333333332 110       0111110


Q ss_pred             ------hHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          242 ------RARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       242 ------~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                            ..-.+-+++. +++..|||+||+-.
T Consensus       270 r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        270 QYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence                  1123444442 48999999999954

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=95.87  E-value=0.0069  Score=49.30  Aligned_cols=24  Identities=42%  Similarity=0.598  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|.|.|+.|+||||+|+.+.....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999998754

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.87  E-value=0.0067  Score=49.74  Aligned_cols=23  Identities=30%  Similarity=0.634  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++.++|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            37799999999999999998763

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.86  E-value=0.0067  Score=51.44  Aligned_cols=24  Identities=33%  Similarity=0.538  Sum_probs=21.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++|+|+|+.|+|||||++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            478999999999999999999753

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.

>PHA02774 E1; Provisional

Probab=95.85  E-value=0.025  Score=55.86  Aligned_cols=48  Identities=29%  Similarity=0.395  Sum_probs=34.2

Q ss_pred             HHHHHHHhcC-CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          163 LNDILDALKN-PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       163 ~~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      +..|..++.. ++...+.|+|++|+|||.+|..+.+-..    -..+.|++..
T Consensus       421 l~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~----G~vi~fvN~~  469 (613)
T PHA02774        421 LTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK----GKVISFVNSK  469 (613)
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEECc
Confidence            4555555543 3346899999999999999999998753    2345677653

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.85  E-value=0.029  Score=53.48  Aligned_cols=47  Identities=23%  Similarity=0.306  Sum_probs=34.0

Q ss_pred             chhchHHHHHHHHHHhcC--------------CCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          155 AFESRMSTLNDILDALKN--------------PDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .++|.++.++.+...+..              ..++.|.++|++|+|||++|+.+......
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~   73 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANA   73 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            366776666665444331              12467899999999999999999987653

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.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=95.85  E-value=0.038  Score=43.86  Aligned_cols=36  Identities=19%  Similarity=0.006  Sum_probs=26.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE  212 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  212 (395)
                      .+.|.|+.|+|||+.+...............++|++
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~   37 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLA   37 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence            467999999999999998887765433345566664

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.84  E-value=0.01  Score=52.37  Aligned_cols=24  Identities=29%  Similarity=0.609  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      -|.|.|++|+||||+|+.+.+...
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            388999999999999999988754

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.84  E-value=0.014  Score=54.48  Aligned_cols=49  Identities=16%  Similarity=0.260  Sum_probs=38.0

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+...++|.+..++.+.-.+.+.+..-+.+.|..|+||||+|+.+..-.
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            3456688998888877755544555568899999999999999997654

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.83  E-value=0.01  Score=51.70  Aligned_cols=32  Identities=25%  Similarity=0.358  Sum_probs=27.4

Q ss_pred             HhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          169 ALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       169 ~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+...++++|+++|+.|+|||||..++.....
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34467899999999999999999999988753

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

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.83  E-value=0.026  Score=54.38  Aligned_cols=46  Identities=22%  Similarity=0.172  Sum_probs=32.8

Q ss_pred             chhchHHHHHHHHHHhc-------C---------CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALK-------N---------PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~-------~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.+..++.+...+.       .         .....+.++|++|+|||+||+.+.....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            36787777766644331       1         0235688999999999999999987653

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=95.83  E-value=0.49  Score=43.25  Aligned_cols=68  Identities=15%  Similarity=0.103  Sum_probs=44.4

Q ss_pred             CCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceeecCCCChHHHHHHHHH
Q 047930          253 EKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFSFDVLKEDEAWSLFKK  321 (395)
Q Consensus       253 ~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~l~~L~~~e~~~lf~~  321 (395)
                      +++-++|||+++..  ...+.+...+-...+++.+|++|.+ ..+.....+....+++.+ +.++..+.+..
T Consensus       103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHH
Confidence            55678999999765  3566666565444455666666655 455555556677888876 66666666653

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.82  E-value=0.093  Score=46.35  Aligned_cols=39  Identities=28%  Similarity=0.359  Sum_probs=29.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      -.++.|.|.+|+||||++.++......+  -..++|++...
T Consensus        20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~   58 (229)
T TIGR03881        20 GFFVAVTGEPGTGKTIFCLHFAYKGLRD--GDPVIYVTTEE   58 (229)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHHHHhc--CCeEEEEEccC
Confidence            4678999999999999999877654322  34678887644

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

>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=95.81  E-value=0.0072  Score=51.31  Aligned_cols=24  Identities=42%  Similarity=0.677  Sum_probs=21.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+|.|.+|+||||||+.+.....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~   24 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999998764

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

>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=95.80  E-value=0.0088  Score=46.71  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.|+|..|+|||||.+.+.....
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            67999999999999999997654

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.

>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=95.79  E-value=0.016  Score=47.88  Aligned_cols=34  Identities=24%  Similarity=0.487  Sum_probs=28.1

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +++|.+.+.+   ++++++|.+|+|||||+..+....
T Consensus        26 ~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   26 IEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             HHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             HHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            5667777754   688999999999999999998754

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.78  E-value=0.03  Score=52.77  Aligned_cols=112  Identities=12%  Similarity=0.071  Sum_probs=57.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ....|.|.|+.|+||||+++.+......  +....++. +.++.  +-........+...............+...+. .
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i~~--~~~~~i~t-iEdp~--E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr-~  194 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYINK--NAAGHIIT-IEDPI--EYVHRNKRSLINQREVGLDTLSFANALRAALR-E  194 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhhCc--CCCCEEEE-EcCCh--hhhccCccceEEccccCCCCcCHHHHHHHhhc-c
Confidence            3478999999999999999998876532  23333332 22221  11100000000000000111122333444454 5


Q ss_pred             CeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhh
Q 047930          254 KRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDV  294 (395)
Q Consensus       254 kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~v  294 (395)
                      .+=.|++|++.+.+.+......   ...|..++.|....+.
T Consensus       195 ~pd~i~vgEird~~~~~~~l~a---a~tGh~v~~T~Ha~~~  232 (343)
T TIGR01420       195 DPDVILIGEMRDLETVELALTA---AETGHLVFGTLHTNSA  232 (343)
T ss_pred             CCCEEEEeCCCCHHHHHHHHHH---HHcCCcEEEEEcCCCH
Confidence            6789999999877665542222   2235556666665443

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.

>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=95.78  E-value=0.047  Score=45.71  Aligned_cols=67  Identities=18%  Similarity=0.240  Sum_probs=36.3

Q ss_pred             hchHHHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          157 ESRMSTLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       157 ~gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      +|....+.++++.+.   ... .-|.|+|..|+||+.+|+.+++.....  -...+-|+++.- +.+.+..++.
T Consensus         2 iG~s~~m~~~~~~~~~~a~~~-~pVlI~GE~GtGK~~lA~~IH~~s~r~--~~pfi~vnc~~~-~~~~~e~~LF   71 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAASSD-LPVLITGETGTGKELLARAIHNNSPRK--NGPFISVNCAAL-PEELLESELF   71 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTTST-S-EEEECSTTSSHHHHHHHHHHCSTTT--TS-EEEEETTTS--HHHHHHHHH
T ss_pred             EeCCHHHHHHHHHHHHHhCCC-CCEEEEcCCCCcHHHHHHHHHHhhhcc--cCCeEEEehhhh-hcchhhhhhh
Confidence            344445555554443   333 446699999999999999999864321  223344555432 3333333333

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 ....

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=95.78  E-value=0.082  Score=49.22  Aligned_cols=48  Identities=25%  Similarity=0.405  Sum_probs=36.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFA  227 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~  227 (395)
                      ..++|.|..|+|||+|++++.+...    -+.++++-+.... .+.+++.++-
T Consensus       158 qr~~I~G~~G~GKT~L~~~Iak~~~----~dvvVyv~iGERg~Ev~e~l~ef~  206 (369)
T cd01134         158 GTAAIPGPFGCGKTVIQQSLSKYSN----SDIVIYVGCGERGNEMTEVLEEFP  206 (369)
T ss_pred             CEEEEECCCCCChHHHHHHHHhCCC----CCEEEEEEeCCChHHHHHHHHHHH
Confidence            4688999999999999999998643    4578888887653 4555666653

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.77  E-value=0.018  Score=45.97  Aligned_cols=27  Identities=26%  Similarity=0.220  Sum_probs=23.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      -.+|.+.|.-|+||||+++.+......
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            358999999999999999999987653

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.

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

Probab=95.77  E-value=0.035  Score=46.62  Aligned_cols=47  Identities=19%  Similarity=0.307  Sum_probs=30.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      ++.|.|.+|+||||+|..+......     .++++.....+ ..+..+.|...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~-----~~~~iat~~~~-~~e~~~ri~~h   49 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGL-----QVLYIATAQPF-DDEMAARIAHH   49 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCC-----CcEeCcCCCCC-hHHHHHHHHHH
Confidence            6889999999999999999876432     13444444333 33444555443

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=95.77  E-value=0.028  Score=52.74  Aligned_cols=64  Identities=20%  Similarity=0.193  Sum_probs=45.6

Q ss_pred             hhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          156 FESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ++|+++....+...+..++  .+.+.|++|+|||+||+.+.......     ..++.+.......++....
T Consensus        26 ~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l~~~-----~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          26 VVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARALGLP-----FVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHhCCC-----eEEEecCCCCCHHHhcCch
Confidence            6677777777666665444  37789999999999999999876522     4566676666666654443

>smart00072 GuKc Guanylate kinase homologues

Probab=95.76  E-value=0.04  Score=46.92  Aligned_cols=25  Identities=28%  Similarity=0.410  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+.|.|+|++|+||+||+..+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            3578999999999999999998875

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.76  E-value=0.044  Score=50.70  Aligned_cols=37  Identities=27%  Similarity=0.485  Sum_probs=28.4

Q ss_pred             HHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          165 DILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       165 ~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+++.+.  .....+|+|.|++|+|||||+..+......
T Consensus        22 ~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~   60 (300)
T TIGR00750        22 QLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELRR   60 (300)
T ss_pred             HHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3444443  356789999999999999999999887554

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.76  E-value=0.0084  Score=52.05  Aligned_cols=25  Identities=28%  Similarity=0.425  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|+|+|++|+|||||++.+....
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4679999999999999999999864

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.76  E-value=0.033  Score=56.59  Aligned_cols=75  Identities=19%  Similarity=0.174  Sum_probs=48.3

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhC
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLG  231 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~  231 (395)
                      ...++|.++.++.+...+..+.  .+.++|+.|+||||+++.+.+..... .|...+++.-+ ..+..++++.++..++
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l~~~-~~~~~~~~~n~-~~~~~~~~~~v~~~~g   91 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELLPDE-ELEDILVYPNP-EDPNMPRIVEVPAGEG   91 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHcCch-hheeEEEEeCC-CCCchHHHHHHHHhhc
Confidence            4567788887777766665543  56699999999999999999876532 33333333222 2244455666655543

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.75  E-value=0.057  Score=52.34  Aligned_cols=88  Identities=20%  Similarity=0.395  Sum_probs=55.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccchh-----h
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEETES-----G  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~~~-----~  241 (395)
                      .-++|.|.+|+|||||+.++......+. -+.++++-+.... ...++++++...-...        .+.....     .
T Consensus       145 QR~gIfa~~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~  223 (463)
T PRK09280        145 GKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVAL  223 (463)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            4588999999999999999887765332 2467777776543 4566666666532211        1111111     1


Q ss_pred             hHHHHHHHHh--cCCeEEEEEeCCC
Q 047930          242 RARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       242 ~~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                      ....+.+++.  +++++||++||+-
T Consensus       224 ~a~tiAEyfrd~~G~~VLll~DslT  248 (463)
T PRK09280        224 TGLTMAEYFRDVEGQDVLLFIDNIF  248 (463)
T ss_pred             HHHHHHHHHHHhcCCceEEEecchH
Confidence            1234555552  5899999999984

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=95.75  E-value=0.054  Score=51.32  Aligned_cols=41  Identities=27%  Similarity=0.359  Sum_probs=31.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI  216 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~  216 (395)
                      .++.|.|.+|+|||.||-.++.+..........++++....
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~   42 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHP   42 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecch
Confidence            47899999999999999999998722233555677776554

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.73  E-value=0.0079  Score=48.58  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=20.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |+|+|+.|+|||||++.+....
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            7899999999999999999764

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.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=95.73  E-value=0.18  Score=51.87  Aligned_cols=47  Identities=15%  Similarity=0.355  Sum_probs=33.1

Q ss_pred             ccchhchHHHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          153 YEAFESRMSTLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...++|....+.++++.+.   .... -|.|+|..|+||+++|+.+.+...
T Consensus       324 ~~~l~g~s~~~~~~~~~~~~~a~~~~-pvli~Ge~GtGK~~~A~~ih~~s~  373 (638)
T PRK11388        324 FDHMPQDSPQMRRLIHFGRQAAKSSF-PVLLCGEEGVGKALLAQAIHNESE  373 (638)
T ss_pred             ccceEECCHHHHHHHHHHHHHhCcCC-CEEEECCCCcCHHHHHHHHHHhCC
Confidence            3446677666666555443   2333 367999999999999999988643

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=95.73  E-value=0.047  Score=52.66  Aligned_cols=89  Identities=17%  Similarity=0.248  Sum_probs=56.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc------c-----CCCCEEEEEEeCCcCCHHHHHHHHHHHhC-CCc-------cc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN------E-----KLFDQVIFVEVSQIQDIRKIQGEFADKLG-LTL-------HE  236 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~------~-----~~f~~~~wv~~s~~~~~~~~~~~i~~~l~-~~~-------~~  236 (395)
                      .-++|.|-+|+|||||+.++.+....      +     ..-..++++.+.......+.+.+.+..-+ ...       .+
T Consensus       142 QRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd  221 (466)
T TIGR01040       142 QKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLAN  221 (466)
T ss_pred             CeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCC
Confidence            34889999999999999999877641      0     01115677778777666666666665544 111       01


Q ss_pred             cchh------hhHHHHHHHHh--cCCeEEEEEeCCC
Q 047930          237 ETES------GRARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       237 ~~~~------~~~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                      .+..      ...-.+.+++.  +++++||++||+-
T Consensus       222 ~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslT  257 (466)
T TIGR01040       222 DPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMS  257 (466)
T ss_pred             CCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChH
Confidence            1111      11224556665  4899999999994

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=95.73  E-value=0.064  Score=47.80  Aligned_cols=141  Identities=16%  Similarity=0.139  Sum_probs=71.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccC----------CCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCcc----------
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEK----------LFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTLH----------  235 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~----------~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~----------  235 (395)
                      +-.|+|++|+|||+|+.+++-....-.          .-..+++++...+. .+..-+..+...++....          
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~g~   82 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDSGR   82 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEeccC
Confidence            457899999999999999987543211          11235666655433 233334444443321100          


Q ss_pred             -------c---cchhhhHHHHHHHHhcCCeEEEEEeCCCC--------ccccchhccccCC--CCCCcEEEEeecchhhh
Q 047930          236 -------E---ETESGRARSLCNRLKKEKRILVILDNIWE--------NLDFQAVGIPHGD--GHKGSKVLLTARSLDVL  295 (395)
Q Consensus       236 -------~---~~~~~~~~~l~~~l~~~kr~LlVlDdv~~--------~~~~~~l~~~l~~--~~~gs~iivTtR~~~va  295 (395)
                             .   ......+..+.+.+...+.-+||+|-+..        ......+...+..  ...|+.||+++....-.
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~lvviDpl~~~~~~~~~d~~~~~~~~~~L~~~a~~~g~avl~v~H~~K~~  162 (239)
T cd01125          83 IQPISIAREGRIIVVPEFERIIEQLLIRRIDLVVIDPLVSFHGVSENDNGAMDAVIKALRRIAAQTGAAILLVHHVRKGS  162 (239)
T ss_pred             CCceecccCCcccccHHHHHHHHHHHhcCCCEEEECChHHhCCCCcCCHHHHHHHHHHHHHHHHHhCCEEEEEeccCccc
Confidence                   0   00122344555555435677999996532        1122222222211  22366777777653211


Q ss_pred             h-------------hcC-CCcceeecCCCChHHHHH
Q 047930          296 S-------------RKM-DSQQNFSFDVLKEDEAWS  317 (395)
Q Consensus       296 ~-------------~~~-~~~~~~~l~~L~~~e~~~  317 (395)
                      .             ... .....+.+.+++++++.+
T Consensus       163 ~~~~~~~~~~rGssal~~~~r~~~~l~~~~~~~~~~  198 (239)
T cd01125         163 AKDGDTQEAARGASALVDGARWVRALTRMTSEEAEK  198 (239)
T ss_pred             ccCcccccccCcHHHHhcccceEEEEeeCCHHHHHh
Confidence            0             001 122367777888887776

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

>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=95.71  E-value=0.017  Score=53.53  Aligned_cols=47  Identities=26%  Similarity=0.364  Sum_probs=41.0

Q ss_pred             cchhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          154 EAFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..|+|-++.++++++.+.      +..-+++.++|+.|.|||||+..+.+-..
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le  113 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLE  113 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhh
Confidence            368899999999999886      45678999999999999999999987764

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.71  E-value=0.017  Score=49.83  Aligned_cols=29  Identities=24%  Similarity=0.318  Sum_probs=25.1

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++..+|.|+|++|+||||||+.+.....
T Consensus        21 ~~~~~~i~i~G~~GsGKSTla~~l~~~l~   49 (198)
T PRK03846         21 GHKGVVLWFTGLSGSGKSTVAGALEEALH   49 (198)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35667999999999999999999998654

>PRK14529 adenylate kinase; Provisional

Probab=95.70  E-value=0.043  Score=48.15  Aligned_cols=83  Identities=18%  Similarity=0.199  Sum_probs=46.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCE--EEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQ--VIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~--~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      |.|.|++|+||||+++.+....... +.+.  .+.-.+..........++++.+-.    -.++.-....+.+++.+...
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~-~is~gdllr~~i~~~t~lg~~i~~~i~~G~----lvpdei~~~lv~~~l~~~~~   77 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLA-HIESGAIFREHIGGGTELGKKAKEYIDRGD----LVPDDITIPMILETLKQDGK   77 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-CcccchhhhhhccCCChHHHHHHHHHhccC----cchHHHHHHHHHHHHhccCC
Confidence            7889999999999999999876532 2221  111122222233333444443321    12233344556666653224


Q ss_pred             EEEEEeCCCC
Q 047930          256 ILVILDNIWE  265 (395)
Q Consensus       256 ~LlVlDdv~~  265 (395)
                      -=+|||+.-.
T Consensus        78 ~g~iLDGfPR   87 (223)
T PRK14529         78 NGWLLDGFPR   87 (223)
T ss_pred             CcEEEeCCCC
Confidence            4589999843

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

Probab=95.69  E-value=0.011  Score=48.79  Aligned_cols=29  Identities=38%  Similarity=0.593  Sum_probs=25.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK  203 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~  203 (395)
                      .++++|+|..|+|||||...+....+.+.
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~G   30 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKARG   30 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhCC
Confidence            46899999999999999999999887654

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.69  E-value=0.082  Score=47.82  Aligned_cols=89  Identities=16%  Similarity=0.290  Sum_probs=47.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      +..++.++|..|+||||++..+......+.  ..+.+++..... ....-+....+.++.+.....+...+....+.+..
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~--~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~  151 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKE  151 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcC--CeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHh
Confidence            446899999999999999999877654321  235555553221 12222333444444332221222223333444432


Q ss_pred             -CCeEEEEEeCCC
Q 047930          253 -EKRILVILDNIW  264 (395)
Q Consensus       253 -~kr~LlVlDdv~  264 (395)
                       .+.=++++|..-
T Consensus       152 ~~~~D~ViIDt~G  164 (270)
T PRK06731        152 EARVDYILIDTAG  164 (270)
T ss_pred             cCCCCEEEEECCC
Confidence             234578888773

>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=95.69  E-value=0.036  Score=45.84  Aligned_cols=111  Identities=16%  Similarity=0.256  Sum_probs=56.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC--CHHHHHHHHHHHhCCCccccch-hhhHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ--DIRKIQGEFADKLGLTLHEETE-SGRARSLCNRLKK  252 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~--~~~~~~~~i~~~l~~~~~~~~~-~~~~~~l~~~l~~  252 (395)
                      .+++|+|..|.|||||++.+.....   .....+++.-....  ....    ....++.-.. .+. ....-.+...+. 
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~---~~~G~i~~~~~~~~~~~~~~----~~~~i~~~~q-lS~G~~~r~~l~~~l~-   96 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLK---PTSGEILIDGKDIAKLPLEE----LRRRIGYVPQ-LSGGQRQRVALARALL-   96 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC---CCccEEEECCEEcccCCHHH----HHhceEEEee-CCHHHHHHHHHHHHHh-
Confidence            5789999999999999999987543   23444544322111  1111    1111111000 111 112223444444 


Q ss_pred             CCeEEEEEeCCCCcc---ccchhccccCC-CCCCcEEEEeecchhhh
Q 047930          253 EKRILVILDNIWENL---DFQAVGIPHGD-GHKGSKVLLTARSLDVL  295 (395)
Q Consensus       253 ~kr~LlVlDdv~~~~---~~~~l~~~l~~-~~~gs~iivTtR~~~va  295 (395)
                      ..+-++++|+.....   ....+...+.. ...+..+|++|.+....
T Consensus        97 ~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~  143 (157)
T cd00267          97 LNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELA  143 (157)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            457899999985432   22222222211 11246688888876554

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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=95.69  E-value=0.034  Score=57.21  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..|+|+|.+|+|||||++.+..-
T Consensus       500 e~vaIvG~SGsGKSTL~KLL~gl  522 (709)
T COG2274         500 EKVAIVGRSGSGKSTLLKLLLGL  522 (709)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999998754

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.68  E-value=0.055  Score=48.47  Aligned_cols=24  Identities=21%  Similarity=0.412  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+|.|.+|+||||+++.+.....
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~   24 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFA   24 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999987754

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.68  E-value=0.0089  Score=51.08  Aligned_cols=24  Identities=21%  Similarity=0.466  Sum_probs=21.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            368899999999999999997654

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

Probab=95.68  E-value=0.013  Score=51.11  Aligned_cols=23  Identities=48%  Similarity=0.650  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|.+|+|||||++.+.--
T Consensus        34 e~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhcc
Confidence            47999999999999999998754

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.67  E-value=0.011  Score=50.58  Aligned_cols=26  Identities=19%  Similarity=0.324  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998754

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.67  E-value=0.0094  Score=52.30  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=20.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      -.++|+|++|+|||||.+.+.-
T Consensus        30 EfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4799999999999999999874

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.66  E-value=0.085  Score=46.65  Aligned_cols=92  Identities=18%  Similarity=0.319  Sum_probs=54.1

Q ss_pred             cchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          154 EAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      .++-|=.+.+++|.+...             -..++-|.++|++|+|||-+|+.++|.-..  .|     +.+-.    .
T Consensus       177 ~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtda--cf-----irvig----s  245 (435)
T KOG0729|consen  177 SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDA--CF-----IRVIG----S  245 (435)
T ss_pred             ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCc--eE-----Eeehh----H
Confidence            344444556666555432             124566889999999999999999986542  23     22211    1


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCC
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                      ++.++..   +      ........+.+-....|-|+|+||+++.
T Consensus       246 elvqkyv---g------egarmvrelf~martkkaciiffdeida  281 (435)
T KOG0729|consen  246 ELVQKYV---G------EGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             HHHHHHh---h------hhHHHHHHHHHHhcccceEEEEeecccc
Confidence            2222211   1      1122345555555567889999998853

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=95.66  E-value=0.046  Score=53.11  Aligned_cols=90  Identities=21%  Similarity=0.276  Sum_probs=55.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCC--CEEEEEEeCCcC-CHHHHHHHHHHHhCCCc-------cccchh-----
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLF--DQVIFVEVSQIQ-DIRKIQGEFADKLGLTL-------HEETES-----  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f--~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-------~~~~~~-----  240 (395)
                      .-++|.|..|+|||||+.++.+....++.+  ..++++.+.+.. ...+++..+...-....       .+.+..     
T Consensus       142 QR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a  221 (458)
T TIGR01041       142 QKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVT  221 (458)
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHH
Confidence            348899999999999999999876432111  156777776543 45666666654322110       011111     


Q ss_pred             -hhHHHHHHHHh--cCCeEEEEEeCCCC
Q 047930          241 -GRARSLCNRLK--KEKRILVILDNIWE  265 (395)
Q Consensus       241 -~~~~~l~~~l~--~~kr~LlVlDdv~~  265 (395)
                       .....+.+++.  +++++||++||+-.
T Consensus       222 ~~~a~tiAEyfr~d~G~~VLli~DslTR  249 (458)
T TIGR01041       222 PRMALTAAEYLAFEKDMHVLVILTDMTN  249 (458)
T ss_pred             HHHHHHHHHHHHHccCCcEEEEEcChhH
Confidence             12234566665  58999999999843

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK13947 shikimate kinase; Provisional

Probab=95.65  E-value=0.01  Score=49.87  Aligned_cols=24  Identities=38%  Similarity=0.494  Sum_probs=21.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|+|++|+||||+++.+.+...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999998764

>PRK06936 type III secretion system ATPase; Provisional

Probab=95.64  E-value=0.062  Score=51.79  Aligned_cols=87  Identities=23%  Similarity=0.395  Sum_probs=53.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCc-------cccchhh-----
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTL-------HEETESG-----  241 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-------~~~~~~~-----  241 (395)
                      -..++|.|..|+|||||.+.+++...    .+.++++-+.... ...++....+..-+...       .+.+...     
T Consensus       162 Gq~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (439)
T PRK06936        162 GQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAG  237 (439)
T ss_pred             CCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHH
Confidence            45689999999999999999998654    3567777776553 34554444333211110       0111111     


Q ss_pred             -hHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          242 -RARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       242 -~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                       ....+.+++. +++++||++||+-.
T Consensus       238 ~~a~tiAEyfrd~G~~Vll~~DslTR  263 (439)
T PRK06936        238 FVATSIAEYFRDQGKRVLLLMDSVTR  263 (439)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhH
Confidence             1223445552 58999999999943

>cd01878 HflX HflX subfamily

Probab=95.64  E-value=0.042  Score=47.56  Aligned_cols=27  Identities=19%  Similarity=0.347  Sum_probs=22.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +....|+|+|.+|+|||||...+....
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            345679999999999999999988763

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.64  E-value=0.048  Score=53.85  Aligned_cols=88  Identities=20%  Similarity=0.209  Sum_probs=47.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEE-EEEEeCCcCC-HHHHHHHHHHHh-CCCccccchh-----hhHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQV-IFVEVSQIQD-IRKIQGEFADKL-GLTLHEETES-----GRARSLC  247 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~-~wv~~s~~~~-~~~~~~~i~~~l-~~~~~~~~~~-----~~~~~l~  247 (395)
                      .-..|+|++|+|||||++.+.+..... +-++. +.+-+..... +.++.+.+-..+ ....+.....     .....+.
T Consensus       417 QR~LIvgpp~aGKTtLL~~IAn~i~~n-~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~~A  495 (672)
T PRK12678        417 QRGLIVSPPKAGKTTILQNIANAITTN-NPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIERA  495 (672)
T ss_pred             CEeEEeCCCCCCHHHHHHHHHHHHhhc-CCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHHHH
Confidence            347799999999999999999866432 23443 3445554432 233322221111 1111111111     1222344


Q ss_pred             HHH-hcCCeEEEEEeCCC
Q 047930          248 NRL-KKEKRILVILDNIW  264 (395)
Q Consensus       248 ~~l-~~~kr~LlVlDdv~  264 (395)
                      +++ ..++.+||++|++-
T Consensus       496 e~fre~G~dVlillDSlT  513 (672)
T PRK12678        496 KRLVELGKDVVVLLDSIT  513 (672)
T ss_pred             HHHHHcCCCEEEEEeCch
Confidence            444 25899999999984

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.64  E-value=0.0084  Score=49.96  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|++|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999765

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.

>PRK05922 type III secretion system ATPase; Validated

Probab=95.63  E-value=0.067  Score=51.54  Aligned_cols=86  Identities=15%  Similarity=0.334  Sum_probs=50.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCCcc----ccchh---------h
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLTLH----EETES---------G  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~----~~~~~---------~  241 (395)
                      ..++|.|..|+|||||.+.+.....    .+...++.++. .....+.+.+..........    ..++.         .
T Consensus       158 qrigI~G~nG~GKSTLL~~Ia~~~~----~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~  233 (434)
T PRK05922        158 QRIGVFSEPGSGKSSLLSTIAKGSK----STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGR  233 (434)
T ss_pred             cEEEEECCCCCChHHHHHHHhccCC----CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHH
Confidence            4589999999999999999986543    23334433333 23345555555443322110    00111         1


Q ss_pred             hHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          242 RARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       242 ~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      ....+.+++. +++++||++||+-.
T Consensus       234 ~a~tiAEyfrd~G~~VLl~~DslTR  258 (434)
T PRK05922        234 AAMTIAEYFRDQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhH
Confidence            1224555553 58999999999943

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.63  E-value=0.052  Score=52.20  Aligned_cols=87  Identities=23%  Similarity=0.343  Sum_probs=48.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC--------ccccchh-----hh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT--------LHEETES-----GR  242 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~--------~~~~~~~-----~~  242 (395)
                      ..++|.|..|+|||||++.+......   ...++...-.......++.++.+..-+..        .++....     ..
T Consensus       141 q~i~I~G~sG~GKTtLl~~I~~~~~~---~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~~  217 (418)
T TIGR03498       141 QRLGIFAGSGVGKSTLLSMLARNTDA---DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYT  217 (418)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCCC---CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHHH
Confidence            56899999999999999988865432   22233222222334555555544432211        1111111     11


Q ss_pred             HHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          243 ARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       243 ~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      ...+.+++. ++++.||++||+-.
T Consensus       218 a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       218 ATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHcCCCEEEeccchhH
Confidence            223455553 48899999999843

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>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=95.62  E-value=0.011  Score=45.08  Aligned_cols=21  Identities=48%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVA  196 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~  196 (395)
                      ..++|.|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            578999999999999999976

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

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.60  E-value=2.3  Score=40.77  Aligned_cols=58  Identities=21%  Similarity=0.307  Sum_probs=38.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC-CcCCHHHHHHHHHHHhCCC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS-QIQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s-~~~~~~~~~~~i~~~l~~~  233 (395)
                      .+.+|-.+|.-|.||||.+..+++..+.+. +. +.-|++. ..+...+-++.+.++++.+
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk~~-~k-vllVaaD~~RpAA~eQL~~La~q~~v~  157 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKKKG-KK-VLLVAADTYRPAAIEQLKQLAEQVGVP  157 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHHcC-Cc-eEEEecccCChHHHHHHHHHHHHcCCc
Confidence            468899999999999999999988876532 22 2333322 2234455667777776543

>PRK15453 phosphoribulokinase; Provisional

Probab=95.59  E-value=0.089  Score=47.53  Aligned_cols=28  Identities=18%  Similarity=0.369  Sum_probs=23.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+..+|+|.|.+|+||||+++.+.+...
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~   30 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFR   30 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3567999999999999999999986553

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.57  E-value=0.075  Score=45.15  Aligned_cols=119  Identities=20%  Similarity=0.129  Sum_probs=63.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEE-EEEEeCCcCCHHHHHHHHH--HH--hCCC--ccc-cc--hhh--
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQV-IFVEVSQIQDIRKIQGEFA--DK--LGLT--LHE-ET--ESG--  241 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~-~wv~~s~~~~~~~~~~~i~--~~--l~~~--~~~-~~--~~~--  241 (395)
                      ....|.|+|..|-||||.|.-+.-.......--.+ =|+--.........+..+-  ..  .+..  ... ..  +..  
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~  100 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAA  100 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHH
Confidence            34678999999999999999988776543221111 1222222334444444321  00  0110  000 11  111  


Q ss_pred             --hHHHHHHHHhcCCeEEEEEeCCCCc-----cccchhccccCCCCCCcEEEEeecch
Q 047930          242 --RARSLCNRLKKEKRILVILDNIWEN-----LDFQAVGIPHGDGHKGSKVLLTARSL  292 (395)
Q Consensus       242 --~~~~l~~~l~~~kr~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtR~~  292 (395)
                        ......+.+..++-=|||||++-..     ...+++...+.....+.-||+|-|+.
T Consensus       101 ~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        101 REGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence              1233444444444459999998543     23344544554455677899999984

>PRK13949 shikimate kinase; Provisional

Probab=95.55  E-value=0.012  Score=49.51  Aligned_cols=24  Identities=42%  Similarity=0.513  Sum_probs=21.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      -|.|+|+.|+||||+++.+.....
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            488999999999999999998764

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.55  E-value=0.045  Score=52.90  Aligned_cols=89  Identities=19%  Similarity=0.336  Sum_probs=51.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCc-------cccchh------
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTL-------HEETES------  240 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~-------~~~~~~------  240 (395)
                      +-..++|.|..|+|||||++.+.......   .+++...-.......++.+.+...-+...       .+.+..      
T Consensus       162 ~Gq~~~I~G~sG~GKTtLl~~ia~~~~~d---~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~  238 (441)
T PRK09099        162 EGQRMGIFAPAGVGKSTLMGMFARGTQCD---VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAA  238 (441)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC---eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHH
Confidence            34578999999999999999998654321   23433333334455565565554322110       001111      


Q ss_pred             hhHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          241 GRARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       241 ~~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      .....+.+++. +++++||++||+-.
T Consensus       239 ~~a~tiAEyfrd~G~~VLl~~DslTr  264 (441)
T PRK09099        239 YVATAIAEYFRDRGLRVLLMMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhH
Confidence            11223444543 58899999999843

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.54  E-value=0.012  Score=48.39  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=20.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.|+|++|+||||+|+.+.....
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999987754

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.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=95.54  E-value=0.0068  Score=52.56  Aligned_cols=23  Identities=26%  Similarity=0.261  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|.||||+.+.+...
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~~   52 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGLA   52 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHHH
Confidence            68999999999999999999843

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>TIGR01351 adk adenylate kinases

Probab=95.53  E-value=0.054  Score=47.20  Aligned_cols=23  Identities=43%  Similarity=0.473  Sum_probs=20.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.|.|++|+||||+|+.+.....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g   24 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYG   24 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67899999999999999987643

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

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

Probab=95.53  E-value=0.12  Score=46.91  Aligned_cols=51  Identities=16%  Similarity=0.182  Sum_probs=35.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .++.|.|.+|+||||++.++......+ +-..++|++...  +..++...+...
T Consensus        31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~--~~~~~~~r~~~~   81 (271)
T cd01122          31 ELIILTAGTGVGKTTFLREYALDLITQ-HGVRVGTISLEE--PVVRTARRLLGQ   81 (271)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHHh-cCceEEEEEccc--CHHHHHHHHHHH
Confidence            478899999999999999988765432 123578887755  345565555443

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

>PRK04182 cytidylate kinase; Provisional

Probab=95.53  E-value=0.029  Score=47.38  Aligned_cols=24  Identities=42%  Similarity=0.534  Sum_probs=21.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|.|.|+.|+||||+++.+.+...
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999998754

>PRK14530 adenylate kinase; Provisional

Probab=95.52  E-value=0.012  Score=51.45  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|+|++|+||||+++.+.....
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999987653

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=95.52  E-value=0.082  Score=49.09  Aligned_cols=86  Identities=22%  Similarity=0.360  Sum_probs=50.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC-CcCCHHHHHHHHHHHhCCC--------ccccchh-----h
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS-QIQDIRKIQGEFADKLGLT--------LHEETES-----G  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s-~~~~~~~~~~~i~~~l~~~--------~~~~~~~-----~  241 (395)
                      ..++|.|..|+|||||++.+.....    .+..+...+. ......++.......-+..        .++....     .
T Consensus        70 qri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~  145 (326)
T cd01136          70 QRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAY  145 (326)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHH
Confidence            5689999999999999998887543    2333444443 3345556555555442211        1111111     1


Q ss_pred             hHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          242 RARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       242 ~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      ..-.+.+++. +++.+||++||+-.
T Consensus       146 ~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         146 TATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHcCCCeEEEeccchH
Confidence            1223444442 48899999999843

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=95.51  E-value=0.055  Score=48.73  Aligned_cols=94  Identities=14%  Similarity=0.242  Sum_probs=53.5

Q ss_pred             eEEEEEecCCCcHHHHH-HHHHHHhcccCCCCE-EEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccchhh---
Q 047930          176 NMLGIYGMGGIGKTTLA-KEVARKAENEKLFDQ-VIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEETESG---  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~-~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~~~~---  241 (395)
                      .-++|.|..|+|||+|+ ..+.+...    -+. ++++-+.... ...++.+++...-...        .++.....   
T Consensus        70 Qr~~Ifg~~g~GKt~L~l~~i~~~~~----~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a  145 (274)
T cd01132          70 QRELIIGDRQTGKTAIAIDTIINQKG----KKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLA  145 (274)
T ss_pred             CEEEeeCCCCCCccHHHHHHHHHhcC----CCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHH
Confidence            34889999999999995 55655432    233 4677776553 4566666665432111        11111110   


Q ss_pred             --hHHHHHHHHh-cCCeEEEEEeCCCCc-cccchhc
Q 047930          242 --RARSLCNRLK-KEKRILVILDNIWEN-LDFQAVG  273 (395)
Q Consensus       242 --~~~~l~~~l~-~~kr~LlVlDdv~~~-~~~~~l~  273 (395)
                        ..-.+.+++. +++..||++||+-.. ..+.++.
T Consensus       146 ~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEis  181 (274)
T cd01132         146 PYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMS  181 (274)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHH
Confidence              1223344443 478999999999543 3455543

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

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.51  E-value=0.014  Score=49.19  Aligned_cols=26  Identities=23%  Similarity=0.393  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...|.|+|+.|+||||+++.+.....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcC
Confidence            34689999999999999999998753

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=95.51  E-value=0.027  Score=52.07  Aligned_cols=42  Identities=26%  Similarity=0.423  Sum_probs=28.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI  219 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~  219 (395)
                      +++.+.|.||+||||+|...+-....++  ..++-++.....++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~~L   43 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRG--KRTLLVSTDPAHSL   43 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTTHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCccH
Confidence            5789999999999999988877654432  22444454443333

...

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.50  E-value=0.013  Score=50.93  Aligned_cols=26  Identities=19%  Similarity=0.370  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ...+.|.|+|++|+|||||++.+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            35678999999999999999999754

>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=95.50  E-value=0.013  Score=49.16  Aligned_cols=23  Identities=43%  Similarity=0.554  Sum_probs=20.0

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.|.|..|+|||||++.+++..+
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~   24 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELK   24 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhh
Confidence            67999999999999999998864

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.50  E-value=0.015  Score=50.16  Aligned_cols=25  Identities=32%  Similarity=0.484  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|.|.|.+|+||||+|+.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999874

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=95.50  E-value=0.047  Score=52.59  Aligned_cols=86  Identities=16%  Similarity=0.293  Sum_probs=50.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCC-------ccccchhh-----
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLT-------LHEETESG-----  241 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~-------~~~~~~~~-----  241 (395)
                      -..++|.|..|+|||||++.+.....    .+..++..+.. ...+.+++.+....-...       ....+...     
T Consensus       155 GqrigI~G~sG~GKSTLL~~I~~~~~----~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~  230 (433)
T PRK07594        155 GQRVGIFSAPGVGKSTLLAMLCNAPD----ADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRAL  230 (433)
T ss_pred             CCEEEEECCCCCCccHHHHHhcCCCC----CCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHH
Confidence            35689999999999999998886543    44455555554 334445555543311100       00011111     


Q ss_pred             -hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 -RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 -~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                       ....+.+++. +++++||++||+-
T Consensus       231 ~~a~tiAEyfrd~G~~VLl~~Dslt  255 (433)
T PRK07594        231 FVATTIAEFFRDNGKRVVLLADSLT  255 (433)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCHH
Confidence             1223445553 5889999999994

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=95.50  E-value=0.052  Score=48.92  Aligned_cols=28  Identities=25%  Similarity=0.287  Sum_probs=24.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++-+++.+|.+|+||.-.++.++++..
T Consensus       108 ~KPLvLSfHG~tGTGKN~Va~iiA~n~~  135 (344)
T KOG2170|consen  108 RKPLVLSFHGWTGTGKNYVAEIIAENLY  135 (344)
T ss_pred             CCCeEEEecCCCCCchhHHHHHHHHHHH
Confidence            3577999999999999999999998754

>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=95.50  E-value=0.015  Score=45.73  Aligned_cols=24  Identities=46%  Similarity=0.587  Sum_probs=18.0

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +.|+|.+|+||||+|+.+......
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~   25 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGL   25 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT-
T ss_pred             EeeECCCccHHHHHHHHHHHHcCC
Confidence            679999999999999999988663

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.

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=95.49  E-value=0.044  Score=47.04  Aligned_cols=24  Identities=38%  Similarity=0.563  Sum_probs=22.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+|.|+.|+||||+++.+.+...
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~   25 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLE   25 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998764

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=95.48  E-value=0.031  Score=51.73  Aligned_cols=46  Identities=26%  Similarity=0.453  Sum_probs=31.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKI  222 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~  222 (395)
                      .+++.+.|.||+||||+|....-......  ..++-|+.....+..++
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g--~kvLlvStDPAhsL~d~   47 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESG--KKVLLVSTDPAHSLGDV   47 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcC--CcEEEEEeCCCCchHhh
Confidence            46899999999999999999766554432  33566665444444333

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.48  E-value=0.013  Score=48.35  Aligned_cols=33  Identities=24%  Similarity=0.330  Sum_probs=25.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEE
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIF  210 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~w  210 (395)
                      ++.|+|+.|+|||||+..+......+ .+...+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~-G~~V~vi   33 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR-GYRVATI   33 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEE
Confidence            57899999999999999999987643 3444333

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.46  E-value=0.012  Score=48.65  Aligned_cols=20  Identities=40%  Similarity=0.684  Sum_probs=18.8

Q ss_pred             EEEEEecCCCcHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVA  196 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~  196 (395)
                      .|+|.|.+|+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999988

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=95.46  E-value=0.019  Score=50.50  Aligned_cols=25  Identities=24%  Similarity=0.222  Sum_probs=21.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +.+++.|.|+.|.||||+.+.+...
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~~   53 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGVI   53 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHH
Confidence            4568999999999999999987643

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

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.45  E-value=0.032  Score=46.70  Aligned_cols=24  Identities=46%  Similarity=0.556  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|.|.|+.|+||||+|+.+.+...
T Consensus         2 iI~i~G~~GSGKstia~~la~~lg   25 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKLS   25 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999987643

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.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=95.44  E-value=0.062  Score=51.65  Aligned_cols=86  Identities=22%  Similarity=0.377  Sum_probs=49.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCC--------ccccchh-----
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLT--------LHEETES-----  240 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~--------~~~~~~~-----  240 (395)
                      -..++|.|..|+|||||+..+.....    .+..++..+... ....++...+...-...        .++....     
T Consensus       137 Gq~~~I~G~sG~GKTtLl~~I~~~~~----~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~  212 (411)
T TIGR03496       137 GQRMGIFAGSGVGKSTLLGMMARYTE----ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAA  212 (411)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCCC----CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHH
Confidence            34689999999999999998886543    234444555443 33455555544331111        1111100     


Q ss_pred             hhHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          241 GRARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       241 ~~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                      ...-.+.+++. ++++.||++||+-
T Consensus       213 ~~a~tiAEyfr~~G~~Vll~~Dslt  237 (411)
T TIGR03496       213 FYATAIAEYFRDQGKDVLLLMDSLT  237 (411)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEeChH
Confidence            11223445542 4889999999984

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK13975 thymidylate kinase; Provisional

Probab=95.43  E-value=0.015  Score=50.03  Aligned_cols=25  Identities=40%  Similarity=0.504  Sum_probs=22.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|+|.|+.|+||||+++.+.+...
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~   27 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLN   27 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999998865

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.43  E-value=0.048  Score=46.80  Aligned_cols=26  Identities=31%  Similarity=0.414  Sum_probs=23.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ..|+|.|..|+||||+++.+.+....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57999999999999999999987654

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.42  E-value=0.098  Score=51.83  Aligned_cols=49  Identities=16%  Similarity=0.142  Sum_probs=33.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .-+++.|.|.+|+||||+|.++......+ .=..++|++...  +..++.+.
T Consensus        20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~-~ge~~lyvs~eE--~~~~l~~~   68 (484)
T TIGR02655        20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIH-FDEPGVFVTFEE--SPQDIIKN   68 (484)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHh-CCCCEEEEEEec--CHHHHHHH
Confidence            45789999999999999999986553211 013578888753  44554444

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

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=95.41  E-value=0.013  Score=48.03  Aligned_cols=24  Identities=29%  Similarity=0.527  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ++.|+|.+|+||||+|+.+.....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999998764

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.40  E-value=0.028  Score=51.04  Aligned_cols=36  Identities=22%  Similarity=0.221  Sum_probs=30.0

Q ss_pred             HHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          166 ILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       166 l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...++...+..++.|.|..|+|||||+..+.+....
T Consensus        95 ~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~  130 (290)
T PRK10463         95 NRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKD  130 (290)
T ss_pred             HHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            444555678899999999999999999999988653

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=95.38  E-value=0.072  Score=51.40  Aligned_cols=87  Identities=18%  Similarity=0.179  Sum_probs=47.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH-HHHHHHHHHH-hCC------Cccccchh-----h
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI-RKIQGEFADK-LGL------TLHEETES-----G  241 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~-~~~~~~i~~~-l~~------~~~~~~~~-----~  241 (395)
                      -..++|.|..|+|||||++.+.....    -+..+...+...... .++....+.. +..      ..++.+..     .
T Consensus       157 Gq~~~i~G~sG~GKStLl~~i~~~~~----~~v~vi~~iGergrev~e~~~~~l~~~l~~tvvV~atsddsp~~R~~~~~  232 (434)
T PRK08472        157 GQKLGIFAGSGVGKSTLMGMIVKGCL----APIKVVALIGERGREIPEFIEKNLGGDLENTVIVVATSDDSPLMRKYGAF  232 (434)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhccC----CCEEEEEeeCccchhHHHHHHHHhcCcccceEEEEECCCCCHHHhhHHHH
Confidence            35789999999999999999986543    234444444444322 2332222211 100      00011100     1


Q ss_pred             hHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          242 RARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       242 ~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      ....+.+++. +++++||++||+-.
T Consensus       233 ~a~~iAEyFrd~G~~Vll~~DslTr  257 (434)
T PRK08472        233 CAMSVAEYFKNQGLDVLFIMDSVTR  257 (434)
T ss_pred             HHHHHHHHHHHcCCCEEEecccchH
Confidence            1234455553 48999999999953

>PRK13948 shikimate kinase; Provisional

Probab=95.37  E-value=0.019  Score=48.81  Aligned_cols=28  Identities=25%  Similarity=0.399  Sum_probs=24.2

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .....|.++|+.|+||||+++.+.+...
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3457899999999999999999998764

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.36  E-value=0.014  Score=48.68  Aligned_cols=21  Identities=38%  Similarity=0.452  Sum_probs=17.8

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |+|.|..|+|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999976

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=95.35  E-value=0.84  Score=40.28  Aligned_cols=73  Identities=26%  Similarity=0.350  Sum_probs=44.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      .++-+.++|++|+|||.||+.++++-...  |     +.+..+    ++.++.   ++..      ......+..-.+.+
T Consensus       188 pprgvllygppg~gktml~kava~~t~a~--f-----irvvgs----efvqky---lgeg------prmvrdvfrlaken  247 (408)
T KOG0727|consen  188 PPRGVLLYGPPGTGKTMLAKAVANHTTAA--F-----IRVVGS----EFVQKY---LGEG------PRMVRDVFRLAKEN  247 (408)
T ss_pred             CCcceEEeCCCCCcHHHHHHHHhhccchh--e-----eeeccH----HHHHHH---hccC------cHHHHHHHHHHhcc
Confidence            45667799999999999999999876532  3     333221    222221   2211      12333444444456


Q ss_pred             CeEEEEEeCCCCc
Q 047930          254 KRILVILDNIWEN  266 (395)
Q Consensus       254 kr~LlVlDdv~~~  266 (395)
                      -+-++++|+++..
T Consensus       248 apsiifideidai  260 (408)
T KOG0727|consen  248 APSIIFIDEIDAI  260 (408)
T ss_pred             CCcEEEeehhhhH
Confidence            7889999998643

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=95.33  E-value=0.099  Score=50.60  Aligned_cols=89  Identities=19%  Similarity=0.356  Sum_probs=56.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCc-------cccchh------h
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTL-------HEETES------G  241 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~-------~~~~~~------~  241 (395)
                      .-++|.|.+|+|||||+.++......+ +-..++++-+.... ...+++.++...-....       .+.+..      .
T Consensus       144 Qr~~If~~~G~GKt~L~~~~~~~~~~~-~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~  222 (461)
T TIGR01039       144 GKIGLFGGAGVGKTVLIQELINNIAKE-HGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVAL  222 (461)
T ss_pred             CEEEeecCCCCChHHHHHHHHHHHHhc-CCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            458899999999999999998775432 23467777776543 45667776654321110       011111      1


Q ss_pred             hHHHHHHHHh--cCCeEEEEEeCCCC
Q 047930          242 RARSLCNRLK--KEKRILVILDNIWE  265 (395)
Q Consensus       242 ~~~~l~~~l~--~~kr~LlVlDdv~~  265 (395)
                      ....+.+++.  +++++||++||+-.
T Consensus       223 ~a~tiAEyfrd~~G~~VLll~DslTR  248 (461)
T TIGR01039       223 TGLTMAEYFRDEQGQDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHhcCCeeEEEecchhH
Confidence            2234556663  37899999999943

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

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

Probab=95.31  E-value=0.015  Score=50.75  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -.++|+|++|+|||||...+..-
T Consensus        32 e~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          32 EFVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            47999999999999999998754

>PRK00698 tmk thymidylate kinase; Validated

Probab=95.29  E-value=0.05  Score=47.07  Aligned_cols=26  Identities=27%  Similarity=0.386  Sum_probs=23.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+|+|.|+.|+||||+++.+.+....
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~~   29 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLEQ   29 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            58999999999999999999987653

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.28  E-value=0.016  Score=50.21  Aligned_cols=24  Identities=29%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..++.|.|+.|.||||+.+.+...
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~   52 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALL   52 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999988644

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

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=95.27  E-value=0.026  Score=46.73  Aligned_cols=27  Identities=30%  Similarity=0.521  Sum_probs=23.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      +++.|+|..|+|||||+..+.......
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~~   28 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSAR   28 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            579999999999999999999876543

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.27  E-value=0.11  Score=50.24  Aligned_cols=87  Identities=17%  Similarity=0.332  Sum_probs=50.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCC--------ccccchh-----
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLT--------LHEETES-----  240 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~--------~~~~~~~-----  240 (395)
                      -..++|+|..|+|||||++.+.....    .+.+++..+... ....++...+...-+..        .++.+..     
T Consensus       168 GqrigI~G~sG~GKSTLl~~I~g~~~----~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~  243 (451)
T PRK05688        168 GQRLGLFAGTGVGKSVLLGMMTRFTE----ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAA  243 (451)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC----CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHH
Confidence            34689999999999999998876432    344444444433 24455555554442221        1111110     


Q ss_pred             hhHHHHHHHHh-cCCeEEEEEeCCCC
Q 047930          241 GRARSLCNRLK-KEKRILVILDNIWE  265 (395)
Q Consensus       241 ~~~~~l~~~l~-~~kr~LlVlDdv~~  265 (395)
                      .....+.+++. +++++||++||+-.
T Consensus       244 ~~a~aiAEyfrd~G~~VLl~~DslTR  269 (451)
T PRK05688        244 MYCTRIAEYFRDKGKNVLLLMDSLTR  269 (451)
T ss_pred             HHHHHHHHHHHHCCCCEEEEecchhH
Confidence            11223444443 58999999999853

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=95.26  E-value=0.05  Score=49.21  Aligned_cols=29  Identities=38%  Similarity=0.417  Sum_probs=25.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      .+..+.|||+.|.|||-+|+.|+....+.
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~n  193 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVN  193 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCc
Confidence            36789999999999999999999887654

>PRK13946 shikimate kinase; Provisional

Probab=95.23  E-value=0.018  Score=49.13  Aligned_cols=26  Identities=23%  Similarity=0.382  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+.|.++|+.|+||||+++.+.+...
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            35799999999999999999998864

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.23  E-value=0.36  Score=49.17  Aligned_cols=167  Identities=15%  Similarity=0.136  Sum_probs=86.9

Q ss_pred             chHHHHHHHHHHhcCC---------CceEEEEEecCCCcHHHHHHHHHHHhcccCCC--CEEEEEEeCCcCCHHHHHHHH
Q 047930          158 SRMSTLNDILDALKNP---------DVNMLGIYGMGGIGKTTLAKEVARKAENEKLF--DQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       158 gr~~~~~~l~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f--~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      +++..+..+.+.+..+         -..++.++|.+|+||||+++.++...... -|  +|.-.++-+...+        
T Consensus       405 ~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h-~~evdc~el~~~s~~~~--------  475 (953)
T KOG0736|consen  405 GLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLH-LLEVDCYELVAESASHT--------  475 (953)
T ss_pred             cchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCCc-eEeccHHHHhhcccchh--------
Confidence            4555566677766521         24678899999999999999999876531 11  2211111111111        


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc-------cc------cchhc--cccCCCCCCcEEEEeecc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN-------LD------FQAVG--IPHGDGHKGSKVLLTARS  291 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~-------~~------~~~l~--~~l~~~~~gs~iivTtR~  291 (395)
                                   ...........+.-.+.+|.|-+++-.       ++      ...+.  ..+....++.-++.||.+
T Consensus       476 -------------etkl~~~f~~a~~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s  542 (953)
T KOG0736|consen  476 -------------ETKLQAIFSRARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSS  542 (953)
T ss_pred             -------------HHHHHHHHHHHhhcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccc
Confidence                         111122222222234455555544311       11      11111  112223445555555544


Q ss_pred             -hhhhhhc-CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          292 -LDVLSRK-MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       292 -~~va~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                       ++++... ....+.++++.+++++-.++|+-.+.....+.+.  ..+..+.+|.|.-+
T Consensus       543 ~~~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~~~n~~v--~~k~~a~~t~gfs~  599 (953)
T KOG0736|consen  543 IEDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNHLPLNQDV--NLKQLARKTSGFSF  599 (953)
T ss_pred             cccCCHHHHHhhhhhccCCCCCHHHHHHHHHHHHhccccchHH--HHHHHHHhcCCCCH
Confidence             4443211 1234688999999999999999887544333322  24567777776543

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.22  E-value=0.037  Score=45.90  Aligned_cols=33  Identities=27%  Similarity=0.399  Sum_probs=27.3

Q ss_pred             hcCCCceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          170 LKNPDVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       170 l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      +...+..+|-+.|.+|.||||+|..++......
T Consensus        18 ~~~~~~~viW~TGLSGsGKSTiA~ale~~L~~~   50 (197)
T COG0529          18 LKGQKGAVIWFTGLSGSGKSTIANALEEKLFAK   50 (197)
T ss_pred             HhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHc
Confidence            334566789999999999999999999987643

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.22  E-value=0.018  Score=48.69  Aligned_cols=25  Identities=20%  Similarity=0.352  Sum_probs=22.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++.|+|++|+|||||++.++....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4789999999999999999998654

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.20  E-value=0.13  Score=45.26  Aligned_cols=47  Identities=17%  Similarity=0.311  Sum_probs=33.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      -.++.|.|.+|+|||+++.+++.....+  =..++|++...  +..++.+.
T Consensus        16 g~~~li~G~~G~GKt~~~~~~~~~~~~~--g~~~~y~s~e~--~~~~l~~~   62 (224)
T TIGR03880        16 GHVIVVIGEYGTGKTTFSLQFLYQGLKN--GEKAMYISLEE--REERILGY   62 (224)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC--CHHHHHHH
Confidence            4688899999999999999988764332  24577887765  34444444

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

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.20  E-value=0.056  Score=48.90  Aligned_cols=35  Identities=20%  Similarity=0.157  Sum_probs=25.8

Q ss_pred             HHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          164 NDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       164 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.+..++ .....++.|.|+.|+||||++..+.+..
T Consensus        70 ~~l~~~~-~~~~GlilisG~tGSGKTT~l~all~~i  104 (264)
T cd01129          70 EIFRKLL-EKPHGIILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             HHHHHHH-hcCCCEEEEECCCCCcHHHHHHHHHhhh
Confidence            3343333 3445689999999999999999887664

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=95.19  E-value=0.085  Score=50.69  Aligned_cols=46  Identities=22%  Similarity=0.161  Sum_probs=32.9

Q ss_pred             chhchHHHHHHHHHHh-------cC----C-------CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDAL-------KN----P-------DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l-------~~----~-------~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.++.++.+...+       ..    .       ....+.++|++|+|||++|+.+.....
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~  141 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN  141 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC
Confidence            3577777777665444       11    1       125789999999999999999997654

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.19  E-value=0.062  Score=50.09  Aligned_cols=37  Identities=30%  Similarity=0.516  Sum_probs=28.7

Q ss_pred             HHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          165 DILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       165 ~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+++.+.  .++..+|+|.|.+|+|||||+..+......
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~   82 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIE   82 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3444443  456789999999999999999998877654

>TIGR01287 nifH nitrogenase iron protein

Probab=95.19  E-value=0.018  Score=52.52  Aligned_cols=27  Identities=37%  Similarity=0.673  Sum_probs=22.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      +.|+|.|-||+||||++..++.....+
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~   27 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEM   27 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHC
Confidence            468999999999999999988776543

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=95.18  E-value=0.02  Score=50.96  Aligned_cols=33  Identities=30%  Similarity=0.460  Sum_probs=22.9

Q ss_pred             EEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          180 IYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       180 I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      |+|++|+||||+++.+.+.....+  ..++-|+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~--~~~~~vNLD   33 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNG--RDVYIVNLD   33 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT---S-EEEEE--
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcc--CCceEEEcc
Confidence            689999999999999999876542  335555553

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=95.18  E-value=0.042  Score=50.63  Aligned_cols=54  Identities=24%  Similarity=0.263  Sum_probs=39.6

Q ss_pred             ccchhchHHHHHH---HHHHhcCC--CceEEEEEecCCCcHHHHHHHHHHHhcccCCCC
Q 047930          153 YEAFESRMSTLND---ILDALKNP--DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFD  206 (395)
Q Consensus       153 ~~~~~gr~~~~~~---l~~~l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~  206 (395)
                      ..+|+|..+..+.   +++.+.++  .-+.|.++|++|+|||+||-.+.+.....-+|.
T Consensus        38 ~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~   96 (450)
T COG1224          38 GDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFV   96 (450)
T ss_pred             CCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCce
Confidence            4568887655443   45555544  246789999999999999999999987665664

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.16  E-value=0.031  Score=45.04  Aligned_cols=37  Identities=16%  Similarity=0.267  Sum_probs=29.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE  212 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  212 (395)
                      -++.+.|++|+|||||..-+.-....+-.|...+|+.
T Consensus        29 eivtlMGPSGcGKSTLls~~~G~La~~F~~~G~~~l~   65 (213)
T COG4136          29 EIVTLMGPSGCGKSTLLSWMIGALAGQFSCTGELWLN   65 (213)
T ss_pred             cEEEEECCCCccHHHHHHHHHhhcccCcceeeEEEEC
Confidence            4789999999999999999888777652334578875

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

Probab=95.15  E-value=0.026  Score=51.23  Aligned_cols=28  Identities=29%  Similarity=0.458  Sum_probs=25.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEK  203 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~  203 (395)
                      ++|+|+|.+|+|||||+.++......+.
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G   29 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG   29 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            5799999999999999999999887654

>PLN02200 adenylate kinase family protein

Probab=95.15  E-value=0.022  Score=50.60  Aligned_cols=26  Identities=19%  Similarity=0.187  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+.+|.|.|++|+||||+++.+....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45688999999999999999998754

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

Probab=95.14  E-value=0.031  Score=48.19  Aligned_cols=30  Identities=33%  Similarity=0.368  Sum_probs=24.6

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ++.++..|.|++|+||||+++.+.......
T Consensus        16 ~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~   45 (196)
T PF13604_consen   16 SGDRVSVLQGPAGTGKTTLLKALAEALEAA   45 (196)
T ss_dssp             CTCSEEEEEESTTSTHHHHHHHHHHHHHHT
T ss_pred             cCCeEEEEEECCCCCHHHHHHHHHHHHHhC
Confidence            445678899999999999999988776553

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.14  E-value=0.18  Score=44.88  Aligned_cols=50  Identities=16%  Similarity=0.280  Sum_probs=34.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .++.|.|.+|+|||+++.++..+...+. =..++|++...  +..++...+..
T Consensus        14 ~l~lI~G~~G~GKT~~~~~~~~~~~~~~-g~~vly~s~E~--~~~~~~~r~~~   63 (242)
T cd00984          14 DLIIIAARPSMGKTAFALNIAENIAKKQ-GKPVLFFSLEM--SKEQLLQRLLA   63 (242)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCceEEEeCCC--CHHHHHHHHHH
Confidence            5788999999999999999887654431 22467776644  45555555543

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

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=95.11  E-value=0.061  Score=54.53  Aligned_cols=53  Identities=15%  Similarity=0.042  Sum_probs=33.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE-KLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .++..|.|.+|+||||++..+....... ..-...+.+..+..-....+.+.+.
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~  220 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG  220 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence            3578899999999999999888764321 1112455665554444444444443

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=95.11  E-value=0.083  Score=50.99  Aligned_cols=26  Identities=23%  Similarity=0.414  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +-..++|.|..|+|||||++.+....
T Consensus       154 ~GQ~igI~G~sGaGKSTLl~~I~g~~  179 (434)
T PRK07196        154 KGQRVGLMAGSGVGKSVLLGMITRYT  179 (434)
T ss_pred             cceEEEEECCCCCCccHHHHHHhccc
Confidence            34579999999999999999887654

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

Probab=95.10  E-value=0.091  Score=47.82  Aligned_cols=88  Identities=22%  Similarity=0.315  Sum_probs=49.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc-ccCC-------CCEEEEEEeCCc-CCHHHHHHHHHHHhCCCccccchh-------
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE-NEKL-------FDQVIFVEVSQI-QDIRKIQGEFADKLGLTLHEETES-------  240 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~-~~~~-------f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~~~~~-------  240 (395)
                      +..|.|.||+|||||+-..+-... .++.       ...+++|++... .++-.-++.+..+++.+..+..+.       
T Consensus        91 ~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~dltd~~G  170 (402)
T COG3598          91 VSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDLTDVSG  170 (402)
T ss_pred             eEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhheecccccc
Confidence            344669999999999987664321 1222       335778877543 244455566677776543221100       


Q ss_pred             ----------hhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          241 ----------GRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       241 ----------~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                                ....+....+.+.++-++|+|-.-
T Consensus       171 aa~~~d~l~pkl~rRfek~~~Q~rp~~vViDp~v  204 (402)
T COG3598         171 AADESDVLSPKLYRRFEKILEQKRPDFVVIDPFV  204 (402)
T ss_pred             CCCccccccHHHHHHHHHHHHHhCCCeEEEcchh
Confidence                      112333333344556689999753

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=95.09  E-value=0.063  Score=51.26  Aligned_cols=46  Identities=24%  Similarity=0.303  Sum_probs=34.5

Q ss_pred             chhchHHHHHHHHHHhcC--------------CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALKN--------------PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.+..++.+..++..              ...+.|.++|++|+|||+||+.+.....
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~   75 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            366777777766655521              1246789999999999999999998764

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=95.09  E-value=0.1  Score=50.61  Aligned_cols=88  Identities=18%  Similarity=0.285  Sum_probs=48.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCC-------Cccccchh------
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGL-------TLHEETES------  240 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~-------~~~~~~~~------  240 (395)
                      .-..++|+|..|+|||||++.+......   -..++++.--......++..+.+..-+.       ...+.+..      
T Consensus       157 ~Gq~i~I~G~sG~GKStLl~~I~~~~~~---~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~  233 (438)
T PRK07721        157 KGQRVGIFAGSGVGKSTLMGMIARNTSA---DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGA  233 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcccCC---CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHH
Confidence            4467899999999999999988875432   2234443333333444444332211100       00011111      


Q ss_pred             hhHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          241 GRARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       241 ~~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                      ...-.+.+++. ++++.||++||+-
T Consensus       234 ~~a~~iAEyfr~~g~~Vll~~Dslt  258 (438)
T PRK07721        234 YTATAIAEYFRDQGLNVMLMMDSVT  258 (438)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeChH
Confidence            11223445552 5899999999984

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=95.09  E-value=0.077  Score=55.22  Aligned_cols=24  Identities=33%  Similarity=0.315  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..++|+|..|+|||||++.+..-.
T Consensus       492 ~~iaIvG~sGsGKSTLlklL~gl~  515 (694)
T TIGR03375       492 EKVAIIGRIGSGKSTLLKLLLGLY  515 (694)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            569999999999999999987543

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.

>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=95.08  E-value=0.019  Score=46.21  Aligned_cols=25  Identities=36%  Similarity=0.497  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++|+|..|+|||||.+.+.....
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~~   36 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLLP   36 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSSH
T ss_pred             CEEEEEccCCCccccceeeeccccc
Confidence            4789999999999999999876543

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 ....

>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=95.08  E-value=0.035  Score=47.68  Aligned_cols=43  Identities=21%  Similarity=0.179  Sum_probs=29.4

Q ss_pred             cchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..++|.+..+..+.-....  ..-+.+.|+.|+|||++|+.+..-
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~l   45 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPSL   45 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHHC
T ss_pred             hhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHHh
Confidence            4566776666655544443  357889999999999999998753

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.

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=95.06  E-value=0.093  Score=51.19  Aligned_cols=89  Identities=18%  Similarity=0.318  Sum_probs=55.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCCcc-----------ccchh---
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLTLH-----------EETES---  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~~~-----------~~~~~---  240 (395)
                      .-++|.|.+|+|||||+.++....... +-+.++++-+.+.. ...+++..+...-.....           ...+.   
T Consensus       162 QR~gIfgg~GvGKs~L~~~~~~~~~~~-~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p~~  240 (494)
T CHL00060        162 GKIGLFGGAGVGKTVLIMELINNIAKA-HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPG  240 (494)
T ss_pred             CEEeeecCCCCChhHHHHHHHHHHHHh-cCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCCHH
Confidence            458899999999999999988773321 12678888887654 456677766652111100           00111   


Q ss_pred             ------hhHHHHHHHHhc-C-CeEEEEEeCCCC
Q 047930          241 ------GRARSLCNRLKK-E-KRILVILDNIWE  265 (395)
Q Consensus       241 ------~~~~~l~~~l~~-~-kr~LlVlDdv~~  265 (395)
                            .....+.+++.. + +++||++||+-.
T Consensus       241 ~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR  273 (494)
T CHL00060        241 ARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFR  273 (494)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCCEEEEcccchH
Confidence                  123346666642 4 499999999943

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=95.03  E-value=2  Score=38.46  Aligned_cols=115  Identities=13%  Similarity=0.054  Sum_probs=63.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccC------------------CCCEEEEE-EeCCcCCHHHHHHHHHHHhCCCc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEK------------------LFDQVIFV-EVSQIQDIRKIQGEFADKLGLTL  234 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~f~~~~wv-~~s~~~~~~~~~~~i~~~l~~~~  234 (395)
                      ......++|+.|+||.++|..++...-...                  |.|.. |+ ......                 
T Consensus         6 ~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~-~i~p~~~~I-----------------   67 (261)
T PRK05818          6 KTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFY-LIFDQKNPI-----------------   67 (261)
T ss_pred             CCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEE-EecCCcccC-----------------
Confidence            345677899999999999999886643221                  22211 11 111111                 


Q ss_pred             cccchhhhHHHHHHHHh-----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceee
Q 047930          235 HEETESGRARSLCNRLK-----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFS  306 (395)
Q Consensus       235 ~~~~~~~~~~~l~~~l~-----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~  306 (395)
                          ..+.+..+.+.+.     .+++-++|+|+++..  ..+..+...+-...+++.+|++|.+ ..+.....+....+.
T Consensus        68 ----~id~ir~l~~~l~~~s~e~~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~  143 (261)
T PRK05818         68 ----KKEDALSIINKLNRPSVESNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYV  143 (261)
T ss_pred             ----CHHHHHHHHHHHccCchhcCCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeee
Confidence                1122333333332     134567789998654  4566666566444556666666665 445444445555666


Q ss_pred             cCCC
Q 047930          307 FDVL  310 (395)
Q Consensus       307 l~~L  310 (395)
                      +.++
T Consensus       144 ~~~~  147 (261)
T PRK05818        144 VLSK  147 (261)
T ss_pred             cCCh
Confidence            6665

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=95.02  E-value=0.038  Score=51.50  Aligned_cols=53  Identities=25%  Similarity=0.333  Sum_probs=35.3

Q ss_pred             ccchhchHHHHHH---HHHHhcCCC--ceEEEEEecCCCcHHHHHHHHHHHhcccCCC
Q 047930          153 YEAFESRMSTLND---ILDALKNPD--VNMLGIYGMGGIGKTTLAKEVARKAENEKLF  205 (395)
Q Consensus       153 ~~~~~gr~~~~~~---l~~~l~~~~--~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f  205 (395)
                      ..+++|..+..+.   +++.+.+.+  -+.|.+.|++|+|||+||..+.+....+-+|
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF   80 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPF   80 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-E
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCe
Confidence            4578887655443   555555544  4788899999999999999999987654333

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=95.02  E-value=1  Score=39.88  Aligned_cols=52  Identities=19%  Similarity=0.329  Sum_probs=38.5

Q ss_pred             cccccccchhchHHHHHHHHHHhcC-------------CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          148 LSNKDYEAFESRMSTLNDILDALKN-------------PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       148 ~~~~~~~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+...+.++-|-+..+++|++.+.-             ..++-+..+|++|.|||-+|+..+..-
T Consensus       165 kPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  165 KPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             CCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            3445566677788888888887641             235667899999999999999877543

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=95.02  E-value=0.083  Score=51.50  Aligned_cols=89  Identities=21%  Similarity=0.270  Sum_probs=55.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccC--CCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCc-------cccchh-----
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEK--LFDQVIFVEVSQI-QDIRKIQGEFADKLGLTL-------HEETES-----  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~-------~~~~~~-----  240 (395)
                      .-++|.|..|+|||||+..+.+....++  .=-.++++.+.+. ....+++.++...-....       .+.+..     
T Consensus       144 QR~gIfgg~G~GKs~L~~~ia~~~~~d~~~~~~v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~R~~a  223 (460)
T PRK04196        144 QKLPIFSGSGLPHNELAAQIARQAKVLGEEENFAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILT  223 (460)
T ss_pred             CEEEeeCCCCCCccHHHHHHHHhhhhccCCCceEEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHHHHHH
Confidence            3478899999999999999988754321  0115677777654 346667777665422110       001111     


Q ss_pred             -hhHHHHHHHHh--cCCeEEEEEeCCC
Q 047930          241 -GRARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       241 -~~~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                       .....+.+++.  +++++||++||+-
T Consensus       224 ~~~a~tiAEyfr~d~G~~VLli~DslT  250 (460)
T PRK04196        224 PRMALTAAEYLAFEKGMHVLVILTDMT  250 (460)
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEEcChH
Confidence             12234566665  5899999999984

>PRK13695 putative NTPase; Provisional

Probab=95.00  E-value=0.035  Score=46.79  Aligned_cols=25  Identities=40%  Similarity=0.602  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+.|+|.+|+|||||++.+++....
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~   26 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKE   26 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999877543

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=94.99  E-value=0.11  Score=49.91  Aligned_cols=87  Identities=21%  Similarity=0.357  Sum_probs=48.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCC--------ccccchh----
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLT--------LHEETES----  240 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~--------~~~~~~~----  240 (395)
                      .-..++|.|..|+|||||++.+......    +..+...+... ....++..+.+.+-+..        .++....    
T Consensus       136 ~Gqri~I~G~sG~GKTtLl~~i~~~~~~----~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~  211 (413)
T TIGR03497       136 KGQRVGIFAGSGVGKSTLLGMIARNAKA----DINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKA  211 (413)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHH
Confidence            3457899999999999999988865432    22233333332 23444554444321111        1111100    


Q ss_pred             -hhHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          241 -GRARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       241 -~~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                       .....+.+++. ++++.||++||+-
T Consensus       212 ~~~a~tiAEyfr~~G~~Vll~~Dslt  237 (413)
T TIGR03497       212 AFTATAIAEYFRDQGKDVLLMMDSVT  237 (413)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEcCcH
Confidence             11223445542 5899999999984

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=94.98  E-value=0.13  Score=51.29  Aligned_cols=85  Identities=16%  Similarity=0.178  Sum_probs=53.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc----------------cc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE----------------ET  238 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~----------------~~  238 (395)
                      -.++.|.|.+|+|||+++.++......+  -..++|++....  ..++.+.+ ..++.+...                ..
T Consensus       273 g~~~li~G~~G~GKT~l~~~~~~~~~~~--g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~~  347 (509)
T PRK09302        273 GSIILVSGATGTGKTLLASKFAEAACRR--GERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPESYG  347 (509)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCcccCC
Confidence            4678899999999999999998775433  356788877553  45554443 344432111                01


Q ss_pred             hhhhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          239 ESGRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       239 ~~~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                      ....+..+.+.+...+.-++|+|.+.
T Consensus       348 ~~~~~~~i~~~i~~~~~~~vVIDslt  373 (509)
T PRK09302        348 LEDHLIIIKREIEEFKPSRVAIDPLS  373 (509)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            12234455555554455689999984

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.98  E-value=0.019  Score=51.49  Aligned_cols=24  Identities=38%  Similarity=0.726  Sum_probs=21.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.++|++|+||||+|+.+.....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~   24 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLS   24 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999998764

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=94.97  E-value=0.024  Score=47.64  Aligned_cols=25  Identities=32%  Similarity=0.377  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.|.|+|+.|+||||+++.+.+...
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg   27 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALG   27 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3578999999999999999998764

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=94.95  E-value=0.025  Score=49.41  Aligned_cols=26  Identities=35%  Similarity=0.698  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++|+|.|-||+||||++..+......
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la~   26 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALAE   26 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHHH
Confidence            47899999999999999988776543

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK14532 adenylate kinase; Provisional

Probab=94.94  E-value=0.022  Score=48.66  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|.|++|+||||+|+.+....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7789999999999999998754

>PLN02348 phosphoribulokinase

Probab=94.94  E-value=0.027  Score=53.26  Aligned_cols=29  Identities=17%  Similarity=0.346  Sum_probs=25.5

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++.+|+|.|.+|+||||+|+.+.+...
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSVFG   74 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            35678999999999999999999998764

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=94.90  E-value=0.071  Score=45.94  Aligned_cols=22  Identities=41%  Similarity=0.551  Sum_probs=20.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+|+|+|+.|+||||.++.+.+
T Consensus         3 ~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           3 LIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             eEEEEecCCCCCHHHHHHHHHH
Confidence            5899999999999999998876

>PRK06761 hypothetical protein; Provisional

Probab=94.89  E-value=0.025  Score=51.37  Aligned_cols=26  Identities=31%  Similarity=0.431  Sum_probs=23.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++|.|.|++|+||||+++.+++....
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~   29 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQ   29 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            57999999999999999999988753

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	395
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		1e-04
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		3e-04
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		4e-04
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		6e-04

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 65/249 (26%), Positives = 103/249 (41%), Gaps = 45/249 (18%)
Query: 172 NPDVNMLGIYGMGGIGKTTLAKEVAR-KAENEKLFD-QVIFVEVSQIQD----IRKIQG- 224
           N +   + IYGM G GK+ LA E  R  +  E  F   V +V + + QD    + K+Q  
Sbjct: 144 NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK-QDKSGLLMKLQNL 202
Query: 225 --------EFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPH 276
                    F+ +L L + E  +  R R L   L+K  R L+ILD++W+    +A     
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKD--RLRVL--MLRKHPRSLLILDDVWDPWVLKAFD--- 255
Query: 277 GDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVL----KEDEAWSLFKKMAGDYIEGSEF 332
                  ++LLT R   V    M  +     +      K  E  SLF  M  + +     
Sbjct: 256 ----NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAE-- 309
Query: 333 KWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQL--------RRPSSTNFKDIQ 384
              A  + KEC G P+ +V++  AL       W   L QL        R+ SS +++ + 
Sbjct: 310 ---AHSIIKECKGSPL-VVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALD 365
Query: 385 PTAYKAIEL 393
                ++E+
Sbjct: 366 EAMSISVEM 374

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 66/237 (27%), Positives = 105/237 (44%), Gaps = 47/237 (19%)
Query: 180 IYGMGGIGKTTLAKEVAR-KAENEKLFD-QVIFVEVSQIQD----IRKIQG--------- 224
           I+GM G GK+ LA E  R  +  E  F   V +V V + QD    + K+Q          
Sbjct: 152 IHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK-QDKSGLLMKLQNLCTRLDQDE 210
Query: 225 EFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSK 284
            F+ +L L + E  +  R R L   L+K  R L+ILD++W++   +A            +
Sbjct: 211 SFSQRLPLNIEEAKD--RLRIL--MLRKHPRSLLILDDVWDSWVLKAFD-------SQCQ 259
Query: 285 VLLTARSLDVLSRKMDSQQ----NFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVA 340
           +LLT R   V    M  +       S    K  E  SLF  M     + ++    A  + 
Sbjct: 260 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM-----KKADLPEQAHSII 314
Query: 341 KECAGLPVSIVTVARALRNKRLFE--WKDALEQLRRPSSTNFKDIQPTA---YKAIE 392
           KEC G P+ +  +   LR+   F   W+  L+QL+   +  FK I+ ++   Y+A++
Sbjct: 315 KECKGSPLVVSLIGALLRD---FPNRWEYYLKQLQ---NKQFKRIRKSSSYDYEALD 365

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 42.0 bits (97), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 64/249 (25%), Positives = 102/249 (40%), Gaps = 45/249 (18%)
Query: 172 NPDVNMLGIYGMGGIGKTTLAKEVAR-KAENEKLFD-QVIFVEVSQIQD----IRKIQG- 224
           N +   + IYGM G GK+ LA E  R  +  E  F   V +V + + QD    + K+Q  
Sbjct: 151 NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK-QDKSGLLMKLQNL 209
Query: 225 --------EFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPH 276
                    F+ +L L + E  +  R R L   L+K  R L+ILD++W+    +A     
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKD--RLRVL--MLRKHPRSLLILDDVWDPWVLKAFD--- 262
Query: 277 GDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVL----KEDEAWSLFKKMAGDYIEGSEF 332
                  ++LLT     V    M  +     +      K  E  SLF  M  + +     
Sbjct: 263 ----NQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAE-- 316
Query: 333 KWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQL--------RRPSSTNFKDIQ 384
              A  + KEC G P+ +V++  AL       W   L QL        R+ SS +++ + 
Sbjct: 317 ---AHSIIKECKGSPL-VVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALD 372
Query: 385 PTAYKAIEL 393
                ++E+
Sbjct: 373 EAMSISVEM 381

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	395
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-48
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-35
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-34
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-20

>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 =  172 bits (436), Expect = 1e-48
 Identities = 51/369 (13%), Positives = 121/369 (32%), Gaps = 35/369 (9%)

Query: 46  LEAERVSKQREVDEAK---RRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKG 102
           LE + +  +   +       R E I  ++  +    + +    + F   +          
Sbjct: 30  LEGKNIFTEDHSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLA----- 84

Query: 103 LCPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMST 162
                         A  + + +  V  A +F R   +       +         E  +  
Sbjct: 85  -----DFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDR 139

Query: 163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAEN--EKLFDQVIFVEVSQ----- 215
           +   LD + + D   L ++G  G GK+ +A +   K++      +D +++++ S      
Sbjct: 140 VIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS 199

Query: 216 ----IQDIRKIQGEFADKLG-LTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQ 270
                 DI  +     D L   ++   T     R +CN L      L + D++ +    +
Sbjct: 200 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIR 259

Query: 271 AVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGS 330
                        + L+T R +++ +    + +      L+ DE +   +        G 
Sbjct: 260 WAQ------ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGE 313

Query: 331 EFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNFKDIQPTAY-- 388
           + + V  +  +  +G P +++   ++   K   +      +L        + I P +Y  
Sbjct: 314 KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKS 373

Query: 389 --KAIELSY 395
              A++   
Sbjct: 374 LAMALQRCV 382

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score =  138 bits (347), Expect = 1e-35
 Identities = 72/403 (17%), Positives = 133/403 (33%), Gaps = 77/403 (19%)

Query: 23  QMSYLRKSKYTSNLQNLKTEVGNLEAE----RVSKQREVDEAKRRGEEIEK-YVEKWLAS 77
           +  Y  K   +             + +     +  + E+D      + +       W   
Sbjct: 13  EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL 72

Query: 78  VNGVIDEAEKFTGVDARANKRCFKGLCPNLK-IRRRLSKEAERQKEAIVKVREAGRFDRI 136
                +  +KF            + L  N K +   +  E  RQ   + ++    R DR+
Sbjct: 73  SKQE-EMVQKFVE----------EVLRINYKFLMSPIKTEQ-RQPSMMTRMYIEQR-DRL 119

Query: 137 SYNIIPDDSLLLSNKDYEAFESRMSTLNDILDALKN--PDVNMLGIYGMGGIGKTTLAKE 194
            YN   D+ +      Y    SR+     +  AL    P  N + I G+ G GKT +A +
Sbjct: 120 -YN---DNQVF---AKY--NVSRLQPYLKLRQALLELRPAKN-VLIDGVLGSGKTWVALD 169

Query: 195 VARKAENEKLFDQVIF-VEVSQIQDIRKI-----------------QGEFADKLGLTLHE 236
           V    + +   D  IF + +        +                 + + +  + L +H 
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 237 ETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTAR------ 290
                  R L  + K  +  L++L N+     + A  +         K+LLT R      
Sbjct: 230 IQA--ELRRLL-KSKPYENCLLVLLNVQNAKAWNAFNL-------SCKILLTTRFKQVTD 279

Query: 291 SLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSI 350
            L   +    S  + S   L  DE  SL  K    Y++      + REV       P  +
Sbjct: 280 FLSAATTTHISLDHHS-MTLTPDEVKSLLLK----YLDCRPQD-LPREV---LTTNPRRL 330

Query: 351 VTVARALRN--KRLFEWKD-ALEQLRRPSSTNFKDIQPTAYKA 390
             +A ++R+       WK    ++L     ++   ++P  Y+ 
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.0 bits (108), Expect = 2e-05
 Identities = 54/343 (15%), Positives = 102/343 (29%), Gaps = 92/343 (26%)

Query: 16  LAPPI---YRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRGEEI--EKY 70
           L  PI    RQ S +    Y      L  +        VS+ +   + ++   E+   K 
Sbjct: 94  LMSPIKTEQRQPS-MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152

Query: 71  VE--------K-WLASVNGVIDEAEKFTGVDARANKRCF---KGLC--PNL------KIR 110
           V         K W+A       +      V  + + + F      C  P        K+ 
Sbjct: 153 VLIDGVLGSGKTWVAL------DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206

Query: 111 RRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTLNDILDAL 170
            ++      + +    ++   R   I   +      LL +K YE      + L  +L  +
Sbjct: 207 YQIDPNWTSRSDHSSNIKL--RIHSIQAEL----RRLLKSKPYE------NCL-LVLLNV 253

Query: 171 KNPDV-NMLGIYGMGGIG-K---TTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE 225
           +N    N   +        K   TT  K+V            +     S      +++  
Sbjct: 254 QNAKAWNAFNL------SCKILLTTRFKQVTDFLSAATTT-HISLDHHSMTLTPDEVKSL 306

Query: 226 FADKLGL---TLHEETESG--RARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGH 280
               L      L  E  +   R  S+     ++          W+N  ++ V        
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL------ATWDN--WKHVNC------ 352

Query: 281 KGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMA 323
                       D L+  ++S    S +VL+  E   +F +++
Sbjct: 353 ------------DKLTTIIES----SLNVLEPAEYRKMFDRLS 379

>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 = 43.3 bits (101), Expect = 1e-04
 Identities = 52/328 (15%), Positives = 98/328 (29%), Gaps = 89/328 (27%)

Query: 64  GEEIEKYVEKW--LASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQK 121
            E I   +  W     VN      +K T       +     L P           AE +K
Sbjct: 334 AESIRDGLATWDNWKHVN-----CDKLT----TIIESSLNVLEP-----------AEYRK 373

Query: 122 EAIVKVREAGRFDRISYNIIPDD--------SLLLSNKDYEAFESRMSTLNDILDALKNP 173
                      FDR+S  + P          SL+  +         ++ L+      K P
Sbjct: 374 ----------MFDRLS--VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421

Query: 174 DVNMLGIYGMGGIGKTTLAKEVARKAENE-----KLFDQVIFVEVSQIQDIRKIQ--GEF 226
             + + I          +  E+  K ENE      + D     +     D+        F
Sbjct: 422 KESTISIPS--------IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473

Query: 227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVL 286
              +G   H          L N    E+  L     ++ +  F    I     H  +   
Sbjct: 474 YSHIG--HH----------LKNIEHPERMTL--FRMVFLDFRFLEQKIR----HDSTAWN 515

Query: 287 LTARSLDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL 346
            +   L+ L + +   + +   +   D  +        D++   E   +    +K     
Sbjct: 516 ASGSILNTLQQ-LKFYKPY---ICDNDPKYERLVNAILDFLPKIEENLI---CSKYT--- 565

Query: 347 PVSIVTVARALRNKRLFEWKDALEQLRR 374
              ++ +A    ++ +FE  +A +Q++R
Sbjct: 566 --DLLRIALMAEDEAIFE--EAHKQVQR 589

>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 =  133 bits (336), Expect = 2e-34
 Identities = 59/381 (15%), Positives = 127/381 (33%), Gaps = 39/381 (10%)

Query: 36  LQNLKTEVGNLEAERVSKQREVDEAKRRGEEIEKYVEKWLASVNGVIDEAEKFTGVDARA 95
           LQ+ +    +++   +     +D     G  +    E+ + +       A     +  + 
Sbjct: 10  LQHREALEKDIKTSYI-----MDHMISDGF-LTISEEEKVRNEPTQQQRAAMLIKMILKK 63

Query: 96  NKRCFKGLCPNL------KIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSLLLS 149
           +   +      L       +   L         +  K   +G    +   ++ +  +   
Sbjct: 64  DNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVR-TVLCEGGVPQR 122

Query: 150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLF--DQ 207
              +   +  ++ +   L  L   +   + I+GM G GK+ LA E  R     +      
Sbjct: 123 PVVFVTRKKLVNAIQQKLSKL-KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGG 181

Query: 208 VIFVEVSQ---IQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK-----KEKRILVI 259
           V +V V +      + K+Q             +          +RL+     K  R L+I
Sbjct: 182 VHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLI 241

Query: 260 LDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQN-FSFDVLKEDEAWSL 318
           LD++W++   +A            ++LLT R   V    M  +        L +++   +
Sbjct: 242 LDDVWDSWVLKA-------FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEI 294

Query: 319 FKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSST 378
                    + ++    A  + KEC G P+ +  +   LR+     W+  L+QL+     
Sbjct: 295 LSLFVNM--KKADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFK 351

Query: 379 NFKDIQPTAY----KAIELSY 395
             +      Y    +A+ +S 
Sbjct: 352 RIRKSSSYDYEALDEAMSISV 372

>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 = 92.2 bits (229), Expect = 3e-20
 Identities = 57/252 (22%), Positives = 95/252 (37%), Gaps = 27/252 (10%)

Query: 156 FESRMSTLNDILDALKNPDV--NMLGIYGMGGIGKTTLAKEVARKAEN-EKLF-DQVIFV 211
           F +R   ++ I   L   +     + IYGM G GK+ LA E  R     E  F   V +V
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 212 EVS---------QIQD-IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILD 261
            +          ++Q+   ++  E +    L L+ E    R R L  R  K  R L+ILD
Sbjct: 186 SIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLR--KHPRSLLILD 243

Query: 262 NIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDV-LKEDEAWSLFK 320
           ++W+    +A            ++LLT R   V    M  +     +  L  ++   +  
Sbjct: 244 DVWDPWVLKAFDNQ-------CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILS 296

Query: 321 KMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNF 380
                  E    +     + KEC G P+ +  +   LR+     W   L QL+       
Sbjct: 297 LFVNMKKEDLPAEA--HSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRI 353

Query: 381 KDIQPTAYKAIE 392
           +      Y+A++
Sbjct: 354 RKSSSYDYEALD 365

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	395
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.97
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.96
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.95
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.68
2fna_A	357	Conserved hypothetical protein; structural genomic	99.66
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.57
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.57
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.51
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.5
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.49
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.47
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.44
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.33
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.31
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.2
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.13
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.04
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.03
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.98
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.98
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.89
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.87
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.84
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.82
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.8
3pvs_A	447	Replication-associated recombination protein A; ma	98.78
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.77
3bos_A	242	Putative DNA replication factor; P-loop containing	98.77
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.73
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.7
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.69
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.69
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.69
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.68
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.67
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.64
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.62
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.61
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.6
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.58
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.58
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.57
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.54
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.52
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.5
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.44
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.44
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.43
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.42
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.41
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.41
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.39
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.35
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.27
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.26
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.25
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.23
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.21
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.16
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.16
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.13
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.12
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.11
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.09
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.07
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.04
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.96
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.94
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.78
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.75
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.73
3co5_A	143	Putative two-component system transcriptional RES	97.72
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.67
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.64
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.62
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.6
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.55
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.53
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.51
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.38
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.34
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.29
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.25
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.24
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.24
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.22
3io5_A	333	Recombination and repair protein; storage dimer, i	97.22
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.18
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.17
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.15
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.15
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.11
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.08
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.06
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.05
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.05
2qgz_A	308	Helicase loader, putative primosome component; str	97.02
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.94
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.89
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.87
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.79
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.76
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.62
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.62
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.59
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.58
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.58
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.48
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.45
3ice_A	422	Transcription termination factor RHO; transcriptio	96.42
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.42
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.4
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.39
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.35
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.32
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.29
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.28
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.27
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.25
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.25
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.25
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.21
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.2
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.2
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.18
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.15
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.14
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.11
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.11
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.07
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.04
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.03
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.02
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.02
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.0
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.0
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.99
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.99
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.98
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.98
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.97
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.97
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.95
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.95
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.94
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.93
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.91
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.9
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.9
1via_A	175	Shikimate kinase; structural genomics, transferase	95.9
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.89
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.89
2xxa_A	433	Signal recognition particle protein; protein trans	95.89
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.88
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.87
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.87
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.87
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.86
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.86
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.86
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.85
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.85
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.85
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.82
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.82
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.8
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.79
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.79
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.75
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.73
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.72
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.71
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.69
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.68
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.68
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.68
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.67
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.67
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.65
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.65
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.64
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.63
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.62
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.6
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.6
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.59
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.58
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.58
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.52
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.52
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.51
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	95.5
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.5
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.5
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.5
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.49
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.49
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.47
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.46
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.44
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.42
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.42
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.4
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.38
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.37
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.37
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.35
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.33
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.29
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.28
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.28
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.28
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.27
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.24
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.24
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.2
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.19
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.18
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.18
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.17
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	95.16
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.15
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.15
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.14
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.11
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.08
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.07
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.07
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.05
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.02
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.99
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.98
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.97
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.97
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.95
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.95
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.95
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.94
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.92
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.87
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.83
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.83
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.82
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.79
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.79
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.79
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.77
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.76
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.76
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.73
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.73
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.72
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.71
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.7
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.69
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.68
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.68
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.67
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.67
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.66
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.66
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.66
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.62
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.62
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.61
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.6
1g6h_A	257	High-affinity branched-chain amino acid transport	94.57
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.57
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.57
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.56
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.55
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.54
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.54
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.52
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.51
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.5
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.5
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.5
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.49
2og2_A	359	Putative signal recognition particle receptor; nuc	94.49
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.46
3end_A	307	Light-independent protochlorophyllide reductase ir	94.44
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.4
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.39
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.38
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.37
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.37
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.36
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.36
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.3
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.28
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.27
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.26
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.26
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.24
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.23
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.22
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.21
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.21
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.2
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.19
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.17
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.17
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.14
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.14
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.14
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.12
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.11
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.09
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.08
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.07
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.02
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.01
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.98
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.97
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.93
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.88
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.88
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	93.87
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.86
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.85
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.85
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.85
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.83
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	93.82
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.81
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	93.79
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.76
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.76
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	93.75
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.75
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.73
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	93.72
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.71
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.71
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.7
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.68
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	93.66
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.66
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.63
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.63
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.61
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	93.61
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.61
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	93.58
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.58
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.57
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.57
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.55
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	93.54
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	93.53
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.52
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	93.52
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.5
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.49
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.48
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.48
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.46
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.46
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.46
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.43
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.42
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.41
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.4
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	93.39
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.38
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.38
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.37
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.36
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.36
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.34
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.31
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.31
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.29
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.28
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.25
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.24
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	93.22
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.22
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.22
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	93.21
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.2
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.19
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.18
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.18
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.15
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.14
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.12
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.09
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.07
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.03
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.03
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.03
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.02
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.01
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.98
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.97
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.96
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.96
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.96
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	92.94
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.93
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.88
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.88
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.87
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.86
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.86
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.85
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	92.84
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.83
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.81
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.8
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.8
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	92.79
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.79
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.75
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.75
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.74
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	92.73
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.72
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.69
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	92.69
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.69
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.68
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	92.67
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.66
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	92.64
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.6
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.6
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	92.57
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	92.57
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	92.57
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.56
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.55
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	92.55
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	92.51
2fh5_B	214	SR-beta, signal recognition particle receptor beta	92.47
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	92.46
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.42
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.41
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	92.41
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	92.4
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	92.39
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.38
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	92.38
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	92.33
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	92.32
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	92.32
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.32
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	92.3
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.26
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.25
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	92.25
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	92.23
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	92.22
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	92.21
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	92.2
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	92.18
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	92.17
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	92.15
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.14
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	92.11
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	92.09
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	92.06
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	92.05
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.05
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	92.02
3cwq_A	209	Para family chromosome partitioning protein; alpha	92.02
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	91.98
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.98
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.97
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	91.96
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.96
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.93
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	91.91
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	91.88
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	91.85
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.8
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	91.8
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	91.76
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.76
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	91.72
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	91.71
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	91.71
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	91.69
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.67
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	91.66
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	91.65
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	91.63
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.58
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	91.54
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	91.39
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	91.38
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	91.36
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	91.31
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	91.3
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	91.29
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	91.2
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	91.19

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=8.9e-36  Score=296.86  Aligned_cols=226  Identities=15%  Similarity=0.172  Sum_probs=173.4

Q ss_pred             hchHHHHHHHHHHhcC---CCceEEEEEecCCCcHHHHHHHHHH--HhcccCCCCEEEEEEeCCcC--CHHHHHHHHHHH
Q 047930          157 ESRMSTLNDILDALKN---PDVNMLGIYGMGGIGKTTLAKEVAR--KAENEKLFDQVIFVEVSQIQ--DIRKIQGEFADK  229 (395)
Q Consensus       157 ~gr~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~--~~~~~~~f~~~~wv~~s~~~--~~~~~~~~i~~~  229 (395)
                      +||+.++++|.++|..   ++.++|+|+||||+||||||+++|+  +...+.+|++++|+++++.+  ++..++..|+.+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            3999999999999863   3679999999999999999999998  56677889999999999875  789999999999


Q ss_pred             hCCCcc--cc------chhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhcCCC
Q 047930          230 LGLTLH--EE------TESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDS  301 (395)
Q Consensus       230 l~~~~~--~~------~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~~~~  301 (395)
                      ++....  ..      ........+.+.|...|||||||||||+...+ .+.     ..+||+||||||+..++......
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~~~v~~~~~~~  284 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRDVEISNAASQT  284 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESBGGGGGGCCSC
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCCHHHHHHcCCC
Confidence            976421  11      11224567777777334999999999997754 111     12699999999999986432224


Q ss_pred             cceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHHhcCCCCCCCC
Q 047930          302 QQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSSTNFK  381 (395)
Q Consensus       302 ~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~l~~~~~~~~~  381 (395)
                      ..+|+|++|++++||+||.+.++....++++.+++.+|+++|+|+||||+++|+.|+.++ .+|...+....+..   . 
T Consensus       285 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~---~-  359 (549)
T 2a5y_B          285 CEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESR---G-  359 (549)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHH---C-
T ss_pred             CeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhcc---c-
Confidence            468999999999999999999886554578888999999999999999999999998774 23333333211110   0 


Q ss_pred             CchHhhhhhhcccC
Q 047930          382 DIQPTAYKAIELSY  395 (395)
Q Consensus       382 ~~~~~i~~~L~lSY  395 (395)
                        ..++..+|.+||
T Consensus       360 --~~~i~~~l~~Sy  371 (549)
T 2a5y_B          360 --LVGVECITPYSY  371 (549)
T ss_dssp             --SSTTCCCSSSSS
T ss_pred             --HHHHHHHHhccc
Confidence              245677888887

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.97  E-value=9.6e-31  Score=284.59  Aligned_cols=236  Identities=21%  Similarity=0.292  Sum_probs=178.1

Q ss_pred             cccccchhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcc-cC-CCCEEEEEEeCCcCC--HHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAEN-EK-LFDQVIFVEVSQIQD--IRKIQ  223 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~-~f~~~~wv~~s~~~~--~~~~~  223 (395)
                      |.....|+||+.++++|.++|.  +++.++|+|+||||+||||||+++|++... .. .|+.++|+++++...  ....+
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            3445679999999999999985  457899999999999999999999987533 23 446788999988543  34456


Q ss_pred             HHHHHHhCCCccc-----cchhhhHHHHHHHHhc-CCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhh
Q 047930          224 GEFADKLGLTLHE-----ETESGRARSLCNRLKK-EKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSR  297 (395)
Q Consensus       224 ~~i~~~l~~~~~~-----~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~  297 (395)
                      ..++..+......     .........+...+.. ++|+||||||+|+...|..+       .+||+||||||+..++..
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~  272 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDS  272 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTT
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHh
Confidence            6777777543221     1222334455555542 34999999999998777654       468999999999988644


Q ss_pred             cCCCcceeecCC-CChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHHhcCCC
Q 047930          298 KMDSQQNFSFDV-LKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPS  376 (395)
Q Consensus       298 ~~~~~~~~~l~~-L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~l~~~~  376 (395)
                      .......+++.+ |+++++++||...++..  .+++.+++++|+++|+|+||||+.+|++|+.++ .+|..+++.+....
T Consensus       273 ~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~--~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~  349 (1249)
T 3sfz_A          273 VMGPKHVVPVESGLGREKGLEILSLFVNMK--KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQ  349 (1249)
T ss_dssp             CCSCBCCEECCSSCCHHHHHHHHHHHHTSC--STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCC
T ss_pred             hcCCceEEEecCCCCHHHHHHHHHHhhCCC--hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhh
Confidence            456667899996 99999999999988543  234445799999999999999999999999775 47999999987655


Q ss_pred             CCCCC----CchHhhhhhhcccC
Q 047930          377 STNFK----DIQPTAYKAIELSY  395 (395)
Q Consensus       377 ~~~~~----~~~~~i~~~L~lSY  395 (395)
                      ...+.    ...+.+..+|.+||
T Consensus       350 ~~~~~~~~~~~~~~~~~~l~~s~  372 (1249)
T 3sfz_A          350 FKRIRKSSSYDYEALDEAMSISV  372 (1249)
T ss_dssp             CCCSSCTTCTTHHHHHHHHHHHH
T ss_pred             hhhcccccccchHHHHHHHHHHH
Confidence            43321    12357888898887

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.96  E-value=1.1e-29  Score=258.87  Aligned_cols=210  Identities=21%  Similarity=0.204  Sum_probs=157.1

Q ss_pred             hhchHHHHHHHHHHhcC-CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCcCCHHHHHHHHHHHhCC-
Q 047930          156 FESRMSTLNDILDALKN-PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VIFVEVSQIQDIRKIQGEFADKLGL-  232 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~~i~~~l~~-  232 (395)
                      .+||+.++++|.++|.+ +..++|+|+||||+||||||+++|++.+.+.+|+. ++|+++++.++...++..|+..++. 
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            38999999999999874 55789999999999999999999988766667986 9999999999988888888775421 


Q ss_pred             --Cccc--c-------chhhhHHHHHHHHh--cCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhcC
Q 047930          233 --TLHE--E-------TESGRARSLCNRLK--KEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKM  299 (395)
Q Consensus       233 --~~~~--~-------~~~~~~~~l~~~l~--~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~~  299 (395)
                        ....  .       ........+.+.|.  .++|+||||||+|+...|+.+.       +||+||||||+..++.. +
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~-l  281 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDF-L  281 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHH-H
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHh-c
Confidence              1000  0       11122344555441  3789999999999988887642       68999999999887631 1


Q ss_pred             CCcceeecC------CCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhCC--CHHHHHHHHHH
Q 047930          300 DSQQNFSFD------VLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNK--RLFEWKDALEQ  371 (395)
Q Consensus       300 ~~~~~~~l~------~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~--~~~~w~~~l~~  371 (395)
                      .....++++      +|+++|||+||.+.++..  ..   ++..+|   |+|+||||+++|+.|+.+  +..+|+..   
T Consensus       282 ~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~--~e---eL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~---  350 (1221)
T 1vt4_I          282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR--PQ---DLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV---  350 (1221)
T ss_dssp             HHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC--TT---THHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC---
T ss_pred             CCCeEEEecCccccCCcCHHHHHHHHHHHcCCC--HH---HHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC---
Confidence            222356666      999999999999986432  11   233343   999999999999999976  78889753   


Q ss_pred             hcCCCCCCCCCchHhhhhhhcccC
Q 047930          372 LRRPSSTNFKDIQPTAYKAIELSY  395 (395)
Q Consensus       372 l~~~~~~~~~~~~~~i~~~L~lSY  395 (395)
                             +    ...+..+|.+||
T Consensus       351 -------~----~~~I~aaLelSY  363 (1221)
T 1vt4_I          351 -------N----CDKLTTIIESSL  363 (1221)
T ss_dssp             -------S----CHHHHHHHHHHH
T ss_pred             -------C----hhHHHHHHHHHH
Confidence                   1    256777777776

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.95  E-value=7.2e-28  Score=242.56  Aligned_cols=231  Identities=22%  Similarity=0.311  Sum_probs=164.4

Q ss_pred             cccchhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcc-cCCC-CEEEEEEeCCcCCHHHHHHHH-
Q 047930          152 DYEAFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAEN-EKLF-DQVIFVEVSQIQDIRKIQGEF-  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~f-~~~~wv~~s~~~~~~~~~~~i-  226 (395)
                      ....|+||+.++++|.++|.  .++.++++|+||||+||||||.+++++... ..+| +.++|++++.. +...++..+ 
T Consensus       122 ~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~  200 (591)
T 1z6t_A          122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQ  200 (591)
T ss_dssp             CCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHH
T ss_pred             CCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHH
Confidence            34579999999999999987  356789999999999999999999987543 4568 57999999765 333444443 


Q ss_pred             --HHHhCCCc-----cccchhhhHHHHHHHHhc-CCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhc
Q 047930          227 --ADKLGLTL-----HEETESGRARSLCNRLKK-EKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRK  298 (395)
Q Consensus       227 --~~~l~~~~-----~~~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~  298 (395)
                        +..++...     ...........+.+.+.. .+++||||||+|+...+..+       .+|++||||||+..++...
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~  273 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSV  273 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTC
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhc
Confidence              44454211     112223344556666653 37899999999987655432       4589999999998875322


Q ss_pred             CCCcceeec---CCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHHhcCC
Q 047930          299 MDSQQNFSF---DVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRP  375 (395)
Q Consensus       299 ~~~~~~~~l---~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~l~~~  375 (395)
                      .  ...+++   ++|+.+|+++||...++...  ....+.+.+|+++|+|+||||..+|+.|+.+. .+|..+++.+...
T Consensus       274 ~--~~~~~v~~l~~L~~~ea~~L~~~~~~~~~--~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~  348 (591)
T 1z6t_A          274 M--GPKYVVPVESSLGKEKGLEILSLFVNMKK--ADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNK  348 (591)
T ss_dssp             C--SCEEEEECCSSCCHHHHHHHHHHHHTSCG--GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSC
T ss_pred             C--CCceEeecCCCCCHHHHHHHHHHHhCCCc--ccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHh
Confidence            2  233443   68999999999999987421  22234689999999999999999999998763 3799999988765


Q ss_pred             CCCCC----CCchHhhhhhhcccC
Q 047930          376 SSTNF----KDIQPTAYKAIELSY  395 (395)
Q Consensus       376 ~~~~~----~~~~~~i~~~L~lSY  395 (395)
                      ....+    ......+..+|.+||
T Consensus       349 ~~~~~~~~~~~~~~~l~~~l~~s~  372 (591)
T 1z6t_A          349 QFKRIRKSSSYDYEALDEAMSISV  372 (591)
T ss_dssp             CCCCSSCCCSSCCHHHHHHHHHHH
T ss_pred             HHHHhhhccccchHHHHHHHHHHH
Confidence            43221    112356777777765

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.68  E-value=6.5e-16  Score=144.75  Aligned_cols=198  Identities=14%  Similarity=0.122  Sum_probs=128.6

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC------CHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ------DIRKIQ  223 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~------~~~~~~  223 (395)
                      +.....|+||+.+++.|.+++..+  +++.|+|++|+|||||++++++...       .+|+++....      +...++
T Consensus         8 ~~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~   78 (350)
T 2qen_A            8 KTRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNERP-------GILIDCRELYAERGHITREELI   78 (350)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHSS-------EEEEEHHHHHHTTTCBCHHHHH
T ss_pred             CCChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHcC-------cEEEEeecccccccCCCHHHHH
Confidence            444567999999999999988654  6899999999999999999997641       6788775442      566777


Q ss_pred             HHHHHHhCCC-----------------cc--ccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc--------cchhcccc
Q 047930          224 GEFADKLGLT-----------------LH--EETESGRARSLCNRLKKEKRILVILDNIWENLD--------FQAVGIPH  276 (395)
Q Consensus       224 ~~i~~~l~~~-----------------~~--~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~--------~~~l~~~l  276 (395)
                      ..+...+...                 .+  ..........+.+.....++++|||||++....        +......+
T Consensus        79 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~  158 (350)
T 2qen_A           79 KELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYA  158 (350)
T ss_dssp             HHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHH
Confidence            7777665420                 00  011111222333333222389999999976432        11111111


Q ss_pred             CCCCCCcEEEEeecchhhhhh----------cC-CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCC
Q 047930          277 GDGHKGSKVLLTARSLDVLSR----------KM-DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAG  345 (395)
Q Consensus       277 ~~~~~gs~iivTtR~~~va~~----------~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~G  345 (395)
                      .+..++.++|+|++.......          .. .....+++.||+.+|+.+++...+........ .+...+|++.|+|
T Consensus       159 ~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~-~~~~~~i~~~tgG  237 (350)
T 2qen_A          159 YDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVP-ENEIEEAVELLDG  237 (350)
T ss_dssp             HHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCC-HHHHHHHHHHHTT
T ss_pred             HHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhCC
Confidence            112247789999887542111          11 11347999999999999999886532211111 3467899999999


Q ss_pred             chHHHHHHHHHh
Q 047930          346 LPVSIVTVARAL  357 (395)
Q Consensus       346 lPlai~~i~~~l  357 (395)
                      +|+++..++..+
T Consensus       238 ~P~~l~~~~~~~  249 (350)
T 2qen_A          238 IPGWLVVFGVEY  249 (350)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            999999998764

>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=99.66  E-value=1.4e-15  Score=142.70  Aligned_cols=196  Identities=12%  Similarity=0.188  Sum_probs=127.0

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-----CCHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-----QDIRKIQG  224 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-----~~~~~~~~  224 (395)
                      ......|+||+.+++.|.+ +..   +++.|+|++|+|||||++.+.+....     ..+|+++...     .+...++.
T Consensus         9 ~~~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~   79 (357)
T 2fna_A            9 KDNRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLL   79 (357)
T ss_dssp             CCSGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHH
T ss_pred             CCCHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHH
Confidence            3445679999999999999 765   68999999999999999999987642     2578887643     34455555


Q ss_pred             HHHHHhCC------------------Cccc----cc----hhhhHHHHHHHHhc-C-CeEEEEEeCCCCcc-----ccch
Q 047930          225 EFADKLGL------------------TLHE----ET----ESGRARSLCNRLKK-E-KRILVILDNIWENL-----DFQA  271 (395)
Q Consensus       225 ~i~~~l~~------------------~~~~----~~----~~~~~~~l~~~l~~-~-kr~LlVlDdv~~~~-----~~~~  271 (395)
                      .+...+..                  ..+.    ..    .......+.+.+.. . ++++|||||++...     .+..
T Consensus        80 ~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~  159 (357)
T 2fna_A           80 ELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLP  159 (357)
T ss_dssp             HHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHH
T ss_pred             HHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHH
Confidence            55443310                  0000    00    11234455555542 1 48999999996532     2322


Q ss_pred             hccccCCCCCCcEEEEeecchhhhhh----------cCCC-cceeecCCCChHHHHHHHHHhhCC-CCCCCchHHHHHHH
Q 047930          272 VGIPHGDGHKGSKVLLTARSLDVLSR----------KMDS-QQNFSFDVLKEDEAWSLFKKMAGD-YIEGSEFKWVAREV  339 (395)
Q Consensus       272 l~~~l~~~~~gs~iivTtR~~~va~~----------~~~~-~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i  339 (395)
                      +...+.+...+.++|+|++.......          ..+. ...+++.+|+.+|+.+++...+.. ......    ...|
T Consensus       160 ~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i  235 (357)
T 2fna_A          160 ALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVV  235 (357)
T ss_dssp             HHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHH
T ss_pred             HHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc----HHHH
Confidence            22222222246789999997542111          1112 357999999999999999886531 112222    1789


Q ss_pred             HHHcCCchHHHHHHHHHhh
Q 047930          340 AKECAGLPVSIVTVARALR  358 (395)
Q Consensus       340 ~~~c~GlPlai~~i~~~l~  358 (395)
                      ++.|+|+|+++..++..+.
T Consensus       236 ~~~t~G~P~~l~~~~~~~~  254 (357)
T 2fna_A          236 YEKIGGIPGWLTYFGFIYL  254 (357)
T ss_dssp             HHHHCSCHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHc
Confidence            9999999999999988764

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.57  E-value=3.6e-15  Score=115.53  Aligned_cols=78  Identities=13%  Similarity=0.101  Sum_probs=67.9

Q ss_pred             HHHHHHhhhHHHhhhhcccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-ccchHHHHHHHHHHHHHHHHHHh
Q 047930            9 IVEAAKCLAPPIYRQMSYLRKSKYTSNLQNLKTEVGNLEAERVSKQREVDEAKRRG-EEIEKYVEKWLASVNGVIDEAEK   87 (395)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~i~~l~~~l~~i~~~l~~a~~~~-~~~~~~~~~Wl~~lr~~a~d~ed   87 (395)
                      ++.++++|.+.+.+++..+         .++++++++|+++|++|+++|.+|+++. +..++.++.|+++||+++||+||
T Consensus         3 v~~ll~KL~~ll~~E~~l~---------~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED   73 (115)
T 3qfl_A            3 ISNLIPKLGELLTEEFKLH---------KGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIED   73 (115)
T ss_dssp             TCSHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH---------hchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHH
Confidence            4456777888888887777         9999999999999999999999998873 34689999999999999999999


Q ss_pred             hhhhhHhh
Q 047930           88 FTGVDARA   95 (395)
Q Consensus        88 ~ld~~~~~   95 (395)
                      +||+|.+.
T Consensus        74 ~iD~f~~~   81 (115)
T 3qfl_A           74 VVDKFLVQ   81 (115)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998643

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.57  E-value=4.7e-14  Score=135.18  Aligned_cols=219  Identities=16%  Similarity=0.148  Sum_probs=139.5

Q ss_pred             cchhchHHHHHHHHHHh-c----C--CCceEEEE--EecCCCcHHHHHHHHHHHhccc---CCCC-EEEEEEeCCcCCHH
Q 047930          154 EAFESRMSTLNDILDAL-K----N--PDVNMLGI--YGMGGIGKTTLAKEVARKAENE---KLFD-QVIFVEVSQIQDIR  220 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l-~----~--~~~~vi~I--~G~~GiGKTtLa~~v~~~~~~~---~~f~-~~~wv~~s~~~~~~  220 (395)
                      ..|+||+.+++.|..++ .    .  .....+.|  +|++|+|||||++.+++.....   ..+. .++|+++....+..
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            56899999999998887 3    2  34567777  9999999999999999875431   1133 36788877777889


Q ss_pred             HHHHHHHHHhCCCccc--cchhhhHHHHHHHHh-cCCeEEEEEeCCCCcc--------ccchhccccCC-C--C--CCcE
Q 047930          221 KIQGEFADKLGLTLHE--ETESGRARSLCNRLK-KEKRILVILDNIWENL--------DFQAVGIPHGD-G--H--KGSK  284 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~--~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~--------~~~~l~~~l~~-~--~--~gs~  284 (395)
                      .++..++..++...+.  .+.......+.+.+. .+++++|||||++...        .+..+...+.. .  .  ....
T Consensus       102 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~  181 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIG  181 (412)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEE
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEE
Confidence            9999999998764332  122233455555553 3679999999997632        12222222211 1  2  3455


Q ss_pred             EEEeecchhhhh--------hcCCCcceeecCCCChHHHHHHHHHhhCCC-CCCCchHHHHHHHHHHcC------CchHH
Q 047930          285 VLLTARSLDVLS--------RKMDSQQNFSFDVLKEDEAWSLFKKMAGDY-IEGSEFKWVAREVAKECA------GLPVS  349 (395)
Q Consensus       285 iivTtR~~~va~--------~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~-~~~~~~~~~~~~i~~~c~------GlPla  349 (395)
                      +|+||+...+..        ........+++.+|+.++++++|...+... ....--.+....|++.|+      |.|..
T Consensus       182 lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~G~p~~  261 (412)
T 1w5s_A          182 FLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARR  261 (412)
T ss_dssp             EEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHHH
T ss_pred             EEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhccCCCcHHH
Confidence            787887544210        001112239999999999999998665210 011112346788999999      99976


Q ss_pred             HHHHHHHh---h---CC---CHHHHHHHHHHh
Q 047930          350 IVTVARAL---R---NK---RLFEWKDALEQL  372 (395)
Q Consensus       350 i~~i~~~l---~---~~---~~~~w~~~l~~l  372 (395)
                      +..+....   .   ..   +.+.+..++...
T Consensus       262 ~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~  293 (412)
T 1w5s_A          262 AIVALKMACEMAEAMGRDSLSEDLVRKAVSEN  293 (412)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            66554332   1   11   456666666554

>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=99.51  E-value=4.2e-13  Score=118.58  Aligned_cols=200  Identities=13%  Similarity=0.137  Sum_probs=119.8

Q ss_pred             cccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.....++||+..++.+..++..+. .+.+.|+|++|+|||||++.+++.......+..      ........ ...+..
T Consensus        19 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~------~~~~~~~~-~~~~~~   91 (250)
T 1njg_A           19 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA------TPCGVCDN-CREIEQ   91 (250)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS------SCCSCSHH-HHHHHT
T ss_pred             CccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC------CCCcccHH-HHHHhc
Confidence            3445679999999999998887443 457899999999999999999987653221100      00000000 001110


Q ss_pred             HhCCCc-----cccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecchhh-hh
Q 047930          229 KLGLTL-----HEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSLDV-LS  296 (395)
Q Consensus       229 ~l~~~~-----~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~~v-a~  296 (395)
                      ......     ...........+.+.+.    .+++.+|||||++..  ..+..+...+.....+..+|+||+.... ..
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~  171 (250)
T 1njg_A           92 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  171 (250)
T ss_dssp             TCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCH
T ss_pred             cCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCH
Confidence            000000     00001111222222221    246799999999653  3445554444334457788888876432 11


Q ss_pred             hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          297 RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       297 ~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      ........+++.+++.++..+++...+....... -.+..+.|++.|+|.|..+..+...+
T Consensus       172 ~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~-~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          172 TILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH-EPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             HHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCB-CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            1223356899999999999999998874322211 13467899999999999998876554

>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=99.50  E-value=5.3e-13  Score=126.64  Aligned_cols=215  Identities=16%  Similarity=0.117  Sum_probs=139.2

Q ss_pred             cchhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhccc----CC--CCEEEEEEeCCcC-CHHHH
Q 047930          154 EAFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENE----KL--FDQVIFVEVSQIQ-DIRKI  222 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~--f~~~~wv~~s~~~-~~~~~  222 (395)
                      ..|+||+.+++.+..++.    ....+.+.|+|++|+||||||+.+++.....    ..  ....+|++++... +...+
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            568999999998887664    4456789999999999999999999875321    11  2347788887777 88889


Q ss_pred             HHHHHHHh-CCCcc--ccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc--cchh-ccccCCCCCCcEEEEeecchhhh-
Q 047930          223 QGEFADKL-GLTLH--EETESGRARSLCNRLKKEKRILVILDNIWENLD--FQAV-GIPHGDGHKGSKVLLTARSLDVL-  295 (395)
Q Consensus       223 ~~~i~~~l-~~~~~--~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~--~~~l-~~~l~~~~~gs~iivTtR~~~va-  295 (395)
                      +..++..+ +....  ..........+.+.+.. ++.+|||||++....  +... ...+.....+..+|+||+..... 
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~~  178 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN-IRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRD  178 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSS-SCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcc-CCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchHh
Confidence            99988887 32211  11223445666666664 344999999976432  1222 21221111678899998875321 


Q ss_pred             ---hhc-CCCcceeecCCCChHHHHHHHHHhhC---C-CCCCCchHHHHHHHHHHcC---CchHH-HHHHHHHh--h---
Q 047930          296 ---SRK-MDSQQNFSFDVLKEDEAWSLFKKMAG---D-YIEGSEFKWVAREVAKECA---GLPVS-IVTVARAL--R---  358 (395)
Q Consensus       296 ---~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~---~-~~~~~~~~~~~~~i~~~c~---GlPla-i~~i~~~l--~---  358 (395)
                         ... ......+++++++.++..++|...+.   . ...++   +..+.+++.|+   |.|.. +..+-...  .   
T Consensus       179 ~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~  255 (384)
T 2qby_B          179 YMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDD---EILSYIAAISAKEHGDARKAVNLLFRAAQLASGG  255 (384)
T ss_dssp             TSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCS---HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSS
T ss_pred             hhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCH---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCC
Confidence               111 01123899999999999999998753   1 12222   35677888888   98874 33333322  2   


Q ss_pred             CC-CHHHHHHHHHHh
Q 047930          359 NK-RLFEWKDALEQL  372 (395)
Q Consensus       359 ~~-~~~~w~~~l~~l  372 (395)
                      .. +.+.+..+++..
T Consensus       256 ~~i~~~~v~~~~~~~  270 (384)
T 2qby_B          256 GIIRKEHVDKAIVDY  270 (384)
T ss_dssp             SCCCHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHH
Confidence            12 778888777764

>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=99.49  E-value=5.9e-13  Score=116.02  Aligned_cols=192  Identities=11%  Similarity=0.058  Sum_probs=120.7

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      +.....++|++..++.+..++.....+.+.|+|++|+|||++|+.+++.......-...+.++.+.......+...+...
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (226)
T 2chg_A           13 PRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEF   92 (226)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHH
T ss_pred             CCCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHH
Confidence            34456789999999999999887666669999999999999999999875332111224445554444433322222211


Q ss_pred             hCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchhh-hhhcCCCcceee
Q 047930          230 LGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLDV-LSRKMDSQQNFS  306 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~v-a~~~~~~~~~~~  306 (395)
                      .....               ...+++.+|||||++...  ....+...+.....++++|+||+.... ..........++
T Consensus        93 ~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~  157 (226)
T 2chg_A           93 ARTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFR  157 (226)
T ss_dssp             HTSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             hcccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceee
Confidence            11000               012568999999997652  233343333333456788888876432 111223345899


Q ss_pred             cCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          307 FDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       307 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      +.+++.++..+++.+.+....... -.+..+.+++.++|.|..+..+...+
T Consensus       158 ~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~l~~~~~g~~r~l~~~l~~~  207 (226)
T 2chg_A          158 FKPVPKEAMKKRLLEICEKEGVKI-TEDGLEALIYISGGDFRKAINALQGA  207 (226)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCCB-CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            999999999999998774211111 13467789999999999765554433

>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=99.47  E-value=5.9e-13  Score=126.18  Aligned_cols=200  Identities=17%  Similarity=0.197  Sum_probs=128.8

Q ss_pred             cchhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCC-CCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL-FDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ..|+||+.+++.+..++.    ......+.|+|++|+|||||++.+++....... -..++|+++....+...++..++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~   99 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLE   99 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            568999999999999886    445678999999999999999999987643211 124678887777778888888888


Q ss_pred             HhCCCcccc--chhhhHHHHHHHHhc-CCeEEEEEeCCCCcc------ccchhccccCC-CCCCcEEEEeecchhhhhhc
Q 047930          229 KLGLTLHEE--TESGRARSLCNRLKK-EKRILVILDNIWENL------DFQAVGIPHGD-GHKGSKVLLTARSLDVLSRK  298 (395)
Q Consensus       229 ~l~~~~~~~--~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~------~~~~l~~~l~~-~~~gs~iivTtR~~~va~~~  298 (395)
                      .++......  +.......+.+.+.. +++.+|||||++...      .+..+...+.. ...+..+|+||+........
T Consensus       100 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~  179 (386)
T 2qby_A          100 SLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLL  179 (386)
T ss_dssp             TTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGC
T ss_pred             HhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhh
Confidence            776543221  122334555566653 458999999996532      12222111111 23356678888765432110


Q ss_pred             ------CCCcceeecCCCChHHHHHHHHHhhCCC-CCCCchHHHHHHHHHHcC---CchHHHHHH
Q 047930          299 ------MDSQQNFSFDVLKEDEAWSLFKKMAGDY-IEGSEFKWVAREVAKECA---GLPVSIVTV  353 (395)
Q Consensus       299 ------~~~~~~~~l~~L~~~e~~~lf~~~~~~~-~~~~~~~~~~~~i~~~c~---GlPlai~~i  353 (395)
                            .-....+++++++.++..++|...+... ....-..+..+.+++.++   |.|..+..+
T Consensus       180 ~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~l  244 (386)
T 2qby_A          180 DPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDL  244 (386)
T ss_dssp             TTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             CHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHH
Confidence                  0112589999999999999999865310 011122345677888887   999854433

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.44  E-value=2.7e-12  Score=121.68  Aligned_cols=216  Identities=17%  Similarity=0.173  Sum_probs=139.2

Q ss_pred             cchhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCcCCHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      ..|+||+.+++.+..++.    ....+.+.|+|++|+||||||+.+++.....    ..-...+|+++....+...++..
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            568999999999999874    3456789999999999999999999876321    11124678888888889999999


Q ss_pred             HHHHhCCCcccc--chhhhHHHHHHHHh-cCCeEEEEEeCCCCcccc----chhc---cccCCC--CCCcEEEEeecchh
Q 047930          226 FADKLGLTLHEE--TESGRARSLCNRLK-KEKRILVILDNIWENLDF----QAVG---IPHGDG--HKGSKVLLTARSLD  293 (395)
Q Consensus       226 i~~~l~~~~~~~--~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~~~----~~l~---~~l~~~--~~gs~iivTtR~~~  293 (395)
                      ++..++...+..  +.......+.+.+. .+++.+|||||++.....    ..+.   ......  ..+..+|.||+...
T Consensus        99 l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~  178 (387)
T 2v1u_A           99 IAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLG  178 (387)
T ss_dssp             HHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCST
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCc
Confidence            999987643321  12334556666664 356899999999764321    1121   111111  34567788877652


Q ss_pred             hh----hhcCCC--cceeecCCCChHHHHHHHHHhhCC----CCCCCchHHHHHHHHHHcC---CchHHH-HHHHHHhh-
Q 047930          294 VL----SRKMDS--QQNFSFDVLKEDEAWSLFKKMAGD----YIEGSEFKWVAREVAKECA---GLPVSI-VTVARALR-  358 (395)
Q Consensus       294 va----~~~~~~--~~~~~l~~L~~~e~~~lf~~~~~~----~~~~~~~~~~~~~i~~~c~---GlPlai-~~i~~~l~-  358 (395)
                      ..    ......  ...+.+++++.++..+++...+..    ...+++   ..+.+++.++   |.|..+ ..+..... 
T Consensus       179 ~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~G~~r~~~~~l~~a~~~  255 (387)
T 2v1u_A          179 FVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPD---VVPLCAALAAREHGDARRALDLLRVAGEI  255 (387)
T ss_dssp             TSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSS---HHHHHHHHHHSSSCCHHHHHHHHHHHHHH
T ss_pred             hHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHH---HHHHHHHHHHHhccCHHHHHHHHHHHHHH
Confidence            21    111111  247999999999999999987531    222333   4677888888   999433 33322221 


Q ss_pred             ------CC-CHHHHHHHHHHh
Q 047930          359 ------NK-RLFEWKDALEQL  372 (395)
Q Consensus       359 ------~~-~~~~w~~~l~~l  372 (395)
                            .. +.+.+..+++..
T Consensus       256 a~~~~~~~i~~~~v~~a~~~~  276 (387)
T 2v1u_A          256 AERRREERVRREHVYSARAEI  276 (387)
T ss_dssp             HHHTTCSCBCHHHHHHHHHHH
T ss_pred             HHHcCCCCcCHHHHHHHHHHH
Confidence                  12 677777777654

>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=99.33  E-value=3.6e-11  Score=114.10  Aligned_cols=219  Identities=13%  Similarity=0.159  Sum_probs=140.1

Q ss_pred             cchhchHHHHHHHHHHhcC----CCce--EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALKN----PDVN--MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~----~~~~--vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      ..++||+.+++.+..++..    ....  .+.|+|++|+|||||++.+++...... -..++|++++...+...++..++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc-CeeEEEEeCccCCCHHHHHHHHH
Confidence            5689999999998888763    3334  899999999999999999998865321 12467888888888889999999


Q ss_pred             HHhCCCccc--cchhhhHHHHHHHHh-cCCeEEEEEeCCCCcc--ccchhccccCC-CC---CCcEEEEeecchhhhhhc
Q 047930          228 DKLGLTLHE--ETESGRARSLCNRLK-KEKRILVILDNIWENL--DFQAVGIPHGD-GH---KGSKVLLTARSLDVLSRK  298 (395)
Q Consensus       228 ~~l~~~~~~--~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~--~~~~l~~~l~~-~~---~gs~iivTtR~~~va~~~  298 (395)
                      ..++...+.  .........+.+.+. .+++.+|||||++...  ....+...+.. ..   .+..+|++|+........
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l  175 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  175 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHh
Confidence            988754322  122333444555443 3568999999997642  22333222211 11   366788888765332111


Q ss_pred             C----C--CcceeecCCCChHHHHHHHHHhhCCC-CCCCchHHHHHHHHHHc---------CCchHHHHHHHHHhh----
Q 047930          299 M----D--SQQNFSFDVLKEDEAWSLFKKMAGDY-IEGSEFKWVAREVAKEC---------AGLPVSIVTVARALR----  358 (395)
Q Consensus       299 ~----~--~~~~~~l~~L~~~e~~~lf~~~~~~~-~~~~~~~~~~~~i~~~c---------~GlPlai~~i~~~l~----  358 (395)
                      .    .  ....+++.+++.++..+++...+... ....--.+..+.+++.+         +|.|..+..+.....    
T Consensus       176 ~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~~~a~  255 (389)
T 1fnn_A          176 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQ  255 (389)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             CHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHHHHHH
Confidence            0    0  12369999999999999998876320 01112234678899999         798765554433221    


Q ss_pred             --C--C-CHHHHHHHHHHhc
Q 047930          359 --N--K-RLFEWKDALEQLR  373 (395)
Q Consensus       359 --~--~-~~~~w~~~l~~l~  373 (395)
                        .  . +.+....++....
T Consensus       256 ~~~~~~i~~~~v~~~~~~~~  275 (389)
T 1fnn_A          256 QNGRKHIAPEDVRKSSKEVL  275 (389)
T ss_dssp             HTTCSSCCHHHHHHHHHHHS
T ss_pred             HhCCCCcCHHHHHHHHHHHh
Confidence              2  1 4555666655543

>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=99.31  E-value=1.4e-11  Score=113.77  Aligned_cols=192  Identities=14%  Similarity=0.087  Sum_probs=118.6

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      |.....++|++..++.+..++..+..+.+.++|++|+||||+|+.+++...........++++.+....... .++++..
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-i~~~~~~   95 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDV-VRNQIKH   95 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHH-HHTHHHH
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHH-HHHHHHH
Confidence            444567899999999999998877665699999999999999999998753221111244554444333222 2222222


Q ss_pred             hCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchh-hhhhcCCCcceee
Q 047930          230 LGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQQNFS  306 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~~~~~  306 (395)
                      +.....             .+..+++.++||||++...  .+..+...+.....++.+|+||.... +..........++
T Consensus        96 ~~~~~~-------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~  162 (323)
T 1sxj_B           96 FAQKKL-------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILR  162 (323)
T ss_dssp             HHHBCC-------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             HHhccc-------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEe
Confidence            110000             0002458999999997642  33444333333345678888886633 2122223456899


Q ss_pred             cCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHHHHH
Q 047930          307 FDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTVARA  356 (395)
Q Consensus       307 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i~~~  356 (395)
                      +.+++.++..+++...+......- -.+....|++.|+|.|.. +..+...
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~l~~~~~G~~r~a~~~l~~~  212 (323)
T 1sxj_B          163 YSKLSDEDVLKRLLQIIKLEDVKY-TNDGLEAIIFTAEGDMRQAINNLQST  212 (323)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCCB-CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            999999999999998763211111 124578899999999954 4544433

>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=99.20  E-value=5.3e-11  Score=110.10  Aligned_cols=190  Identities=14%  Similarity=0.091  Sum_probs=116.4

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      |.....++|++..++.+..++..+..+.+.++|++|+||||+|+.+++.......-...+.++.+.......+ ...+..
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~   99 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVI-REKVKE   99 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTT-HHHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHH-HHHHHH
Confidence            3445668999999999999888766666999999999999999999987532210112344443322111111 111100


Q ss_pred             hCCCccccchhhhHHHHHHH--HhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecchhh-hhhcCCCcce
Q 047930          230 LGLTLHEETESGRARSLCNR--LKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSLDV-LSRKMDSQQN  304 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~--l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~~v-a~~~~~~~~~  304 (395)
                                      ....  +..+++.++|+||++..  ..+..+...+.....++++|+||....- ..........
T Consensus       100 ----------------~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~  163 (327)
T 1iqp_A          100 ----------------FARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  163 (327)
T ss_dssp             ----------------HHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             ----------------HHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcE
Confidence                            0000  01146789999999764  2334444333333457788888876432 1111223458


Q ss_pred             eecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          305 FSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       305 ~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      +.+.+++.++...++...+...... --.+....|++.++|.|..+..+...+
T Consensus       164 ~~~~~l~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          164 FRFRPLRDEDIAKRLRYIAENEGLE-LTEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCE-ECHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            8999999999999999877432221 113467889999999999765554433

>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=99.13  E-value=7.1e-10  Score=102.09  Aligned_cols=188  Identities=12%  Similarity=0.090  Sum_probs=116.0

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      |.....++|++..++.+..++..+..+.+.++|++|+|||++|+.+++.......-...+.++.+.......+       
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-------   85 (319)
T 2chq_A           13 PRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVV-------   85 (319)
T ss_dssp             CSSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTS-------
T ss_pred             CCCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHH-------
Confidence            3445678999999999999888776656899999999999999999987532110011234444432111100       


Q ss_pred             hCCCccccchhhhHHHHHHH--HhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchh-hhhhcCCCcce
Q 047930          230 LGLTLHEETESGRARSLCNR--LKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQQN  304 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~--l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~~~  304 (395)
                                ..........  +..+++.++||||++...  ....+...+.....++++|+||.... +..........
T Consensus        86 ----------~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~  155 (319)
T 2chq_A           86 ----------RHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAV  155 (319)
T ss_dssp             ----------SHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEE
T ss_pred             ----------HHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeE
Confidence                      0001111100  012567899999997542  33445444444445677888876543 22222234458


Q ss_pred             eecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHH
Q 047930          305 FSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVAR  355 (395)
Q Consensus       305 ~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~  355 (395)
                      +++.+++.++...++...+......-+ .+....+++.++|.|..+.....
T Consensus       156 i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          156 FRFKPVPKEAMKKRLLEICEKEGVKIT-EDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTCCCBC-HHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHH
Confidence            999999999999999887743222211 33577888999999986554433

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.04  E-value=7.6e-09  Score=94.45  Aligned_cols=169  Identities=9%  Similarity=0.080  Sum_probs=106.1

Q ss_pred             chhchHHHHHHHHHHhc----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCC---C--CEEEEEEeCCcCCHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL---F--DQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f--~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .+.+|+++++++...|.    .+..+.+.|+|++|+|||++++.+++.......   .  -.++++++....+...++..
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            37799999998877664    567788999999999999999999988643211   1  13677887787888999999


Q ss_pred             HHHHhCCCcc-ccchhhhHHHHHHHH--hcCCeEEEEEeCCCCccccchhccccCC-CCCCc--EEEEeecchhhhh---
Q 047930          226 FADKLGLTLH-EETESGRARSLCNRL--KKEKRILVILDNIWENLDFQAVGIPHGD-GHKGS--KVLLTARSLDVLS---  296 (395)
Q Consensus       226 i~~~l~~~~~-~~~~~~~~~~l~~~l--~~~kr~LlVlDdv~~~~~~~~l~~~l~~-~~~gs--~iivTtR~~~va~---  296 (395)
                      |++++..... .......+..+.+.+  ..+++++++||+++....-+.+...+.+ ....+  .||.++...+...   
T Consensus       101 I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~L  180 (318)
T 3te6_A          101 IWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQI  180 (318)
T ss_dssp             HHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHHH
T ss_pred             HHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhhc
Confidence            9999854321 111222344444443  2367899999999765421112111110 01122  3344444322110   


Q ss_pred             -----hcCCCcceeecCCCChHHHHHHHHHhhC
Q 047930          297 -----RKMDSQQNFSFDVLKEDEAWSLFKKMAG  324 (395)
Q Consensus       297 -----~~~~~~~~~~l~~L~~~e~~~lf~~~~~  324 (395)
                           ..+ ....+.+.|++.+|..+++.+++.
T Consensus       181 ~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          181 NIMPSLKA-HFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             HTCHHHHT-TEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             chhhhccC-CceEEEeCCCCHHHHHHHHHHHHH
Confidence                 011 125799999999999999998873

>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=99.03  E-value=3.7e-09  Score=99.61  Aligned_cols=196  Identities=13%  Similarity=0.159  Sum_probs=114.6

Q ss_pred             ccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .....++|++..++.+..++..++ ...+.|+|+.|+||||+|+.+.+.......+..       .+.........+...
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-------~~~~~~~~~~~~~~~   85 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA-------TPCGVCDNCREIEQG   85 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCS-------SCCSSSHHHHHHHTS
T ss_pred             CchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-------CCCcccHHHHHHhcc
Confidence            334568999999999988887544 456789999999999999999987643221100       000000001111110


Q ss_pred             hCCCc-----cccchhhhHHHHHHHHh----cCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecchh-hhhh
Q 047930          230 LGLTL-----HEETESGRARSLCNRLK----KEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSLD-VLSR  297 (395)
Q Consensus       230 l~~~~-----~~~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~~-va~~  297 (395)
                      .....     ...........+.+.+.    .+++.++||||++..  .....+...+.....+..+|++|.... +...
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~  165 (373)
T 1jr3_A           86 RFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVT  165 (373)
T ss_dssp             CCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHH
T ss_pred             CCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHH
Confidence            00000     00011122334444443    246789999999654  234444433333344667777776432 2222


Q ss_pred             cCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          298 KMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       298 ~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      .......+++.+++.++...++...+.......+ .+....|++.++|.|..+..+.
T Consensus       166 l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~~-~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          166 ILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE-PRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC-HHHHHHHHHHSSSCHHHHHHHH
T ss_pred             HHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHCCCCHHHHHHHH
Confidence            2334578999999999999999877632111111 2357789999999999877654

>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=98.98  E-value=4.3e-09  Score=97.17  Aligned_cols=192  Identities=14%  Similarity=0.066  Sum_probs=116.6

Q ss_pred             cccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ....|+|++..+..+..++.     ......+.|+|++|+|||++|+.+++....     ..++++.+......++.   
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~-----~~~~~~~~~~~~~~~l~---   81 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEKPGDLA---   81 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC-----CEEEECTTTCCSHHHHH---
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeccccCChHHHH---
Confidence            45678999988888777664     234467889999999999999999987642     13445444332222221   


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhc--CCeEEEEEeCCCCcc--ccchhccccC--------C----------CCCCcE
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKK--EKRILVILDNIWENL--DFQAVGIPHG--------D----------GHKGSK  284 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~--~kr~LlVlDdv~~~~--~~~~l~~~l~--------~----------~~~gs~  284 (395)
                                           ..+..  .+..+|+|||+....  ....+...+.        .          ..++.+
T Consensus        82 ---------------------~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~  140 (324)
T 1hqc_A           82 ---------------------AILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  140 (324)
T ss_dssp             ---------------------HHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCE
T ss_pred             ---------------------HHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEE
Confidence                                 12211  345688999997642  1111111110        0          012455


Q ss_pred             EEEeecchh-hhhhcCCCc-ceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhh----
Q 047930          285 VLLTARSLD-VLSRKMDSQ-QNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALR----  358 (395)
Q Consensus       285 iivTtR~~~-va~~~~~~~-~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~----  358 (395)
                      +|.||.... +........ ..+.+.+++.++...++...+......- -.+....+++.|+|.|..+..+...+.    
T Consensus       141 ~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~-~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~  219 (324)
T 1hqc_A          141 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI-TEEAALEIGRRSRGTMRVAKRLFRRVRDFAQ  219 (324)
T ss_dssp             EEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCC-CHHHHHHHHHHSCSCHHHHHHHHHHHTTTST
T ss_pred             EEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHccCCHHHHHHHHHHHHHHHH
Confidence            666666432 211112222 5899999999999999988874322211 234678899999999998877765542    


Q ss_pred             --C--C-CHHHHHHHHHHhc
Q 047930          359 --N--K-RLFEWKDALEQLR  373 (395)
Q Consensus       359 --~--~-~~~~w~~~l~~l~  373 (395)
                        .  . +.+....++..+.
T Consensus       220 ~~~~~~i~~~~~~~~~~~~~  239 (324)
T 1hqc_A          220 VAGEEVITRERALEALAALG  239 (324)
T ss_dssp             TTSCSCCCHHHHHHHHHHHT
T ss_pred             HhcCCCCCHHHHHHHHHHhc
Confidence              1  1 5566777766653

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.98  E-value=2.1e-09  Score=90.90  Aligned_cols=154  Identities=13%  Similarity=0.140  Sum_probs=88.1

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC-----CCCEEEEEEeCCcCCHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK-----LFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ....++||+++++.+.+++.....+.+.|+|++|+|||+||+.+++......     .....++++++.      +.   
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~---   90 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV---   90 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH------HH---
T ss_pred             cccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH------Hh---
Confidence            3456889999999999999877677889999999999999999998753311     012344443321      10   


Q ss_pred             HHHhCCCccccchhhhHHHHHHHH-hcCCeEEEEEeCCCCcc---------ccchhccccCCCCCCcEEEEeecchhh--
Q 047930          227 ADKLGLTLHEETESGRARSLCNRL-KKEKRILVILDNIWENL---------DFQAVGIPHGDGHKGSKVLLTARSLDV--  294 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l-~~~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~iivTtR~~~v--  294 (395)
                          ............+..+.+.+ ..+++.+|||||++...         .+..+...+... .+..+|.||.....  
T Consensus        91 ----~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~-~~~~~i~~~~~~~~~~  165 (195)
T 1jbk_A           91 ----AGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTLDEYRQ  165 (195)
T ss_dssp             ----TTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT-TSCCEEEEECHHHHHH
T ss_pred             ----ccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc-CCeEEEEeCCHHHHHH
Confidence                00000000111223333333 23567899999996542         112211121112 24456766665431  


Q ss_pred             ----hhhcCCCcceeecCCCChHHHHHHH
Q 047930          295 ----LSRKMDSQQNFSFDVLKEDEAWSLF  319 (395)
Q Consensus       295 ----a~~~~~~~~~~~l~~L~~~e~~~lf  319 (395)
                          ..........+.+.+++.++..+++
T Consensus       166 ~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          166 YIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence                1112223346889999988877654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.89  E-value=3.7e-08  Score=89.14  Aligned_cols=201  Identities=16%  Similarity=0.205  Sum_probs=115.9

Q ss_pred             ccccchhchHHHHHHHHHHhcC-------------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          151 KDYEAFESRMSTLNDILDALKN-------------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      .....++|.+..++.|.+.+..             .....+.|+|++|+|||+||+.+++.....     .+.++.+.-.
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~-----~~~v~~~~~~   88 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT-----FIRVVGSELV   88 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE-----EEEEEGGGGC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehHHHH
Confidence            3456788998888888776631             345678999999999999999999875421     3334332211


Q ss_pred             CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------c----cchhccccC--CC
Q 047930          218 DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------D----FQAVGIPHG--DG  279 (395)
Q Consensus       218 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~----~~~l~~~l~--~~  279 (395)
                      .              ... .........+.......++.+|+|||++...            .    +..+...+.  ..
T Consensus        89 ~--------------~~~-~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           89 K--------------KFI-GEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             C--------------CST-THHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             H--------------hcc-chHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence            1              000 0011223334444444567899999996431            1    111111111  22


Q ss_pred             CCCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCC-chHHHHHHH
Q 047930          280 HKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAG-LPVSIVTVA  354 (395)
Q Consensus       280 ~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~G-lPlai~~i~  354 (395)
                      ..+..||.||...... ....   .....+.+.+.+.++..++|...+.......+.  ....++..+.| .|-.|..+.
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~--~~~~l~~~~~g~~~~~i~~l~  231 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDV--NLEEIAKMTEGCVGAELKAIC  231 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHHCTTCCHHHHHHHH
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcC--CHHHHHHHcCCCCHHHHHHHH
Confidence            3456777787654321 1111   223479999999999999999888543222211  14678888888 454555443


Q ss_pred             HH------hhC--C-CHHHHHHHHHHhc
Q 047930          355 RA------LRN--K-RLFEWKDALEQLR  373 (395)
Q Consensus       355 ~~------l~~--~-~~~~w~~~l~~l~  373 (395)
                      ..      .+.  . +.+....+++.+.
T Consensus       232 ~~a~~~a~~~~~~~I~~~d~~~al~~~~  259 (285)
T 3h4m_A          232 TEAGMNAIRELRDYVTMDDFRKAVEKIM  259 (285)
T ss_dssp             HHHHHHHHHTTCSSBCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCcCCHHHHHHHHHHHH
Confidence            22      122  2 6777777777654

>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=98.87  E-value=8.2e-09  Score=96.44  Aligned_cols=198  Identities=13%  Similarity=0.121  Sum_probs=113.5

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCC-CEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLF-DQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f-~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|++..++.+..++..+..+.+.++|++|+||||+|+.+.+.......+ ..+..++.+.......+ .+...
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  111 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIV-REKVK  111 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHH-TTHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHH-HHHHH
Confidence            34456788999999999999887765558999999999999999998874321001 11334444433333222 22221


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchh-hhhhcCCCccee
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQQNF  305 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~~~~  305 (395)
                      .+...........    .......+++-+|++|++....  ....+...+.......++|++|.... +..........+
T Consensus       112 ~~~~~~~~~~~~~----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i  187 (353)
T 1sxj_D          112 NFARLTVSKPSKH----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  187 (353)
T ss_dssp             HHHHSCCCCCCTT----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             HHhhhcccccchh----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceE
Confidence            1110000000000    0001112355799999986542  22333333322334567777775432 211112233588


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      .+.+++.++....+...+......- -.+..+.|++.++|.|-.+..+
T Consensus       188 ~~~~~~~~~~~~~l~~~~~~~~~~i-~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          188 RFKALDASNAIDRLRFISEQENVKC-DDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCC-CHHHHHHHHHHTSSCHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHcCCCHHHHHHH
Confidence            9999999999999998774322111 1346789999999999875544

>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=98.84  E-value=2.5e-08  Score=98.04  Aligned_cols=208  Identities=13%  Similarity=0.098  Sum_probs=117.1

Q ss_pred             ccccccchhchHHHHHHHHHHhcC-----------------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 047930          149 SNKDYEAFESRMSTLNDILDALKN-----------------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFV  211 (395)
Q Consensus       149 ~~~~~~~~~gr~~~~~~l~~~l~~-----------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv  211 (395)
                      .|.....++|++..++.+..++..                 +..+.+.|+|++|+||||+|+.+++...    + .++.+
T Consensus        34 rP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~-~~i~i  108 (516)
T 1sxj_A           34 APTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQ  108 (516)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEE
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----C-CEEEE
Confidence            345567789999999999998864                 1346899999999999999999998763    2 24555


Q ss_pred             EeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHH-hcCCeEEEEEeCCCCccc-----cchhccccCCCCCCcEE
Q 047930          212 EVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRL-KKEKRILVILDNIWENLD-----FQAVGIPHGDGHKGSKV  285 (395)
Q Consensus       212 ~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l-~~~kr~LlVlDdv~~~~~-----~~~l~~~l~~~~~gs~i  285 (395)
                      +.+...... +....+.........   ........+.+ ..+++.+|+||+++....     +..+...+. . .+..|
T Consensus       109 n~s~~~~~~-~~~~~i~~~~~~~~~---~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~-~-~~~~i  182 (516)
T 1sxj_A          109 NASDVRSKT-LLNAGVKNALDNMSV---VGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR-K-TSTPL  182 (516)
T ss_dssp             CTTSCCCHH-HHHHTGGGGTTBCCS---TTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH-H-CSSCE
T ss_pred             eCCCcchHH-HHHHHHHHHhccccH---HHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHH-h-cCCCE
Confidence            655544433 222222221110000   00000000000 125688999999975421     122222211 1 23346


Q ss_pred             EEeecchhh--hhhcCCCcceeecCCCChHHHHHHHHHhhCC--CCCCCchHHHHHHHHHHcCCc-hHHHHHHHHHhh-C
Q 047930          286 LLTARSLDV--LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGD--YIEGSEFKWVAREVAKECAGL-PVSIVTVARALR-N  359 (395)
Q Consensus       286 ivTtR~~~v--a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~--~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~~~l~-~  359 (395)
                      |+++.+...  ..........+.+.+++.++..+++...+..  ...+++   ....|++.++|. +.++..+..+.. .
T Consensus       183 Ili~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~---~l~~la~~s~GdiR~~i~~L~~~~~~~  259 (516)
T 1sxj_A          183 ILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPN---VIDRLIQTTRGDIRQVINLLSTISTTT  259 (516)
T ss_dssp             EEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTT---HHHHHHHHTTTCHHHHHHHHTHHHHHS
T ss_pred             EEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHH---HHHHHHHHcCCcHHHHHHHHHHHHhcC
Confidence            655554221  1122344568999999999999999877632  122232   467899999994 555555543322 2


Q ss_pred             C--CHHHHHHHHH
Q 047930          360 K--RLFEWKDALE  370 (395)
Q Consensus       360 ~--~~~~w~~~l~  370 (395)
                      +  +.+.-+.++.
T Consensus       260 ~~It~~~v~~~~~  272 (516)
T 1sxj_A          260 KTINHENINEISK  272 (516)
T ss_dssp             SCCCTTHHHHHHH
T ss_pred             CCCchHHHHHHHH
Confidence            1  4444444444

>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=98.82  E-value=1.9e-07  Score=83.93  Aligned_cols=182  Identities=14%  Similarity=0.164  Sum_probs=99.2

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHh
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLK  251 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~  251 (395)
                      ....+.+.|+|++|+|||+||+.+++....    . .+.++.+...            ++.  ...........+.+...
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~~~~----~-~~~i~~~~~~------------~g~--~~~~~~~~~~~~~~~~~  121 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEESNF----P-FIKICSPDKM------------IGF--SETAKCQAMKKIFDDAY  121 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHHHTC----S-EEEEECGGGC------------TTC--CHHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHHhCC----C-EEEEeCHHHh------------cCC--chHHHHHHHHHHHHHHH
Confidence            455678999999999999999999987532    1 2233332210            010  00000112223333333


Q ss_pred             cCCeEEEEEeCCCCc-----------ccc-chhccccC---CCCCCcEEEEeecchhhhhh--cCCC-cceeecCCCCh-
Q 047930          252 KEKRILVILDNIWEN-----------LDF-QAVGIPHG---DGHKGSKVLLTARSLDVLSR--KMDS-QQNFSFDVLKE-  312 (395)
Q Consensus       252 ~~kr~LlVlDdv~~~-----------~~~-~~l~~~l~---~~~~gs~iivTtR~~~va~~--~~~~-~~~~~l~~L~~-  312 (395)
                      ..+..+|+|||++..           ..+ ..+...+.   .......||.||........  .... ...+++++++. 
T Consensus       122 ~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r  201 (272)
T 1d2n_A          122 KSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATG  201 (272)
T ss_dssp             TSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEH
T ss_pred             hcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCccHH
Confidence            356899999998542           111 11212111   12233456667766533211  1222 45789999998 


Q ss_pred             HHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCC------chHHHHHHHHHhhCCCHHHHHHHHHHhcCCCCC
Q 047930          313 DEAWSLFKKMAGDYIEGSEFKWVAREVAKECAG------LPVSIVTVARALRNKRLFEWKDALEQLRRPSST  378 (395)
Q Consensus       313 ~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~G------lPlai~~i~~~l~~~~~~~w~~~l~~l~~~~~~  378 (395)
                      ++...++.+...   .+   .+....|++.+.|      ++-++..+-..-...+...+..+++.+......
T Consensus       202 ~~i~~i~~~~~~---~~---~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~~~~~~~~~~l~~~~~~  267 (272)
T 1d2n_A          202 EQLLEALELLGN---FK---DKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGAS  267 (272)
T ss_dssp             HHHHHHHHHHTC---SC---HHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGGGHHHHHHHHHHHTSCC
T ss_pred             HHHHHHHHhcCC---CC---HHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchHHHHHHHHHHHHHcCCc
Confidence            676777665421   11   2356788999988      344444443333333667888888877655433

>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=98.80  E-value=3.1e-08  Score=92.59  Aligned_cols=197  Identities=13%  Similarity=0.108  Sum_probs=109.0

Q ss_pred             cccccchhchHHHHHHHHHHh-cCCCceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCE-----------------
Q 047930          150 NKDYEAFESRMSTLNDILDAL-KNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQ-----------------  207 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l-~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~-----------------  207 (395)
                      |.....++|++..++.+..++ ..++.+.+.|+|+.|+||||+++.+.........    ++.                 
T Consensus        10 P~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~   89 (354)
T 1sxj_E           10 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   89 (354)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeec
Confidence            445567889999999998888 6555545899999999999999999885321110    110                 


Q ss_pred             ---EEEEEeCCcC-CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCC
Q 047930          208 ---VIFVEVSQIQ-DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHK  281 (395)
Q Consensus       208 ---~~wv~~s~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~  281 (395)
                         .+.+..+... ......++++..+.....-...   . .+ ..+. +++-++|||++...+  ....+...+.....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~---~-~l-s~l~-~~~~vlilDE~~~L~~~~~~~L~~~le~~~~  163 (354)
T 1sxj_E           90 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQ---D-SK-DGLA-HRYKCVIINEANSLTKDAQAALRRTMEKYSK  163 (354)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             ccceEEecHhhcCCcchHHHHHHHHHHHHhcccccc---c-cc-cccC-CCCeEEEEeCccccCHHHHHHHHHHHHhhcC
Confidence               1111111100 0000122222222111000000   0 00 0011 356799999997642  22233333322234


Q ss_pred             CcEEEEeecch-hhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCC--CC-CchHHHHHHHHHHcCCchHHHHHHHH
Q 047930          282 GSKVLLTARSL-DVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYI--EG-SEFKWVAREVAKECAGLPVSIVTVAR  355 (395)
Q Consensus       282 gs~iivTtR~~-~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~--~~-~~~~~~~~~i~~~c~GlPlai~~i~~  355 (395)
                      ++.+|++|.+. .+..........+++.+++.++....+...+....  .+ +   +....|++.++|.+-.+..+..
T Consensus       164 ~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~---~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          164 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETK---DILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCS---HHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcH---HHHHHHHHHcCCCHHHHHHHHH
Confidence            67788877653 23222234457899999999999999988763211  12 2   3567899999999886655543

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.78  E-value=1.2e-07  Score=91.18  Aligned_cols=182  Identities=14%  Similarity=0.147  Sum_probs=108.2

Q ss_pred             cccccchhchHHHH---HHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          150 NKDYEAFESRMSTL---NDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       150 ~~~~~~~~gr~~~~---~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      +.....++|.+..+   ..|...+..+....+.|+|++|+||||||+.+.+.....  |   ..++... ....+ .+.+
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~~--f---~~l~a~~-~~~~~-ir~~   94 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANAD--V---ERISAVT-SGVKE-IREA   94 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTCE--E---EEEETTT-CCHHH-HHHH
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCCC--e---EEEEecc-CCHHH-HHHH
Confidence            34556788888777   667777776777789999999999999999999876421  2   2222221 12222 1111


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEE-eecchh--hhhhcCCC
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLL-TARSLD--VLSRKMDS  301 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iiv-TtR~~~--va~~~~~~  301 (395)
                      +.                ........+++.+|+||++....  ..+.+...+.. . ...+|. ||.+..  +.......
T Consensus        95 ~~----------------~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~-~v~lI~att~n~~~~l~~aL~sR  156 (447)
T 3pvs_A           95 IE----------------RARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED-G-TITFIGATTENPSFELNSALLSR  156 (447)
T ss_dssp             HH----------------HHHHHHHTTCCEEEEEETTTCC------CCHHHHHT-T-SCEEEEEESSCGGGSSCHHHHTT
T ss_pred             HH----------------HHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-C-ceEEEecCCCCcccccCHHHhCc
Confidence            11                11111123578999999997542  33333333322 2 233443 444432  21223345


Q ss_pred             cceeecCCCChHHHHHHHHHhhCCC------CCCCchHHHHHHHHHHcCCchHHHHHHHHH
Q 047930          302 QQNFSFDVLKEDEAWSLFKKMAGDY------IEGSEFKWVAREVAKECAGLPVSIVTVARA  356 (395)
Q Consensus       302 ~~~~~l~~L~~~e~~~lf~~~~~~~------~~~~~~~~~~~~i~~~c~GlPlai~~i~~~  356 (395)
                      ...+.+.+++.++...++.+.+...      ....--.+..+.|++.++|.+-.+..+...
T Consensus       157 ~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~  217 (447)
T 3pvs_A          157 ARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEM  217 (447)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHH
T ss_pred             eeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            5689999999999999999887421      111122346788999999998866655443

>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=98.77  E-value=3.5e-07  Score=81.49  Aligned_cols=182  Identities=17%  Similarity=0.208  Sum_probs=99.2

Q ss_pred             ccchhchHHHHHHHHHH---hcC---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          153 YEAFESRMSTLNDILDA---LKN---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~---l~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      ...++|.+..++.+.+.   +..         ...+.+.|+|++|+|||++|+.+++.....     .+.++.+.-.+. 
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~-----~~~~~~~~~~~~-   78 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP-----FLAMAGAEFVEV-   78 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCC-----EEEEETTTTSSS-
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----EEEechHHHHhh-
Confidence            34566776665555443   322         234568899999999999999999876421     344444432110 


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc-------------c----cchhccccC--CCCC
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL-------------D----FQAVGIPHG--DGHK  281 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~-------------~----~~~l~~~l~--~~~~  281 (395)
                                   ... ........+.+......+.+|+|||++...             .    ...+...+.  ....
T Consensus        79 -------------~~~-~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~  144 (262)
T 2qz4_A           79 -------------IGG-LGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTD  144 (262)
T ss_dssp             -------------STT-HHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTC
T ss_pred             -------------ccC-hhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCC
Confidence                         000 011122333333333567999999997541             1    111211111  1223


Q ss_pred             CcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHHH
Q 047930          282 GSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTVA  354 (395)
Q Consensus       282 gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i~  354 (395)
                      +..||.||...... ....   .....+.+.+.+.++-.+++...+...............+++.+.|.+- .|..+.
T Consensus       145 ~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~  222 (262)
T 2qz4_A          145 HVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANIC  222 (262)
T ss_dssp             CEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             CEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHH
Confidence            55667677553321 1111   1235788999999999999988774322222222235788889988754 555443

>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=98.77  E-value=1.5e-08  Score=89.03  Aligned_cols=174  Identities=13%  Similarity=0.110  Sum_probs=102.0

Q ss_pred             ccchhch---HHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          153 YEAFESR---MSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       153 ~~~~~gr---~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      ...|+++   ...++.+..+...+..+.+.|+|++|+||||||+.+++.....  ...+.|++++.....      +   
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~~~~~~------~---   95 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLGIHASI------S---   95 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGGGGGGS------C---
T ss_pred             hhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHHHHHH------H---
Confidence            3456652   3556666666655566789999999999999999999876543  234566665432110      0   


Q ss_pred             hCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc----cchhccccCC-CCCC-cEEEEeecchhhh-----hhc
Q 047930          230 LGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD----FQAVGIPHGD-GHKG-SKVLLTARSLDVL-----SRK  298 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~----~~~l~~~l~~-~~~g-s~iivTtR~~~va-----~~~  298 (395)
                           .         ...+.+  .++.+|||||++....    ...+...+.. ...+ .++|+||+...-.     ...
T Consensus        96 -----~---------~~~~~~--~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l  159 (242)
T 3bos_A           96 -----T---------ALLEGL--EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDL  159 (242)
T ss_dssp             -----G---------GGGTTG--GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHH
T ss_pred             -----H---------HHHHhc--cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhh
Confidence                 0         000111  2457999999965421    1222221100 0112 2477777643210     001


Q ss_pred             C---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHH
Q 047930          299 M---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVA  354 (395)
Q Consensus       299 ~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~  354 (395)
                      .   .....+++.+++.++..+++...+...... --.+..+.+++.++|.+-.+..+.
T Consensus       160 ~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          160 VSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQ-LPEDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             HHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCC-CCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             hhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHccCCHHHHHHHH
Confidence            1   112689999999999999999877421111 123467889999999987766544

>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=98.73  E-value=6.8e-08  Score=89.15  Aligned_cols=182  Identities=10%  Similarity=0.068  Sum_probs=104.6

Q ss_pred             cccccchhchHHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|++..+..+..++..+. ..++.+.|++|+|||++|+.+.+....     .++.++.+.. ... .++..+.
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~-----~~~~i~~~~~-~~~-~i~~~~~   94 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA-----DMMFVNGSDC-KID-FVRGPLT   94 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTE-----EEEEEETTTC-CHH-HHHTHHH
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCC-----CEEEEccccc-CHH-HHHHHHH
Confidence            4556778999999999999888555 356777888999999999999987632     2455555432 222 2222221


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc---ccchhccccCCCCCCcEEEEeecchh-hhhhcCCCcce
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL---DFQAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQQN  304 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---~~~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~~~  304 (395)
                      .......               ..+++.+|+|||++...   ....+...+.....+.++|+||.... +..........
T Consensus        95 ~~~~~~~---------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~  159 (324)
T 3u61_B           95 NFASAAS---------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRV  159 (324)
T ss_dssp             HHHHBCC---------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEE
T ss_pred             HHHhhcc---------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcE
Confidence            1100000               01367899999997653   22333322222223567888776543 11111122357


Q ss_pred             eecCCCChHHHHHHHH-------HhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          305 FSFDVLKEDEAWSLFK-------KMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       305 ~~l~~L~~~e~~~lf~-------~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      +++.+++.++-.+++.       ..+......-.-.+....|++.++|.+-.+...
T Consensus       160 i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~  215 (324)
T 3u61_B          160 ITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGE  215 (324)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999888544332       222211111111246788999999987754433

>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=98.70  E-value=7.7e-07  Score=83.23  Aligned_cols=184  Identities=9%  Similarity=0.062  Sum_probs=105.0

Q ss_pred             ccccchhchHHHHHHHHHHhc------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          151 KDYEAFESRMSTLNDILDALK------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .....++|.+..++.|.+.+.            ....+.+.|+|++|+|||+||+.+++....     ..+.++.+.-..
T Consensus        81 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~~  155 (357)
T 3d8b_A           81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSISASSLTS  155 (357)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEEEGGGGCC
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEEehHHhhc
Confidence            334568898888888777653            134567889999999999999999987532     234555443211


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc-------------ccchhccccC----CCCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL-------------DFQAVGIPHG----DGHK  281 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~-------------~~~~l~~~l~----~~~~  281 (395)
                      .              ... ........+.......++.+|+||+++...             ....+...+.    ....
T Consensus       156 ~--------------~~g-~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  220 (357)
T 3d8b_A          156 K--------------WVG-EGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSED  220 (357)
T ss_dssp             S--------------STT-HHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCC
T ss_pred             c--------------ccc-hHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCC
Confidence            0              000 011122333333333567999999995321             0112211111    1123


Q ss_pred             CcEEEEeecchh-hhhhcC-CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCC-chHHHHHHHH
Q 047930          282 GSKVLLTARSLD-VLSRKM-DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAG-LPVSIVTVAR  355 (395)
Q Consensus       282 gs~iivTtR~~~-va~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~G-lPlai~~i~~  355 (395)
                      +..||.||.... +..... .....+.+...+.++..+++...+......- .......|++.+.| .|-.|..+..
T Consensus       221 ~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l-~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          221 RILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCL-SEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             CEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCC-CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCc-cHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            455666665432 211111 2234778889999999999988774321111 12357789999999 5666666544

>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=98.69  E-value=7.2e-07  Score=82.22  Aligned_cols=183  Identities=18%  Similarity=0.153  Sum_probs=106.4

Q ss_pred             ccccchhchHHHHHHHHHHhc------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          151 KDYEAFESRMSTLNDILDALK------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .....++|.+..++.|.+.+.            ....+.+.++|++|+|||+||+.+++.....     .+.++.+    
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~-----~~~v~~~----   85 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS----   85 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE-----EEEEEHH----
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC-----EEEEchH----
Confidence            445678898888888877662            1124568899999999999999999875421     2333321    


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc-------------cchhcc---ccCCCCCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD-------------FQAVGI---PHGDGHKG  282 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-------------~~~l~~---~l~~~~~g  282 (395)
                        ++..    .    .. ......+..+.+.....++.+|+||+++....             ...+..   .+.....+
T Consensus        86 --~l~~----~----~~-g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  154 (322)
T 3eie_A           86 --DLVS----K----WM-GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  154 (322)
T ss_dssp             --HHHT----T----TG-GGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCC
T ss_pred             --HHhh----c----cc-chHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCc
Confidence              1110    0    00 01122333444444446678999999975321             111211   11123345


Q ss_pred             cEEEEeecchhhh-hhc-CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHHH
Q 047930          283 SKVLLTARSLDVL-SRK-MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTVA  354 (395)
Q Consensus       283 s~iivTtR~~~va-~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~  354 (395)
                      ..||.||...... ... ......+.+...+.++-.++|...+........ ......|++.+.|. +-.|..+.
T Consensus       155 v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          155 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLT-KEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             EEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCC-HHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             eEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCC-HHHHHHHHHHcCCCCHHHHHHHH
Confidence            6666677653221 000 022357788899999999999998864332211 23467889999884 54554443

>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=98.69  E-value=1.5e-07  Score=87.46  Aligned_cols=185  Identities=13%  Similarity=0.101  Sum_probs=106.7

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCC-EEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFD-QVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |.....++|.+..++.|..++..++.+.+.++|+.|+||||+|+.++...... .+. .+..++.+.......+. +++.
T Consensus        21 p~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~~~~~~~~~~~~~ir-~~i~   98 (340)
T 1sxj_C           21 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK-NYSNMVLELNASDDRGIDVVR-NQIK   98 (340)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTT-SHHHHEEEECTTSCCSHHHHH-THHH
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCC-CccceEEEEcCcccccHHHHH-HHHH
Confidence            44456677888888888888887766568999999999999999999875422 111 12333333322222221 1111


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchh-hhhhcCCCccee
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQQNF  305 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~~~~  305 (395)
                      .+.....              ...+.+-++|+|++....  ..+.+...+......+++|++|.... +..........+
T Consensus        99 ~~~~~~~--------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~  164 (340)
T 1sxj_C           99 DFASTRQ--------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  164 (340)
T ss_dssp             HHHHBCC--------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             HHHhhcc--------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeE
Confidence            1100000              001346789999996532  22333322222234566777665432 222222344588


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      .+.+++.++..+.+...+......- -....+.|++.++|.+--+.
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~i-~~~~~~~i~~~s~G~~r~~~  209 (340)
T 1sxj_C          165 RFQPLPQEAIERRIANVLVHEKLKL-SPNAEKALIELSNGDMRRVL  209 (340)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCB-CHHHHHHHHHHHTTCHHHHH
T ss_pred             eccCCCHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHcCCCHHHHH
Confidence            9999999999998887763211111 12356788888898887543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.69  E-value=2.4e-07  Score=86.00  Aligned_cols=193  Identities=16%  Similarity=0.156  Sum_probs=113.4

Q ss_pred             ccccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .....++|++..++.+..++.     ......+.|+|++|+|||+||+.+.+.....     .+.++.+......     
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~-----~~~~~~~~~~~~~-----   95 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSAN-----IKTTAAPMIEKSG-----   95 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCC-----EEEEEGGGCCSHH-----
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC-----eEEecchhccchh-----
Confidence            345678999998888887775     2345678899999999999999998875421     2333333221111     


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCCcc--ccchhccccC------------------CCCCCcE
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWENL--DFQAVGIPHG------------------DGHKGSK  284 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~--~~~~l~~~l~------------------~~~~gs~  284 (395)
                                         .+...+. ..+..+|+||++....  ....+...+.                  ...++..
T Consensus        96 -------------------~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (338)
T 3pfi_A           96 -------------------DLAAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFT  156 (338)
T ss_dssp             -------------------HHHHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCE
T ss_pred             -------------------HHHHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeE
Confidence                               1111111 1356789999997542  1111111110                  0112355


Q ss_pred             EEEeecchhhh-hhcCCC-cceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh-----
Q 047930          285 VLLTARSLDVL-SRKMDS-QQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL-----  357 (395)
Q Consensus       285 iivTtR~~~va-~~~~~~-~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l-----  357 (395)
                      +|.+|...... ...... ...+.+.+++.++...++.+.+..... .--.+..+.|++.+.|.|-.+..+...+     
T Consensus       157 ~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~-~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~  235 (338)
T 3pfi_A          157 LIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNK-TCEEKAALEIAKRSRSTPRIALRLLKRVRDFAD  235 (338)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC-EECHHHHHHHHHTTTTCHHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence            66666653221 111122 368999999999999999887743221 1123467888999999996555443332     


Q ss_pred             -hCC---CHHHHHHHHHHhc
Q 047930          358 -RNK---RLFEWKDALEQLR  373 (395)
Q Consensus       358 -~~~---~~~~w~~~l~~l~  373 (395)
                       ...   +.+....++..+.
T Consensus       236 ~~~~~~i~~~~~~~~~~~~~  255 (338)
T 3pfi_A          236 VNDEEIITEKRANEALNSLG  255 (338)
T ss_dssp             HTTCSEECHHHHHHHHHHHT
T ss_pred             hhcCCccCHHHHHHHHHHhC
Confidence             111   5666666666643

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.68  E-value=1.8e-06  Score=79.39  Aligned_cols=183  Identities=17%  Similarity=0.170  Sum_probs=103.5

Q ss_pred             cccchhchHHHHHHHHHHhc------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH
Q 047930          152 DYEAFESRMSTLNDILDALK------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI  219 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~  219 (395)
                      ....+.|.+..++.|.+.+.            ....+.+.++|++|+|||+||+.+++....    ...+.++.+.-.+ 
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~----~~~~~i~~~~l~~-   84 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN----STFFSISSSDLVS-   84 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS----CEEEEEECCSSCC-
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC----CcEEEEEhHHHHh-
Confidence            34567777777766665542            123467889999999999999999987621    1223344432211 


Q ss_pred             HHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc-------------cchhcccc---CCCCCCc
Q 047930          220 RKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD-------------FQAVGIPH---GDGHKGS  283 (395)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-------------~~~l~~~l---~~~~~gs  283 (395)
                                   .... ........+.+.....++.+|+||+++....             ...+...+   .....+.
T Consensus        85 -------------~~~g-~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v  150 (322)
T 1xwi_A           85 -------------KWLG-ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI  150 (322)
T ss_dssp             -------------SSCC-SCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTE
T ss_pred             -------------hhhh-HHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCE
Confidence                         0001 1122334444444446789999999975410             01111111   1123455


Q ss_pred             EEEEeecchhhh-hhc-CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHHH
Q 047930          284 KVLLTARSLDVL-SRK-MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTVA  354 (395)
Q Consensus       284 ~iivTtR~~~va-~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~  354 (395)
                      .||.||...... ... ......+.+...+.++-.++|...+....... .......|++.+.|. +-.|..+.
T Consensus       151 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l-~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          151 LVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL-TEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             EEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC-CHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             EEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            566666543221 101 12335788899999999999998875432211 123567899999987 44455554

>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=98.67  E-value=6e-07  Score=83.19  Aligned_cols=170  Identities=12%  Similarity=0.060  Sum_probs=102.6

Q ss_pred             HHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccC--------------------CCCEEEEEEeC---C
Q 047930          160 MSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEK--------------------LFDQVIFVEVS---Q  215 (395)
Q Consensus       160 ~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------------~f~~~~wv~~s---~  215 (395)
                      .+..+.+...+..++ .+.+.++|+.|+|||++|+.+.+......                    |++. .++...   .
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~-~~~~~~~~~~   86 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDY-YTLAPEKGKN   86 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTE-EEECCCTTCS
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEEeccccCC
Confidence            445566777776555 45688999999999999999998754321                    1221 222221   1


Q ss_pred             cCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-
Q 047930          216 IQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-  292 (395)
Q Consensus       216 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-  292 (395)
                      ...... .+++.+.+....                ..+++-++|+|+++...  ..+.+...+.....++.+|++|.+. 
T Consensus        87 ~~~i~~-ir~l~~~~~~~~----------------~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~  149 (334)
T 1a5t_A           87 TLGVDA-VREVTEKLNEHA----------------RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPE  149 (334)
T ss_dssp             SBCHHH-HHHHHHHTTSCC----------------TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGG
T ss_pred             CCCHHH-HHHHHHHHhhcc----------------ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence            111111 122222221110                02467899999997643  3344444443334566777777654 


Q ss_pred             hhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          293 DVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       293 ~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      .+..........+++.++++++..+.+....   ..+   .+....+++.++|.|..+..+
T Consensus       150 ~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~---~~~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          150 RLLATLRSRCRLHYLAPPPEQYAVTWLSREV---TMS---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHC---CCC---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             hCcHHHhhcceeeeCCCCCHHHHHHHHHHhc---CCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            3333334556789999999999999998876   111   234578999999999766443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.64  E-value=3.8e-07  Score=85.62  Aligned_cols=214  Identities=11%  Similarity=0.085  Sum_probs=113.0

Q ss_pred             ccchhchHHHHHH---HHHHhcCCCc--eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC----CcCCHHHHH
Q 047930          153 YEAFESRMSTLND---ILDALKNPDV--NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS----QIQDIRKIQ  223 (395)
Q Consensus       153 ~~~~~gr~~~~~~---l~~~l~~~~~--~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s----~~~~~~~~~  223 (395)
                      ...|+|++..++.   +...+..+..  +.+.|+|++|+|||++|+.+.+.......|   +.++..    ......+.+
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~---~~~~~~~~~~~~~~~~~~~  119 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF---TAIAGSEIFSLEMSKTEAL  119 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE---EEEEGGGGSCSSSCHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc---ccccchhhhhcccchhHHH
Confidence            5678998877655   4454544433  588999999999999999999987532222   223321    222333444


Q ss_pred             HHHHHHh-CC--------------------C--------ccc--cchh---hhHHHHHHHH-hcCC----eEEEEEeCCC
Q 047930          224 GEFADKL-GL--------------------T--------LHE--ETES---GRARSLCNRL-KKEK----RILVILDNIW  264 (395)
Q Consensus       224 ~~i~~~l-~~--------------------~--------~~~--~~~~---~~~~~l~~~l-~~~k----r~LlVlDdv~  264 (395)
                      .+..... +.                    .        ...  ....   ..+....... ..++    +.+|+||++.
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~  199 (368)
T 3uk6_A          120 TQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVH  199 (368)
T ss_dssp             HHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGG
T ss_pred             HHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhcc
Confidence            4333321 00                    0        000  0000   1111111111 1233    3599999997


Q ss_pred             Ccc--ccchhccccCCCCCCcEEEEeecc-------------hhhhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCC
Q 047930          265 ENL--DFQAVGIPHGDGHKGSKVLLTARS-------------LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEG  329 (395)
Q Consensus       265 ~~~--~~~~l~~~l~~~~~gs~iivTtR~-------------~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~  329 (395)
                      ...  ....+...+...... .++++|..             ..+..........+.+.+++.++...++...+......
T Consensus       200 ~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~~  278 (368)
T 3uk6_A          200 MLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVE  278 (368)
T ss_dssp             GSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTCC
T ss_pred             ccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCCC
Confidence            542  223333333222222 34444421             11111122344568999999999999999887432221


Q ss_pred             CchHHHHHHHHHHcC-CchHHHHHHHHHh------hC--C-CHHHHHHHHHH
Q 047930          330 SEFKWVAREVAKECA-GLPVSIVTVARAL------RN--K-RLFEWKDALEQ  371 (395)
Q Consensus       330 ~~~~~~~~~i~~~c~-GlPlai~~i~~~l------~~--~-~~~~w~~~l~~  371 (395)
                       --.+....|++.+. |.|-.+..+....      ..  . +.+..+.+++.
T Consensus       279 -~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~~  329 (368)
T 3uk6_A          279 -MSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSL  329 (368)
T ss_dssp             -BCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             -CCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence             12346788999997 7777555443221      12  2 66777777665

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.62  E-value=2e-06  Score=81.36  Aligned_cols=185  Identities=15%  Similarity=0.170  Sum_probs=104.7

Q ss_pred             cccccchhchHHHHHHHHHHhc------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          150 NKDYEAFESRMSTLNDILDALK------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      +.....++|.+..++.|...+.            ....+.+.|+|++|+|||+||+.+++....     ..+.++++.-.
T Consensus       111 ~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~-----~~~~v~~~~l~  185 (389)
T 3vfd_A          111 AVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA-----TFFNISAASLT  185 (389)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEECSCCC-
T ss_pred             CCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC-----cEEEeeHHHhh
Confidence            3445678999998888887762            123467889999999999999999887532     23344433221


Q ss_pred             CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--------c-----cchhcccc---CC-CC
Q 047930          218 DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--------D-----FQAVGIPH---GD-GH  280 (395)
Q Consensus       218 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--------~-----~~~l~~~l---~~-~~  280 (395)
                      .  ..       .+      ........+........+.+|+||+++...        .     ...+...+   .. ..
T Consensus       186 ~--~~-------~g------~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  250 (389)
T 3vfd_A          186 S--KY-------VG------EGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGD  250 (389)
T ss_dssp             ---------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC----
T ss_pred             c--cc-------cc------hHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCC
Confidence            1  00       00      011123334444433566899999996431        0     01111111   11 12


Q ss_pred             CCcEEEEeecchh-hhhhcC-CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHHHH
Q 047930          281 KGSKVLLTARSLD-VLSRKM-DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTVAR  355 (395)
Q Consensus       281 ~gs~iivTtR~~~-va~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i~~  355 (395)
                      ....||.||.... +..... .....+.+...+.++...++...+......- .......|++.+.|..- +|..+..
T Consensus       251 ~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l-~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          251 DRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPL-TQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             -CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCS-CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            2445566665432 211111 2234688999999999999998875432221 23357789999998654 6655543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.61  E-value=1e-07  Score=87.33  Aligned_cols=154  Identities=12%  Similarity=0.096  Sum_probs=83.4

Q ss_pred             chhchHHHHHHHHHHhc---------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH
Q 047930          155 AFESRMSTLNDILDALK---------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI  219 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~---------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~  219 (395)
                      .++|.+..++.+.+.+.               ......+.|+|++|+|||++|+.+++...........-++.++..   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~---  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD---  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG---
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH---
Confidence            35676666665554432               234457899999999999999988887644322211112333211   


Q ss_pred             HHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc-----------cccchhccccCCCCCCcEEEEe
Q 047930          220 RKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN-----------LDFQAVGIPHGDGHKGSKVLLT  288 (395)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~-----------~~~~~l~~~l~~~~~gs~iivT  288 (395)
                               .+....... .......+.+..   +..+|+||+++..           .....+...+.....+..+|.|
T Consensus       109 ---------~l~~~~~g~-~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~  175 (309)
T 3syl_A          109 ---------DLVGQYIGH-TAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILA  175 (309)
T ss_dssp             ---------GTCCSSTTC-HHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEE
T ss_pred             ---------Hhhhhcccc-cHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEe
Confidence                     010000000 111122222222   3459999999733           1223333333333446677888


Q ss_pred             ecchhhh------hhcC-CCcceeecCCCChHHHHHHHHHhhC
Q 047930          289 ARSLDVL------SRKM-DSQQNFSFDVLKEDEAWSLFKKMAG  324 (395)
Q Consensus       289 tR~~~va------~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~  324 (395)
                      |......      .... .....+.+.+++.++...++...+.
T Consensus       176 ~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          176 GYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             ECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            7543210      0001 1226899999999999999988874

>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=98.60  E-value=5.6e-07  Score=86.54  Aligned_cols=203  Identities=17%  Similarity=0.187  Sum_probs=115.9

Q ss_pred             ccchh-chHH--HHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          153 YEAFE-SRMS--TLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       153 ~~~~~-gr~~--~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ...|+ |...  ....+......+. ...+.|+|++|+||||||+.+++.......-..+++++.+      .+..++..
T Consensus       104 fd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~------~~~~~~~~  177 (440)
T 2z4s_A          104 FENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE------KFLNDLVD  177 (440)
T ss_dssp             GGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH------HHHHHHHH
T ss_pred             hhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH------HHHHHHHH
Confidence            44565 5332  3334444443333 5678999999999999999999876433111224555443      33344444


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc---c-chhccccCC-CCCCcEEEEeecchhh-----h---
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD---F-QAVGIPHGD-GHKGSKVLLTARSLDV-----L---  295 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~---~-~~l~~~l~~-~~~gs~iivTtR~~~v-----a---  295 (395)
                      .+...        ....+.+.+. .+.-+|+|||++....   . ..+...+.. ...|..||+||.+..-     .   
T Consensus       178 ~~~~~--------~~~~~~~~~~-~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L  248 (440)
T 2z4s_A          178 SMKEG--------KLNEFREKYR-KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRL  248 (440)
T ss_dssp             HHHTT--------CHHHHHHHHT-TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHH
T ss_pred             HHHcc--------cHHHHHHHhc-CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHH
Confidence            33211        1123333332 2567999999965431   1 223222210 1346778888876321     0   


Q ss_pred             hhcCCCcceeecCCCChHHHHHHHHHhhC--CCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh------hCC--CHHHH
Q 047930          296 SRKMDSQQNFSFDVLKEDEAWSLFKKMAG--DYIEGSEFKWVAREVAKECAGLPVSIVTVARAL------RNK--RLFEW  365 (395)
Q Consensus       296 ~~~~~~~~~~~l~~L~~~e~~~lf~~~~~--~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l------~~~--~~~~w  365 (395)
                      .........+.+.+++.++...++.+.+.  +...+++   +...|++.++|.+-.+.-+...+      .++  +.+.+
T Consensus       249 ~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e---~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~  325 (440)
T 2z4s_A          249 VSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEE---VLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEA  325 (440)
T ss_dssp             HHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTT---HHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHH
T ss_pred             HhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHH---HHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            00112235789999999999999988873  2222332   46788999999987554432221      222  77788


Q ss_pred             HHHHHHhc
Q 047930          366 KDALEQLR  373 (395)
Q Consensus       366 ~~~l~~l~  373 (395)
                      +.+++.+.
T Consensus       326 ~~~l~~~~  333 (440)
T 2z4s_A          326 ILLLKDFI  333 (440)
T ss_dssp             HHHTSTTT
T ss_pred             HHHHHHHh
Confidence            88877654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.58  E-value=3.3e-06  Score=76.70  Aligned_cols=184  Identities=13%  Similarity=0.125  Sum_probs=103.0

Q ss_pred             ccccchhchHHHHHHHHHHhcC------------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          151 KDYEAFESRMSTLNDILDALKN------------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .....++|.+..++.+.+.+..            ...+.+.|+|++|+||||+|+.+++....     ..+.++.+.-..
T Consensus        18 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~-----~~~~i~~~~l~~   92 (297)
T 3b9p_A           18 VEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSA-----TFLNISAASLTS   92 (297)
T ss_dssp             CCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTC-----EEEEEESTTTSS
T ss_pred             CCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCC-----CeEEeeHHHHhh
Confidence            4456788998888888776531            23467889999999999999999987532     233444433211


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc-------------cchhc---cccCCC--C
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD-------------FQAVG---IPHGDG--H  280 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-------------~~~l~---~~l~~~--~  280 (395)
                                    ... .........+.......++.+|+||++.....             ...+.   ..++..  .
T Consensus        93 --------------~~~-~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  157 (297)
T 3b9p_A           93 --------------KYV-GDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDG  157 (297)
T ss_dssp             --------------SSC-SCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-----
T ss_pred             --------------ccc-chHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCC
Confidence                          000 01112223333333335678999999965311             00111   111111  1


Q ss_pred             CCcEEEEeecchhhh-hhcC-CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHHHH
Q 047930          281 KGSKVLLTARSLDVL-SRKM-DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTVAR  355 (395)
Q Consensus       281 ~gs~iivTtR~~~va-~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i~~  355 (395)
                      .+..||.||...... .... .....+.+...+.++...++...+......-. ......+++.+.|.+- .+..+..
T Consensus       158 ~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~-~~~~~~la~~~~g~~~~~l~~l~~  234 (297)
T 3b9p_A          158 DRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLD-TEALRRLAKITDGYSGSDLTALAK  234 (297)
T ss_dssp             -CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCSC-HHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            345566677653211 1000 12346778888888888888877643221111 2356789999999876 5555443

>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=98.58  E-value=3.3e-06  Score=81.24  Aligned_cols=184  Identities=17%  Similarity=0.196  Sum_probs=103.9

Q ss_pred             ccccchhchHHHHHHHHHHhc------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          151 KDYEAFESRMSTLNDILDALK------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .....+.|.+..++.|...+.            ....+.+.|+|++|+|||+||+.+++....      .-++.++... 
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~------~~~~~v~~~~-  203 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN------STFFSISSSD-  203 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS------SEEEEECCC--
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC------CCEEEEeHHH-
Confidence            345667888888887776652            123467889999999999999999987621      1223333221 


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc-------------cchhccccCC---CCCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD-------------FQAVGIPHGD---GHKG  282 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-------------~~~l~~~l~~---~~~g  282 (395)
                         +....   .+.      ....+..+.+.....++.+|+||+++....             ...+...+..   ...+
T Consensus       204 ---l~~~~---~g~------~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  271 (444)
T 2zan_A          204 ---LVSKW---LGE------SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  271 (444)
T ss_dssp             --------------------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSS
T ss_pred             ---HHhhh---cch------HHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCC
Confidence               11110   110      111234444444445789999999975410             1112222211   2345


Q ss_pred             cEEEEeecchhhh-hhcC-CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHHH
Q 047930          283 SKVLLTARSLDVL-SRKM-DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTVA  354 (395)
Q Consensus       283 s~iivTtR~~~va-~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~  354 (395)
                      ..||.||...... .... .....+.+...+.++...+|...+........ ......|++.+.|. +-.|..+.
T Consensus       272 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~-~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          272 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLT-EADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECC-HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHcCCCCHHHHHHHH
Confidence            6667677653221 1111 22357888888889999999888754322111 23467899999994 44554443

>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=98.57  E-value=1.8e-06  Score=80.67  Aligned_cols=183  Identities=19%  Similarity=0.170  Sum_probs=103.1

Q ss_pred             ccccchhchHHHHHHHHHHhc------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          151 KDYEAFESRMSTLNDILDALK------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .....++|.+..++.|.+.+.            ....+-+.|+|++|+|||+||+.+++.....     .+.++.+    
T Consensus        48 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~-----~~~v~~~----  118 (355)
T 2qp9_X           48 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS----  118 (355)
T ss_dssp             CCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCE-----EEEEEHH----
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC-----EEEeeHH----
Confidence            334567888888887777652            1123458899999999999999999986421     2333322    


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc-------------cchhcccc---CCCCCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD-------------FQAVGIPH---GDGHKG  282 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-------------~~~l~~~l---~~~~~g  282 (395)
                        ++..    ..    ... .......+.......++.+|+||+++....             ...+...+   .....+
T Consensus       119 --~l~~----~~----~g~-~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~  187 (355)
T 2qp9_X          119 --DLVS----KW----MGE-SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  187 (355)
T ss_dssp             --HHHS----CC--------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CC
T ss_pred             --HHhh----hh----cch-HHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCC
Confidence              1111    00    000 112233444444445789999999975321             11121111   112345


Q ss_pred             cEEEEeecchhhh-hhc-CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHHH
Q 047930          283 SKVLLTARSLDVL-SRK-MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTVA  354 (395)
Q Consensus       283 s~iivTtR~~~va-~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i~  354 (395)
                      ..||.||...... ... ......+.+...+.++-.++|...+........ ......|++.+.|. |-.|..+.
T Consensus       188 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~-~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          188 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLT-KEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             EEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCC-HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             eEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCC-HHHHHHHHHHcCCCCHHHHHHHH
Confidence            5566666543211 101 123357889999999999999988864322111 23467899999984 54454443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.54  E-value=2.5e-06  Score=79.84  Aligned_cols=200  Identities=18%  Similarity=0.228  Sum_probs=113.7

Q ss_pred             ccccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          151 KDYEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      ....++.|-++.+++|.+.+.             -..++-+.++|++|+|||.||+.+++.....     .+.++.+.-.
T Consensus       145 v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l~  219 (405)
T 4b4t_J          145 STYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK-----FIRVSGAELV  219 (405)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE-----EEEEEGGGGS
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC-----ceEEEhHHhh
Confidence            345566677766666655432             1235668899999999999999999987542     3444443321


Q ss_pred             CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc----------c------cchhccccC--CC
Q 047930          218 DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL----------D------FQAVGIPHG--DG  279 (395)
Q Consensus       218 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~----------~------~~~l~~~l~--~~  279 (395)
                      +              .... .....+..+........+++|+||+++...          .      ...+...+.  ..
T Consensus       220 s--------------k~vG-ese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  284 (405)
T 4b4t_J          220 Q--------------KYIG-EGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFET  284 (405)
T ss_dssp             C--------------SSTT-HHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTC
T ss_pred             c--------------cccc-hHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCC
Confidence            1              0101 111234444555445678999999997531          0      011111111  23


Q ss_pred             CCCcEEEEeecchhhh----hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH-
Q 047930          280 HKGSKVLLTARSLDVL----SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV-  353 (395)
Q Consensus       280 ~~gs~iivTtR~~~va----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i-  353 (395)
                      ..+..||.||......    .+.......+.++..+.++-.++|+.++......++..  ...|++.|.|.--| |..+ 
T Consensus       285 ~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd--l~~lA~~t~G~SGADi~~l~  362 (405)
T 4b4t_J          285 SKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN--LRKVAEKMNGCSGADVKGVC  362 (405)
T ss_dssp             CCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC--HHHHHHHCCSCCHHHHHHHH
T ss_pred             CCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC--HHHHHHHCCCCCHHHHHHHH
Confidence            3455667777654332    11113456889998898999999988875433222221  45788888886432 2222 


Q ss_pred             --HHH--hh-CC---CHHHHHHHHHHh
Q 047930          354 --ARA--LR-NK---RLFEWKDALEQL  372 (395)
Q Consensus       354 --~~~--l~-~~---~~~~w~~~l~~l  372 (395)
                        |++  ++ ++   +.+++..+++..
T Consensus       363 ~eA~~~Air~~~~~vt~~Df~~Al~~v  389 (405)
T 4b4t_J          363 TEAGMYALRERRIHVTQEDFELAVGKV  389 (405)
T ss_dssp             HHHHHHHHHTTCSBCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence              222  23 22   567777777654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.52  E-value=7.3e-07  Score=86.46  Aligned_cols=151  Identities=14%  Similarity=0.202  Sum_probs=87.1

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCC---C-CE-EEEEEeCCcCCHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL---F-DQ-VIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---f-~~-~~wv~~s~~~~~~~~~~~i  226 (395)
                      ...+++||+.+++.++..+.......+.++|++|+|||++|+.+++.......   . +. ++.++++.           
T Consensus       178 ~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~-----------  246 (468)
T 3pxg_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGT-----------  246 (468)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCc-----------
Confidence            35678999999999999987666667789999999999999999987532110   1 11 22222220           


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchh------hhhhcCC
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLD------VLSRKMD  300 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~------va~~~~~  300 (395)
                        ..     ..........+.+.+...++.+|++|  ...+....+...+. . ...++|.+|....      +......
T Consensus       247 --~~-----~g~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~-~-g~v~vI~at~~~e~~~~~~~~~al~~  315 (468)
T 3pxg_A          247 --KY-----RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA-R-GELQCIGATTLDEYRKYIEKDAALER  315 (468)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT-S-SSCEEEEECCTTTTHHHHTTCSHHHH
T ss_pred             --cc-----cchHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc-C-CCEEEEecCCHHHHHHHhhcCHHHHH
Confidence              00     00011233455555554567899999  22222222333332 2 2345555554432      1111122


Q ss_pred             CcceeecCCCChHHHHHHHHHhhC
Q 047930          301 SQQNFSFDVLKEDEAWSLFKKMAG  324 (395)
Q Consensus       301 ~~~~~~l~~L~~~e~~~lf~~~~~  324 (395)
                      ....+.+.+.+.++...++.....
T Consensus       316 Rf~~i~v~~p~~e~~~~iL~~~~~  339 (468)
T 3pxg_A          316 RFQPIQVDQPSVDESIQILQGLRD  339 (468)
T ss_dssp             SEEEEECCCCCHHHHHHHHHHTTT
T ss_pred             hCccceeCCCCHHHHHHHHHHHHH
Confidence            345799999999999999997763

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.50  E-value=2.2e-06  Score=81.49  Aligned_cols=199  Identities=17%  Similarity=0.228  Sum_probs=111.5

Q ss_pred             ccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH
Q 047930          153 YEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI  219 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~  219 (395)
                      ..++.|-++.+++|.+.+.             -..++-|.++|++|+|||+||+.+++.....     .+.++.+.-.+ 
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~-----~~~v~~s~l~s-  253 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN-----FIFSPASGIVD-  253 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGTCC-
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehhhhcc-
Confidence            4556677766666555432             1235678899999999999999999987532     34444433211 


Q ss_pred             HHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--------c--------cchhcccc--CCCCC
Q 047930          220 RKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--------D--------FQAVGIPH--GDGHK  281 (395)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--------~--------~~~l~~~l--~~~~~  281 (395)
                                   .... .....+..+........+++|+||+++...        .        ...+...+  .....
T Consensus       254 -------------k~~G-ese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  319 (437)
T 4b4t_L          254 -------------KYIG-ESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLG  319 (437)
T ss_dssp             -------------SSSS-HHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTT
T ss_pred             -------------ccch-HHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCC
Confidence                         0111 111233344444444679999999997431        0        11111111  12334


Q ss_pred             CcEEEEeecchhhh-hhcCC---CcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH---
Q 047930          282 GSKVLLTARSLDVL-SRKMD---SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV---  353 (395)
Q Consensus       282 gs~iivTtR~~~va-~~~~~---~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i---  353 (395)
                      +..||.||...... .....   -...|.++..+.++-.++|+.++......++..  ...+++.+.|+--| |..+   
T Consensus       320 ~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d--l~~lA~~t~G~sGADi~~l~~e  397 (437)
T 4b4t_L          320 QTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD--FEAAVKMSDGFNGADIRNCATE  397 (437)
T ss_dssp             SSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC--HHHHHHTCCSCCHHHHHHHHHH
T ss_pred             CeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC--HHHHHHhCCCCCHHHHHHHHHH
Confidence            55677777654432 11111   245788888888888888887774322222211  35678888886432 2222   


Q ss_pred             HHHh--h-CC---CHHHHHHHHHHhc
Q 047930          354 ARAL--R-NK---RLFEWKDALEQLR  373 (395)
Q Consensus       354 ~~~l--~-~~---~~~~w~~~l~~l~  373 (395)
                      |++.  + ++   +.++...+++.+.
T Consensus       398 A~~~air~~~~~i~~~d~~~Al~~v~  423 (437)
T 4b4t_L          398 AGFFAIRDDRDHINPDDLMKAVRKVA  423 (437)
T ss_dssp             HHHHHHHTTCSSBCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence            2222  2 22   5677777777654

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.44  E-value=5.4e-06  Score=78.70  Aligned_cols=198  Identities=16%  Similarity=0.204  Sum_probs=110.8

Q ss_pred             ccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH
Q 047930          153 YEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI  219 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~  219 (395)
                      ..++.|-++.+++|.+.+.             -..++-|.++|++|+|||+||+.+++.....     .+.++.+.-.+ 
T Consensus       208 ~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~-----fi~vs~s~L~s-  281 (467)
T 4b4t_H          208 YSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT-----FIRVIGSELVQ-  281 (467)
T ss_dssp             CSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGGCC-
T ss_pred             HHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC-----eEEEEhHHhhc-
Confidence            3456677766666655432             1346778899999999999999999987532     33444332111 


Q ss_pred             HHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc----------------cchhcccc--CCCCC
Q 047930          220 RKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD----------------FQAVGIPH--GDGHK  281 (395)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~----------------~~~l~~~l--~~~~~  281 (395)
                                   ..... ....+..+........+++|+||+++....                ...+...+  .....
T Consensus       282 -------------k~vGe-sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  347 (467)
T 4b4t_H          282 -------------KYVGE-GARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRG  347 (467)
T ss_dssp             -------------CSSSH-HHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTT
T ss_pred             -------------ccCCH-HHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCC
Confidence                         11111 112334444444446789999999974310                00111111  12233


Q ss_pred             CcEEEEeecchhhh----hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH---
Q 047930          282 GSKVLLTARSLDVL----SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV---  353 (395)
Q Consensus       282 gs~iivTtR~~~va----~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i---  353 (395)
                      +..||.||......    .+.......+.+...+.++-.++|+.++.......+..  ...|++.|.|.--| |..+   
T Consensus       348 ~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd--l~~LA~~T~GfSGADI~~l~~e  425 (467)
T 4b4t_H          348 NIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR--WELISRLCPNSTGAELRSVCTE  425 (467)
T ss_dssp             TEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC--HHHHHHHCCSCCHHHHHHHHHH
T ss_pred             cEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC--HHHHHHHCCCCCHHHHHHHHHH
Confidence            44566677543322    11112456889988888999999988875433322221  35688889886432 2222   


Q ss_pred             HHHh--h-CC---CHHHHHHHHHHh
Q 047930          354 ARAL--R-NK---RLFEWKDALEQL  372 (395)
Q Consensus       354 ~~~l--~-~~---~~~~w~~~l~~l  372 (395)
                      |++.  + ++   +.++...+++++
T Consensus       426 Aa~~Air~~~~~it~~Df~~Al~kV  450 (467)
T 4b4t_H          426 AGMFAIRARRKVATEKDFLKAVDKV  450 (467)
T ss_dssp             HHHHHHHHTCSSBCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCccCHHHHHHHHHHH
Confidence            2222  2 22   667777777654

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.44  E-value=1.6e-06  Score=82.40  Aligned_cols=203  Identities=14%  Similarity=0.215  Sum_probs=110.8

Q ss_pred             cccccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc
Q 047930          150 NKDYEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI  216 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~  216 (395)
                      .....++.|-++.+++|.+.+.             -..++-|.++|++|+|||+||+.+++.....     .+.++.+.-
T Consensus       177 ~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l  251 (434)
T 4b4t_M          177 TETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT-----FLKLAAPQL  251 (434)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGG
T ss_pred             CCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC-----EEEEehhhh
Confidence            3445667777777777665532             1345678899999999999999999987532     334443321


Q ss_pred             CCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc-------c-----c----chhccccC--C
Q 047930          217 QDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL-------D-----F----QAVGIPHG--D  278 (395)
Q Consensus       217 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~-------~-----~----~~l~~~l~--~  278 (395)
                      .+              .... .....+..+........+++|+||+++...       .     .    ..+...+.  .
T Consensus       252 ~~--------------~~vG-ese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          252 VQ--------------MYIG-EGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             CS--------------SCSS-HHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             hh--------------cccc-hHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence            11              1111 111233344444444568999999986320       0     0    11111111  1


Q ss_pred             CCCCcEEEEeecchhhhh-hcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH
Q 047930          279 GHKGSKVLLTARSLDVLS-RKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV  353 (395)
Q Consensus       279 ~~~gs~iivTtR~~~va~-~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i  353 (395)
                      ...+..||.||....... ...   .....+.++..+.++-.++|+.++......++..  ...|++.|.|+--| |..+
T Consensus       317 ~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd--l~~lA~~t~G~sGADi~~l  394 (434)
T 4b4t_M          317 SDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN--WQELARSTDEFNGAQLKAV  394 (434)
T ss_dssp             SSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC--HHHHHHHCSSCCHHHHHHH
T ss_pred             CCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC--HHHHHHhCCCCCHHHHHHH
Confidence            223455666776543321 111   2345788888888888888887664222222211  35688888886322 3333


Q ss_pred             ---HHHh--h-CC---CHHHHHHHHHHhcC
Q 047930          354 ---ARAL--R-NK---RLFEWKDALEQLRR  374 (395)
Q Consensus       354 ---~~~l--~-~~---~~~~w~~~l~~l~~  374 (395)
                         |++.  + ++   +.++...+++....
T Consensus       395 ~~eA~~~a~r~~~~~i~~~Df~~Al~~v~~  424 (434)
T 4b4t_M          395 TVEAGMIALRNGQSSVKHEDFVEGISEVQA  424 (434)
T ss_dssp             HHHHHHHHHHHTCSSBCHHHHHHHHHSCSS
T ss_pred             HHHHHHHHHHcCCCCcCHHHHHHHHHHHhC
Confidence               2222  2 22   55666666665443

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.43  E-value=4.9e-06  Score=78.22  Aligned_cols=200  Identities=16%  Similarity=0.187  Sum_probs=110.7

Q ss_pred             ccccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          151 KDYEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      ....++-|-++.+++|.+.+.             -..++-|.++|++|+|||.||+.+++.....     .+.++.+.-.
T Consensus       179 v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~-----fi~v~~s~l~  253 (437)
T 4b4t_I          179 ESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT-----FLRIVGSELI  253 (437)
T ss_dssp             CCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE-----EEEEESGGGC
T ss_pred             CcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC-----EEEEEHHHhh
Confidence            345556677666666555432             1235678899999999999999999987632     2334333211


Q ss_pred             CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc----------------cchhcccc--CCC
Q 047930          218 DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD----------------FQAVGIPH--GDG  279 (395)
Q Consensus       218 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~----------------~~~l~~~l--~~~  279 (395)
                      +              .... .....+..+........+++|+||+++....                ...+...+  ...
T Consensus       254 s--------------k~vG-esek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          254 Q--------------KYLG-DGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             C--------------SSSS-HHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             h--------------ccCc-hHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence            1              1111 1112334444444446789999999874310                00111111  123


Q ss_pred             CCCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH-
Q 047930          280 HKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV-  353 (395)
Q Consensus       280 ~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i-  353 (395)
                      ..+..||.||...... ....   .....+.+..-+.++-.++|+.++......++..  ...|++.+.|+--| |..+ 
T Consensus       319 ~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvd--l~~LA~~T~GfSGADI~~l~  396 (437)
T 4b4t_I          319 RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVN--LETLVTTKDDLSGADIQAMC  396 (437)
T ss_dssp             SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCC--HHHHHHHCCSCCHHHHHHHH
T ss_pred             CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCC--HHHHHHhCCCCCHHHHHHHH
Confidence            3455667777654432 1112   2234688888888888899988875433222211  35678888886432 2222 


Q ss_pred             --HHH--hh-CC---CHHHHHHHHHHh
Q 047930          354 --ARA--LR-NK---RLFEWKDALEQL  372 (395)
Q Consensus       354 --~~~--l~-~~---~~~~w~~~l~~l  372 (395)
                        |++  ++ ++   +.++...+++++
T Consensus       397 ~eA~~~Air~~~~~It~eDf~~Al~rv  423 (437)
T 4b4t_I          397 TEAGLLALRERRMQVTAEDFKQAKERV  423 (437)
T ss_dssp             HHHHHHHHHTTCSCBCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCccCHHHHHHHHHHH
Confidence              222  22 22   567777777654

>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=98.42  E-value=1.4e-06  Score=80.24  Aligned_cols=166  Identities=16%  Similarity=0.150  Sum_probs=92.7

Q ss_pred             HHHHHHHhcCC--CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchh
Q 047930          163 LNDILDALKNP--DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETES  240 (395)
Q Consensus       163 ~~~l~~~l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~  240 (395)
                      ...+...+..+  ....+.|+|++|+||||||+.+++..... .+ .+++++.      .++...+...+..        
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~-~~-~~~~i~~------~~~~~~~~~~~~~--------   86 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR-GY-RVIYSSA------DDFAQAMVEHLKK--------   86 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT-TC-CEEEEEH------HHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC-CC-EEEEEEH------HHHHHHHHHHHHc--------
Confidence            33444444433  34678899999999999999999876432 12 2455543      2333333333211        


Q ss_pred             hhHHHHHHHHhcCCeEEEEEeCCCCcc---cc-chhccccCC-CCCCcEEEEeecchhh-----hh---hcCCCcceeec
Q 047930          241 GRARSLCNRLKKEKRILVILDNIWENL---DF-QAVGIPHGD-GHKGSKVLLTARSLDV-----LS---RKMDSQQNFSF  307 (395)
Q Consensus       241 ~~~~~l~~~l~~~kr~LlVlDdv~~~~---~~-~~l~~~l~~-~~~gs~iivTtR~~~v-----a~---~~~~~~~~~~l  307 (395)
                      .....+...+.  +..+|+|||+....   .+ ..+...+.. ...+..||+||.+..-     ..   ........+++
T Consensus        87 ~~~~~~~~~~~--~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l  164 (324)
T 1l8q_A           87 GTINEFRNMYK--SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEI  164 (324)
T ss_dssp             TCHHHHHHHHH--TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEEC
T ss_pred             CcHHHHHHHhc--CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEe
Confidence            01122333333  36799999996543   12 222222210 1235578888764321     10   01122357899


Q ss_pred             CCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          308 DVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       308 ~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      .+ +.++...++...+......- -.+..+.|++.+ |.+-.
T Consensus       165 ~~-~~~e~~~il~~~~~~~~~~l-~~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          165 EL-DNKTRFKIIKEKLKEFNLEL-RKEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             CC-CHHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-SSHHH
T ss_pred             CC-CHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHhC-CCHHH
Confidence            99 99999999998874211111 134577888888 77653

>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=98.41  E-value=1.2e-05  Score=73.21  Aligned_cols=176  Identities=13%  Similarity=0.172  Sum_probs=99.1

Q ss_pred             cccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          152 DYEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      ....+.|.+..++.|.+++.             -...+.+.|+|++|+|||+||+.+++....     ..+.+  +    
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~-----~~i~v--~----   81 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA-----NFISI--K----   81 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTC-----EEEEE--C----
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCC-----CEEEE--E----
Confidence            34557787777666665543             134567889999999999999999987642     12222  2    


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc------------c----cchhccccC--CCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL------------D----FQAVGIPHG--DGH  280 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~------------~----~~~l~~~l~--~~~  280 (395)
                      ..++.....   +..      ......+.+......+.+|+||+++...            .    ...+...+.  ...
T Consensus        82 ~~~l~~~~~---g~~------~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  152 (301)
T 3cf0_A           82 GPELLTMWF---GES------EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  152 (301)
T ss_dssp             HHHHHHHHH---TTC------TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTT
T ss_pred             hHHHHhhhc---Cch------HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCC
Confidence            223332221   111      1123344444443568999999997421            0    111211111  122


Q ss_pred             CCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          281 KGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       281 ~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      .+..||.||...... ....   .....+.+...+.++-.++|...+.......+..  ...++..+.|.|-+
T Consensus       153 ~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~--~~~la~~~~g~sg~  223 (301)
T 3cf0_A          153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD--LEFLAKMTNGFSGA  223 (301)
T ss_dssp             SSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCC--HHHHHHTCSSCCHH
T ss_pred             CCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccch--HHHHHHHcCCCCHH
Confidence            356677777654321 1111   2235789999999999999988875332221111  24566677777654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.41  E-value=5.7e-07  Score=75.36  Aligned_cols=49  Identities=20%  Similarity=0.266  Sum_probs=42.6

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....++||+.+++.+.+.+.....+.+.|+|++|+|||+||+.+++...
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             ccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            3456889999999999999877677889999999999999999998753

>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=98.39  E-value=1.5e-06  Score=90.60  Aligned_cols=158  Identities=10%  Similarity=0.161  Sum_probs=88.2

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC---CC-C-EEEEEEeCCcCCHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK---LF-D-QVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~f-~-~~~wv~~s~~~~~~~~~~~  225 (395)
                      ....+++||+.++..++..+.......+.++|++|+|||+||+.+++......   .. . .+++++++.-..       
T Consensus       167 ~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~-------  239 (854)
T 1qvr_A          167 GKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA-------  239 (854)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------
T ss_pred             CCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc-------
Confidence            34567899999999999998866666788999999999999999998753211   11 1 234443322110       


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhc-CCeEEEEEeCCCCcc-------ccc---hhccccCCCCCCcEEEEeecchhh
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKK-EKRILVILDNIWENL-------DFQ---AVGIPHGDGHKGSKVLLTARSLDV  294 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~-------~~~---~l~~~l~~~~~gs~iivTtR~~~v  294 (395)
                           +.. ........+..+.+.+.. +++.+|+||++....       .++   .+...+ .. .+..+|.+|.....
T Consensus       240 -----g~~-~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l-~~-~~i~~I~at~~~~~  311 (854)
T 1qvr_A          240 -----GAK-YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL-AR-GELRLIGATTLDEY  311 (854)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHH-HT-TCCCEEEEECHHHH
T ss_pred             -----cCc-cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHH-hC-CCeEEEEecCchHH
Confidence                 000 001112233444455543 467999999996542       011   121111 11 23345555543221


Q ss_pred             -----hhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          295 -----LSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       295 -----a~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                           ..........+.+.+++.++..+++....
T Consensus       312 ~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          312 REIEKDPALERRFQPVYVDEPTVEETISILRGLK  345 (854)
T ss_dssp             HHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             hhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhh
Confidence                 11122334468999999999999997554

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.35  E-value=2.1e-05  Score=69.78  Aligned_cols=200  Identities=16%  Similarity=0.205  Sum_probs=105.1

Q ss_pred             ccccchhchHHHHHHHHH---HhcC---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          151 KDYEAFESRMSTLNDILD---ALKN---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~---~l~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      .....++|.+..++.+.+   ++..         ...+-+.|+|++|+||||||+.+++....  .   .+.++.+.-..
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~--~---~~~i~~~~~~~   83 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV--P---FFTISGSDFVE   83 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC--C---EEEECSCSSTT
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCC--C---EEEEeHHHHHH
Confidence            344567777666555443   3322         12345889999999999999999987642  1   23333222110


Q ss_pred             HHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc----------------cchhccccC--CCC
Q 047930          219 IRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD----------------FQAVGIPHG--DGH  280 (395)
Q Consensus       219 ~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~----------------~~~l~~~l~--~~~  280 (395)
                                    ..... .......+.+......+.++++|+++....                ...+...+.  ...
T Consensus        84 --------------~~~~~-~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (257)
T 1lv7_A           84 --------------MFVGV-GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (257)
T ss_dssp             --------------SCCCC-CHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             --------------Hhhhh-hHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC
Confidence                          00001 112233444444445678999999843210                011111110  123


Q ss_pred             CCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCC-chHHHHHHHH
Q 047930          281 KGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAG-LPVSIVTVAR  355 (395)
Q Consensus       281 ~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~G-lPlai~~i~~  355 (395)
                      .+..||.||...... ....   .....+.+...+.++-.+++...+......++.  ....++..+.| .+--|..+..
T Consensus       149 ~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~--~~~~la~~~~G~~~~dl~~l~~  226 (257)
T 1lv7_A          149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI--DAAIIARGTPGFSGADLANLVN  226 (257)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccc--cHHHHHHHcCCCCHHHHHHHHH
Confidence            345667777654321 1111   123477888888888888888776432222221  13457778888 6655554321


Q ss_pred             H---h---hC--C-CHHHHHHHHHHh
Q 047930          356 A---L---RN--K-RLFEWKDALEQL  372 (395)
Q Consensus       356 ~---l---~~--~-~~~~w~~~l~~l  372 (395)
                      .   .   ++  . +.+.++.+++..
T Consensus       227 ~a~~~a~~~~~~~i~~~~~~~a~~~~  252 (257)
T 1lv7_A          227 EAALFAARGNKRVVSMVEFEKAKDKI  252 (257)
T ss_dssp             HHHHHHHHTTCSSBCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcccHHHHHHHHHHH
Confidence            1   1   12  1 667777777664

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.27  E-value=1.1e-05  Score=76.39  Aligned_cols=199  Identities=18%  Similarity=0.207  Sum_probs=104.7

Q ss_pred             ccccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          151 KDYEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      ....++.|-+..++.|.+.+.             -..++-+.++|++|+|||+||+.+++.....     .+.++.+.-.
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~-----~~~v~~~~l~  243 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA-----FIRVNGSEFV  243 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE-----EEEEEGGGTC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eEEEecchhh
Confidence            345566777777666655442             1345668899999999999999999987532     3444443321


Q ss_pred             CHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--------c--------cchhcccc--CCC
Q 047930          218 DIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--------D--------FQAVGIPH--GDG  279 (395)
Q Consensus       218 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--------~--------~~~l~~~l--~~~  279 (395)
                      +              .... .....+..+........+++|++|+++...        .        ...+...+  ...
T Consensus       244 ~--------------~~~G-e~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~  308 (428)
T 4b4t_K          244 H--------------KYLG-EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQ  308 (428)
T ss_dssp             C--------------SSCS-HHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCS
T ss_pred             c--------------cccc-hhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCC
Confidence            1              0000 111233444444444678999999986320        0        11111111  123


Q ss_pred             CCCcEEEEeecchhhh-hhcC---CCcceeecCCCChH-HHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH-HHHH
Q 047930          280 HKGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKED-EAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS-IVTV  353 (395)
Q Consensus       280 ~~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~-e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla-i~~i  353 (395)
                      ..+..||.||...... ....   .....+++.++++. +-..+|+.++......++..  ...+++.|.|+--| |..+
T Consensus       309 ~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~d--l~~lA~~t~G~sgadi~~l  386 (428)
T 4b4t_K          309 STNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEAD--LDSLIIRNDSLSGAVIAAI  386 (428)
T ss_dssp             SCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCC--HHHHHHHTTTCCHHHHHHH
T ss_pred             CCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccC--HHHHHHHCCCCCHHHHHHH
Confidence            3455677777654321 1111   22346788766554 44566666553322222211  35678888886422 2222


Q ss_pred             ---HHH--hh-CC---CHHHHHHHHHH
Q 047930          354 ---ARA--LR-NK---RLFEWKDALEQ  371 (395)
Q Consensus       354 ---~~~--l~-~~---~~~~w~~~l~~  371 (395)
                         |++  ++ ++   +.+....++..
T Consensus       387 ~~eA~~~a~r~~~~~i~~~d~~~A~~~  413 (428)
T 4b4t_K          387 MQEAGLRAVRKNRYVILQSDLEEAYAT  413 (428)
T ss_dssp             HHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHH
Confidence               222  22 22   56667666654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.26  E-value=3.6e-06  Score=86.68  Aligned_cols=151  Identities=14%  Similarity=0.188  Sum_probs=87.2

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC-C---CCE-EEEEEeCCcCCHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK-L---FDQ-VIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~---f~~-~~wv~~s~~~~~~~~~~~i  226 (395)
                      ...+++||+.+++.++..+.......+.++|++|+|||++|+.+++...... .   .++ .+.++.             
T Consensus       178 ~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~-------------  244 (758)
T 3pxi_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM-------------  244 (758)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc-------------
Confidence            3567899999999999999766666788999999999999999998752211 0   111 111211             


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchh------hhhhcCC
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLD------VLSRKMD  300 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~------va~~~~~  300 (395)
                          +.... ......+..+.+.+...++.+|++|  ...+....+...+ . ....++|.||....      +......
T Consensus       245 ----g~~~~-G~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l-~-~~~v~~I~at~~~~~~~~~~~d~al~r  315 (758)
T 3pxi_A          245 ----GTKYR-GEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSL-A-RGELQCIGATTLDEYRKYIEKDAALER  315 (758)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCT-T-SSSCEEEEECCTTTTHHHHTTCSHHHH
T ss_pred             ----ccccc-chHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHH-h-cCCEEEEeCCChHHHHHHhhccHHHHh
Confidence                00000 0111234455555555678899999  2222222232232 2 22445666555433      1111112


Q ss_pred             CcceeecCCCChHHHHHHHHHhhC
Q 047930          301 SQQNFSFDVLKEDEAWSLFKKMAG  324 (395)
Q Consensus       301 ~~~~~~l~~L~~~e~~~lf~~~~~  324 (395)
                      ....+.+.+.+.++..+++.....
T Consensus       316 Rf~~i~v~~p~~~~~~~il~~~~~  339 (758)
T 3pxi_A          316 RFQPIQVDQPSVDESIQILQGLRD  339 (758)
T ss_dssp             SEEEEECCCCCHHHHHHHHHHTTT
T ss_pred             hCcEEEeCCCCHHHHHHHHHHHHH
Confidence            335799999999999999997653

>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=98.25  E-value=1.3e-05  Score=82.67  Aligned_cols=158  Identities=15%  Similarity=0.198  Sum_probs=93.0

Q ss_pred             cccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEE-EEeCCcCCHHHHHHHH
Q 047930          152 DYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIF-VEVSQIQDIRKIQGEF  226 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~w-v~~s~~~~~~~~~~~i  226 (395)
                      ...+++||+.++..+++.|.......+.|+|++|+|||++|+.+++.......    ..+.+| +..+.-          
T Consensus       184 ~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l----------  253 (758)
T 1r6b_X          184 GIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----------  253 (758)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC------------
T ss_pred             CCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH----------
Confidence            34578999999999999998766677889999999999999999987532111    233332 111110          


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--------c--cchhccccCCCCCCcEEEEeecchhhh-
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--------D--FQAVGIPHGDGHKGSKVLLTARSLDVL-  295 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--------~--~~~l~~~l~~~~~gs~iivTtR~~~va-  295 (395)
                         +............+..+.+.+...++.+|+|||+....        .  ...+..++... .+..+|.+|...... 
T Consensus       254 ---~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~-~~~~~I~at~~~~~~~  329 (758)
T 1r6b_X          254 ---LAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQEFSN  329 (758)
T ss_dssp             ----CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS-CCCEEEEEECHHHHHC
T ss_pred             ---hccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC-CCeEEEEEeCchHHhh
Confidence               00000111122234455555554567999999997541        1  11222232222 345566666543211 


Q ss_pred             -----hhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          296 -----SRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       296 -----~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                           .........+.+.+.+.++..+++....
T Consensus       330 ~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          330 IFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             CCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence                 0011223468999999999999987654

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.23  E-value=5.6e-06  Score=75.41  Aligned_cols=144  Identities=15%  Similarity=0.051  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhccc--CCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCCccc
Q 047930          160 MSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENE--KLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLTLHE  236 (395)
Q Consensus       160 ~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~  236 (395)
                      ++.++.|...+..++.+...++|+.|+||||+|..+.+.....  .+.+. .+++.++ ...+.+ .+++.+.+..... 
T Consensus         3 ~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~-ir~li~~~~~~p~-   79 (305)
T 2gno_A            3 KDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDD-IRTIKDFLNYSPE-   79 (305)
T ss_dssp             -CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHH-HHHHHHHHTSCCS-
T ss_pred             HHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHH-HHHHHHHHhhccc-
Confidence            3455666677766667889999999999999999998753211  23343 4454433 233333 2334444432111 


Q ss_pred             cchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecch-hhhhhcCCCcceeecCCCChH
Q 047930          237 ETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMDSQQNFSFDVLKED  313 (395)
Q Consensus       237 ~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~~~~~~~l~~L~~~  313 (395)
                                     .+++-++|+|+++..  ...+.+...+....+.+.+|++|.+. .+.......  .+++.+++++
T Consensus        80 ---------------~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR--~~~f~~l~~~  142 (305)
T 2gno_A           80 ---------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR--VFRVVVNVPK  142 (305)
T ss_dssp             ---------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCH
T ss_pred             ---------------cCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce--eEeCCCCCHH
Confidence                           145778999999754  24444544443344567777776543 333322333  8999999999


Q ss_pred             HHHHHHHHhh
Q 047930          314 EAWSLFKKMA  323 (395)
Q Consensus       314 e~~~lf~~~~  323 (395)
                      +....+.+..
T Consensus       143 ~i~~~L~~~~  152 (305)
T 2gno_A          143 EFRDLVKEKI  152 (305)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998876

>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=98.21  E-value=5.8e-07  Score=80.44  Aligned_cols=174  Identities=20%  Similarity=0.173  Sum_probs=87.9

Q ss_pred             ccchhchHHHHHHHHHHhc---C---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          153 YEAFESRMSTLNDILDALK---N---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      ...++|.+..++.+.+.+.   .         ...+-+.|+|++|+|||+||+.+++.....  |-   .++.+.-.+  
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~--~~---~v~~~~~~~--   82 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP--FF---SMGGSSFIE--   82 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCC--CC---CCCSCTTTT--
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--EE---EechHHHHH--
Confidence            3456676555544444322   1         123347799999999999999999876432  21   111111100  


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc-----------------ccchhccccCC---CC
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL-----------------DFQAVGIPHGD---GH  280 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~-----------------~~~~l~~~l~~---~~  280 (395)
                              .+. .....    ....+.+.....++.+|+|||++...                 ....+...+..   ..
T Consensus        83 --------~~~-~~~~~----~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  149 (268)
T 2r62_A           83 --------MFV-GLGAS----RVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSEN  149 (268)
T ss_dssp             --------SCS-SSCSS----SSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSC
T ss_pred             --------hhc-chHHH----HHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCC
Confidence                    000 00000    01112222222456899999995431                 11222222211   11


Q ss_pred             CCcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          281 KGSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       281 ~gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      ....||.||...... ....   .....+.+.+.+.++-.+++...+......++.  ....|++.+.|.|-
T Consensus       150 ~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~g~~g  219 (268)
T 2r62_A          150 APVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDV--NLQEVAKLTAGLAG  219 (268)
T ss_dssp             SCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSC--CTTTTTSSSCSSCH
T ss_pred             CCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCcc--CHHHHHHHcCCCCH
Confidence            234566677654321 1111   123568899999999999998877432211111  02346667778654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.16  E-value=1.1e-06  Score=70.88  Aligned_cols=46  Identities=20%  Similarity=0.226  Sum_probs=33.5

Q ss_pred             chhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|+...+.++.+.+.  ......|.|+|+.|+|||++|+.+++...
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~   49 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGR   49 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSST
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCC
Confidence            36677777777777654  22334477999999999999999998643

>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=98.16  E-value=1.4e-06  Score=72.93  Aligned_cols=116  Identities=16%  Similarity=0.148  Sum_probs=63.0

Q ss_pred             hHHHHHHHHHHhcC---CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc
Q 047930          159 RMSTLNDILDALKN---PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH  235 (395)
Q Consensus       159 r~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~  235 (395)
                      ....++.+..++.+   .....+.|+|+.|+|||||++.+++.......+. +++++      ..++...+.........
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~-~~~~~------~~~~~~~~~~~~~~~~~   91 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIR-GYFFD------TKDLIFRLKHLMDEGKD   91 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCC-CCEEE------HHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCe-EEEEE------HHHHHHHHHHHhcCchH
Confidence            34444555444432   3346789999999999999999998764222122 23333      44445544443321110


Q ss_pred             ccchhhhHHHHHHHHhcCCeEEEEEeCCCC--ccccch--hccccCC-CCCCcEEEEeecc
Q 047930          236 EETESGRARSLCNRLKKEKRILVILDNIWE--NLDFQA--VGIPHGD-GHKGSKVLLTARS  291 (395)
Q Consensus       236 ~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~--~~~~~~--l~~~l~~-~~~gs~iivTtR~  291 (395)
                          .    .+.+.+.  +.-+|||||++.  .+.|..  +...+.. ...|..+|+||..
T Consensus        92 ----~----~~~~~~~--~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           92 ----T----KFLKTVL--NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             ----S----HHHHHHH--TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             ----H----HHHHHhc--CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence                0    2333343  457999999973  333331  2111111 1246678888875

>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=98.13  E-value=0.00011  Score=67.91  Aligned_cols=194  Identities=17%  Similarity=0.111  Sum_probs=105.2

Q ss_pred             ccccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .....++|.+..++.+...+.     ......+.++|+.|+||||||+.+++.....  |   ...+.+-.....+    
T Consensus        22 ~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~--~---~~~sg~~~~~~~~----   92 (334)
T 1in4_A           22 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN--I---HVTSGPVLVKQGD----   92 (334)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC--E---EEEETTTCCSHHH----
T ss_pred             ccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--E---EEEechHhcCHHH----
Confidence            345567788777766655543     2234678999999999999999999876422  1   1111111111111    


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCC--------C----------CCcEE
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDG--------H----------KGSKV  285 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~--------~----------~gs~i  285 (395)
                                       +..+...+  .++.++++|++....  ..+.+...+...        .          +...+
T Consensus        93 -----------------l~~~~~~~--~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           93 -----------------MAAILTSL--ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             -----------------HHHHHHHC--CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             -----------------HHHHHHHc--cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence                             11111111  234577788875432  111111110000        0          11222


Q ss_pred             E-EeecchhhhhhcCC-CcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh------
Q 047930          286 L-LTARSLDVLSRKMD-SQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL------  357 (395)
Q Consensus       286 i-vTtR~~~va~~~~~-~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l------  357 (395)
                      + .|++...+...... ....+.+++.+.++..+++.+.+......- -.+.+..|++.+.|.|-.+..+...+      
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~-~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~  232 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEI-EDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTV  232 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCB-CHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCc-CHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Confidence            2 24443322111111 123588999999999999998763211111 23468899999999997654443221      


Q ss_pred             h-C-C-CHHHHHHHHHHhc
Q 047930          358 R-N-K-RLFEWKDALEQLR  373 (395)
Q Consensus       358 ~-~-~-~~~~w~~~l~~l~  373 (395)
                      . . . +.+.-+.+++.+.
T Consensus       233 ~~~~~It~~~v~~al~~~~  251 (334)
T 1in4_A          233 VKADRINTDIVLKTMEVLN  251 (334)
T ss_dssp             HTCSSBCHHHHHHHHHHHT
T ss_pred             cCCCCcCHHHHHHHHHHhC
Confidence            2 2 2 7777888888765

>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=98.12  E-value=5.9e-05  Score=72.69  Aligned_cols=199  Identities=18%  Similarity=0.250  Sum_probs=107.6

Q ss_pred             ccchhchHHHHHHHHH---HhcCC---------CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          153 YEAFESRMSTLNDILD---ALKNP---------DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~---~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      ..++.|.+..++++.+   .+..+         -.+-+.|+|++|+|||+||+.+++.....     .+.++.+..... 
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~-----f~~is~~~~~~~-   88 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP-----FFHISGSDFVEL-   88 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCC-----EEEEEGGGTTTC-
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC-----eeeCCHHHHHHH-
Confidence            4556777665555443   33221         23458899999999999999999876432     234444332110 


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc----------------ccchhccccC--CCCCC
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL----------------DFQAVGIPHG--DGHKG  282 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~~~~g  282 (395)
                               +    ... .......+........+.+|+||+++...                ....+...+.  ....+
T Consensus        89 ---------~----~g~-~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~  154 (476)
T 2ce7_A           89 ---------F----VGV-GAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEG  154 (476)
T ss_dssp             ---------C----TTH-HHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGT
T ss_pred             ---------H----hcc-cHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCC
Confidence                     0    000 11122333443333678999999996431                1112211110  12235


Q ss_pred             cEEEEeecchhhhh-hcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHH---H
Q 047930          283 SKVLLTARSLDVLS-RKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTV---A  354 (395)
Q Consensus       283 s~iivTtR~~~va~-~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i---~  354 (395)
                      ..||.||....... ...   .....+.+.+.+.++-.++|+.++......++..  ...+++.+.|..- -|..+   +
T Consensus       155 viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~--l~~la~~t~G~sgadL~~lv~~A  232 (476)
T 2ce7_A          155 IIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVN--LEIIAKRTPGFVGADLENLVNEA  232 (476)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC--HHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             EEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhh--HHHHHHhcCCCcHHHHHHHHHHH
Confidence            66777776654321 111   1234788888888888888887775432222211  3458888988873 23322   1


Q ss_pred             HHh--h-C--C-CHHHHHHHHHHhc
Q 047930          355 RAL--R-N--K-RLFEWKDALEQLR  373 (395)
Q Consensus       355 ~~l--~-~--~-~~~~w~~~l~~l~  373 (395)
                      .++  + +  . +.+....+++...
T Consensus       233 al~A~~~~~~~I~~~dl~~al~~v~  257 (476)
T 2ce7_A          233 ALLAAREGRDKITMKDFEEAIDRVI  257 (476)
T ss_dssp             HHHHHHTTCSSBCHHHHHHHHHHHC
T ss_pred             HHHHHHcCCCeecHHHHHHHHHHHh
Confidence            122  1 2  1 6677888887764

>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=98.11  E-value=7.5e-05  Score=72.45  Aligned_cols=179  Identities=13%  Similarity=0.161  Sum_probs=100.3

Q ss_pred             ccchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH
Q 047930          153 YEAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI  219 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~  219 (395)
                      ...+.|.+..+++|.+.+.             .....-+.|+|++|+|||++|+.+++....     ..+.++++.    
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~-----~fv~vn~~~----  273 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGPE----  273 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS-----EEEEEEHHH----
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC-----CEEEEEchH----
Confidence            4567888888887776653             234456889999999999999999887531     233444321    


Q ss_pred             HHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc-------------ccchhccccC--CCCCCcE
Q 047930          220 RKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL-------------DFQAVGIPHG--DGHKGSK  284 (395)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~-------------~~~~l~~~l~--~~~~gs~  284 (395)
                        +    ...+    ... .......+.+....+++.+|+||+++...             ....+...+.  ....+..
T Consensus       274 --l----~~~~----~g~-~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~  342 (489)
T 3hu3_A          274 --I----MSKL----AGE-SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (489)
T ss_dssp             --H----HTSC----TTH-HHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEE
T ss_pred             --h----hhhh----cch-hHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceE
Confidence              1    1110    000 11122333333334678899999994221             0111211111  1223456


Q ss_pred             EEEeecchhh-hhhc---CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc-hHHHHHH
Q 047930          285 VLLTARSLDV-LSRK---MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL-PVSIVTV  353 (395)
Q Consensus       285 iivTtR~~~v-a~~~---~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl-Plai~~i  353 (395)
                      ||.||..... ....   ......+.+...+.++-.++|...+.......+.  ...++++.+.|. +-.|..+
T Consensus       343 vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~--~l~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDV--DLEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTC--CHHHHHHTCTTCCHHHHHHH
T ss_pred             EEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchh--hHHHHHHHccCCcHHHHHHH
Confidence            6667665422 1111   1223478999999999999999887543222211  135677788875 5445544

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.09  E-value=1.4e-05  Score=72.77  Aligned_cols=46  Identities=24%  Similarity=0.330  Sum_probs=35.5

Q ss_pred             chhchHHHHHHHHHHhcC--------------CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALKN--------------PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|++..++.+...+..              .....+.++|++|+|||++|+.+.+...
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            367888877777665532              2345688999999999999999998763

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.07  E-value=5.5e-06  Score=70.63  Aligned_cols=112  Identities=17%  Similarity=0.112  Sum_probs=61.3

Q ss_pred             HHHHHHHHhcCC----CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcccc
Q 047930          162 TLNDILDALKNP----DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEE  237 (395)
Q Consensus       162 ~~~~l~~~l~~~----~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~  237 (395)
                      .++.+..++...    ....+.|+|++|+|||+||+.+++....+  ...++|++++      ++...+.......    
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~--~~~~~~~~~~------~~~~~~~~~~~~~----  104 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR--NVSSLIVYVP------ELFRELKHSLQDQ----  104 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEEHH------HHHHHHHHC---C----
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEhH------HHHHHHHHHhccc----
Confidence            445555555422    22678899999999999999999887543  3345666543      4444444332211    


Q ss_pred             chhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccch--hcc-ccCCC-CCCcEEEEeecc
Q 047930          238 TESGRARSLCNRLKKEKRILVILDNIWEN--LDFQA--VGI-PHGDG-HKGSKVLLTARS  291 (395)
Q Consensus       238 ~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~--l~~-~l~~~-~~gs~iivTtR~  291 (395)
                      .    ...+.+.+..  .-+|||||++..  ..|..  +.. .+... ..+.++|+||..
T Consensus       105 ~----~~~~~~~~~~--~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          105 T----MNEKLDYIKK--VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             C----CHHHHHHHHH--SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             h----HHHHHHHhcC--CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            1    1223344432  239999999653  34432  221 11111 235568888874

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.04  E-value=1.3e-05  Score=73.09  Aligned_cols=104  Identities=15%  Similarity=0.257  Sum_probs=57.4

Q ss_pred             hhchHHHHHHHHHHhcC---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          156 FESRMSTLNDILDALKN---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ++|....++.+...+..         .....+.++|++|+|||++|+.+++.....  -...+.++++...... ....+
T Consensus        19 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~--~~~~~~~~~~~~~~~~-~~~~l   95 (311)
T 4fcw_A           19 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKH-AVSRL   95 (311)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC--GGGEEEEEGGGCCSTT-HHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC--CcceEEeecccccccc-cHHHh
Confidence            56777777766665542         123578999999999999999999876422  1224555655432211 11111


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                         ++....... ......+...+......+|+||++...
T Consensus        96 ---~g~~~~~~~-~~~~~~~~~~~~~~~~~vl~lDEi~~l  131 (311)
T 4fcw_A           96 ---IGAPPGYVG-YEEGGQLTEAVRRRPYSVILFDAIEKA  131 (311)
T ss_dssp             ---HCCCTTSTT-TTTCCHHHHHHHHCSSEEEEEETGGGS
T ss_pred             ---cCCCCcccc-ccccchHHHHHHhCCCeEEEEeChhhc
Confidence               222111100 000112334444344579999999754

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.96  E-value=8.9e-05  Score=71.52  Aligned_cols=114  Identities=9%  Similarity=-0.075  Sum_probs=64.7

Q ss_pred             EEEEEeCCCCc--cccchhccccCCCCCCcEEE-Ee---------ec----chhhhhhcCCCcceeecCCCChHHHHHHH
Q 047930          256 ILVILDNIWEN--LDFQAVGIPHGDGHKGSKVL-LT---------AR----SLDVLSRKMDSQQNFSFDVLKEDEAWSLF  319 (395)
Q Consensus       256 ~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~ii-vT---------tR----~~~va~~~~~~~~~~~l~~L~~~e~~~lf  319 (395)
                      -++++|++...  +..+.+...+...... .+| .|         |.    ...+.....+....+.+.+++.++..+++
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            38999999754  3445554444332223 344 34         22    11121223345567899999999999999


Q ss_pred             HHhhCCCCCCCchHHHHHHHHHHc-CCchHHHHHHHHH---hh---C--C-CHHHHHHHHHH
Q 047930          320 KKMAGDYIEGSEFKWVAREVAKEC-AGLPVSIVTVARA---LR---N--K-RLFEWKDALEQ  371 (395)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~i~~~c-~GlPlai~~i~~~---l~---~--~-~~~~w~~~l~~  371 (395)
                      ...+..... .--.+....|++.+ +|.|.....+...   ++   +  + +.+.-+.++..
T Consensus       376 ~~~~~~~~~-~~~~~~~~~i~~~a~~g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~~~~~  436 (456)
T 2c9o_A          376 KIRAQTEGI-NISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISEL  436 (456)
T ss_dssp             HHHHHHHTC-CBCHHHHHHHHHHHHHSCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHhCC-CCCHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhhcCCCccCHHHHHHHHHH
Confidence            887631111 11123567888888 8888765554332   22   2  2 56666666554

>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=97.94  E-value=4.7e-05  Score=77.67  Aligned_cols=153  Identities=12%  Similarity=0.152  Sum_probs=86.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      .++-|.++|++|+|||+||+.+++.....     .+.++.+.          +..    .... .....+..+.+.....
T Consensus       237 ~p~GILL~GPPGTGKT~LAraiA~elg~~-----~~~v~~~~----------l~s----k~~g-ese~~lr~lF~~A~~~  296 (806)
T 3cf2_A          237 PPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE----------IMS----KLAG-ESESNLRKAFEEAEKN  296 (806)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHTTTTCE-----EEEEEHHH----------HHS----SCTT-HHHHHHHHHHHHHTTS
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhCCe-----EEEEEhHH----------hhc----ccch-HHHHHHHHHHHHHHHc
Confidence            35678999999999999999999876431     33444321          110    0001 1122344455555556


Q ss_pred             CeEEEEEeCCCCcc--------cc-----chhcccc--CCCCCCcEEEEeecchhhhhhcC----CCcceeecCCCChHH
Q 047930          254 KRILVILDNIWENL--------DF-----QAVGIPH--GDGHKGSKVLLTARSLDVLSRKM----DSQQNFSFDVLKEDE  314 (395)
Q Consensus       254 kr~LlVlDdv~~~~--------~~-----~~l~~~l--~~~~~gs~iivTtR~~~va~~~~----~~~~~~~l~~L~~~e  314 (395)
                      .+.+|+||+++...        ..     ..+...+  .....+..||.||..........    .....+++...+.++
T Consensus       297 ~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~  376 (806)
T 3cf2_A          297 APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG  376 (806)
T ss_dssp             CSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHH
T ss_pred             CCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHH
Confidence            78999999996531        00     1111111  01123444555665433221111    234578999889999


Q ss_pred             HHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          315 AWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       315 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      -.++|+.++.......+..  ...|++++.|.--
T Consensus       377 R~~IL~~~l~~~~~~~dvd--l~~lA~~T~Gfsg  408 (806)
T 3cf2_A          377 RLEILQIHTKNMKLADDVD--LEQVANETHGHVG  408 (806)
T ss_dssp             HHHHHHHTCSSSEECTTCC--HHHHHHHCCSCCH
T ss_pred             HHHHHHHHhcCCCCCcccC--HHHHHHhcCCCCH
Confidence            9999988775432222211  4578888888754

>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=97.78  E-value=0.00046  Score=60.82  Aligned_cols=148  Identities=18%  Similarity=0.208  Sum_probs=77.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEE
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRIL  257 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~L  257 (395)
                      +.|+|+.|+|||||++.++.....     ..+.++..      ++    .... .   . .....+..+.+........+
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~~~-----~~i~~~~~------~~----~~~~-~---~-~~~~~i~~~~~~~~~~~~~i  111 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEARV-----PFITASGS------DF----VEMF-V---G-VGAARVRDLFETAKRHAPCI  111 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHH------HH----HHSC-T---T-HHHHHHHHHHHHHTTSSSEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC-----CEEEeeHH------HH----HHHH-h---h-HHHHHHHHHHHHHHhcCCeE
Confidence            889999999999999999987641     22333321      11    1100 0   0 00112333444443345689


Q ss_pred             EEEeCCCCcc------------c----cchhccccCCC--CCCcEEEEeecchhhhh-hcC---CCcceeecCCCChHHH
Q 047930          258 VILDNIWENL------------D----FQAVGIPHGDG--HKGSKVLLTARSLDVLS-RKM---DSQQNFSFDVLKEDEA  315 (395)
Q Consensus       258 lVlDdv~~~~------------~----~~~l~~~l~~~--~~gs~iivTtR~~~va~-~~~---~~~~~~~l~~L~~~e~  315 (395)
                      +++|++....            .    ...+...+..+  ....-++.||....... ...   .....+.+...+.++-
T Consensus       112 ~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r  191 (254)
T 1ixz_A          112 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGR  191 (254)
T ss_dssp             EEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHH
T ss_pred             EEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHH
Confidence            9999994321            0    11121122111  12233445555544321 111   2345788998998888


Q ss_pred             HHHHHHhhCCCCCCCchHHHHHHHHHHcCCch
Q 047930          316 WSLFKKMAGDYIEGSEFKWVAREVAKECAGLP  347 (395)
Q Consensus       316 ~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP  347 (395)
                      .+++...+......++.  ....+++.+.|.-
T Consensus       192 ~~il~~~~~~~~~~~~~--~~~~la~~~~G~~  221 (254)
T 1ixz_A          192 EQILRIHARGKPLAEDV--DLALLAKRTPGFV  221 (254)
T ss_dssp             HHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             HHHHHHHHcCCCCCccc--CHHHHHHHcCCCC
Confidence            88888776432222211  1346778888864

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.75  E-value=3.6e-05  Score=68.51  Aligned_cols=60  Identities=15%  Similarity=0.208  Sum_probs=37.7

Q ss_pred             cchhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          154 EAFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      ..++|....+..+.+.+.  ......+.|+|..|+|||++|+.+++.....  -...+.++++.
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~--~~~~~~v~~~~   67 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAA   67 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTT--TSCEEEEEGGG
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCcc--CCCeEEEecCC
Confidence            457788777777665543  1223457799999999999999999875422  12245566554

>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=97.73  E-value=0.0002  Score=70.62  Aligned_cols=156  Identities=19%  Similarity=0.186  Sum_probs=74.3

Q ss_pred             hhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          156 FESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      ++|-++....+.+.+.      .....++.++|++|+||||||+.++......     ...++++...+...+.......
T Consensus        83 i~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~-----~~~i~~~~~~~~~~~~g~~~~~  157 (543)
T 3m6a_A           83 HHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK-----FVRISLGGVRDESEIRGHRRTY  157 (543)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCE-----EEEECCCC--------------
T ss_pred             hccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCC-----eEEEEecccchhhhhhhHHHHH
Confidence            4555554444433221      2245689999999999999999999876421     2233333322222211111111


Q ss_pred             hCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc------cchhccccCC--------C-------CCCcEEEEe
Q 047930          230 LGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD------FQAVGIPHGD--------G-------HKGSKVLLT  288 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~------~~~l~~~l~~--------~-------~~gs~iivT  288 (395)
                      .+..     . ........... ...-+++||+++....      ...+...+..        .       .....+|.|
T Consensus       158 ig~~-----~-~~~~~~~~~a~-~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~t  230 (543)
T 3m6a_A          158 VGAM-----P-GRIIQGMKKAG-KLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIAT  230 (543)
T ss_dssp             ------------CHHHHHHTTC-SSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEE
T ss_pred             hccC-----c-hHHHHHHHHhh-ccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEec
Confidence            1110     0 01111112111 2344889999975421      1222222210        0       023456666


Q ss_pred             ecchh-hhhhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          289 ARSLD-VLSRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       289 tR~~~-va~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      |.... +..........+.+.+++.++-..++...+
T Consensus       231 tN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          231 ANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             CSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             cCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            65432 111112233578999999999999988765

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.72  E-value=6.6e-06  Score=66.09  Aligned_cols=45  Identities=9%  Similarity=0.096  Sum_probs=30.9

Q ss_pred             chhchHHHHHHHHHHhcC--CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          155 AFESRMSTLNDILDALKN--PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++|+...+.++.+.+..  .....|.|+|..|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            466777777776665541  223347799999999999999988654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.67  E-value=0.00017  Score=65.53  Aligned_cols=46  Identities=17%  Similarity=0.294  Sum_probs=34.0

Q ss_pred             chhchHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|+...+.++.+.+.  ......+.|+|.+|+|||++|+.+++...
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~   50 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSA   50 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCc
Confidence            36677777777666554  23334577999999999999999998653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.64  E-value=4.9e-05  Score=78.20  Aligned_cols=148  Identities=16%  Similarity=0.256  Sum_probs=80.7

Q ss_pred             chhchHHHHHHHHHHhc-------CC--CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK-------NP--DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~-------~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++|.+..++.+...+.       .+  ....+.++|++|+|||++|+.+++.....  -...+.++++.......    
T Consensus       492 ~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~--~~~~i~i~~s~~~~~~~----  565 (758)
T 3pxi_A          492 RVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD--EESMIRIDMSEYMEKHS----  565 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC--TTCEEEEEGGGGCSSCC----
T ss_pred             cCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CcceEEEechhcccccc----
Confidence            46788887777766654       11  12368999999999999999999886321  22345566543221100    


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhcccc-----CC------CCCCcEEEEeecch
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPH-----GD------GHKGSKVLLTARSL  292 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l-----~~------~~~gs~iivTtR~~  292 (395)
                                . .    ...+.+.+......+|+||++....  ....+...+     .+      .....+||+||...
T Consensus       566 ----------~-~----~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~  630 (758)
T 3pxi_A          566 ----------T-S----GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVG  630 (758)
T ss_dssp             ----------C-C-------CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSS
T ss_pred             ----------c-c----cchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCC
Confidence                      0 0    1111222222334589999996542  122222111     11      12355788888731


Q ss_pred             h-------------hhhhcCC-CcceeecCCCChHHHHHHHHHhh
Q 047930          293 D-------------VLSRKMD-SQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       293 ~-------------va~~~~~-~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      .             ....... ...++.+.+|++++...++...+
T Consensus       631 ~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          631 ASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             TTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHH
Confidence            0             0010112 23589999999999988887665

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.62  E-value=0.0015  Score=58.38  Aligned_cols=148  Identities=19%  Similarity=0.186  Sum_probs=77.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEE
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRIL  257 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~L  257 (395)
                      +.|+|+.|+|||||++.++.....     ..+.++..      ++    .....    . .....+..+.+......+.+
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~~~-----~~i~~~~~------~~----~~~~~----~-~~~~~i~~~~~~~~~~~~~i  135 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEARV-----PFITASGS------DF----VEMFV----G-VGAARVRDLFETAKRHAPCI  135 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTC-----CEEEEEHH------HH----HHSTT----T-HHHHHHHHHHHHHHTSCSEE
T ss_pred             EEEECCCcChHHHHHHHHHHHcCC-----CEEEecHH------HH----HHHHh----h-HHHHHHHHHHHHHHhcCCcE
Confidence            889999999999999999987641     23333321      11    11000    0 00112233444443345689


Q ss_pred             EEEeCCCCcc------------cc----chhccccCCCC--CCcEEEEeecchhhhh----hcCCCcceeecCCCChHHH
Q 047930          258 VILDNIWENL------------DF----QAVGIPHGDGH--KGSKVLLTARSLDVLS----RKMDSQQNFSFDVLKEDEA  315 (395)
Q Consensus       258 lVlDdv~~~~------------~~----~~l~~~l~~~~--~gs~iivTtR~~~va~----~~~~~~~~~~l~~L~~~e~  315 (395)
                      +++|++....            .+    ..+...+..+.  ....++.||....+..    ........+.+...+.++-
T Consensus       136 ~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r  215 (278)
T 1iy2_A          136 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGR  215 (278)
T ss_dssp             EEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHH
T ss_pred             EehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHH
Confidence            9999994210            11    11211221111  1233444555543321    1112345788999999988


Q ss_pred             HHHHHHhhCCCCCCCchHHHHHHHHHHcCCch
Q 047930          316 WSLFKKMAGDYIEGSEFKWVAREVAKECAGLP  347 (395)
Q Consensus       316 ~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP  347 (395)
                      .+++...+......++.  ....++..+.|..
T Consensus       216 ~~il~~~~~~~~~~~~~--~~~~la~~~~G~~  245 (278)
T 1iy2_A          216 EQILRIHARGKPLAEDV--DLALLAKRTPGFV  245 (278)
T ss_dssp             HHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             HHHHHHHHccCCCCccc--CHHHHHHHcCCCC
Confidence            88888776432222221  1346778888865

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.60  E-value=0.0021  Score=57.41  Aligned_cols=127  Identities=14%  Similarity=0.186  Sum_probs=70.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEE
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRIL  257 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~L  257 (395)
                      +.++|++|+|||||++.++.....     ..+++..+.-.+.              ... .....+..+.+......+++
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~~--------------~~~-~~~~~i~~vf~~a~~~~p~i  106 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLNM--------------YVG-ESERAVRQVFQRAKNSAPCV  106 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCSS--------------TTH-HHHHHHHHHHHHHHHTCSEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHhh--------------hhh-HHHHHHHHHHHHHHhcCCCe
Confidence            899999999999999999987542     2344443321110              000 00112233344332246789


Q ss_pred             EEEeCCCCccc---------c----chhccccC--CCCCCcEEEEeecchhhhhhc----CCCcceeecCCCChHHHHHH
Q 047930          258 VILDNIWENLD---------F----QAVGIPHG--DGHKGSKVLLTARSLDVLSRK----MDSQQNFSFDVLKEDEAWSL  318 (395)
Q Consensus       258 lVlDdv~~~~~---------~----~~l~~~l~--~~~~gs~iivTtR~~~va~~~----~~~~~~~~l~~L~~~e~~~l  318 (395)
                      +++|+++....         .    ..+...+.  ......-++.+|....+....    ..-...+.+...+.++-.++
T Consensus       107 ~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~i  186 (274)
T 2x8a_A          107 IFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAI  186 (274)
T ss_dssp             EEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHH
T ss_pred             EeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHH
Confidence            99999964210         0    01111111  112234455666655443111    12345788988899999999


Q ss_pred             HHHhhC
Q 047930          319 FKKMAG  324 (395)
Q Consensus       319 f~~~~~  324 (395)
                      |+....
T Consensus       187 l~~~~~  192 (274)
T 2x8a_A          187 LKTITK  192 (274)
T ss_dssp             HHHHTT
T ss_pred             HHHHHh
Confidence            988764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.55  E-value=0.00064  Score=65.86  Aligned_cols=197  Identities=16%  Similarity=0.211  Sum_probs=101.9

Q ss_pred             ccchhchHHHHHHH---HHHhcCC---------CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          153 YEAFESRMSTLNDI---LDALKNP---------DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       153 ~~~~~gr~~~~~~l---~~~l~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      ..++.|.+..+.++   +..+..+         -.+-+.|+|++|+||||||+.++.....     ..+.++.+.-... 
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~-----~~i~i~g~~~~~~-  103 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV-----PFITASGSDFVEM-  103 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTC-----CEEEEEGGGGTSS-
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEehhHHHHh-
Confidence            45567766555444   4433321         1234889999999999999999987642     2344444321110 


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHh---cCCeEEEEEeCCCCcc------------c----cchhccccC--CC
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLK---KEKRILVILDNIWENL------------D----FQAVGIPHG--DG  279 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~---~~kr~LlVlDdv~~~~------------~----~~~l~~~l~--~~  279 (395)
                                   .    .......+...+.   ...+.++++|+++...            .    ...+...+.  ..
T Consensus       104 -------------~----~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~  166 (499)
T 2dhr_A          104 -------------F----VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  166 (499)
T ss_dssp             -------------C----TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCS
T ss_pred             -------------h----hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccccc
Confidence                         0    0001111222222   1235899999995321            0    112211121  11


Q ss_pred             CCCcEEEEeecchhhhh-hcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCch-HHHHHH-
Q 047930          280 HKGSKVLLTARSLDVLS-RKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLP-VSIVTV-  353 (395)
Q Consensus       280 ~~gs~iivTtR~~~va~-~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP-lai~~i-  353 (395)
                      ..+..++.||....... ...   .....+.+...+.++-.++++.++......++.  ....|+..+.|+. --|..+ 
T Consensus       167 ~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv--~l~~lA~~t~G~~gadL~~lv  244 (499)
T 2dhr_A          167 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFVGADLENLL  244 (499)
T ss_dssp             SCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSS--TTHHHHTTSCSCCHHHHHHHH
T ss_pred             CccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHH--HHHHHHHhcCCCCHHHHHHHH
Confidence            22345555666554321 111   223478898889888889998776432222221  1345777888876 222222 


Q ss_pred             --HHHhh---C--C-CHHHHHHHHHHhcC
Q 047930          354 --ARALR---N--K-RLFEWKDALEQLRR  374 (395)
Q Consensus       354 --~~~l~---~--~-~~~~w~~~l~~l~~  374 (395)
                        +.++.   +  . +.+....+++....
T Consensus       245 ~~Aa~~A~~~~~~~It~~dl~~al~~v~~  273 (499)
T 2dhr_A          245 NEAALLAAREGRRKITMKDLEEAADRVMM  273 (499)
T ss_dssp             HHHHHHHTTTCCSSCCSHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCccCHHHHHHHHHHHhc
Confidence              22221   1  1 56777788777544

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.53  E-value=0.00011  Score=67.62  Aligned_cols=151  Identities=11%  Similarity=0.125  Sum_probs=80.8

Q ss_pred             cchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCC
Q 047930          154 EAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLT  233 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~  233 (395)
                      ..++|++..++.+...+..++  .+.++|++|+|||+||+.+.+.....     ...+.++......++.....      
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~~--~vll~G~pGtGKT~la~~la~~~~~~-----~~~i~~~~~~~~~~l~g~~~------   93 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTGG--HILLEGVPGLAKTLSVNTLAKTMDLD-----FHRIQFTPDLLPSDLIGTMI------   93 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--CEEEESCCCHHHHHHHHHHHHHTTCC-----EEEEECCTTCCHHHHHEEEE------
T ss_pred             cceeCcHHHHHHHHHHHHcCC--eEEEECCCCCcHHHHHHHHHHHhCCC-----eEEEecCCCCChhhcCCcee------
Confidence            346788888888777766443  57899999999999999999875421     23344443333333221100      


Q ss_pred             ccccchhhhHHHHHHHHhcC--CeEEEEEeCCCCcc--ccchhccccC-----------CCCCCcEEEEeecchh-----
Q 047930          234 LHEETESGRARSLCNRLKKE--KRILVILDNIWENL--DFQAVGIPHG-----------DGHKGSKVLLTARSLD-----  293 (395)
Q Consensus       234 ~~~~~~~~~~~~l~~~l~~~--kr~LlVlDdv~~~~--~~~~l~~~l~-----------~~~~gs~iivTtR~~~-----  293 (395)
                       ........      ....+  ...+|+||++....  ....+...+.           .......||.|+....     
T Consensus        94 -~~~~~~~~------~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~~~  166 (331)
T 2r44_A           94 -YNQHKGNF------EVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEGTY  166 (331)
T ss_dssp             -EETTTTEE------EEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSCCC
T ss_pred             -ecCCCCce------EeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccCcc
Confidence             00000000      00001  12589999996542  1111111110           0122344555555221     


Q ss_pred             -hhhhcCCCcc-eeecCCCChHHHHHHHHHhhC
Q 047930          294 -VLSRKMDSQQ-NFSFDVLKEDEAWSLFKKMAG  324 (395)
Q Consensus       294 -va~~~~~~~~-~~~l~~L~~~e~~~lf~~~~~  324 (395)
                       +......... .+.+.+.+.++-.+++.+...
T Consensus       167 ~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~  199 (331)
T 2r44_A          167 PLPEAQVDRFMMKIHLTYLDKESELEVMRRVSN  199 (331)
T ss_dssp             CCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHC
T ss_pred             cCCHHHHhheeEEEEcCCCCHHHHHHHHHhccc
Confidence             1111122223 589999999999999988874

>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=97.51  E-value=0.00025  Score=73.02  Aligned_cols=159  Identities=14%  Similarity=0.177  Sum_probs=82.6

Q ss_pred             chhchHHHHHHHHHHhc-------C--CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK-------N--PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~-------~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++|.+..++.+...+.       +  .....+.++|++|+|||++|+.+.+...     ...+.++++.......    
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~-----~~~~~i~~s~~~~~~~----  529 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT----  529 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSC----
T ss_pred             hccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc-----CCEEEEechhhcchhh----
Confidence            35677777776666553       1  1234789999999999999999998763     2244555543221100    


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccC-----CC------CCCcEEEEeecch
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHG-----DG------HKGSKVLLTARSL  292 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~-----~~------~~gs~iivTtR~~  292 (395)
                      +..-++.+.. .........+.+.+......+|+||++....  ....+...+.     +.      .....||.||...
T Consensus       530 ~~~l~g~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~  608 (758)
T 1r6b_X          530 VSRLIGAPPG-YVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAG  608 (758)
T ss_dssp             CSSSCCCCSC-SHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSS
T ss_pred             HhhhcCCCCC-CcCccccchHHHHHHhCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcc
Confidence            0000111110 0000111123344443456899999997542  2222222111     10      1235577777531


Q ss_pred             h--------------------------hhhhcCC-CcceeecCCCChHHHHHHHHHhh
Q 047930          293 D--------------------------VLSRKMD-SQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       293 ~--------------------------va~~~~~-~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                      .                          ....... ....+.+.+|+.++...++...+
T Consensus       609 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l  666 (758)
T 1r6b_X          609 VRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFI  666 (758)
T ss_dssp             CC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHH
Confidence            1                          0000111 22568899999988888887665

>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=97.38  E-value=0.0012  Score=57.52  Aligned_cols=91  Identities=12%  Similarity=0.132  Sum_probs=55.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc----------ccchh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH----------EETES  240 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----------~~~~~  240 (395)
                      -.++.|+|++|+|||||+..+........    .-..++|++....++...+ ..++..++....          .....
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~~  102 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL-LAVAERYGLSGSDVLDNVAYARAFNTD  102 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH-HHHHHHcCCCHHHHhhCeEEEecCCHH
Confidence            35799999999999999999987532211    1356889888775555443 334455544321          00111


Q ss_pred             ---hhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          241 ---GRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       241 ---~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                         ..+..+.+.+...+.-+||||++...
T Consensus       103 ~~~~~~~~~~~~~~~~~~~lliiD~~~~~  131 (243)
T 1n0w_A          103 HQTQLLYQASAMMVESRYALLIVDSATAL  131 (243)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSGG
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEeCchHH
Confidence               12233444454457889999998643

>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=97.29  E-value=0.0026  Score=58.74  Aligned_cols=159  Identities=8%  Similarity=-0.053  Sum_probs=97.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK  252 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  252 (395)
                      .-.++..++|+.|.||++.+..+....... .|+....+.+....++.++...+..                   .-+ .
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~-------------------~pl-f   74 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVAAAQ-GFEEHHTFSIDPNTDWNAIFSLCQA-------------------MSL-F   74 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHHHHH-TCCEEEEEECCTTCCHHHHHHHHHH-------------------HHH-C
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHHHhC-CCCeeEEEEecCCCCHHHHHHHhcC-------------------cCC-c
Confidence            345788999999999999999998765432 2432222233333444433322211                   011 2


Q ss_pred             CCeEEEEEeCCCC-c--cccchhccccCCCCCCcEEEEeecc-------hhhhhhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          253 EKRILVILDNIWE-N--LDFQAVGIPHGDGHKGSKVLLTARS-------LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       253 ~kr~LlVlDdv~~-~--~~~~~l~~~l~~~~~gs~iivTtR~-------~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      +++-++|+|++.. .  ..++.+...+....+++.+|++|..       ..+.......+..++..+++.++....+.+.
T Consensus        75 ~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~  154 (343)
T 1jr3_D           75 ASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAAR  154 (343)
T ss_dssp             CSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHH
Confidence            5577889999865 3  4455555555444457777766643       1233333455678999999999999888887


Q ss_pred             hCCCCCCCchHHHHHHHHHHcCCchHHHHHH
Q 047930          323 AGDYIEGSEFKWVAREVAKECAGLPVSIVTV  353 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i  353 (395)
                      +......-+ .+.+..+++.++|.+..+...
T Consensus       155 ~~~~g~~i~-~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          155 AKQLNLELD-DAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHHTTCEEC-HHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHHcCCCCC-HHHHHHHHHHhchHHHHHHHH
Confidence            742221111 235778888999988877653

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.25  E-value=0.0002  Score=64.80  Aligned_cols=27  Identities=37%  Similarity=0.422  Sum_probs=23.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++.+.++|++|+|||+||+.+++...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            356788999999999999999999874

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.24  E-value=0.00071  Score=58.46  Aligned_cols=46  Identities=22%  Similarity=0.304  Sum_probs=31.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++.|.|++|+|||||++.+.......  -..++|++...  ....+...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~~~--~~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHH--TCCEEEEESSS--CHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHC--CCeEEEEEccc--CHHHHHHH
Confidence            578999999999999999998654322  12356666543  34444443

>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=97.24  E-value=0.0022  Score=59.95  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+.++|++|+|||++|+.+++...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            35688999999999999999998763

>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=97.22  E-value=0.00037  Score=72.63  Aligned_cols=46  Identities=26%  Similarity=0.404  Sum_probs=34.8

Q ss_pred             chhchHHHHHHHHHHhcC-------C--CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALKN-------P--DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.+..+..+...+..       +  ....+.|+|+.|+|||++|+.+.+...
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~  613 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF  613 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            467888777777665531       1  125788999999999999999998763

>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=97.22  E-value=0.0025  Score=57.51  Aligned_cols=86  Identities=10%  Similarity=0.130  Sum_probs=56.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-----cchhhhH-HHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-----ETESGRA-RSLCNR  249 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~-~~l~~~  249 (395)
                      .++-|.|++|+|||||+.++......+..-..++|++....++..     .+++++...+.     ....+.+ ..+.+.
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            368899999999999999988765432112458899988877653     36777765432     1111222 233344


Q ss_pred             H---hcCCeEEEEEeCCCCc
Q 047930          250 L---KKEKRILVILDNIWEN  266 (395)
Q Consensus       250 l---~~~kr~LlVlDdv~~~  266 (395)
                      +   ..++.-|||+|-+...
T Consensus       104 l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTC
T ss_pred             HHHhhccCceEEEEeccccc
Confidence            3   4467889999998654

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=97.18  E-value=0.00072  Score=61.21  Aligned_cols=69  Identities=14%  Similarity=0.219  Sum_probs=42.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEe--CCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEV--SQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~--s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      +++.|+|++|+|||+||.++......     .++|++.  ....+.             .  .......+..+.+.+.+ 
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~G~-----~VlyIs~~~eE~v~~-------------~--~~~le~~l~~i~~~l~~-  182 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEALGG-----KDKYATVRFGEPLSG-------------Y--NTDFNVFVDDIARAMLQ-  182 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHHHT-----TSCCEEEEBSCSSTT-------------C--BCCHHHHHHHHHHHHHH-
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhCCC-----CEEEEEecchhhhhh-------------h--hcCHHHHHHHHHHHHhh-
Confidence            56789999999999999999876211     2346666  222110             0  01122334455566653 


Q ss_pred             CeEEEEEeCCCCc
Q 047930          254 KRILVILDNIWEN  266 (395)
Q Consensus       254 kr~LlVlDdv~~~  266 (395)
                      .+ +||||++...
T Consensus       183 ~~-LLVIDsI~aL  194 (331)
T 2vhj_A          183 HR-VIVIDSLKNV  194 (331)
T ss_dssp             CS-EEEEECCTTT
T ss_pred             CC-EEEEeccccc
Confidence            34 9999999653

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.17  E-value=0.0025  Score=54.42  Aligned_cols=44  Identities=23%  Similarity=0.213  Sum_probs=33.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQ  223 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~  223 (395)
                      -.++.|+|++|+|||||+..+.. ..    -..++|++.....+...+.
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~-~~----~~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL-LS----GKKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH-HH----CSEEEEEESSCCCCHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH-Hc----CCcEEEEECCCCCCHHHHH
Confidence            35799999999999999999987 21    2457888877655655543

>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=97.15  E-value=0.0028  Score=58.48  Aligned_cols=90  Identities=17%  Similarity=0.257  Sum_probs=56.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc---------c-cchh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH---------E-ETES  240 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~---------~-~~~~  240 (395)
                      -.++.|.|++|+|||||+.+++.......    .-..++|++....++...+. .++..++....         . .+..
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~-~~~~~~g~~~~~~l~~l~~~~~~~~e  200 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLR-DIADRFNVDHDAVLDNVLYARAYTSE  200 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHcCCCHHHHHhceeEeecCCHH
Confidence            46889999999999999999987643211    12468899988877766654 34455554321         0 0111


Q ss_pred             ---hhHHHHHHHHhc--CCeEEEEEeCCCC
Q 047930          241 ---GRARSLCNRLKK--EKRILVILDNIWE  265 (395)
Q Consensus       241 ---~~~~~l~~~l~~--~kr~LlVlDdv~~  265 (395)
                         ..+..+...+..  .+.-+||+|.+..
T Consensus       201 ~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~  230 (343)
T 1v5w_A          201 HQMELLDYVAAKFHEEAGIFKLLIIDSIMA  230 (343)
T ss_dssp             HHHHHHHHHHHHHHHSCSSEEEEEEETSGG
T ss_pred             HHHHHHHHHHHHHHhcCCCccEEEEechHH
Confidence               122334444443  5677999999854

>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=97.15  E-value=0.0022  Score=59.28  Aligned_cols=84  Identities=20%  Similarity=0.296  Sum_probs=52.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLCN  248 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  248 (395)
                      -.++.|.|++|+|||||+.++.......  -..++|++....++..     .++.++.....      ......+..+..
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~--gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~~  133 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKM--GGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVDE  133 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHHH
Confidence            3689999999999999999999875432  2347888877766643     45556544321      111122233333


Q ss_pred             HHhcCCeEEEEEeCCCC
Q 047930          249 RLKKEKRILVILDNIWE  265 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~  265 (395)
                      .+...+.-++|+|.+..
T Consensus       134 l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          134 LVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHTSCCSEEEEECTTT
T ss_pred             HhhhcCCCeEEehHhhh
Confidence            33334556899999854

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=97.11  E-value=0.0026  Score=58.28  Aligned_cols=90  Identities=19%  Similarity=0.338  Sum_probs=57.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc---------cchh-
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE---------ETES-  240 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~---------~~~~-  240 (395)
                      -.++.|.|++|+|||||+.+++.......    .-..++|++....++...+. ++++.++.....         .... 
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCCHHHHhccEEEEeCCCHH
Confidence            35789999999999999999987643211    02468999988877766654 345566543210         1111 


Q ss_pred             ---hhHHHHHHHHhc-CCeEEEEEeCCCC
Q 047930          241 ---GRARSLCNRLKK-EKRILVILDNIWE  265 (395)
Q Consensus       241 ---~~~~~l~~~l~~-~kr~LlVlDdv~~  265 (395)
                         ..+..+...+.. .+.-+||+|.+..
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence               123344445544 5678999999853

>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=97.08  E-value=0.00061  Score=69.60  Aligned_cols=171  Identities=15%  Similarity=0.205  Sum_probs=78.4

Q ss_pred             cchhchHHHHHHHHHHhc-------------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          154 EAFESRMSTLNDILDALK-------------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~-------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      ..+.|-++.++.|.+.+.             -...+-+.++|++|+|||.||+.+++.....       ++.++.    .
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~-------f~~v~~----~  545 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIKG----P  545 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE-------EEECCH----H
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc-------eEEecc----c
Confidence            345566666666555432             1124557899999999999999999886532       333321    1


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--------c--------cchhccccC--CCCCC
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--------D--------FQAVGIPHG--DGHKG  282 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--------~--------~~~l~~~l~--~~~~g  282 (395)
                      +    ++..    ....+ ...+..+.+..+...+++|+||+++...        .        ...+...+.  ....+
T Consensus       546 ~----l~s~----~vGes-e~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~  616 (806)
T 3cf2_A          546 E----LLTM----WFGES-EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN  616 (806)
T ss_dssp             H----HHTT----TCSSC-HHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSS
T ss_pred             h----hhcc----ccchH-HHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCC
Confidence            1    1111    11111 2345566666665678999999996431        0        111111111  12223


Q ss_pred             cEEEEeecchhhh-h---hcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCc
Q 047930          283 SKVLLTARSLDVL-S---RKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGL  346 (395)
Q Consensus       283 s~iivTtR~~~va-~---~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~Gl  346 (395)
                      .-||-||...... .   +...-...+.+..-+.++-.++|+.++......++..  ...+++.+.|+
T Consensus       617 V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~d--l~~la~~t~g~  682 (806)
T 3cf2_A          617 VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD--LEFLAKMTNGF  682 (806)
T ss_dssp             EEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC---------------
T ss_pred             EEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCC--HHHHHHhCCCC
Confidence            3344455433221 1   1112345777776677777788877765432222221  34566666665

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=97.06  E-value=0.0032  Score=57.56  Aligned_cols=90  Identities=16%  Similarity=0.236  Sum_probs=57.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC---------CC-----CEEEEEEeCCcCCHHHHHHHHHHHhCCCcc-----
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK---------LF-----DQVIFVEVSQIQDIRKIQGEFADKLGLTLH-----  235 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---------~f-----~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~-----  235 (395)
                      -.++.|.|.+|+|||+|+.+++.......         ..     ..++|++....++...+.. ++..++....     
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~  176 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLDN  176 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhcC
Confidence            46899999999999999999987632110         11     4688999888777766553 4555654321     


Q ss_pred             ----ccchh----hhHHHHHHHHhc-CCeEEEEEeCCCC
Q 047930          236 ----EETES----GRARSLCNRLKK-EKRILVILDNIWE  265 (395)
Q Consensus       236 ----~~~~~----~~~~~l~~~l~~-~kr~LlVlDdv~~  265 (395)
                          .....    ..+..+...+.+ .+.-+||+|.+..
T Consensus       177 l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  215 (322)
T 2i1q_A          177 TFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTS  215 (322)
T ss_dssp             EEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence                00111    123344555554 4566999999853

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.05  E-value=0.00072  Score=54.39  Aligned_cols=40  Identities=15%  Similarity=0.283  Sum_probs=29.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      .-..+.|+|+.|+|||||++.++...... .+ ..+++....
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~-~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEA-GK-NAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTT-TC-CEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhc-CC-cEEEEcHHH
Confidence            45679999999999999999999876532 12 256665543

>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=97.05  E-value=0.0032  Score=59.25  Aligned_cols=90  Identities=11%  Similarity=0.194  Sum_probs=54.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc---------ccc---
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH---------EET---  238 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~---------~~~---  238 (395)
                      -.++.|+|++|+|||||+.+++-......    .-..++|++....+....+ ..+++.++....         ...   
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~  256 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  256 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChH
Confidence            35799999999999999998764432110    2345889888776655543 346666654321         000   


Q ss_pred             -hhhhHHHHHHHHhcCCeEEEEEeCCCC
Q 047930          239 -ESGRARSLCNRLKKEKRILVILDNIWE  265 (395)
Q Consensus       239 -~~~~~~~l~~~l~~~kr~LlVlDdv~~  265 (395)
                       ....+..+...+...+.-+||+|.+..
T Consensus       257 ~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          257 HQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEecchhh
Confidence             111233344444445678999999743

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.02  E-value=0.00085  Score=61.02  Aligned_cols=53  Identities=26%  Similarity=0.429  Sum_probs=34.9

Q ss_pred             hHHHHHHHHHHhcC---CCceEEEEEecCCCcHHHHHHHHHHHhc-ccCCCCEEEEEEe
Q 047930          159 RMSTLNDILDALKN---PDVNMLGIYGMGGIGKTTLAKEVARKAE-NEKLFDQVIFVEV  213 (395)
Q Consensus       159 r~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~f~~~~wv~~  213 (395)
                      +...+..+.+++..   .....+.|+|+.|+|||+||..+++... .+. + .+.++++
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g-~-~v~~~~~  189 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKG-V-STTLLHF  189 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSC-C-CEEEEEH
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcC-C-cEEEEEH
Confidence            33344455555542   1246788999999999999999998765 432 2 3455554

>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=96.94  E-value=0.0039  Score=57.65  Aligned_cols=84  Identities=21%  Similarity=0.345  Sum_probs=52.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-----cchhhhHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-----ETESGRARSLCNR  249 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~l~~~  249 (395)
                      -.++.|.|++|+|||||+.++.......  -..++|++....++..     .++.++.....     ....+....+...
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~~~--g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~~  133 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQAA--GGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIADM  133 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4579999999999999999998765432  2357899888766543     24555543221     1111122223333


Q ss_pred             H-hcCCeEEEEEeCCCC
Q 047930          250 L-KKEKRILVILDNIWE  265 (395)
Q Consensus       250 l-~~~kr~LlVlDdv~~  265 (395)
                      + ...+.-+||+|.+..
T Consensus       134 l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          134 LVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHTTTCCSEEEEECGGG
T ss_pred             HHhcCCCCEEEEcChHh
Confidence            3 334566999999854

>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=96.89  E-value=0.0086  Score=51.43  Aligned_cols=90  Identities=21%  Similarity=0.254  Sum_probs=51.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc---C-CCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc----------ccc--
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE---K-LFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH----------EET--  238 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~-~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----------~~~--  238 (395)
                      -.+++|+|+.|+|||||++.+.......   . .-...+|+.......... ...+.+..+....          ...  
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNSN  103 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTTSCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcCCCHHHHhhcEEEEecCChH
Confidence            3589999999999999999998743221   1 134578887655444333 3334444433211          000  


Q ss_pred             -hhhhHHHHHHHHh-----cCCeEEEEEeCCCC
Q 047930          239 -ESGRARSLCNRLK-----KEKRILVILDNIWE  265 (395)
Q Consensus       239 -~~~~~~~l~~~l~-----~~kr~LlVlDdv~~  265 (395)
                       .......+...+.     ..+.-+||||....
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~  136 (231)
T 4a74_A          104 HQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  136 (231)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSH
T ss_pred             HHHHHHHHHHHHHHHhcccCCceeEEEECChHH
Confidence             0111233444443     45788999999854

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.87  E-value=0.005  Score=57.19  Aligned_cols=84  Identities=21%  Similarity=0.281  Sum_probs=51.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLCN  248 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  248 (395)
                      -.++.|.|.+|+||||||.++.......  -..++|++....++..     .+..++.....      .+.......+..
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~~--g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~  146 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHC--CCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            3578899999999999999998775432  2358899988766543     24555543221      111122222322


Q ss_pred             HHhcCCeEEEEEeCCCC
Q 047930          249 RLKKEKRILVILDNIWE  265 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~  265 (395)
                      .+...+.-+||+|.+..
T Consensus       147 l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHTTTCCSEEEEECTTT
T ss_pred             HHhcCCCCEEEEeChHH
Confidence            22334456999999853

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.79  E-value=0.0015  Score=55.25  Aligned_cols=42  Identities=24%  Similarity=0.342  Sum_probs=32.4

Q ss_pred             hHHHHHHHHHHhcC---CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          159 RMSTLNDILDALKN---PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       159 r~~~~~~l~~~l~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.+.++.+.+.+..   ....+|+|.|+.|+||||+++.+.....
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45566677766653   3457999999999999999999987653

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.76  E-value=0.0057  Score=56.64  Aligned_cols=84  Identities=25%  Similarity=0.427  Sum_probs=51.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-----cchhhhHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-----ETESGRARSLCNR  249 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~l~~~  249 (395)
                      -.++.|.|.+|+||||||.++.......  -..++|++....++..     .+..++...+.     ....+.+..+.+.
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~~~--g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~~~  135 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  135 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHHHH
Confidence            4588999999999999999998775433  2358899987766643     24555543221     1111222223333


Q ss_pred             H-hcCCeEEEEEeCCCC
Q 047930          250 L-KKEKRILVILDNIWE  265 (395)
Q Consensus       250 l-~~~kr~LlVlDdv~~  265 (395)
                      + ...+.-+||+|.+..
T Consensus       136 l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          136 LARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHTCCSEEEEECGGG
T ss_pred             HHhccCCCEEEEcCHHH
Confidence            3 224456999999843

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.62  E-value=0.0022  Score=54.61  Aligned_cols=40  Identities=25%  Similarity=0.458  Sum_probs=30.9

Q ss_pred             HHHHHHHHHhcC--CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          161 STLNDILDALKN--PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       161 ~~~~~l~~~l~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.+++|.+.+..  +...+++|+|+.|+|||||++.+.....
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345566666553  4567999999999999999999987654

>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=96.62  E-value=0.0054  Score=58.49  Aligned_cols=87  Identities=21%  Similarity=0.386  Sum_probs=51.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCC--------Cccccchhh-----h
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGL--------TLHEETESG-----R  242 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~--------~~~~~~~~~-----~  242 (395)
                      .++|+|.+|+|||||+..+......+. -+.++++.+.+.. ...+++.++...-..        ..++.+...     .
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~~~~-~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~~  231 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIAQEH-GGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALT  231 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHHHHT-CCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhhhhcc-CcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHHH
Confidence            488999999999999999988755432 2345667666543 345555555432100        001111111     1


Q ss_pred             HHHHHHHHh--cCCeEEEEEeCCC
Q 047930          243 ARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       243 ~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                      .-.+.+++.  ++++.||++||+.
T Consensus       232 ~ltiAEyFrd~~G~~VLl~~D~it  255 (473)
T 1sky_E          232 GLTMAEYFRDEQGQDGLLFIDNIF  255 (473)
T ss_dssp             HHHHHHHHHHHSCCEEEEEEECTH
T ss_pred             HHHHHHHHHHhcCCcEEEEeccHH
Confidence            113344443  4899999999993

>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=96.59  E-value=0.0088  Score=53.88  Aligned_cols=57  Identities=21%  Similarity=0.282  Sum_probs=34.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLG  231 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~  231 (395)
                      ...++.++|++|+||||++..+......+.- ..+..+.... .....+.+....+..+
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G-~~V~lv~~D~~r~~a~eqL~~~~~~~g  161 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKH-KKIAFITTDTYRIAAVEQLKTYAELLQ  161 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTC-CCEEEEECCCSSTTHHHHHHHHHTTTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CEEEEEecCcccchHHHHHHHHHHhcC
Confidence            4569999999999999999999877653111 1345555432 2233333444444444

>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=96.58  E-value=0.01  Score=54.84  Aligned_cols=92  Identities=20%  Similarity=0.246  Sum_probs=53.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCC----CEEEEEEeCCcCCHHHHHHHHHHHhCCCcc---------c----
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLF----DQVIFVEVSQIQDIRKIQGEFADKLGLTLH---------E----  236 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f----~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~---------~----  236 (395)
                      .-.++.|+|+.|+|||||+.+++.........    ..++|++....+.... +..+++..+....         .    
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~-i~~i~q~~~~~~~~v~~ni~~~~~~~~  208 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNS  208 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH-HHHHHHTTTCCHHHHGGGEEEEECCSH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH-HHHHHHHcCCCHHHHhhCEEEEecCCh
Confidence            34689999999999999999998765211001    2458888766554433 3334444433211         0    


Q ss_pred             cchhhhHHHHHHHHhc-----CCeEEEEEeCCCCc
Q 047930          237 ETESGRARSLCNRLKK-----EKRILVILDNIWEN  266 (395)
Q Consensus       237 ~~~~~~~~~l~~~l~~-----~kr~LlVlDdv~~~  266 (395)
                      ......+..+...+..     .+.-+||+|.+-..
T Consensus       209 ~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~  243 (349)
T 1pzn_A          209 NHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  243 (349)
T ss_dssp             HHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTT
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHh
Confidence            0011123333333332     46789999998654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.58  E-value=0.02  Score=52.11  Aligned_cols=62  Identities=18%  Similarity=0.194  Sum_probs=41.8

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .++.++.-+..+  .++.|.|.+|+||||++.+++.....+.  ..++|++..  -+..++...+...
T Consensus        57 ~LD~~lgGl~~G--~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           57 ELDRMTYGYKRR--NFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             HHHHHHSSBCTT--CEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             HHHhhcCCCCCC--cEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            355554333333  4788999999999999999987765432  567888765  3456666665543

>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=96.48  E-value=0.0017  Score=53.56  Aligned_cols=25  Identities=16%  Similarity=0.244  Sum_probs=22.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|+|++|+||||+++.+.....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999998754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.45  E-value=0.016  Score=52.70  Aligned_cols=27  Identities=22%  Similarity=0.313  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+.+|+|.|+.|+|||||++.+.....
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            456999999999999999999887654

>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=96.42  E-value=0.0031  Score=58.38  Aligned_cols=52  Identities=15%  Similarity=0.082  Sum_probs=33.4

Q ss_pred             HHHHHhcC-CCceEEEEEecCCCcHHHHHHHHHHHhcccC-CCCEEEEEEeCCcC
Q 047930          165 DILDALKN-PDVNMLGIYGMGGIGKTTLAKEVARKAENEK-LFDQVIFVEVSQIQ  217 (395)
Q Consensus       165 ~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~f~~~~wv~~s~~~  217 (395)
                      +.++.+.. ..-..++|+|.+|+|||||++.+.+...... .+. ++++-+.+..
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~  216 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERP  216 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCCh
Confidence            34444431 2234689999999999999999887653321 233 4467776543

>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=96.40  E-value=0.002  Score=52.72  Aligned_cols=25  Identities=16%  Similarity=0.224  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|.|+.|+||||+++.+.....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999987754

>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=96.39  E-value=0.0016  Score=60.05  Aligned_cols=50  Identities=18%  Similarity=0.248  Sum_probs=36.0

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .....++|.+..+..+...+..+....+.|+|++|+|||+||+.+.+...
T Consensus        21 ~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           21 FPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            34556888877665544444333344588999999999999999998754

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.35  E-value=0.0019  Score=52.92  Aligned_cols=20  Identities=40%  Similarity=0.581  Sum_probs=18.9

Q ss_pred             eEEEEEecCCCcHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEV  195 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v  195 (395)
                      .+|.|.|++|+||||+++.+
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            47999999999999999999

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.32  E-value=0.00041  Score=58.00  Aligned_cols=109  Identities=17%  Similarity=0.046  Sum_probs=51.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      .++.|+|+.|+||||++..+..+...+. . .++++....+.  ..-...+...++....... ......+.+.+. ++.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g-~-~v~~~~~~~d~--r~~~~~i~s~~g~~~~~~~-~~~~~~~~~~~~-~~~   77 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGK-K-KVAVFKPKIDS--RYHSTMIVSHSGNGVEAHV-IERPEEMRKYIE-EDT   77 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTT-C-EEEEEEEC-------CCCEECC----CEECEE-ESSGGGGGGGCC-TTE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEeecccc--ccCcccEEecCCCceeeEE-ECCHHHHHHHhc-CCC
Confidence            4788999999999999977776543322 2 23333322110  0000001111111110000 001112222222 345


Q ss_pred             EEEEEeCCCCc-cccchhccccCCCCCCcEEEEeecch
Q 047930          256 ILVILDNIWEN-LDFQAVGIPHGDGHKGSKVLLTARSL  292 (395)
Q Consensus       256 ~LlVlDdv~~~-~~~~~l~~~l~~~~~gs~iivTtR~~  292 (395)
                      -+|++|++... ..|......+.+.  |..||+|.+..
T Consensus        78 dvviIDE~Q~~~~~~~~~l~~l~~~--~~~Vi~~Gl~~  113 (184)
T 2orw_A           78 RGVFIDEVQFFNPSLFEVVKDLLDR--GIDVFCAGLDL  113 (184)
T ss_dssp             EEEEECCGGGSCTTHHHHHHHHHHT--TCEEEEEEESB
T ss_pred             CEEEEECcccCCHHHHHHHHHHHHC--CCCEEEEeecc
Confidence            69999999654 3454433323222  77899988743

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.29  E-value=0.0024  Score=52.96  Aligned_cols=24  Identities=21%  Similarity=0.459  Sum_probs=21.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|++|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            579999999999999999998764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.28  E-value=0.0026  Score=52.40  Aligned_cols=22  Identities=32%  Similarity=0.452  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+|.|.|++|+||||+++.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.27  E-value=0.0015  Score=56.30  Aligned_cols=109  Identities=13%  Similarity=0.029  Sum_probs=59.0

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhc-
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKK-  252 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~-  252 (395)
                      .-.++.|+|..|+||||++..+..+...+. . .++.+......  . ....+++.++........ .....+.+.+.. 
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g-~-kVli~~~~~d~--r-~~~~i~srlG~~~~~~~~-~~~~~i~~~i~~~   84 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYAD-V-KYLVFKPKIDT--R-SIRNIQSRTGTSLPSVEV-ESAPEILNYIMSN   84 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTT-C-CEEEEEECCCG--G-GCSSCCCCCCCSSCCEEE-SSTHHHHHHHHST
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcC-C-EEEEEEeccCc--h-HHHHHHHhcCCCcccccc-CCHHHHHHHHHHH
Confidence            346888999999999999999888765432 2 23444333221  1 112344445443222111 112334444432 


Q ss_pred             ---CCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc
Q 047930          253 ---EKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS  291 (395)
Q Consensus       253 ---~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~  291 (395)
                         ++.-+||+|.+...  +..+.+ ..+.+  .|..||+|.+.
T Consensus        85 ~~~~~~dvViIDEaQ~l~~~~ve~l-~~L~~--~gi~Vil~Gl~  125 (223)
T 2b8t_A           85 SFNDETKVIGIDEVQFFDDRICEVA-NILAE--NGFVVIISGLD  125 (223)
T ss_dssp             TSCTTCCEEEECSGGGSCTHHHHHH-HHHHH--TTCEEEEECCS
T ss_pred             hhCCCCCEEEEecCccCcHHHHHHH-HHHHh--CCCeEEEEecc
Confidence               23449999999643  222222 22212  26789999883

>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=96.25  E-value=0.0029  Score=52.77  Aligned_cols=24  Identities=38%  Similarity=0.481  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..+++|+|+.|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999865

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.25  E-value=0.0029  Score=53.37  Aligned_cols=26  Identities=42%  Similarity=0.482  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|+|+.|+||||+++.+.....
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            45899999999999999999998763

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.25  E-value=0.018  Score=49.91  Aligned_cols=46  Identities=17%  Similarity=0.242  Sum_probs=31.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++.|.|++|+|||||+.+++......  -..++|++....  ..++...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~~~~--~~~v~~~~~e~~--~~~~~~~   69 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNGLKM--GEPGIYVALEEH--PVQVRQN   69 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHHT--TCCEEEEESSSC--HHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccCC--HHHHHHH
Confidence            578999999999999999887664322  234777776543  4444433

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.21  E-value=0.0024  Score=52.34  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|+|+|+.|+||||+++.+.....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4699999999999999999987643

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.20  E-value=0.003  Score=52.44  Aligned_cols=26  Identities=23%  Similarity=0.478  Sum_probs=22.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+.|.|+|+.|+||||+++.+.....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999999998753

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=96.20  E-value=0.023  Score=54.30  Aligned_cols=88  Identities=19%  Similarity=0.321  Sum_probs=57.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC-------cc----ccchh---
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT-------LH----EETES---  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~-------~~----~~~~~---  240 (395)
                      .-++|.|.+|+|||+|+..+.++... .+-+.++++-+.... ...++++++...-...       ..    ...+.   
T Consensus       166 qr~gIfgg~GvGKT~L~~~l~~~~a~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p~~  244 (498)
T 1fx0_B          166 GKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPG  244 (498)
T ss_dssp             CCEEEEECSSSSHHHHHHHHHHHTTT-TCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSCHH
T ss_pred             CeEEeecCCCCCchHHHHHHHHHHHh-hCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCCHH
Confidence            34889999999999999999987543 235678888887655 4567777776542221       00    00011   


Q ss_pred             ------hhHHHHHHHHh--cCCeEEEEEeCCC
Q 047930          241 ------GRARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       241 ------~~~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                            ...-.+.+++.  +++..||++||+.
T Consensus       245 ~R~~~~~~altiAEyfrd~~G~dVLl~~Dsit  276 (498)
T 1fx0_B          245 ARMRVGLTALTMAEYFRDVNEQDVLLFIDNIF  276 (498)
T ss_dssp             HHTTHHHHHHHTHHHHTTTSCCEEEEEEECSH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence                  11234455554  3899999999984

>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=96.18  E-value=0.0034  Score=52.97  Aligned_cols=28  Identities=25%  Similarity=0.317  Sum_probs=24.6

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....+|.|+|++|+||||+++.+.....
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4567899999999999999999988764

>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=96.15  E-value=0.004  Score=51.97  Aligned_cols=25  Identities=28%  Similarity=0.360  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|.|.|+.|+||||+++.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998765

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.14  E-value=0.0052  Score=52.74  Aligned_cols=37  Identities=22%  Similarity=0.266  Sum_probs=28.5

Q ss_pred             HHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          164 NDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       164 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.+...+.......|+|+|.+|+|||||+..+.....
T Consensus        27 ~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           27 DKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            3344444445678899999999999999999998754

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.11  E-value=0.0038  Score=52.06  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=22.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|.|+.|+||||+++.+.+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999998765

>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=96.11  E-value=0.037  Score=52.50  Aligned_cols=28  Identities=32%  Similarity=0.442  Sum_probs=24.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+.+|.++|.+|+||||++..++.....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~  126 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQK  126 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999999876654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.07  E-value=0.0032  Score=53.22  Aligned_cols=25  Identities=20%  Similarity=0.472  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|.|.|+.|+||||+++.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998875

>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=96.04  E-value=0.0043  Score=52.78  Aligned_cols=27  Identities=26%  Similarity=0.405  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|+|+|+.|+|||||++.+.....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            346899999999999999999987653

>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=96.03  E-value=0.0036  Score=52.24  Aligned_cols=25  Identities=32%  Similarity=0.381  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.|.|+|++|+|||||++.+.....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~   26 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCC
Confidence            4588999999999999999987643

>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=96.02  E-value=0.0039  Score=51.57  Aligned_cols=26  Identities=42%  Similarity=0.586  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.|+|++|+||||+++.+.....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            45788999999999999999987753

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=96.02  E-value=0.0039  Score=56.73  Aligned_cols=40  Identities=23%  Similarity=0.434  Sum_probs=29.4

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      ++.+||+|.|-||+||||.+.++.--.....+  .+.-+.+.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~Gk--kVllID~D   85 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSILGK--RVLQIGCD   85 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEEES
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHCCC--eEEEEecC
Confidence            46799999999999999999998876554321  25555554

>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=96.00  E-value=0.0043  Score=51.66  Aligned_cols=25  Identities=20%  Similarity=0.360  Sum_probs=22.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|.|+.|+||||+++.+.....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999998654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.00  E-value=0.0039  Score=52.80  Aligned_cols=25  Identities=36%  Similarity=0.495  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|.|+|++|+|||||++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4578999999999999999998765

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.99  E-value=0.0041  Score=52.52  Aligned_cols=24  Identities=29%  Similarity=0.474  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            579999999999999999998763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.99  E-value=0.0047  Score=52.14  Aligned_cols=27  Identities=33%  Similarity=0.491  Sum_probs=23.1

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....+|+|+|+.|+|||||++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            345689999999999999999998765

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=95.98  E-value=0.041  Score=52.36  Aligned_cols=88  Identities=17%  Similarity=0.317  Sum_probs=56.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC------cc----ccchh----
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT------LH----EETES----  240 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~------~~----~~~~~----  240 (395)
                      .-++|.|..|+|||+|+..+.+.... .+-+.++++-+.... ...++++++...-...      ..    ...+.    
T Consensus       154 Qr~~Ifgg~G~GKT~L~~~i~~~~~~-~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~~~  232 (482)
T 2ck3_D          154 GKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA  232 (482)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHH
T ss_pred             CeeeeecCCCCChHHHHHHHHHhhHh-hCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEEEEECCCCCHHH
Confidence            34889999999999999999987532 234667888887654 4566777776642221      00    00111    


Q ss_pred             -----hhHHHHHHHHh--cCCeEEEEEeCCC
Q 047930          241 -----GRARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       241 -----~~~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                           ...-.+.+++.  +++..||++||+.
T Consensus       233 r~~~~~~a~tiAEyfrd~~G~dVLll~Dsit  263 (482)
T 2ck3_D          233 RARVALTGLTVAEYFRDQEGQDVLLFIDNIF  263 (482)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence                 11223444443  4899999999984

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=95.98  E-value=0.029  Score=53.12  Aligned_cols=28  Identities=29%  Similarity=0.258  Sum_probs=24.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...+|.++|++|+||||++..++.....
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999999876654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.97  E-value=0.0057  Score=50.84  Aligned_cols=28  Identities=29%  Similarity=0.369  Sum_probs=24.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...+|.|.|+.|+||||+++.+......
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            4578999999999999999999987653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.97  E-value=0.0045  Score=54.49  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|+|+.|+||||||+.+.....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4789999999999999999987653

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.95  E-value=0.0055  Score=52.38  Aligned_cols=38  Identities=24%  Similarity=0.302  Sum_probs=28.8

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+.+...+.....++|+|+|.+|+|||||+..+.....
T Consensus        18 ~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           18 AEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             HHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            33444444345678999999999999999999988753

>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=95.94  E-value=0.005  Score=50.59  Aligned_cols=25  Identities=32%  Similarity=0.546  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|.|+|+.|+||||+++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.93  E-value=0.0096  Score=53.44  Aligned_cols=56  Identities=11%  Similarity=0.023  Sum_probs=35.0

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccC-CCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEK-LFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .....+|+|+|..|+|||||++.+........ .......|+....+-.......+.
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~~~~~~~~~l~   84 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLN   84 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccccCChHHHHHHh
Confidence            34567999999999999999999887654311 022344445544333344444443

>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=95.91  E-value=0.01  Score=49.61  Aligned_cols=116  Identities=18%  Similarity=0.111  Sum_probs=60.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC---cCCHHHHHHHHHH---HhC--CCccccc-------h
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ---IQDIRKIQGEFAD---KLG--LTLHEET-------E  239 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~---~~~~~~~~~~i~~---~l~--~~~~~~~-------~  239 (395)
                      ...|.|++-.|.||||+|--+.-..-... + .+.++..-.   ......++..+.-   ..+  ..+....       .
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G-~-rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a  105 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHG-K-NVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAAC  105 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTT-C-CEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHH
Confidence            35677777778999999998887765432 2 344554332   2233334333310   000  1111110       0


Q ss_pred             hhhHHHHHHHHhcCCeEEEEEeCCCCc-----cccchhccccCCCCCCcEEEEeecch
Q 047930          240 SGRARSLCNRLKKEKRILVILDNIWEN-----LDFQAVGIPHGDGHKGSKVLLTARSL  292 (395)
Q Consensus       240 ~~~~~~l~~~l~~~kr~LlVlDdv~~~-----~~~~~l~~~l~~~~~gs~iivTtR~~  292 (395)
                      ........+.+..++-=|||||++-..     ...+.+...+.......-||+|+|..
T Consensus       106 ~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          106 MAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            112334444444344449999998432     23333433333344566799999984

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.90  E-value=0.0058  Score=51.44  Aligned_cols=26  Identities=31%  Similarity=0.337  Sum_probs=23.2

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ++..+|+|.|+.|+||||+++.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            45678999999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.90  E-value=0.0054  Score=52.08  Aligned_cols=27  Identities=41%  Similarity=0.480  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|+|+|+.|+|||||++.+.....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            446899999999999999999987643

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.90  E-value=0.0044  Score=51.00  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+++.+.....
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999987654

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.89  E-value=0.0038  Score=60.48  Aligned_cols=44  Identities=18%  Similarity=0.179  Sum_probs=35.4

Q ss_pred             chhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|++..++.+...+..+.  .+.++|++|+|||+||+.+++...
T Consensus        23 ~ivGq~~~i~~l~~al~~~~--~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHTC--EEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhHHHHHHHHHHHHHHhcCC--eeEeecCchHHHHHHHHHHHHHHh
Confidence            46788888887777665443  578999999999999999998764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.89  E-value=0.019  Score=64.04  Aligned_cols=84  Identities=23%  Similarity=0.273  Sum_probs=54.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLC  247 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~  247 (395)
                      ..+++.|+|++|+|||+||.++......+  =..++|+++...++...     ++.++.+.+.      .+.......+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~--G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            45689999999999999999998875532  23478888877766554     4555532211      11222333334


Q ss_pred             HHHhcCCeEEEEEeCCC
Q 047930          248 NRLKKEKRILVILDNIW  264 (395)
Q Consensus       248 ~~l~~~kr~LlVlDdv~  264 (395)
                      +...+.+.-+||+|.+.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence            34444677899999995

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.89  E-value=0.041  Score=52.25  Aligned_cols=29  Identities=21%  Similarity=0.307  Sum_probs=24.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ..++|.++|.+|+||||++..++.....+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46799999999999999999998776543

>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=95.88  E-value=0.0051  Score=50.97  Aligned_cols=24  Identities=38%  Similarity=0.547  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|+|+.|+|||||++.+.....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999987654

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.87  E-value=0.0052  Score=51.75  Aligned_cols=24  Identities=33%  Similarity=0.674  Sum_probs=21.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|+|.|+.|+||||+++.+.....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            689999999999999999998754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.87  E-value=0.0057  Score=51.67  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+++|+|+.|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3589999999999999999998754

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.87  E-value=0.0052  Score=51.21  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=20.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+++|+|+.|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999975

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.86  E-value=0.0061  Score=50.69  Aligned_cols=25  Identities=32%  Similarity=0.367  Sum_probs=22.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ....|.|+|+.|+||||+++.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999999999999876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.86  E-value=0.0062  Score=50.92  Aligned_cols=26  Identities=27%  Similarity=0.381  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|.|+.|+||||+++.+.+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987653

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.86  E-value=0.0065  Score=51.25  Aligned_cols=26  Identities=23%  Similarity=0.388  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +..+|.|.|+.|+||||+++.+.+..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998764

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.85  E-value=0.019  Score=52.04  Aligned_cols=43  Identities=21%  Similarity=0.244  Sum_probs=29.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      ....+++|.|+.|+|||||++.+..-......-..+.++....
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~  130 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDG  130 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGG
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecCc
Confidence            4457999999999999999999987654311002355555443

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=95.85  E-value=0.0089  Score=55.56  Aligned_cols=45  Identities=22%  Similarity=0.188  Sum_probs=34.1

Q ss_pred             hhchHHHHHHHHHHhc-------------C--CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          156 FESRMSTLNDILDALK-------------N--PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~-------------~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ++|.+..++.+...+.             .  .....+.++|++|+|||++|+.+++...
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4677777777666651             1  1345688999999999999999998763

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.85  E-value=0.0083  Score=53.81  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+|.|.|++|+||||+++.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998764

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.82  E-value=0.0046  Score=52.18  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.++|+|+.|+|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998754

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.82  E-value=0.006  Score=50.87  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|.|.|+.|+||||+++.+....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998764

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.80  E-value=0.0067  Score=49.62  Aligned_cols=28  Identities=29%  Similarity=0.322  Sum_probs=23.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ..+++.|+|..|+|||||+..+......
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~   30 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVR   30 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHh
Confidence            3578999999999999999999987653

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.79  E-value=0.0061  Score=51.26  Aligned_cols=26  Identities=15%  Similarity=0.417  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..++|+|+|++|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45689999999999999999998764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.79  E-value=0.0061  Score=49.72  Aligned_cols=27  Identities=30%  Similarity=0.466  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|.|.|+.|+||||+++.+.....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            356899999999999999999998754

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.75  E-value=0.0052  Score=50.96  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ++|.|.|+.|+||||+|+.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999988654

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.73  E-value=0.0064  Score=51.35  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3689999999999999999987

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.72  E-value=0.0064  Score=52.24  Aligned_cols=24  Identities=38%  Similarity=0.497  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+|+|+|+.|+||||+++.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998754

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.71  E-value=0.0071  Score=50.70  Aligned_cols=26  Identities=27%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|.|+.|+||||+++.+.....
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999988653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.69  E-value=0.0075  Score=51.07  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=23.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+|.|.|+.|+||||+++.+......
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            57999999999999999999987653

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.68  E-value=0.0073  Score=53.30  Aligned_cols=25  Identities=28%  Similarity=0.600  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.68  E-value=0.0072  Score=50.09  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..|.|.|+.|+||||+++.+.+..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.68  E-value=0.052  Score=49.64  Aligned_cols=61  Identities=15%  Similarity=0.156  Sum_probs=40.5

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .++.+..-+..+  .++.|.|.+|+||||++.+++......  =..++|++..  -+..++...++.
T Consensus        35 ~LD~~~gGl~~G--~LiiIaG~pG~GKTt~al~ia~~~a~~--g~~Vl~fSlE--ms~~ql~~Rlls   95 (338)
T 4a1f_A           35 QLDNYTSGFNKG--SLVIIGARPSMGKTSLMMNMVLSALND--DRGVAVFSLE--MSAEQLALRALS   95 (338)
T ss_dssp             HHHHHHCSBCTT--CEEEEEECTTSCHHHHHHHHHHHHHHT--TCEEEEEESS--SCHHHHHHHHHH
T ss_pred             HHHHHhcCCCCC--cEEEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCC--CCHHHHHHHHHH
Confidence            355555433333  468899999999999999998876542  2356777653  345566555543

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.67  E-value=0.0083  Score=50.53  Aligned_cols=27  Identities=30%  Similarity=0.255  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|.|.|+.|+||||+++.+.....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345899999999999999999988653

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.67  E-value=0.0061  Score=49.86  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|.|+.|+||||+++.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988653

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.65  E-value=0.0057  Score=50.23  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=19.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVA  196 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~  196 (395)
                      -.+++|+|+.|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            3589999999999999999643

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.65  E-value=0.0075  Score=52.69  Aligned_cols=26  Identities=27%  Similarity=0.310  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|+|+|+.|+|||||++.+.+...
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            56899999999999999999997653

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.64  E-value=0.0076  Score=51.05  Aligned_cols=24  Identities=42%  Similarity=0.650  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..+|+|+|+.|+||||+++.+...
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999864

>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=95.63  E-value=0.039  Score=49.81  Aligned_cols=38  Identities=24%  Similarity=0.357  Sum_probs=28.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEV  213 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  213 (395)
                      ...+|.|+|++|+||||++..++.....+.  ..+.++..
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g--~kV~lv~~  140 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAA  140 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEE
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhcC--CEEEEEcc
Confidence            457899999999999999999987765431  22445544

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.62  E-value=0.0086  Score=51.23  Aligned_cols=28  Identities=21%  Similarity=0.329  Sum_probs=24.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...++|.|.|++|+||||.|+.+.+...
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4578999999999999999999998754

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=95.60  E-value=0.0069  Score=51.39  Aligned_cols=25  Identities=16%  Similarity=0.336  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3579999999999999999998764

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.60  E-value=0.0084  Score=49.88  Aligned_cols=26  Identities=27%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|.|+.|+||||+++.+.....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.59  E-value=0.0052  Score=50.81  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=18.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|.|+.|+||||+++.+.....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45799999999999999999987654

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.58  E-value=0.0092  Score=50.65  Aligned_cols=32  Identities=13%  Similarity=0.157  Sum_probs=25.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ  207 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~  207 (395)
                      ..+|+|.|+.|+||||+++.+.+..... .++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~-~~~v   40 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAA-GHRA   40 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHc-CCcE
Confidence            4689999999999999999999876432 3444

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.58  E-value=0.015  Score=53.36  Aligned_cols=30  Identities=23%  Similarity=0.308  Sum_probs=24.7

Q ss_pred             cCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          171 KNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       171 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+....|.|+|+.|+||||+++.++....
T Consensus        20 ~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           20 EDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             TTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             ccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            355667799999999999999998887643

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.52  E-value=0.0095  Score=50.50  Aligned_cols=32  Identities=19%  Similarity=0.215  Sum_probs=25.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ  207 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~  207 (395)
                      ..+|+|.|+.|+||||+++.+.+..... +++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~-~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN-NVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc-CCcE
Confidence            4689999999999999999999875432 3554

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.52  E-value=0.0069  Score=51.93  Aligned_cols=25  Identities=36%  Similarity=0.486  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.+++|+|+.|+|||||++.+....
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3579999999999999999998754

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.51  E-value=0.0076  Score=50.96  Aligned_cols=22  Identities=36%  Similarity=0.489  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+|+|.|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=95.50  E-value=0.058  Score=62.15  Aligned_cols=138  Identities=10%  Similarity=0.075  Sum_probs=75.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      +-+.++|++|+|||++|+.+.....   .+ ..+.++.+...+...+.+.+-..+..........      ..--..+++
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~~---~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~------~~P~~~gk~ 1337 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNSS---LY-DVVGINFSKDTTTEHILSALHRHTNYVTTSKGLT------LLPKSDIKN 1337 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCS---SC-EEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEE------EEEBSSSSC
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcCC---CC-ceEEEEeecCCCHHHHHHHHHHHhhhccccCCcc------ccCCCCCce
Confidence            3577999999999999988776432   12 3556777777777777666665543211000000      000002678


Q ss_pred             EEEEEeCCCCc--ccc------chhccccC-----CCCC-------CcEEEEeecchh------hhhhcCCCcceeecCC
Q 047930          256 ILVILDNIWEN--LDF------QAVGIPHG-----DGHK-------GSKVLLTARSLD------VLSRKMDSQQNFSFDV  309 (395)
Q Consensus       256 ~LlVlDdv~~~--~~~------~~l~~~l~-----~~~~-------gs~iivTtR~~~------va~~~~~~~~~~~l~~  309 (395)
                      ++|++||+.-.  +.|      +-+...+.     +...       +..+|.++....      +..+.......+.+..
T Consensus      1338 ~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~ 1417 (2695)
T 4akg_A         1338 LVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGY 1417 (2695)
T ss_dssp             EEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEECCC
T ss_pred             EEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEEeCC
Confidence            99999997432  111      11111110     1111       223343442221      1112223346788999


Q ss_pred             CChHHHHHHHHHhh
Q 047930          310 LKEDEAWSLFKKMA  323 (395)
Q Consensus       310 L~~~e~~~lf~~~~  323 (395)
                      .+.++-..+|....
T Consensus      1418 P~~~~l~~I~~~il 1431 (2695)
T 4akg_A         1418 PSGKSLSQIYEIYY 1431 (2695)
T ss_dssp             CTTTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99998888888765

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.50  E-value=0.0089  Score=48.60  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|+.|+||||+++.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999988653

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.50  E-value=0.0089  Score=49.81  Aligned_cols=24  Identities=33%  Similarity=0.505  Sum_probs=21.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+|.|+.|+||||+++.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998653

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.50  E-value=0.12  Score=47.12  Aligned_cols=29  Identities=28%  Similarity=0.338  Sum_probs=24.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +...+++|+|+.|+||||+++.+......
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45679999999999999999999876554

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.49  E-value=0.0094  Score=51.01  Aligned_cols=26  Identities=23%  Similarity=0.253  Sum_probs=22.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...|.|.|+.|+||||+++.+.....
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            45789999999999999999988653

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.49  E-value=0.0092  Score=51.38  Aligned_cols=25  Identities=24%  Similarity=0.294  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...|.|.|+.|+||||+++.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999998764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.47  E-value=0.0091  Score=51.20  Aligned_cols=27  Identities=26%  Similarity=0.194  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....|.|.|+.|+||||+++.+.....
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345789999999999999999998754

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=95.46  E-value=0.0087  Score=51.34  Aligned_cols=26  Identities=15%  Similarity=0.273  Sum_probs=22.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      -.+++|+|+.|+|||||.+.+.....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            45899999999999999999987653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.44  E-value=0.16  Score=49.09  Aligned_cols=28  Identities=29%  Similarity=0.385  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ..++|.|+|.+|+||||++..+......
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~  127 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQR  127 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4679999999999999999999876543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.42  E-value=0.011  Score=51.71  Aligned_cols=26  Identities=19%  Similarity=0.346  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+|+|.|+.|+|||||++.+....
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            44689999999999999999998754

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.42  E-value=0.0096  Score=53.83  Aligned_cols=27  Identities=26%  Similarity=0.430  Sum_probs=23.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+++|+|++|+|||||++.++....
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            456899999999999999999987654

>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=95.40  E-value=0.0055  Score=52.09  Aligned_cols=24  Identities=29%  Similarity=0.552  Sum_probs=21.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+|.|+.|+||||+++.+.....
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999988754

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.38  E-value=0.02  Score=49.96  Aligned_cols=27  Identities=19%  Similarity=0.163  Sum_probs=23.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .....|.|.|+.|+||||+++.+.+..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999998765

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.37  E-value=0.01  Score=48.03  Aligned_cols=26  Identities=31%  Similarity=0.355  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34589999999999999999998765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.37  E-value=0.011  Score=51.85  Aligned_cols=27  Identities=30%  Similarity=0.405  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|+|.|+.|+||||+++.+.....
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            346899999999999999999996643

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.35  E-value=0.011  Score=51.89  Aligned_cols=28  Identities=14%  Similarity=0.321  Sum_probs=23.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....+|+|.|+.|+||||+|+.+.....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4567899999999999999999988643

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.33  E-value=0.11  Score=49.62  Aligned_cols=62  Identities=16%  Similarity=0.119  Sum_probs=40.4

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .++.++.-+..  -.++.|.|.+|+||||++.+++....... -..++|++..  -+..++...++.
T Consensus       189 ~LD~~lgGl~~--G~l~ii~G~pg~GKT~lal~ia~~~a~~~-g~~vl~~slE--~~~~~l~~R~~~  250 (444)
T 2q6t_A          189 ELDQLIGTLGP--GSLNIIAARPAMGKTAFALTIAQNAALKE-GVGVGIYSLE--MPAAQLTLRMMC  250 (444)
T ss_dssp             HHHHHHCCCCT--TCEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESS--SCHHHHHHHHHH
T ss_pred             hhhhhcCCcCC--CcEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCeEEEEECC--CCHHHHHHHHHH
Confidence            35555532332  34788999999999999999988765321 1347777664  345566666543

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.29  E-value=0.066  Score=51.26  Aligned_cols=61  Identities=11%  Similarity=0.272  Sum_probs=39.4

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .++.+..-+..+  .++.|.|.+|+|||||+.+++....... -..++|++...  +..++...+.
T Consensus       192 ~LD~~~gGl~~G--~liiI~G~pG~GKTtl~l~ia~~~~~~~-g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          192 ELDRMTSGFQRS--DLIIVAARPSVGKTAFALNIAQNVATKT-NENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             HHHHHHSSBCTT--CEEEEECCTTSCHHHHHHHHHHHHHHHS-SCCEEEEESSS--CHHHHHHHHH
T ss_pred             HHHhhcCCCCCC--CEEEEECCCCCCHHHHHHHHHHHHHHhC-CCcEEEEECCC--CHHHHHHHHH
Confidence            355555333333  4788999999999999999988765321 12477777543  3455555543

>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=95.28  E-value=0.012  Score=49.48  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...|+|.|+.|+||||+++.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3579999999999999999998765

>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=95.28  E-value=0.012  Score=49.26  Aligned_cols=27  Identities=26%  Similarity=0.388  Sum_probs=23.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....+|+|.|+.|+||||+++.+.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhc
Confidence            346789999999999999999998763

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.27  E-value=0.012  Score=58.63  Aligned_cols=49  Identities=18%  Similarity=0.194  Sum_probs=39.3

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.....++|....++.+...+..+  ..+.|+|++|+||||||+.+.....
T Consensus        37 p~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           37 EKLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SSHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ccccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            344567889888888777776655  4688999999999999999998654

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.24  E-value=0.014  Score=51.24  Aligned_cols=26  Identities=23%  Similarity=0.272  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+|.|+|++|+||||+++.+....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998765

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.24  E-value=0.012  Score=50.15  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=21.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|+.|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987653

>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=95.20  E-value=0.066  Score=48.11  Aligned_cols=87  Identities=20%  Similarity=0.237  Sum_probs=47.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCccc----cchhhhHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTLHE----ETESGRARSLCNR  249 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~l~~~  249 (395)
                      ..++.++|.+|+||||++..++.....+.  ..+.++..... ....+.+....+..+.+...    .+....+....+.
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g--~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~  175 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKG--FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK  175 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTT--CCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHH
Confidence            56899999999999999999987765431  23555554322 22233344445554443211    1111222334444


Q ss_pred             HhcCCeEEEEEeCC
Q 047930          250 LKKEKRILVILDNI  263 (395)
Q Consensus       250 l~~~kr~LlVlDdv  263 (395)
                      +....-=++|+|-.
T Consensus       176 ~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          176 FLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHTTCSEEEEECC
T ss_pred             HHhCCCCEEEEeCC
Confidence            43122226778865

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.19  E-value=0.01  Score=48.71  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=22.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++++|+|..|+|||||++.+..-...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            57999999999999999999876554

>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=95.18  E-value=0.014  Score=49.50  Aligned_cols=28  Identities=25%  Similarity=0.284  Sum_probs=23.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....+|.|.|+.|+||||+++.+.....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3456899999999999999999987654

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=95.18  E-value=0.031  Score=53.71  Aligned_cols=42  Identities=26%  Similarity=0.366  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          160 MSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       160 ~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ...+..+..++.+++ +.+.|.|.+|+||||++..+.......
T Consensus        31 ~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~   72 (459)
T 3upu_A           31 KNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALIST   72 (459)
T ss_dssp             HHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhc
Confidence            344556666665444 388999999999999999998876543

>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=95.17  E-value=0.014  Score=48.05  Aligned_cols=26  Identities=23%  Similarity=0.282  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|.|+.|+||||+++.+.....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46789999999999999999988653

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=95.16  E-value=0.024  Score=53.88  Aligned_cols=87  Identities=22%  Similarity=0.321  Sum_probs=53.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCC--CCEEEEEEeCCcC-CHHHHHHHHHHHhCCC-------ccccchh------
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKL--FDQVIFVEVSQIQ-DIRKIQGEFADKLGLT-------LHEETES------  240 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~--f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~-------~~~~~~~------  240 (395)
                      -++|.|.+|+|||+|+.++++.....+.  =+.++++-+.+.. ...++.+++...-...       ..+.+..      
T Consensus       154 r~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~~~  233 (469)
T 2c61_A          154 KLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTP  233 (469)
T ss_dssp             BCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHHHH
Confidence            3678899999999999999988764221  1356777776543 4566777766532111       0011111      


Q ss_pred             hhHHHHHHHHh--cCCeEEEEEeCC
Q 047930          241 GRARSLCNRLK--KEKRILVILDNI  263 (395)
Q Consensus       241 ~~~~~l~~~l~--~~kr~LlVlDdv  263 (395)
                      ...-.+.+++.  +++..||++||+
T Consensus       234 ~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          234 RMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHhcCCeEEEEEeCH
Confidence            11223445554  489999999997

>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=95.15  E-value=0.014  Score=47.98  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++.|+|+.|+|||||+..+.....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            56899999999999999999987754

>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=95.15  E-value=0.015  Score=49.66  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999975

>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=95.14  E-value=0.013  Score=49.87  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .|.|.|+.|+||||+++.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.11  E-value=0.013  Score=50.99  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            78999999999999999999864

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.08  E-value=0.037  Score=52.36  Aligned_cols=87  Identities=21%  Similarity=0.311  Sum_probs=53.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhccc-CCCC-EEEEEEeCCc-CCHHHHHHHHHHHhCCC-------ccccchhh------
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENE-KLFD-QVIFVEVSQI-QDIRKIQGEFADKLGLT-------LHEETESG------  241 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~-~~f~-~~~wv~~s~~-~~~~~~~~~i~~~l~~~-------~~~~~~~~------  241 (395)
                      ++|.|..|+|||+|+.++.+..... ++-+ .++++-+.+. ....++.+++...-...       ..+.+...      
T Consensus       154 ~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a~~  233 (465)
T 3vr4_D          154 LPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIATPR  233 (465)
T ss_dssp             CCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHHHHH
T ss_pred             EEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHHHHH
Confidence            6788999999999999999876531 1112 5677777654 34566666665431110       00111111      


Q ss_pred             hHHHHHHHHh--cCCeEEEEEeCCC
Q 047930          242 RARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       242 ~~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                      ..-.+.+++.  +++..||++||+-
T Consensus       234 ~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          234 MALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHhcCCeEEEEEcChH
Confidence            1224556665  3899999999984

>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=95.07  E-value=0.093  Score=47.10  Aligned_cols=88  Identities=24%  Similarity=0.343  Sum_probs=46.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC-HHHHHHHHHHHhCCCccc----cchhhhHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD-IRKIQGEFADKLGLTLHE----ETESGRARSLCN  248 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~i~~~l~~~~~~----~~~~~~~~~l~~  248 (395)
                      ...+++|+|.+|+||||++..++.......  ..+.++....... ....+....+..+.+.-.    ............
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~--~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG--RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTT--CCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHH
Confidence            346899999999999999999987765431  2344554432211 112233444444443221    111122233333


Q ss_pred             HHhcCCeEEEEEeCC
Q 047930          249 RLKKEKRILVILDNI  263 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv  263 (395)
                      .+...+.=++|+|-.
T Consensus       175 ~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          175 KARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHTCCEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            332123347888976

>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=95.07  E-value=0.016  Score=51.84  Aligned_cols=25  Identities=28%  Similarity=0.652  Sum_probs=21.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      +...+|+|.|+.|+||||+++.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999983

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.05  E-value=0.0083  Score=55.53  Aligned_cols=51  Identities=20%  Similarity=0.113  Sum_probs=33.4

Q ss_pred             HHHHHhcC-CCceEEEEEecCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCc
Q 047930          165 DILDALKN-PDVNMLGIYGMGGIGKTTLAKEVARKAENE-KLFDQVIFVEVSQI  216 (395)
Q Consensus       165 ~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~s~~  216 (395)
                      +.++.+.. ..-.-+.|.|.+|+|||+|+.++.+..... ..+. ++++-+.+.
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~-~V~~lIGER  216 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTI-RIILLIDER  216 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSE-EEEEECSCC
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeE-EEEEEeccC
Confidence            45566552 223458899999999999999998875432 1233 356666654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.02  E-value=0.012  Score=49.11  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +++|+|+.|+|||||++.+.....
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            689999999999999999987653

>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=94.99  E-value=0.013  Score=50.86  Aligned_cols=23  Identities=26%  Similarity=0.446  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            47999999999999999998753

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.98  E-value=0.013  Score=51.41  Aligned_cols=25  Identities=40%  Similarity=0.481  Sum_probs=22.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|+|+.|+||||+++.+.....
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4799999999999999999998654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.97  E-value=0.0089  Score=51.62  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=15.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHH-HH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVA-RK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~-~~  198 (395)
                      .+++|+|+.|+|||||++.+. ..
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            589999999999999999998 54

>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=94.97  E-value=0.095  Score=49.49  Aligned_cols=28  Identities=36%  Similarity=0.410  Sum_probs=24.0

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...++.++|++|+||||++..++.....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~  124 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG  124 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3568999999999999999999887654

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.95  E-value=0.012  Score=50.60  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47999999999999999998754

>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=94.95  E-value=0.018  Score=52.24  Aligned_cols=28  Identities=21%  Similarity=0.225  Sum_probs=23.8

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....+|+|+|+.|+|||||++.+.....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3457999999999999999999987643

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=94.95  E-value=0.017  Score=49.98  Aligned_cols=26  Identities=23%  Similarity=0.450  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|.|++|+||||+++.+.....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999987653

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.94  E-value=0.016  Score=52.96  Aligned_cols=24  Identities=42%  Similarity=0.447  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+|+|.|+.|+||||||..+....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            489999999999999999999864

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.92  E-value=0.021  Score=48.01  Aligned_cols=26  Identities=19%  Similarity=0.195  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+.|+|++|+||||+|..+++...
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34689999999999999999988764

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.87  E-value=0.018  Score=51.99  Aligned_cols=27  Identities=30%  Similarity=0.396  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+++|+|+.|+||||+++.++....
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            346899999999999999999987654

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.83  E-value=0.063  Score=46.48  Aligned_cols=48  Identities=27%  Similarity=0.376  Sum_probs=31.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      .++.|.|.+|+|||++|.+++.+...+. -..++|++...  +...+...+
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~~~~~~~~-~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFIYKGAEEY-GEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHHH-CCCEEEEESSS--CHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCceeecccC--CHHHHHHHH
Confidence            5788999999999999999765432211 23456666543  455555444

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=94.83  E-value=0.018  Score=48.49  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=21.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|+|.|+.|+||||+++.+.....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999987653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.82  E-value=0.018  Score=52.23  Aligned_cols=24  Identities=29%  Similarity=0.293  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++|.|+|+.|+|||||+..+....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999999864

>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=94.79  E-value=0.061  Score=48.21  Aligned_cols=38  Identities=16%  Similarity=0.198  Sum_probs=27.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      .+++|.|++|+|||||+..++....... -..++|++..
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~~~~~~-G~~v~~~~~e   73 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQWGTAM-GKKVGLAMLE   73 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTS-CCCEEEEESS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHHc-CCeEEEEeCc
Confidence            4799999999999999999987765331 1136666553

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.79  E-value=0.02  Score=48.94  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..|.|.|+.|+||||+++.+.....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999988753

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=94.79  E-value=0.021  Score=49.30  Aligned_cols=26  Identities=27%  Similarity=0.188  Sum_probs=22.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...|.|.|+.|+||||+++.+.+...
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998753

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.77  E-value=0.019  Score=51.67  Aligned_cols=25  Identities=24%  Similarity=0.408  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++|.|.|+.|+|||||+..++...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3588999999999999999998754

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=94.76  E-value=0.039  Score=51.01  Aligned_cols=37  Identities=24%  Similarity=0.397  Sum_probs=28.4

Q ss_pred             HHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          164 NDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       164 ~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..++..+.  .++..+|+|+|.+|+|||||+..+.....
T Consensus        66 ~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           66 QQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34444443  45678999999999999999999987653

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=94.76  E-value=0.02  Score=48.71  Aligned_cols=23  Identities=26%  Similarity=0.190  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .|.|.|+.|+||||+++.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.73  E-value=0.019  Score=52.39  Aligned_cols=25  Identities=28%  Similarity=0.461  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++|.|+|+.|+|||||+..++...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999999754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.73  E-value=0.02  Score=49.19  Aligned_cols=23  Identities=35%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .|.|.|+.|+||||+++.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998765

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.72  E-value=0.012  Score=49.92  Aligned_cols=23  Identities=35%  Similarity=0.294  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
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            47899999999999999999865

>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=94.71  E-value=0.015  Score=50.52  Aligned_cols=24  Identities=21%  Similarity=0.429  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||++.+..-.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            479999999999999999997653

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.70  E-value=0.025  Score=50.87  Aligned_cols=26  Identities=27%  Similarity=0.229  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..++|.|+|+.|+||||||..++...
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35689999999999999999999764

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=94.69  E-value=0.019  Score=54.52  Aligned_cols=46  Identities=24%  Similarity=0.330  Sum_probs=32.9

Q ss_pred             chhchHHHHHHHHHHhcC--------------CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          155 AFESRMSTLNDILDALKN--------------PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.++.++.+..++..              ...+.|.++|++|+||||+|+.++....
T Consensus        16 ~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~   75 (444)
T 1g41_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (444)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcC
Confidence            356666666665544411              1345688999999999999999998764

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.68  E-value=0.12  Score=49.21  Aligned_cols=60  Identities=18%  Similarity=0.182  Sum_probs=38.7

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      .++.++.-+..  -.++.|.|.+|+||||++.+++.+...+  -..++|++...  +..++...+.
T Consensus       186 ~LD~~lgGl~~--G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEm--s~~ql~~R~~  245 (444)
T 3bgw_A          186 ELDRMTYGYKR--RNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEM--GKKENIKRLI  245 (444)
T ss_dssp             HHHHHHSSBCS--SCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSS--CTTHHHHHHH
T ss_pred             HHHhhcCCCCC--CcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCC--CHHHHHHHHH
Confidence            35555543332  3468899999999999999999886544  23577776543  3334444443

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.68  E-value=0.015  Score=51.34  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999998754

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=94.67  E-value=0.047  Score=47.05  Aligned_cols=28  Identities=29%  Similarity=0.334  Sum_probs=24.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ....|+|.|+.|+||||+++.+.+....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            3468999999999999999999988754

>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=94.67  E-value=0.021  Score=48.35  Aligned_cols=24  Identities=38%  Similarity=0.488  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +|.|.|++|+||+|.|+.+.+...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            688999999999999999998754

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=94.66  E-value=0.019  Score=50.37  Aligned_cols=23  Identities=35%  Similarity=0.531  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999999873

>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=94.66  E-value=0.061  Score=46.54  Aligned_cols=52  Identities=15%  Similarity=0.176  Sum_probs=33.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      ...|.|.|+.|+||||+++.+.+..... .+..+....-+......+.+++++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~-~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN-GIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCeeeeecCCCCCHHHHHHHHHH
Confidence            4689999999999999999999887653 355344443333222334444444

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.66  E-value=0.075  Score=58.57  Aligned_cols=85  Identities=22%  Similarity=0.298  Sum_probs=52.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLCN  248 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  248 (395)
                      -.++.|.|++|+||||||.+++.....+  -..++|++........     .++.++.....      .+.......+..
T Consensus       732 G~lVlI~G~PG~GKTtLal~lA~~aa~~--g~~VlyiS~Ees~~ql-----~A~~lGvd~~~L~i~~~~~leei~~~l~~  804 (1706)
T 3cmw_A          732 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  804 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCcHHHHHHHHHHHHHc--CCCeEEEeccchHHHH-----HHHHcCCChhheEEecCCcHHHHHHHHHH
Confidence            3578999999999999999998876543  2247788776665432     15556543221      111222223322


Q ss_pred             HHhcCCeEEEEEeCCCCc
Q 047930          249 RLKKEKRILVILDNIWEN  266 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~~  266 (395)
                      .....+.-+||+|.+...
T Consensus       805 lv~~~~~~lVVIDsLq~l  822 (1706)
T 3cmw_A          805 LARSGAVDVIVVDSVAAL  822 (1706)
T ss_dssp             HHHHTCCSEEEESCSTTC
T ss_pred             HHHccCCCEEEEechhhh
Confidence            222355679999998643

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=94.62  E-value=0.08  Score=50.09  Aligned_cols=88  Identities=24%  Similarity=0.325  Sum_probs=53.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhccc--------CCCC-EEEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENE--------KLFD-QVIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEET  238 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~--------~~f~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~  238 (395)
                      -++|.|.+|+|||+|+.++.+.....        ++-+ .++++-+.+.. ...++.+++...-...        .++..
T Consensus       149 r~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~p~  228 (464)
T 3gqb_B          149 KLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPT  228 (464)
T ss_dssp             BCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTSCT
T ss_pred             EEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCCCH
Confidence            36788999999999999999876541        1222 46777776543 4566666654421010        11111


Q ss_pred             hh-----hhHHHHHHHHh--cCCeEEEEEeCCC
Q 047930          239 ES-----GRARSLCNRLK--KEKRILVILDNIW  264 (395)
Q Consensus       239 ~~-----~~~~~l~~~l~--~~kr~LlVlDdv~  264 (395)
                      ..     ...-.+.+++.  +++..||++||+-
T Consensus       229 ~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          229 IERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            11     11224555655  3899999999984

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=94.62  E-value=0.018  Score=51.20  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            47999999999999999998753

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.61  E-value=0.021  Score=50.33  Aligned_cols=109  Identities=12%  Similarity=0.108  Sum_probs=54.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHH--HhCCCccccchhhhHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFAD--KLGLTLHEETESGRARSLCNRL  250 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~--~l~~~~~~~~~~~~~~~l~~~l  250 (395)
                      .-.+++|+|+.|+|||||++.+.......  +...+++.-.. .+-.... ..+..  .++.     ........+...|
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~--~~G~I~~~g~~i~~~~~~~-~~~v~q~~~gl-----~~~~l~~~la~aL   95 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVFKHK-KSIVNQREVGE-----DTKSFADALRAAL   95 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHH--CCCEEEEEESSCCSCCCCS-SSEEEEEEBTT-----TBSCHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCC--CCCEEEEcCCcceeecCCc-ceeeeHHHhCC-----CHHHHHHHHHHHH
Confidence            44689999999999999999988754321  12233222110 0000000 00000  0000     0112233455555


Q ss_pred             hcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhh
Q 047930          251 KKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDV  294 (395)
Q Consensus       251 ~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~v  294 (395)
                      .. ++=+|++|+..+......+....   ..|..|++||.+.+.
T Consensus        96 ~~-~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A           96 RE-DPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTA  135 (261)
T ss_dssp             HH-CCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCSSH
T ss_pred             hh-CCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcchH
Confidence            53 45688889987544333322221   235668888876553

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.60  E-value=0.021  Score=51.32  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+|.|.|++|+||||+++.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=94.57  E-value=0.017  Score=50.89  Aligned_cols=23  Identities=30%  Similarity=0.379  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999998754

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.57  E-value=0.017  Score=50.29  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999998754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.57  E-value=0.12  Score=44.29  Aligned_cols=25  Identities=32%  Similarity=0.276  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..++|.|++|+||||+++.+.+...
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cceeeECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=94.56  E-value=0.023  Score=47.30  Aligned_cols=25  Identities=24%  Similarity=0.440  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-.++|+|..|+|||||++.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468899999999999999998754

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=94.55  E-value=0.02  Score=50.67  Aligned_cols=23  Identities=35%  Similarity=0.560  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.++.-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57999999999999999999874

>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=94.54  E-value=0.018  Score=49.79  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999998654

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.54  E-value=0.074  Score=45.23  Aligned_cols=52  Identities=19%  Similarity=0.200  Sum_probs=34.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ..|.+.|+.|+||||+++.+.+..... .+..+.+..-+......+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc-CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            478999999999999999999887654 3423344333333334555555554

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=94.52  E-value=0.015  Score=49.58  Aligned_cols=23  Identities=43%  Similarity=0.641  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.++.-
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999998764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=94.51  E-value=0.018  Score=50.40  Aligned_cols=23  Identities=43%  Similarity=0.696  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47999999999999999998754

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=94.50  E-value=0.019  Score=50.13  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999998753

>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=94.50  E-value=0.021  Score=54.12  Aligned_cols=28  Identities=29%  Similarity=0.451  Sum_probs=24.1

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .....+|.|+|++|+||||+|+.+....
T Consensus       255 ~~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          255 SPNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             CSSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            3456899999999999999999998754

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=94.50  E-value=0.018  Score=50.89  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=21.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHcC
Confidence            357999999999999999998754

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=94.49  E-value=0.02  Score=50.66  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            57999999999999999998754

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.49  E-value=0.025  Score=52.29  Aligned_cols=27  Identities=30%  Similarity=0.396  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+++|+|+.|+||||+++.++....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~  182 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhcc
Confidence            356899999999999999999987654

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.46  E-value=0.012  Score=52.93  Aligned_cols=27  Identities=15%  Similarity=0.320  Sum_probs=20.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +..+|+|.|..|+||||+++.+.+...
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999987543

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.40  E-value=0.066  Score=51.22  Aligned_cols=84  Identities=23%  Similarity=0.259  Sum_probs=50.5

Q ss_pred             EEEEEecCCCcHHHHH-HHHHHHhcccCCCCE-EEEEEeCCcC-CHHHHHHHHHHHhCCCc-------cccchhh-----
Q 047930          177 MLGIYGMGGIGKTTLA-KEVARKAENEKLFDQ-VIFVEVSQIQ-DIRKIQGEFADKLGLTL-------HEETESG-----  241 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~-~~wv~~s~~~-~~~~~~~~i~~~l~~~~-------~~~~~~~-----  241 (395)
                      -++|.|..|+|||+|| ..+.+...    -+. ++++-+.+.. ...++.+++...-....       ...+...     
T Consensus       164 R~~Ifg~~g~GKT~Lal~~I~~~~~----~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~a~  239 (502)
T 2qe7_A          164 RELIIGDRQTGKTTIAIDTIINQKG----QDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAP  239 (502)
T ss_dssp             BCEEEECSSSCHHHHHHHHHHGGGS----CSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCchHHHHHHHHHhhc----CCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHHHH
Confidence            4789999999999995 46666542    443 5777777654 45666666665322111       0111111     


Q ss_pred             -hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 -RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 -~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                       ..-.+-+++. +++..||++||+.
T Consensus       240 ~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          240 YAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             HHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHcCCcEEEEEecHH
Confidence             1123344443 4899999999984

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.39  E-value=0.019  Score=50.43  Aligned_cols=23  Identities=30%  Similarity=0.561  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            47999999999999999998754

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=94.38  E-value=0.12  Score=49.99  Aligned_cols=47  Identities=23%  Similarity=0.403  Sum_probs=35.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC-HHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD-IRKIQGEF  226 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~i  226 (395)
                      .-++|.|..|+|||+|+.++.+...    -+.++++-+.+... ..++++++
T Consensus       228 qr~~I~g~~g~GKT~L~~~ia~~~~----~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          228 GTAAIPGPAGSGKTVTQHQLAKWSD----AQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             CEEEECSCCSHHHHHHHHHHHHHSS----CSEEEEEECCSSSSHHHHHHHHT
T ss_pred             CeEEeecCCCCCHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHH
Confidence            3588999999999999999887632    45788888887654 45555554

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.37  E-value=0.02  Score=50.87  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=21.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999998754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.37  E-value=0.02  Score=50.49  Aligned_cols=23  Identities=35%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            47999999999999999998754

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=94.36  E-value=0.042  Score=48.11  Aligned_cols=27  Identities=37%  Similarity=0.448  Sum_probs=23.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...++.+.|.||+||||++..+.....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            357888999999999999999987655

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=94.36  E-value=0.068  Score=51.20  Aligned_cols=84  Identities=17%  Similarity=0.229  Sum_probs=50.2

Q ss_pred             EEEEEecCCCcHHHHH-HHHHHHhcccCCCCE-EEEEEeCCcC-CHHHHHHHHHHHhCC--------Cccccchhh----
Q 047930          177 MLGIYGMGGIGKTTLA-KEVARKAENEKLFDQ-VIFVEVSQIQ-DIRKIQGEFADKLGL--------TLHEETESG----  241 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~~-~~wv~~s~~~-~~~~~~~~i~~~l~~--------~~~~~~~~~----  241 (395)
                      -++|.|..|+|||+|| ..+.+...    -+. ++++-+.+.. ...++.+++...-..        ..++.....    
T Consensus       177 R~~I~g~~g~GKT~Lal~~I~~~~~----~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~  252 (515)
T 2r9v_A          177 RELIIGDRQTGKTAIAIDTIINQKG----QGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIAP  252 (515)
T ss_dssp             BEEEEEETTSSHHHHHHHHHHTTTT----TTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHHHH
T ss_pred             EEEEEcCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHHHH
Confidence            4789999999999995 46666542    453 5777777654 456666666543111        111111110    


Q ss_pred             -hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 -RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 -~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                       ..-.+-+++. +++..||++||+.
T Consensus       253 ~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          253 YAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHcCCcEEEEeccHH
Confidence             1123344443 4899999999984

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=94.30  E-value=0.021  Score=49.99  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            47999999999999999998754

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=94.28  E-value=0.025  Score=47.31  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.++|+|..|+|||||.+.+....
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            458899999999999999998753

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.27  E-value=0.025  Score=51.03  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=22.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            34579999999999999999988654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.26  E-value=0.021  Score=50.49  Aligned_cols=23  Identities=39%  Similarity=0.388  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.++.-
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            47999999999999999998754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.26  E-value=0.027  Score=49.88  Aligned_cols=23  Identities=26%  Similarity=0.511  Sum_probs=20.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++|+|+.|+|||||.+.++...
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            57899999999999999998754

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.24  E-value=0.11  Score=58.19  Aligned_cols=84  Identities=23%  Similarity=0.313  Sum_probs=53.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLCN  248 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  248 (395)
                      -.++.|.|++|+||||||.+++......  -..++|++.....+..     .++.++.+...      .+..+....+..
T Consensus       383 G~lilI~G~pGsGKTtLaLqia~~~a~~--G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~I~~~~~~e~il~~~~~  455 (2050)
T 3cmu_A          383 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  455 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHH-----HHHHTTCCTTTCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcCCCHHHH-----HHHHcCCCHHHeEEeCCCCHHHHHHHHHH
Confidence            4589999999999999999998876533  2357888887776643     25566553221      111222222222


Q ss_pred             HHhcCCeEEEEEeCCCC
Q 047930          249 RLKKEKRILVILDNIWE  265 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~  265 (395)
                      .....+.-+||+|.+..
T Consensus       456 lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          456 LARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             HHHHTCCSEEEESCGGG
T ss_pred             HHHhcCCcEEEECCHHH
Confidence            22235566999999853

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.23  E-value=0.022  Score=50.81  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            47999999999999999998754

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.22  E-value=0.034  Score=50.56  Aligned_cols=28  Identities=29%  Similarity=0.427  Sum_probs=24.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...+|.|+|.+|+||||++..++.....
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~  131 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAE  131 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4578999999999999999999877654

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.21  E-value=0.095  Score=44.56  Aligned_cols=32  Identities=19%  Similarity=0.199  Sum_probs=25.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ  207 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~  207 (395)
                      ...|.|.|+.|+||||+++.+.+..... .+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~v   37 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER-GIEV   37 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT-TCCE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc-CCCc
Confidence            3578999999999999999999887643 3444

>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=94.21  E-value=0.032  Score=45.10  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999999864

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.20  E-value=0.022  Score=49.98  Aligned_cols=24  Identities=29%  Similarity=0.484  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999998653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.19  E-value=0.063  Score=46.01  Aligned_cols=56  Identities=16%  Similarity=0.157  Sum_probs=35.0

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcc-cCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAEN-EKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ......|.|.|+.|+||||+++.+.+.... . .+..+....-+......+.+++++.
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~-g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAEYLSEIY-GVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHHHHHHHH-CGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhhcc-CceeeEeeeCCCCChHHHHHHHHHh
Confidence            345678999999999999999999987654 3 2343331222333233444555554

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.17  E-value=0.16  Score=56.08  Aligned_cols=84  Identities=23%  Similarity=0.273  Sum_probs=58.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLC  247 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~  247 (395)
                      +-++|-|+|+.|+||||||.++......+  =..++|+...+..++.-     ++.++.+.+.      ......+..+.
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~~~--g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~ 1502 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1502 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHhc--CCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHH
Confidence            34789999999999999999998765433  35588998887776543     7778776543      12222334444


Q ss_pred             HHHhcCCeEEEEEeCCC
Q 047930          248 NRLKKEKRILVILDNIW  264 (395)
Q Consensus       248 ~~l~~~kr~LlVlDdv~  264 (395)
                      ..++.+..-++|+|-|.
T Consensus      1503 ~~~~s~~~~~vvvDsv~ 1519 (1706)
T 3cmw_A         1503 ALARSGAVDVIVVDSVA 1519 (1706)
T ss_dssp             HHHHHTCCSEEEESCST
T ss_pred             HHHHcCCCCEEEEccHH
Confidence            44455677799999984

>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=94.17  E-value=0.028  Score=50.03  Aligned_cols=42  Identities=24%  Similarity=0.328  Sum_probs=29.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC-C-------CCEEEEEEeCCc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK-L-------FDQVIFVEVSQI  216 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~-------f~~~~wv~~s~~  216 (395)
                      -.++.|+|++|+|||||+.++........ .       -..++|++....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~   79 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP   79 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCC
Confidence            35799999999999999999986543210 0       124667776553

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.14  E-value=0.037  Score=48.04  Aligned_cols=25  Identities=28%  Similarity=0.339  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...|+|.|..|+||||+++.+.+..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999999875

>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=94.14  E-value=0.032  Score=53.53  Aligned_cols=28  Identities=32%  Similarity=0.474  Sum_probs=24.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...+++|+|..|+|||||++.+......
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            4579999999999999999999876543

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=94.14  E-value=0.028  Score=51.83  Aligned_cols=23  Identities=43%  Similarity=0.501  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+.--
T Consensus        31 e~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCchHHHHHHHHhcC
Confidence            47999999999999999999864

>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=94.12  E-value=0.026  Score=46.60  Aligned_cols=22  Identities=41%  Similarity=0.528  Sum_probs=19.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -|+|+|.+|+|||||+..+...
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            4789999999999999998763

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.11  E-value=0.036  Score=44.22  Aligned_cols=24  Identities=25%  Similarity=0.412  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +-|.++|.+|+|||||+..+....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            458899999999999999998653

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.09  E-value=0.17  Score=49.01  Aligned_cols=50  Identities=8%  Similarity=0.117  Sum_probs=35.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .++.|.|.+|+|||||+.+++.+...+. =..++|++...  +..++...++.
T Consensus       243 ~l~li~G~pG~GKT~lal~~a~~~a~~~-g~~vl~~s~E~--s~~~l~~r~~~  292 (503)
T 1q57_A          243 EVIMVTSGSGMVMSTFVRQQALQWGTAM-GKKVGLAMLEE--SVEETAEDLIG  292 (503)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHTTTS-CCCEEEEESSS--CHHHHHHHHHH
T ss_pred             eEEEEeecCCCCchHHHHHHHHHHHHhc-CCcEEEEeccC--CHHHHHHHHHH
Confidence            5788999999999999999998765431 12477777644  45566665543

>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=94.08  E-value=0.029  Score=44.78  Aligned_cols=23  Identities=30%  Similarity=0.611  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.++|.+|+|||||+..+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999998754

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.07  E-value=0.036  Score=47.89  Aligned_cols=26  Identities=31%  Similarity=0.378  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+|+|.|+.|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998754

>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=94.02  E-value=0.052  Score=52.55  Aligned_cols=43  Identities=5%  Similarity=-0.108  Sum_probs=31.9

Q ss_pred             chHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          158 SRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       158 gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.+..+.+.+...  ..+..+|.+.|++|+||||+++.+.....
T Consensus       376 ~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~  420 (511)
T 1g8f_A          376 SYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFL  420 (511)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             cChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHH
Confidence            44444555555542  23457899999999999999999999875

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.01  E-value=0.083  Score=48.60  Aligned_cols=30  Identities=30%  Similarity=0.460  Sum_probs=25.3

Q ss_pred             cCCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          171 KNPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       171 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+...+++.+.|.||+||||+|..++....
T Consensus        14 ~~~~~~i~~~~gkGGvGKTt~a~~lA~~la   43 (348)
T 3io3_A           14 QHDSLKWIFVGGKGGVGKTTTSSSVAVQLA   43 (348)
T ss_dssp             TCTTCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cCCCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            355678999999999999999999887654

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=93.98  E-value=0.037  Score=45.52  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+.+|+|+.|+|||||+..++--.
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999987643

>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=93.97  E-value=0.036  Score=51.59  Aligned_cols=27  Identities=30%  Similarity=0.230  Sum_probs=23.3

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +...+++|+|+.|+|||||++.+....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            445689999999999999999999754

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=93.93  E-value=0.037  Score=51.67  Aligned_cols=24  Identities=33%  Similarity=0.569  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++|+|.|+.|+|||||+..++...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            578999999999999999998764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.88  E-value=0.028  Score=49.58  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999998754

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=93.88  E-value=0.036  Score=44.53  Aligned_cols=24  Identities=17%  Similarity=0.401  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|.+|+|||||+..+....
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            457899999999999999998753

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=93.87  E-value=0.18  Score=49.05  Aligned_cols=47  Identities=23%  Similarity=0.458  Sum_probs=34.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEF  226 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i  226 (395)
                      .-++|.|..|+|||+|+.++.+...    -+.++++-+.+. ....++++++
T Consensus       233 qr~~Ifgg~g~GKT~L~~~ia~~~~----~~v~V~~~iGER~~Ev~e~~~~~  280 (600)
T 3vr4_A          233 GAAAVPGPFGAGKTVVQHQIAKWSD----VDLVVYVGCGERGNEMTDVVNEF  280 (600)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSS----CSEEEEEEEEECHHHHHHHHHHT
T ss_pred             CEEeeecCCCccHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHH
Confidence            4588999999999999999988643    356788888765 3344555443

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.86  E-value=0.045  Score=48.20  Aligned_cols=37  Identities=27%  Similarity=0.519  Sum_probs=27.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      ++|+|.|-||+||||++..+......++  ..++-+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G--~~VlliD~D   38 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG--KTIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT--CCEEEEEEC
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCC--CcEEEEcCC
Confidence            5788899999999999999998765432  235555553

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=93.85  E-value=0.35  Score=41.70  Aligned_cols=22  Identities=27%  Similarity=0.120  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.|+|+.|.|||.++..+....
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc
Confidence            7789999999999999887764

>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=93.85  E-value=0.03  Score=46.90  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -+.|.|.|++|+||||||..+....
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3568899999999999999998753

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=93.85  E-value=0.025  Score=48.78  Aligned_cols=25  Identities=28%  Similarity=0.193  Sum_probs=22.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ...+|+|.|+.|+||||+++.+...
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            3468999999999999999998765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.83  E-value=0.038  Score=45.48  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..|+++|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999874

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=93.82  E-value=0.1  Score=50.01  Aligned_cols=88  Identities=17%  Similarity=0.251  Sum_probs=51.3

Q ss_pred             EEEEEecCCCcHHHHH-HHHHHHhcc----cCCCC-EEEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccchhh
Q 047930          177 MLGIYGMGGIGKTTLA-KEVARKAEN----EKLFD-QVIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEETESG  241 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa-~~v~~~~~~----~~~f~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~~~~  241 (395)
                      -++|.|..|+|||+|| ..+.+....    .++-+ .++++-+.+.. ...++.+++...-...        .++.....
T Consensus       164 R~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r  243 (510)
T 2ck3_A          164 RELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQ  243 (510)
T ss_dssp             BCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHH
T ss_pred             EEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHHHH
Confidence            4789999999999994 566665542    11233 47788887654 4566666665532111        11111110


Q ss_pred             -----hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 -----RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 -----~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                           ..-.+-+++. +++..||++||+.
T Consensus       244 ~~a~~~a~tiAEyfrd~G~dVLli~Dslt  272 (510)
T 2ck3_A          244 YLAPYSGCSMGEYFRDNGKHALIIYDDLS  272 (510)
T ss_dssp             HHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEEcCHH
Confidence                 1123344443 4899999999984

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.81  E-value=0.034  Score=51.24  Aligned_cols=23  Identities=39%  Similarity=0.645  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++--
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            57999999999999999999854

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=93.79  E-value=0.083  Score=50.62  Aligned_cols=84  Identities=18%  Similarity=0.303  Sum_probs=48.2

Q ss_pred             EEEEEecCCCcHHHHH-HHHHHHhcccCCCC-EEEEEEeCCcC-CHHHHHHHHHHHhCC--------Cccccchhh----
Q 047930          177 MLGIYGMGGIGKTTLA-KEVARKAENEKLFD-QVIFVEVSQIQ-DIRKIQGEFADKLGL--------TLHEETESG----  241 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~-~~~wv~~s~~~-~~~~~~~~i~~~l~~--------~~~~~~~~~----  241 (395)
                      -++|.|..|+|||+|| ..+.+...    -+ .++++-+.+.. ...++.+++...-..        ..++.....    
T Consensus       165 R~~Ifg~~g~GKT~Lal~~I~~~~~----~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~  240 (507)
T 1fx0_A          165 RELIIGDRQTGKTAVATDTILNQQG----QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  240 (507)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTCCT----TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             EEEEecCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHHHH
Confidence            4789999999999995 56666542    34 35777777654 345555555432110        011111111    


Q ss_pred             -hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 -RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 -~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                       ..-.+-+++. +++..||++||+.
T Consensus       241 ~~a~tiAEyfrd~G~dVLli~Dslt  265 (507)
T 1fx0_A          241 YTGAALAEYFMYRERHTLIIYDDLS  265 (507)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHcCCcEEEEEecHH
Confidence             1223333332 4899999999973

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.76  E-value=0.047  Score=45.17  Aligned_cols=26  Identities=23%  Similarity=0.169  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....|+|+|.+|+|||||...+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44578899999999999999998753

>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=93.76  E-value=0.068  Score=43.99  Aligned_cols=33  Identities=27%  Similarity=0.310  Sum_probs=25.2

Q ss_pred             HHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          165 DILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       165 ~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+.. +...+..-|.|+|..|+|||||...+...
T Consensus         7 ~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            7 RIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            3444 33445567889999999999999999854

>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=93.75  E-value=0.048  Score=44.61  Aligned_cols=33  Identities=27%  Similarity=0.353  Sum_probs=24.6

Q ss_pred             HHHHHhcC-CCceEEEEEecCCCcHHHHHHHHHH
Q 047930          165 DILDALKN-PDVNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       165 ~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      ++...+.. ....-|.|+|..|+|||||...+..
T Consensus         7 ~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A            7 SMFDKLWGSNKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             HHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            34443444 4556788999999999999998874

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=93.75  E-value=0.032  Score=50.75  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..++++|+|+.|+|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            46789999999999999999998653

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=93.73  E-value=0.036  Score=51.19  Aligned_cols=24  Identities=33%  Similarity=0.508  Sum_probs=21.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHhcC
Confidence            357999999999999999998764

>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=93.72  E-value=0.061  Score=44.15  Aligned_cols=26  Identities=31%  Similarity=0.417  Sum_probs=22.0

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ....-|.|+|.+|+|||||...+...
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999998754

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.71  E-value=0.044  Score=44.56  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=21.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +...|.|+|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999999864

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=93.71  E-value=0.036  Score=51.50  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+.--
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHcC
Confidence            57999999999999999999864

>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=93.70  E-value=0.033  Score=49.90  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            579999999999999999997643

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=93.68  E-value=0.037  Score=51.09  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++--
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHCC
Confidence            57999999999999999999864

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=93.66  E-value=0.099  Score=47.80  Aligned_cols=31  Identities=26%  Similarity=0.378  Sum_probs=25.4

Q ss_pred             cCCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          171 KNPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       171 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+...+++.+.|.||+||||+|..++.....
T Consensus        12 ~~~~~~i~~~sgkGGvGKTt~a~~lA~~la~   42 (334)
T 3iqw_A           12 DQRSLRWIFVGGKGGVGKTTTSCSLAIQLAK   42 (334)
T ss_dssp             HCTTCCEEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             cCCCeEEEEEeCCCCccHHHHHHHHHHHHHh
Confidence            3455678889999999999999999877653

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.66  E-value=0.038  Score=51.12  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++--
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCchHHHHHHHHhcC
Confidence            57999999999999999999864

>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=93.63  E-value=0.05  Score=46.09  Aligned_cols=27  Identities=22%  Similarity=0.167  Sum_probs=22.8

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .....|.|+|.+|+|||||+..+....
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345678899999999999999998764

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=93.63  E-value=0.041  Score=45.42  Aligned_cols=23  Identities=30%  Similarity=0.611  Sum_probs=20.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.++|.+|+|||||+..+....
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            57899999999999999998754

>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=93.61  E-value=0.045  Score=43.81  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||...+....
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999998654

>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=93.61  E-value=0.048  Score=50.37  Aligned_cols=113  Identities=12%  Similarity=0.097  Sum_probs=57.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ...+++|+|+.|+|||||.+.+.......  ....+ +++.++....  .......+...............+...|. .
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~~--~~~~i-~t~ed~~e~~--~~~~~~~v~q~~~~~~~~~~~~~La~aL~-~  195 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNNT--KYHHI-LTIEDPIEFV--HESKKCLVNQREVHRDTLGFSEALRSALR-E  195 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHHH--CCCEE-EEEESSCCSC--CCCSSSEEEEEEBTTTBSCHHHHHHHHTT-S
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccCC--CCcEE-EEccCcHHhh--hhccccceeeeeeccccCCHHHHHHHHhh-h
Confidence            34589999999999999999987754322  11122 1222211100  00000000000000011122334555555 5


Q ss_pred             CeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhh
Q 047930          254 KRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVL  295 (395)
Q Consensus       254 kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va  295 (395)
                      .+=+|++|++.+.+.+..+....   ..|..||+|+...+.+
T Consensus       196 ~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          196 DPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             CCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCSSHH
T ss_pred             CcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccChHH
Confidence            67788999998766555432221   2355688888876553

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=93.61  E-value=0.039  Score=44.19  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|.++|.+|+|||||...+....
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            457899999999999999998754

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=93.58  E-value=0.063  Score=45.92  Aligned_cols=37  Identities=19%  Similarity=0.087  Sum_probs=26.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      -.|.+.|.||+||||++..+......+. ++ +..+.+.
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G-~~-V~v~d~D   43 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQG-VR-VMAGVVE   43 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTT-CC-EEEEECC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCC-CC-EEEEEeC
Confidence            3477899999999999999988765442 33 3444443

>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=93.58  E-value=0.046  Score=45.93  Aligned_cols=28  Identities=25%  Similarity=0.265  Sum_probs=21.6

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+.--|.|+|..|+|||||...+.+..
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3445567899999999999999988754

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=93.57  E-value=0.029  Score=50.69  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             CCEEEEECCCCchHHHHHHHHHcC
Confidence            357999999999999999998753

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=93.57  E-value=0.04  Score=51.22  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++--
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcC
Confidence            47999999999999999999854

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=93.55  E-value=0.04  Score=51.14  Aligned_cols=23  Identities=35%  Similarity=0.458  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++--
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHHcC
Confidence            57999999999999999999853

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=93.54  E-value=0.22  Score=47.60  Aligned_cols=84  Identities=19%  Similarity=0.286  Sum_probs=49.7

Q ss_pred             EEEEEecCCCcHHHHH-HHHHHHhcccCCCC-EEEEEEeCCcC-CHHHHHHHHHHHhCCC--------ccccchhh----
Q 047930          177 MLGIYGMGGIGKTTLA-KEVARKAENEKLFD-QVIFVEVSQIQ-DIRKIQGEFADKLGLT--------LHEETESG----  241 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa-~~v~~~~~~~~~f~-~~~wv~~s~~~-~~~~~~~~i~~~l~~~--------~~~~~~~~----  241 (395)
                      -++|.|..|+|||+|+ ..+.+...    -+ .++++-+.+.. ...++.+++.+.-...        .++.....    
T Consensus       164 R~~Ifg~~g~GKT~l~l~~I~n~~~----~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~a~  239 (513)
T 3oaa_A          164 RELIIGDRQTGKTALAIDAIINQRD----SGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAP  239 (513)
T ss_dssp             BCEEEESSSSSHHHHHHHHHHTTSS----SSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHHHH
T ss_pred             EEEeecCCCCCcchHHHHHHHhhcc----CCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHHHH
Confidence            4789999999999996 56665422    33 36788887654 4566667665542111        01111100    


Q ss_pred             -hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 -RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 -~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                       ..-.+-+++. +++..||++||+.
T Consensus       240 ~~a~tiAEyfrd~G~dVLli~Dslt  264 (513)
T 3oaa_A          240 YAGCAMGEYFRDRGEDALIIYDDLS  264 (513)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHhcCCCEEEEecChH
Confidence             1112333332 4899999999984

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=93.53  E-value=1.3  Score=40.62  Aligned_cols=26  Identities=27%  Similarity=0.400  Sum_probs=22.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+...++++|.+|+|||||...+...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~  190 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTA  190 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35568999999999999999998765

>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=93.52  E-value=0.045  Score=43.85  Aligned_cols=23  Identities=30%  Similarity=0.583  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|.+|+|||||...+.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999998753

>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=93.52  E-value=0.089  Score=46.22  Aligned_cols=37  Identities=22%  Similarity=0.310  Sum_probs=28.4

Q ss_pred             HHHHHHHhcCC--CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          163 LNDILDALKNP--DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       163 ~~~l~~~l~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-+..|+...  ....+.++|++|+|||++|..+++..
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            34466676643  24579999999999999999999853

>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=93.50  E-value=0.042  Score=44.46  Aligned_cols=23  Identities=39%  Similarity=0.466  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      --|.|+|.+|+|||||+..+...
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            45889999999999999998764

>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=93.49  E-value=0.042  Score=44.15  Aligned_cols=23  Identities=17%  Similarity=0.368  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.++|..|+|||||...+....
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998764

>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=93.48  E-value=0.041  Score=44.28  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|.+|+|||||...+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            457899999999999999998653

>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=93.48  E-value=0.043  Score=45.15  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|.+|+|||||+..+....
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999998754

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.46  E-value=0.025  Score=56.17  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+.++|++|+|||+||+.+++..
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTC
T ss_pred             ceEEECCCchHHHHHHHHHHHhC
Confidence            58899999999999999988654

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=93.46  E-value=0.047  Score=43.66  Aligned_cols=23  Identities=26%  Similarity=0.547  Sum_probs=20.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|..|+|||||...+....
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            57899999999999999988654

>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=93.46  E-value=0.043  Score=44.76  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..|+|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35789999999999999999865

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.43  E-value=0.16  Score=42.57  Aligned_cols=51  Identities=18%  Similarity=0.176  Sum_probs=33.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .|+|-|.-|+||||.++.+++....++ . .+++..-+......+..++++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g-~-~v~~treP~~t~~~~~ir~~l~~   52 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRG-K-KVILKREPGGTETGEKIRKILLE   52 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT-C-CEEEEESSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC-C-cEEEEECCCCCcHHHHHHHHhhc
Confidence            478889999999999999998876542 2 23444444433445555555543

>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=93.42  E-value=0.043  Score=44.10  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=20.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|..|+|||||...+....
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            57899999999999999998764

>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=93.41  E-value=0.047  Score=45.06  Aligned_cols=24  Identities=25%  Similarity=0.272  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|+|+|.+|+|||||+..+.+..
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999887754

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=93.40  E-value=0.056  Score=44.76  Aligned_cols=25  Identities=12%  Similarity=0.411  Sum_probs=21.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +...|.|+|..|+|||||...+...
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            4567889999999999999999865

>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=93.39  E-value=0.076  Score=44.33  Aligned_cols=24  Identities=29%  Similarity=0.385  Sum_probs=20.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      +..-|+++|.+|+|||||...+..
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            344678999999999999999865

>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=93.38  E-value=0.045  Score=43.92  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=18.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      -|.|+|.+|+|||||...+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998864

>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=93.38  E-value=0.044  Score=44.64  Aligned_cols=26  Identities=27%  Similarity=0.429  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...-|.|+|.+|+|||||...+....
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            34568899999999999999988754

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=93.37  E-value=0.034  Score=51.14  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++--
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCccHHHHHHHHHcC
Confidence            47999999999999999999864

>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=93.36  E-value=0.056  Score=50.89  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      ...+++|+|+.|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            456899999999999999999987

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.36  E-value=0.094  Score=48.31  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=23.0

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +..+|+|+|.+|+|||||...+....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999998754

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.34  E-value=0.044  Score=44.11  Aligned_cols=22  Identities=27%  Similarity=0.727  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -|.|+|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999864

>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=93.31  E-value=0.06  Score=48.08  Aligned_cols=37  Identities=30%  Similarity=0.519  Sum_probs=27.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      ++|+|.|.||+||||+|.++......++  ..++-+...
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~~G--~rVlliD~D   39 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAEMG--KKVMIVGCD   39 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT--CCEEEEEEC
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHHCC--CeEEEEecC
Confidence            6788899999999999999988765432  134555553

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.31  E-value=0.065  Score=52.52  Aligned_cols=27  Identities=30%  Similarity=0.386  Sum_probs=23.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +-.++.|+|+.|+|||||++.+.....
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhc
Confidence            346899999999999999999998764

>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=93.29  E-value=0.048  Score=43.86  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=18.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      -|.|+|.+|+|||||+..+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999999863

>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=93.28  E-value=0.054  Score=43.54  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||...+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            357899999999999999998653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.25  E-value=0.056  Score=44.60  Aligned_cols=25  Identities=16%  Similarity=0.351  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...|.|+|..|+|||||...+....
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            4568899999999999999998764

>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=93.24  E-value=0.052  Score=44.04  Aligned_cols=24  Identities=25%  Similarity=0.445  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|.|+|.+|+|||||...+....
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            458899999999999999998653

>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=93.22  E-value=0.034  Score=52.78  Aligned_cols=27  Identities=37%  Similarity=0.517  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|.|+|.+|+||||++..+.....
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~  124 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQ  124 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            356899999999999999999987654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.22  E-value=0.051  Score=44.14  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      --|.|+|.+|+|||||+..+...
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999998865

>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=93.22  E-value=0.048  Score=45.08  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhCC
Confidence            457899999999999999988754

>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=93.21  E-value=0.051  Score=50.81  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+++|+|+.|+|||||.+.+..
T Consensus        48 e~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhC
Confidence            5799999999999999999975

>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=93.20  E-value=0.071  Score=43.30  Aligned_cols=25  Identities=28%  Similarity=0.490  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|+|..|+|||||...+....
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4568899999999999999998763

>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=93.19  E-value=0.088  Score=47.42  Aligned_cols=33  Identities=18%  Similarity=0.417  Sum_probs=25.8

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +++|.+.+.   -.+++++|+.|+|||||.+.+. ..
T Consensus       156 i~~L~~~l~---G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLE---GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTT---TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhcc---CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            455666554   2478999999999999999998 54

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.18  E-value=0.052  Score=46.12  Aligned_cols=24  Identities=33%  Similarity=0.430  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+|.|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            479999999999999999998754

>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=93.18  E-value=0.055  Score=44.84  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=20.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ...|+++|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999999874

>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=93.15  E-value=0.055  Score=43.40  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||...+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999998753

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=93.14  E-value=0.051  Score=50.43  Aligned_cols=26  Identities=23%  Similarity=0.327  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...++|+|+.|+|||||++.+.....
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999987643

>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=93.12  E-value=0.078  Score=49.32  Aligned_cols=109  Identities=14%  Similarity=0.114  Sum_probs=55.6

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCcCCHHHHHHHHHHHhCCCcc---ccchhhhHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VIFVEVSQIQDIRKIQGEFADKLGLTLH---EETESGRARSLCN  248 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~l~~  248 (395)
                      ..-.+++|+|+.|+|||||++.+.......  ... ++++.-.-....    .   ...+.-..   ..........+..
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~~~~--~~g~I~~~e~~~e~~~----~---~~~~~v~Q~~~g~~~~~~~~~l~~  204 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVF----K---HKKSIVNQREVGEDTKSFADALRA  204 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHHHHH--SCCEEEEEESSCCSCC----C---CSSSEEEEEEBTTTBSCSHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcCcC--CCcEEEEecccHhhhh----c---cCceEEEeeecCCCHHHHHHHHHH
Confidence            345689999999999999999998754321  112 223321110000    0   00000000   0001112334555


Q ss_pred             HHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhh
Q 047930          249 RLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDV  294 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~v  294 (395)
                      .+.. .+=+|++|++.+.+.........   ..|..|+.|+...++
T Consensus       205 ~L~~-~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~~  246 (372)
T 2ewv_A          205 ALRE-DPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTA  246 (372)
T ss_dssp             HTTS-CCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCSH
T ss_pred             Hhhh-CcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEECcchH
Confidence            5553 56689999997655443322221   235568888776543

>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=93.09  E-value=0.053  Score=44.44  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||+..+....
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            457899999999999999998764

>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=93.07  E-value=0.032  Score=49.15  Aligned_cols=26  Identities=19%  Similarity=0.279  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +...|+|.|..|+||||+++.+.+..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999988764

>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=93.03  E-value=0.056  Score=43.87  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||...+....
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999998653

>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=93.03  E-value=0.059  Score=43.73  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|+|..|+|||||...+....
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998764

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=93.03  E-value=0.032  Score=51.44  Aligned_cols=23  Identities=39%  Similarity=0.590  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.++--
T Consensus        32 e~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            57999999999999999999853

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.02  E-value=0.069  Score=44.95  Aligned_cols=25  Identities=24%  Similarity=0.215  Sum_probs=23.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|.|+.|+||||+++.+.....
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999998765

>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=93.01  E-value=0.061  Score=44.70  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=19.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      --|+|+|.+|+|||||...+...
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999998753

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=92.98  E-value=0.19  Score=49.03  Aligned_cols=26  Identities=27%  Similarity=0.302  Sum_probs=22.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      -.++.|.|+.|+|||||++.++....
T Consensus       281 G~i~~i~G~~GsGKSTLl~~l~g~~~  306 (525)
T 1tf7_A          281 DSIILATGATGTGKTLLVSRFVENAC  306 (525)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            35799999999999999999987654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.97  E-value=0.052  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -|.|+|.+|+|||||...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999999865

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=92.96  E-value=0.055  Score=44.39  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            357899999999999999998754

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=92.96  E-value=0.056  Score=44.24  Aligned_cols=25  Identities=32%  Similarity=0.502  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3457899999999999999998753

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.96  E-value=0.066  Score=44.30  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=20.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|..|+|||||+..+....
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            47899999999999999998764

>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=92.94  E-value=0.051  Score=48.98  Aligned_cols=21  Identities=33%  Similarity=0.502  Sum_probs=18.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      -|+|+|..|+|||||.+.++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            358999999999999999774

>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=92.93  E-value=0.07  Score=52.00  Aligned_cols=27  Identities=22%  Similarity=0.384  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+|.++|++|+||||+|+.+.....
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999987654

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=92.88  E-value=0.046  Score=44.49  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.++|.+|+|||||+..+.+..
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            357899999999999999998753

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=92.88  E-value=0.063  Score=44.20  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||+..+....
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999998754

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=92.87  E-value=0.1  Score=49.29  Aligned_cols=28  Identities=18%  Similarity=0.167  Sum_probs=24.0

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..-.+++|+|+.|+|||||++.+.....
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            4556899999999999999999987653

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=92.86  E-value=0.061  Score=43.91  Aligned_cols=25  Identities=20%  Similarity=0.406  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|+|..|+|||||+..+.+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998654

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=92.86  E-value=0.058  Score=44.11  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|.+|+|||||...+.+..
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            57899999999999999988653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=92.85  E-value=0.063  Score=44.34  Aligned_cols=23  Identities=39%  Similarity=0.293  Sum_probs=18.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      --|.|+|.+|+|||||++.+.+.
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHhh
Confidence            45789999999999999766554

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=92.84  E-value=0.053  Score=50.26  Aligned_cols=25  Identities=32%  Similarity=0.460  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++|+|+.|+|||||++.+.....
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4789999999999999999987543

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=92.83  E-value=0.083  Score=42.47  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|.|+|.+|+|||||...+....
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            458899999999999999997653

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=92.81  E-value=0.06  Score=43.90  Aligned_cols=25  Identities=24%  Similarity=0.223  Sum_probs=20.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|.+|+|||||...+....
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3457899999999999999988653

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=92.80  E-value=0.064  Score=44.38  Aligned_cols=24  Identities=29%  Similarity=0.461  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|+|+|..|+|||||...+....
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            458899999999999999998754

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=92.80  E-value=0.048  Score=45.52  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVA  196 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~  196 (395)
                      ..-|+|+|.+|+|||||+..+.
T Consensus        23 ~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           23 IFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHTC
T ss_pred             EEEEEEECCCCCCHHHHHHHHH
Confidence            3468899999999999999985

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=92.79  E-value=0.13  Score=44.42  Aligned_cols=38  Identities=29%  Similarity=0.465  Sum_probs=27.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      |+|.|.||+||||++..+......++  ..++-+......
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~   40 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDY--DKIYAVDGDPDS   40 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTC--SCEEEEEECTTS
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCc
Confidence            66799999999999999998876442  335666654433

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=92.79  E-value=0.06  Score=44.01  Aligned_cols=25  Identities=24%  Similarity=0.481  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|+|..|+|||||+..+....
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            3458899999999999999998754

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=92.75  E-value=0.061  Score=43.80  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|.|+|.+|+|||||+..+....
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            457899999999999999998753

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.75  E-value=0.074  Score=48.73  Aligned_cols=28  Identities=25%  Similarity=0.382  Sum_probs=23.9

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -....+++|+|+.|+|||||.+.+....
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            3456789999999999999999998654

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=92.74  E-value=0.12  Score=50.92  Aligned_cols=28  Identities=14%  Similarity=0.141  Sum_probs=24.2

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....+|.|.|++|+||||+|+.+.....
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            3457899999999999999999988754

>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=92.73  E-value=0.17  Score=46.89  Aligned_cols=26  Identities=27%  Similarity=0.457  Sum_probs=21.6

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.++|+|+|.+|+|||||...+....
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            45679999999999999999988643

>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=92.72  E-value=0.064  Score=45.18  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|.+|+|||||+..+....
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3457899999999999999998764

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=92.69  E-value=0.049  Score=45.79  Aligned_cols=26  Identities=12%  Similarity=0.162  Sum_probs=21.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .....++|+|..|+|||||.+.+...
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34457999999999999999987643

>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=92.69  E-value=0.062  Score=44.85  Aligned_cols=25  Identities=24%  Similarity=0.481  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|+|..|+|||||+..+....
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568899999999999999998654

>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=92.69  E-value=0.071  Score=44.75  Aligned_cols=25  Identities=24%  Similarity=0.433  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3458899999999999999988653

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.68  E-value=0.062  Score=43.68  Aligned_cols=24  Identities=33%  Similarity=0.429  Sum_probs=20.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..-|+|+|..|+|||||+..+...
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999998764

>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=92.67  E-value=0.068  Score=44.36  Aligned_cols=27  Identities=19%  Similarity=0.218  Sum_probs=21.8

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..+.--|.|+|.+|+|||||+..+...
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhC
Confidence            344456889999999999999998643

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=92.66  E-value=0.071  Score=43.36  Aligned_cols=24  Identities=29%  Similarity=0.324  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||...+....
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            457899999999999999998754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=92.64  E-value=0.072  Score=44.47  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...-|+|+|.+|+|||||+..+....
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            34568899999999999999998764

>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=92.60  E-value=0.074  Score=44.04  Aligned_cols=24  Identities=17%  Similarity=0.350  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|+|+|..|+|||||...+....
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            458899999999999999998764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.60  E-value=0.075  Score=48.90  Aligned_cols=25  Identities=32%  Similarity=0.581  Sum_probs=22.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++|+|+.|+|||||.+.+.....
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4799999999999999999998864

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=92.57  E-value=0.11  Score=42.88  Aligned_cols=34  Identities=26%  Similarity=0.368  Sum_probs=24.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      +.|+|.+|+||||+|.++... .     ..++|+..+..+
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~-----~~~~yiaT~~~~   35 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-A-----PQVLYIATSQIL   35 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-C-----SSEEEEECCCC-
T ss_pred             EEEECCCCCcHHHHHHHHHhc-C-----CCeEEEecCCCC
Confidence            679999999999999999854 2     125666655544

>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=92.57  E-value=0.11  Score=46.70  Aligned_cols=34  Identities=21%  Similarity=0.502  Sum_probs=26.1

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++++...+..   .+++|+|++|+|||||.+.+....
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            4555565542   478999999999999999998644

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=92.57  E-value=0.21  Score=42.53  Aligned_cols=27  Identities=26%  Similarity=0.308  Sum_probs=23.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ...|.+.|+.|+||||+++.+.+....
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            357999999999999999999998753

>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=92.56  E-value=0.066  Score=44.77  Aligned_cols=25  Identities=32%  Similarity=0.456  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|+|+|.+|+|||||+..+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.55  E-value=0.09  Score=43.63  Aligned_cols=26  Identities=31%  Similarity=0.500  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..--|.|+|.+|+|||||+..+....
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC
Confidence            34568899999999999999998763

>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=92.55  E-value=0.067  Score=45.62  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||+|+..+.++.
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCcCHHHHHHHHHhCC
Confidence            6789999999999999988653

>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=92.51  E-value=0.075  Score=43.82  Aligned_cols=24  Identities=29%  Similarity=0.318  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||...+....
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCC
Confidence            457899999999999999998754

>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=92.47  E-value=0.076  Score=44.79  Aligned_cols=25  Identities=20%  Similarity=0.157  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...|.|+|.+|+|||||...+....
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4568899999999999999998754

>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=92.46  E-value=0.071  Score=43.97  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||...+....
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            458899999999999999998764

>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=92.42  E-value=0.078  Score=43.90  Aligned_cols=25  Identities=24%  Similarity=0.352  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|.+|+|||||...+....
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            3457899999999999999998764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.41  E-value=0.077  Score=43.99  Aligned_cols=25  Identities=12%  Similarity=0.310  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|+|+|..|+|||||+..+....
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            3457899999999999999998764

>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=92.41  E-value=0.077  Score=43.84  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|..|+|||||...+....
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            47899999999999999998753

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=92.40  E-value=0.17  Score=48.94  Aligned_cols=57  Identities=26%  Similarity=0.320  Sum_probs=37.9

Q ss_pred             HHHHhcC-CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHH
Q 047930          166 ILDALKN-PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEF  226 (395)
Q Consensus       166 l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i  226 (395)
                      .++.|.. .+-.-++|.|..|+|||+|+.++.+...    -+.++++-+.+.. ...++++++
T Consensus       211 vID~l~PigrGqr~~Ifg~~g~GKT~l~~~ia~~~~----~~v~V~~~iGER~~Ev~e~~~~~  269 (578)
T 3gqb_A          211 ILDVLFPVAMGGTAAIPGPFGSGKSVTQQSLAKWSN----ADVVVYVGSGERGNEMTDVLVEF  269 (578)
T ss_dssp             HHHTTSCEETTCEEEECCCTTSCHHHHHHHHHHHSS----CSEEEEEEEEECHHHHHHHHTTG
T ss_pred             hhhhcccccCCCEEeeeCCCCccHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHH
Confidence            4455541 1223588999999999999999988743    3567888887653 344444443

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=92.39  E-value=0.21  Score=50.16  Aligned_cols=62  Identities=21%  Similarity=0.194  Sum_probs=38.1

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      ..+.+...|...  .+..|+||+|+|||+.+..+....-.+   ...+.++...+..+..+...+..
T Consensus       194 Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~~---~~~ILv~a~TN~AvD~i~erL~~  255 (646)
T 4b3f_X          194 QKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVKQ---GLKVLCCAPSNIAVDNLVERLAL  255 (646)
T ss_dssp             HHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHHT---TCCEEEEESSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHhC---CCeEEEEcCchHHHHHHHHHHHh
Confidence            344455555433  367799999999996655554443222   22567777766666666666643

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=92.38  E-value=0.088  Score=50.64  Aligned_cols=28  Identities=21%  Similarity=0.330  Sum_probs=23.3

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ....+|.++|+.|+||||+++.+.....
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3456889999999999999999987654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=92.38  E-value=0.073  Score=44.02  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|..|+|||||+..+....
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3458899999999999999998764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=92.33  E-value=0.087  Score=42.95  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .-+.|.|.+|+||||||..+...
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            45789999999999999999874

>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=92.32  E-value=0.082  Score=43.57  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=21.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|+|..|+|||||...+....
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998653

>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=92.32  E-value=0.092  Score=48.19  Aligned_cols=28  Identities=25%  Similarity=0.329  Sum_probs=24.0

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+..+++|+|.+|+|||||+..+....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4566889999999999999999997654

>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=92.32  E-value=0.071  Score=44.34  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=19.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .-|.|+|.+|+|||||++.+.+.
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            45789999999999999876653

>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=92.30  E-value=0.07  Score=44.58  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=20.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .--|.|+|..|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            345789999999999999998754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.26  E-value=0.073  Score=50.97  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCcc
Confidence            3578999999999999999988753

>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=92.25  E-value=0.075  Score=44.36  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|.+|+|||||+..+....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            458899999999999999998754

>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=92.25  E-value=0.08  Score=45.31  Aligned_cols=25  Identities=20%  Similarity=0.360  Sum_probs=21.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +...|+|+|.+|+|||||+..+...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999999765

>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=92.23  E-value=0.076  Score=44.27  Aligned_cols=26  Identities=12%  Similarity=0.309  Sum_probs=21.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...-|.|+|..|+|||||+..+....
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCC
Confidence            34568899999999999999998653

>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=92.22  E-value=0.088  Score=44.08  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|.|+|.+|+|||||+..+....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999998754

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=92.21  E-value=0.07  Score=44.44  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=20.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|.+|+|||||...+.+..
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3457899999999999999988653

>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=92.20  E-value=0.081  Score=44.91  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=19.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .-|+|+|.+|+|||||...+..
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4588999999999999999874

>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=92.18  E-value=0.072  Score=43.59  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      --|.|+|..|+|||||...+...
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999999864

>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=92.17  E-value=0.08  Score=43.67  Aligned_cols=24  Identities=25%  Similarity=0.382  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||+..+.+..
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            458899999999999999998764

>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=92.15  E-value=0.097  Score=42.89  Aligned_cols=27  Identities=26%  Similarity=0.302  Sum_probs=22.2

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....-|.|+|.+|+|||||...+....
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            445678899999999999999998654

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=92.14  E-value=0.11  Score=41.34  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=20.7

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..+.+|+|+.|.|||||...++--
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~   46 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVG   46 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999988753

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=92.11  E-value=0.18  Score=42.10  Aligned_cols=40  Identities=20%  Similarity=0.290  Sum_probs=28.3

Q ss_pred             eEEEEE-ecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          176 NMLGIY-GMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       176 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      ++|+|+ +.||+||||++..+......++  ..++.+......
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g--~~vlliD~D~~~   42 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSG--YNIAVVDTDPQM   42 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTC
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCC--CeEEEEECCCCC
Confidence            577787 6699999999999988765432  235666665443

>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=92.09  E-value=0.086  Score=43.61  Aligned_cols=24  Identities=33%  Similarity=0.342  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|.|+|..|+|||||+..+.+..
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            458899999999999999998763

>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=92.06  E-value=0.094  Score=44.03  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|.|+|.+|+|||||+..+....
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcCC
Confidence            458899999999999999998753

>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=92.05  E-value=0.13  Score=42.55  Aligned_cols=25  Identities=24%  Similarity=0.541  Sum_probs=21.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|+|.+|+|||||...+....
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcCC
Confidence            3468899999999999999998753

>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=92.05  E-value=0.059  Score=49.24  Aligned_cols=105  Identities=17%  Similarity=0.132  Sum_probs=53.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      .+++|+|+.|+|||||++.+..-...   -...+.+.-........    .-+.++.  -..........+...|. .++
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~---~~g~i~i~~~~e~~~~~----~~~~i~~--~~ggg~~~r~~la~aL~-~~p  241 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPK---EERIISIEDTEEIVFKH----HKNYTQL--FFGGNITSADCLKSCLR-MRP  241 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCT---TSCEEEEESSCCCCCSS----CSSEEEE--ECBTTBCHHHHHHHHTT-SCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcC---CCcEEEECCeecccccc----chhEEEE--EeCCChhHHHHHHHHhh-hCC
Confidence            47899999999999999999876532   23444444221111000    0000000  00011122334445555 467


Q ss_pred             EEEEEeCCCCccccchhccccCCCCCCcEEEEeecchh
Q 047930          256 ILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLD  293 (395)
Q Consensus       256 ~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~  293 (395)
                      -+|++|++.+.+.++.+. .+..+  +.-+|+||....
T Consensus       242 ~ilildE~~~~e~~~~l~-~~~~g--~~tvi~t~H~~~  276 (330)
T 2pt7_A          242 DRIILGELRSSEAYDFYN-VLCSG--HKGTLTTLHAGS  276 (330)
T ss_dssp             SEEEECCCCSTHHHHHHH-HHHTT--CCCEEEEEECSS
T ss_pred             CEEEEcCCChHHHHHHHH-HHhcC--CCEEEEEEcccH
Confidence            789999997755444332 22111  223666666544

>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=92.02  E-value=0.078  Score=44.86  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=20.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .--|.|+|.+|+|||||+..+...
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            346889999999999999999764

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=92.02  E-value=0.24  Score=41.81  Aligned_cols=42  Identities=17%  Similarity=0.259  Sum_probs=29.6

Q ss_pred             EEEEE-ecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHH
Q 047930          177 MLGIY-GMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRK  221 (395)
Q Consensus       177 vi~I~-G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~  221 (395)
                      +|+|+ +-||+||||++..+......++   .++-+......+...
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~g---~VlliD~D~q~~~~~   44 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQG---ETLLIDGDPNRSATG   44 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTTS---CEEEEEECTTCHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhcC---CEEEEECCCCCCHHH
Confidence            56665 6799999999999998876442   566777655444433

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=91.98  E-value=0.093  Score=47.22  Aligned_cols=25  Identities=24%  Similarity=0.426  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +...|+|+|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3568999999999999999999865

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=91.98  E-value=0.09  Score=48.44  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|++|+|||||++.+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            478999999999999999998543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.97  E-value=0.1  Score=43.27  Aligned_cols=26  Identities=23%  Similarity=0.305  Sum_probs=21.8

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....|.|+|..|+|||||...+....
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34568899999999999999987653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=91.96  E-value=0.089  Score=44.25  Aligned_cols=25  Identities=20%  Similarity=0.151  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|.+|+|||||+..+....
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458899999999999999998653

>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=91.96  E-value=0.09  Score=43.97  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .--|.|+|.+|+|||||+..+....
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhCC
Confidence            3468899999999999999987653

>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=91.93  E-value=0.1  Score=44.96  Aligned_cols=26  Identities=15%  Similarity=0.267  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....|+|+|.+|+|||||...+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            45678999999999999999998653

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=91.91  E-value=0.23  Score=42.48  Aligned_cols=106  Identities=13%  Similarity=0.036  Sum_probs=51.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ..+..++|.-|.||||-+.....+.... .....++-..-+ .+. .    .+.+.++.......-... ..+.+.+  +
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~~~-g~kvli~kp~~D~Ryg-~----~i~sr~G~~~~a~~i~~~-~di~~~~--~   89 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQIA-QYKCLVIKYAKDTRYS-S----SFCTHDRNTMEALPACLL-RDVAQEA--L   89 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHTT-TCCEEEEEETTCCCC----------------CEEEEESSG-GGGHHHH--T
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHC-CCeEEEEeecCCccch-H----HHHhhcCCeeEEEecCCH-HHHHHHh--c
Confidence            3578899999999998777776665443 233433332222 222 2    344444433221100000 1133333  2


Q ss_pred             CeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecc
Q 047930          254 KRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARS  291 (395)
Q Consensus       254 kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~  291 (395)
                      +--+|++|++.-.....++...+.+  .|..||+|.++
T Consensus        90 ~~dvViIDEaQF~~~v~el~~~l~~--~gi~VI~~GL~  125 (234)
T 2orv_A           90 GVAVIGIDEGQFFPDIVEFCEAMAN--AGKTVIVAALD  125 (234)
T ss_dssp             TCSEEEESSGGGCTTHHHHHHHHHH--TTCEEEEECCS
T ss_pred             cCCEEEEEchhhhhhHHHHHHHHHh--CCCEEEEEecc
Confidence            2239999998544333333322222  47789999887

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=91.88  E-value=0.076  Score=45.63  Aligned_cols=27  Identities=22%  Similarity=0.340  Sum_probs=20.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      -..|.|.|+.|+||||+++.+.+....
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            357999999999999999999987654

>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=91.85  E-value=0.1  Score=43.53  Aligned_cols=24  Identities=33%  Similarity=0.382  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .-|+|+|.+|+|||||+..+....
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            458899999999999999998754

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=91.80  E-value=0.15  Score=42.72  Aligned_cols=27  Identities=15%  Similarity=0.129  Sum_probs=22.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....+|+|+|+.|+||+|+|..+.+..
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHHHc
Confidence            345799999999999999999887644

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=91.80  E-value=0.2  Score=49.13  Aligned_cols=43  Identities=16%  Similarity=0.169  Sum_probs=30.5

Q ss_pred             chHHHHHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          158 SRMSTLNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       158 gr~~~~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.+....+.+...  .....+|.+.|+.|+||||+++.+.....
T Consensus       353 ~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~  397 (546)
T 2gks_A          353 TRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQ  397 (546)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhh
Confidence            34444445555542  23457899999999999999999988654

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=91.76  E-value=0.1  Score=49.56  Aligned_cols=26  Identities=27%  Similarity=0.497  Sum_probs=22.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      -..++|+|+.|+|||||++.+.....
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcccC
Confidence            35799999999999999999998764

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=91.76  E-value=0.11  Score=51.42  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=23.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56789999999999999999998875

>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=91.72  E-value=0.1  Score=44.13  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|.+|+|||||+..+....
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            457799999999999999998764

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=91.71  E-value=0.1  Score=50.01  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+++|+|+.|+|||||.+.+..-..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~   54 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALI   54 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCC
Confidence            7899999999999999999986543

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=91.71  E-value=0.35  Score=44.49  Aligned_cols=28  Identities=29%  Similarity=0.373  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +...++...|.||+||||++..+.....
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~lA   43 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQMA   43 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            3455667779999999999999887655

>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=91.69  E-value=0.056  Score=44.20  Aligned_cols=23  Identities=26%  Similarity=0.327  Sum_probs=9.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      --|.|+|..|+|||||+..+.+.
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEECCCCC------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999998754

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=91.67  E-value=0.11  Score=43.70  Aligned_cols=25  Identities=20%  Similarity=0.357  Sum_probs=21.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3468899999999999999998653

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=91.66  E-value=0.096  Score=43.37  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=19.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|.|+|..|+|||||+..+....
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC--
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            347899999999999999987543

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=91.65  E-value=0.08  Score=49.94  Aligned_cols=27  Identities=22%  Similarity=0.197  Sum_probs=21.2

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+....++|+|+.|+|||||++.++..
T Consensus        39 ~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           39 QGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             -CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            333334899999999999999998754

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=91.63  E-value=0.22  Score=46.20  Aligned_cols=40  Identities=20%  Similarity=0.376  Sum_probs=29.1

Q ss_pred             CCceEEEEEe-cCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          173 PDVNMLGIYG-MGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       173 ~~~~vi~I~G-~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      .+.++|+|+| -||+||||+|..++.....++  ..++.+.+.
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g--~rVlliD~D  181 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMG--KKVFYLNIE  181 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHT--CCEEEEECC
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCC--CCEEEEECC
Confidence            4578899985 899999999999887754431  235666644

>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=91.58  E-value=0.12  Score=45.54  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..|+++|.+|+|||||...+...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999999765

>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=91.54  E-value=0.11  Score=46.92  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=22.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ....|+|+|.+|+|||||...+...
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4578999999999999999999865

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=91.39  E-value=0.14  Score=43.14  Aligned_cols=50  Identities=20%  Similarity=0.171  Sum_probs=31.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.|+|-|.-|+||||+++.+.+....  .+.. +...-+......+.+++++.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~--~~~v-~~~~eP~~t~~g~~ir~~l~   52 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVK--DYDV-IMTREPGGVPTGEEIRKIVL   52 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTT--TSCE-EEEESSTTCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHC--CCCE-EEeeCCCCChHHHHHHHHHh
Confidence            46889999999999999999988742  2443 33332333334444444443

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=91.38  E-value=0.18  Score=43.40  Aligned_cols=40  Identities=25%  Similarity=0.325  Sum_probs=27.5

Q ss_pred             CceEEEEEe-cCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          174 DVNMLGIYG-MGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       174 ~~~vi~I~G-~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      ..++|+|++ -||+||||++..+........ =..++.+...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~~-g~~VlliD~D   43 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQEP-DIHVLAVDIS   43 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTST-TCCEEEEECC
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhCc-CCCEEEEECC
Confidence            456788885 589999999999998765430 1235555553

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=91.36  E-value=0.34  Score=43.95  Aligned_cols=27  Identities=33%  Similarity=0.431  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ..++...|.||+||||+|..++.....
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~   40 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMAR   40 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHH
Confidence            356677799999999999998876543

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=91.31  E-value=0.15  Score=43.62  Aligned_cols=26  Identities=19%  Similarity=0.173  Sum_probs=23.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..+|.|.|+.|+||||+++.+.....
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998764

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=91.30  E-value=1.8  Score=41.24  Aligned_cols=88  Identities=13%  Similarity=0.202  Sum_probs=54.5

Q ss_pred             chHHHHHHHHHHHHHHHHHHhhhhhhHhhccccccCCCcchhHhhHHHHHHHHHHHHHHHHHHcCCcceeeeccCCCCcc
Q 047930           67 IEKYVEKWLASVNGVIDEAEKFTGVDARANKRCFKGLCPNLKIRRRLSKEAERQKEAIVKVREAGRFDRISYNIIPDDSL  146 (395)
Q Consensus        67 ~~~~~~~Wl~~lr~~a~d~ed~ld~~~~~~~~~~~~~~~~~~~r~~i~~~i~~~~~~l~~i~~~~~~~~~~~~~~~~~~~  146 (395)
                      ....+..|..++.++.-.+|-.+|-..  ..        ....+..+..++..+.++++++...                
T Consensus       161 ~~~~~~~~r~~l~~~~a~iEa~iDf~e--d~--------~~~~~~~~~~~i~~l~~~l~~~~~~----------------  214 (462)
T 3geh_A          161 LAHPIRQLRANCLDILAEIEARIDFEE--DL--------PPLDDEAIISDIENIAAEISQLLAT----------------  214 (462)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHTTSSS--SS--------CCCCTTTHHHHHHHHHHHHHHHTTT----------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccccc--cC--------ChhhHHHHHHHHHHHHHHHHHHHHH----------------
Confidence            456788899998888888887776321  00        0112334556677777766665211                


Q ss_pred             ccccccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          147 LLSNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       147 ~~~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                                  + . ..+...    ++. .|+|+|.+|+|||||...+....
T Consensus       215 ------------~-~-~~~~~r----~~~-kV~ivG~~nvGKSSLln~L~~~~  248 (462)
T 3geh_A          215 ------------K-D-KGELLR----TGL-KVAIVGRPNVGKSSLLNAWSQSD  248 (462)
T ss_dssp             ------------H-H-HHHHHH----HCE-EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ------------h-h-hhhhhc----CCC-EEEEEcCCCCCHHHHHHHHhCCC
Confidence                        0 0 001111    123 37899999999999999998764

>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=91.29  E-value=0.095  Score=43.22  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      --|+|+|..|+|||||...+....
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999988665

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=91.20  E-value=0.31  Score=44.38  Aligned_cols=30  Identities=27%  Similarity=0.409  Sum_probs=23.9

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++...++.+.|.||+||||++..++.....
T Consensus        16 ~~~~~i~v~sgkGGvGKTTva~~LA~~lA~   45 (329)
T 2woo_A           16 QTSLKWIFVGGKGGVGKTTTSCSLAIQMSK   45 (329)
T ss_dssp             CTTCCEEEEECSSSSSHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEeCCCCCcHHHHHHHHHHHHHH
Confidence            344567777899999999999999877653

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=91.19  E-value=0.24  Score=43.60  Aligned_cols=26  Identities=19%  Similarity=0.448  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....|.++|.+|+|||||...+....
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            35678899999999999999998654

---

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	395
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	5e-34

>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 =  125 bits (315), Expect = 5e-34
 Identities = 40/271 (14%), Positives = 91/271 (33%), Gaps = 29/271 (10%)

Query: 141 IPDDSLLLSN-KDYEAFESRMSTLNDILDALKN---PDVNMLGIYGMGGIGKTTLAKEVA 196
           + D  LLL N         R   ++ ++  L      D   L ++G  G GK+ +A +  
Sbjct: 6   MLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQAL 65

Query: 197 RKAEN--EKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGR----------AR 244
            K++      +D +++++ S               L L   ++  +             R
Sbjct: 66  SKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKR 125

Query: 245 SLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQN 304
            +CN L      L + D++ +    +             + L+T R +++ +    + + 
Sbjct: 126 MICNALIDRPNTLFVFDDVVQEETIRW------AQELRLRCLVTTRDVEISNAASQTCEF 179

Query: 305 FSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFE 364
                L+ DE +   +        G + + V  +  +  +G P +++   ++   K   +
Sbjct: 180 IEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEK 239

Query: 365 WKDALEQLRRPSSTNFKDIQPTAYKAIELSY 395
                 +L        + I          SY
Sbjct: 240 MAQLNNKLESRGLVGVECI-------TPYSY 263

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	395
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.48
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.23
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.19
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.11
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.11
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.08
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.01
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.99
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.94
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.85
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.81
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.79
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.78
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.76
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.73
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.73
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.69
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.59
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.54
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.45
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.41
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.26
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.02
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.41
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.27
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.27
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.23
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.21
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.2
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.18
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.12
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.11
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.08
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.07
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.07
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.03
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.0
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.99
d1okkd2	207	GTPase domain of the signal recognition particle r	96.95
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.94
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.94
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.93
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.92
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.9
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.89
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.82
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.82
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.79
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.78
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.77
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.77
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.73
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.73
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.72
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.72
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.69
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.63
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.6
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.56
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.54
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.53
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.49
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.48
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.46
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.46
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.46
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.41
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.37
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.3
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.29
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.28
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.26
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.16
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.15
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.13
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.12
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.09
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.09
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.07
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.06
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.03
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.02
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.96
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.91
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.91
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.9
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.88
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.87
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.77
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.67
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.66
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.64
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.51
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.5
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.49
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.49
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.44
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.27
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.27
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.27
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.26
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.24
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.24
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.2
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.2
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.19
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.17
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.07
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.99
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.99
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.94
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.94
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.88
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.85
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.8
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.76
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.75
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.74
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.74
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.73
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.73
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.69
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.69
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.67
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.6
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.56
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.55
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.53
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.52
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.5
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.48
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.47
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.46
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.45
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.43
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.4
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.34
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.33
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.32
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.3
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.28
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.28
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.25
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.24
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.23
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.17
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.16
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.15
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.13
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.11
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.1
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.09
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.07
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.07
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.06
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.01
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.01
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.99
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.98
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.96
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.94
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.93
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.92
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.91
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.91
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.87
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.83
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.82
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.79
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.77
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.77
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.74
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.74
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.71
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.71
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.7
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.65
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.65
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.63
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.6
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.59
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.57
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.56
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.52
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.51
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.5
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.49
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.42
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.42
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.41
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.37
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.29
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.26
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.26
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.2
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.07
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.07
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.02
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.91
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.83
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	92.78
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.75
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	92.72
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.71
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.7
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.63
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.62
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.52
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.44
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.28
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	92.26
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.19
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.11
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.0
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.84
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.79
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.69
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.58
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.3
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.9
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	90.87
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.15
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	90.1
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.81
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	89.81
d1tuea_	205	Replication protein E1 helicase domain {Human papi	89.67
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	89.46
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	89.26
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	88.75
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	88.63
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	88.28
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.11
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.54
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	86.91
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	86.91
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	85.85
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	85.39
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	85.17
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	84.97
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	84.46
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.49
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.92
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	82.84

>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=7.9e-41  Score=301.96  Aligned_cols=229  Identities=15%  Similarity=0.156  Sum_probs=179.6

Q ss_pred             cchhchHHHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhc--ccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAE--NEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      +.++||+.++++|+++|.   +.+.++|+|+||||+||||||+++|++..  .+.+|++++|+++++.++...+...+..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~   99 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI   99 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHH
Confidence            346799999999999885   55678999999999999999999999854  5567999999999999887777666644


Q ss_pred             Hh---CCCccc-------cchhhhHHHHHHHHhcCCeEEEEEeCCCCccccchhccccCCCCCCcEEEEeecchhhhhhc
Q 047930          229 KL---GLTLHE-------ETESGRARSLCNRLKKEKRILVILDNIWENLDFQAVGIPHGDGHKGSKVLLTARSLDVLSRK  298 (395)
Q Consensus       229 ~l---~~~~~~-------~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~~~~l~~~l~~~~~gs~iivTtR~~~va~~~  298 (395)
                      .+   +.....       .........+......++|+|+||||||+...|..+..      .||+||||||+..++...
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~  173 (277)
T d2a5yb3         100 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAA  173 (277)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHHhc
Confidence            33   221110       01111122223333347899999999999988876532      389999999999997544


Q ss_pred             CCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHhhCCCHHHHHHHHHHhcCCCCC
Q 047930          299 MDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARALRNKRLFEWKDALEQLRRPSST  378 (395)
Q Consensus       299 ~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l~~~~~~~w~~~l~~l~~~~~~  378 (395)
                      ....+.|++++|+.+|||+||.+.++.....+..++++++|+++|+|+||||+++|+.|+.++.++|.+..+.|....  
T Consensus       174 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~--  251 (277)
T d2a5yb3         174 SQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRG--  251 (277)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHC--
T ss_pred             CCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCc--
Confidence            445578999999999999999999887666667788999999999999999999999999999999999999885421  


Q ss_pred             CCCCchHhhhhhhcccC
Q 047930          379 NFKDIQPTAYKAIELSY  395 (395)
Q Consensus       379 ~~~~~~~~i~~~L~lSY  395 (395)
                           ..++..+|.+||
T Consensus       252 -----~~~v~~il~~sY  263 (277)
T d2a5yb3         252 -----LVGVECITPYSY  263 (277)
T ss_dssp             -----SSTTCCCSSSSS
T ss_pred             -----HHHHHHHHHHHH
Confidence                 355788999998

>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=99.48  E-value=3.9e-13  Score=119.28  Aligned_cols=197  Identities=11%  Similarity=0.165  Sum_probs=116.4

Q ss_pred             ccccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-----cCCHHHHH
Q 047930          149 SNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-----IQDIRKIQ  223 (395)
Q Consensus       149 ~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-----~~~~~~~~  223 (395)
                      +....+.|+||++++++|.+.    ..+++.|+|++|+|||+|++++.+.....     ..|+.+..     ......+.
T Consensus         7 p~~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~~-----~~~i~~~~~~~~~~~~~~~~~   77 (283)
T d2fnaa2           7 PKDNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNLP-----YIYLDLRKFEERNYISYKDFL   77 (283)
T ss_dssp             CCCSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTCC-----EEEEEGGGGTTCSCCCHHHHH
T ss_pred             CCCChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCCC-----eEEEEeccccccccccHHHHH
Confidence            344568899999999998774    34678999999999999999998876432     34555432     22334444


Q ss_pred             HHHHHHhC--------------CCc---------c---ccchhhhHHHHHHHHh--cCCeEEEEEeCCCCccc-----cc
Q 047930          224 GEFADKLG--------------LTL---------H---EETESGRARSLCNRLK--KEKRILVILDNIWENLD-----FQ  270 (395)
Q Consensus       224 ~~i~~~l~--------------~~~---------~---~~~~~~~~~~l~~~l~--~~kr~LlVlDdv~~~~~-----~~  270 (395)
                      ..+.....              ...         .   .......+..+.+.+.  .++++++|+|++.....     +.
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~  157 (283)
T d2fnaa2          78 LELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLL  157 (283)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCH
T ss_pred             HHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHH
Confidence            44433221              000         0   0001112333444442  36889999999854321     11


Q ss_pred             hhccccCCCCCCcEEEEeecchhhhhhc-----------CCCcceeecCCCChHHHHHHHHHhhCCC-CCCCchHHHHHH
Q 047930          271 AVGIPHGDGHKGSKVLLTARSLDVLSRK-----------MDSQQNFSFDVLKEDEAWSLFKKMAGDY-IEGSEFKWVARE  338 (395)
Q Consensus       271 ~l~~~l~~~~~gs~iivTtR~~~va~~~-----------~~~~~~~~l~~L~~~e~~~lf~~~~~~~-~~~~~~~~~~~~  338 (395)
                      ...............+++++........           ......+.|.+++.+++.+++.+.+... ...++    .++
T Consensus       158 ~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----~~~  233 (283)
T d2fnaa2         158 PALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEV  233 (283)
T ss_dssp             HHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHH
T ss_pred             HHHHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHH----HHH
Confidence            1111111122344555655543221100           0123578999999999999998776321 22222    468


Q ss_pred             HHHHcCCchHHHHHHHHHhh
Q 047930          339 VAKECAGLPVSIVTVARALR  358 (395)
Q Consensus       339 i~~~c~GlPlai~~i~~~l~  358 (395)
                      |++.++|+|.++..++..+.
T Consensus       234 i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         234 VYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHH
Confidence            99999999999999987765

>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=99.23  E-value=1.5e-11  Score=105.62  Aligned_cols=188  Identities=14%  Similarity=0.101  Sum_probs=120.0

Q ss_pred             ccccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          149 SNKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       149 ~~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .|....+++|.+..++.|..|+.++..+.+.++|++|+||||+|+.+++....+..-..+..++.+.......+...+..
T Consensus        10 rP~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~   89 (224)
T d1sxjb2          10 RPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKH   89 (224)
T ss_dssp             CCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHH
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHH
Confidence            45667789999999999999999888777889999999999999999887543211112445555555444443333222


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCccee
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNF  305 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~  305 (395)
                      ........              ..++.-++|+|++....  ....+...+......+++++||.+ ..+..........+
T Consensus        90 ~~~~~~~~--------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i  155 (224)
T d1sxjb2          90 FAQKKLHL--------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAIL  155 (224)
T ss_dssp             HHHBCCCC--------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             HHHhhccC--------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHh
Confidence            21110000              01456688899997653  222333333333446666666665 33333334566789


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      ++.+++.++-..++.+.+..+....+ .+..+.|++.|+|.+-.+.
T Consensus       156 ~~~~~~~~~i~~~l~~i~~~e~~~i~-~~~l~~I~~~s~Gd~R~ai  200 (224)
T d1sxjb2         156 RYSKLSDEDVLKRLLQIIKLEDVKYT-NDGLEAIIFTAEGDMRQAI  200 (224)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTCCBC-HHHHHHHHHHHTTCHHHHH
T ss_pred             hhcccchhhhHHHHHHHHHhcccCCC-HHHHHHHHHHcCCcHHHHH
Confidence            99999999999999887742222222 2357899999999876543

>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=99.19  E-value=6.6e-11  Score=101.61  Aligned_cols=182  Identities=13%  Similarity=0.104  Sum_probs=115.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      |....+++|.++.++.|..|+..+..+.+.++|+.|+||||+|+.+++..........+.-.+.+...........+...
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~   89 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDF   89 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhc
Confidence            45667899999999999999988777778899999999999999999876533222223334444433332221111111


Q ss_pred             hCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-hhhhhcCCCcceee
Q 047930          230 LGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMDSQQNFS  306 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~~~~~~~  306 (395)
                      ....               .+..+++-++|+|++....  .-..+...+......++++++|... .+..........++
T Consensus        90 ~~~~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~  154 (227)
T d1sxjc2          90 ASTR---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFR  154 (227)
T ss_dssp             HHBC---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             cccc---------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhc
Confidence            1000               0012445688999997653  2223333333344577777777653 33332345567899


Q ss_pred             cCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCch
Q 047930          307 FDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLP  347 (395)
Q Consensus       307 l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlP  347 (395)
                      +.+++.++-..++.+.+......-+ .+..+.|++.|+|..
T Consensus       155 ~~~~~~~~i~~~l~~I~~~e~i~i~-~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         155 FQPLPQEAIERRIANVLVHEKLKLS-PNAEKALIELSNGDM  194 (227)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCCBC-HHHHHHHHHHHTTCH
T ss_pred             cccccccccccccccccccccccCC-HHHHHHHHHHcCCcH
Confidence            9999999999999988754322222 235788999999964

>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=99.11  E-value=2e-09  Score=92.90  Aligned_cols=186  Identities=12%  Similarity=0.186  Sum_probs=114.2

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCc-eEEEEEecCCCcHHHHHHHHHHHhcccCCCC-------------------EEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDV-NMLGIYGMGGIGKTTLAKEVARKAENEKLFD-------------------QVI  209 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~-------------------~~~  209 (395)
                      |....+++|.+..++.|..++..++. ..+.++|+.|+||||+|+.+.+.........                   .++
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   87 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLI   87 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEE
T ss_pred             CCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEE
Confidence            45567889999999999999886654 4588999999999999999887653321111                   012


Q ss_pred             EEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEE
Q 047930          210 FVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLL  287 (395)
Q Consensus       210 wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iiv  287 (395)
                      .+..+....... .+++.+.+....                ..++..++|||+++...  .-..+...+.....++++|+
T Consensus        88 ~~~~~~~~~i~~-ir~~~~~~~~~~----------------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il  150 (239)
T d1njfa_          88 EIDAASRTKVED-TRDLLDNVQYAP----------------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLL  150 (239)
T ss_dssp             EEETTCSSSHHH-HHHHHHSCCCSC----------------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEE
T ss_pred             EecchhcCCHHH-HHHHHHHHHhcc----------------ccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEE
Confidence            222222222211 112222221110                01456689999997653  22334334433445677777


Q ss_pred             eecchh-hhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH-HHHHH
Q 047930          288 TARSLD-VLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV-SIVTV  353 (395)
Q Consensus       288 TtR~~~-va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl-ai~~i  353 (395)
                      +|.+.. +..........+.+.+++.++....+.+.+......-+ .+....|++.++|.+- |+..+
T Consensus       151 ~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~-~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         151 ATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE-PRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             EESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC-HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             EcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCC-HHHHHHHHHHcCCCHHHHHHHH
Confidence            776633 32333455678999999999999988887742222222 3467889999999985 45443

>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=99.11  E-value=1.3e-10  Score=99.99  Aligned_cols=183  Identities=14%  Similarity=0.085  Sum_probs=112.1

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQ-VIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~-~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |....+++|.+..++.|..|+..+..+.+.++|++|+||||+|+.+.+..... .+.. .+.++.+...+...+...+..
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~-~~~~~~~e~n~s~~~~~~~~~~~~~~   98 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE-NWRHNFLELNASDERGINVIREKVKE   98 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGG-GHHHHEEEEETTCHHHHHTTHHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhc-ccCCCeeEEecCcccchhHHHHHHHH
Confidence            45567789999999999999998888889999999999999999999875431 1211 333444432211111111111


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCccee
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNF  305 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~  305 (395)
                      .....               .....++.++++||+...  ..+..+...+........+|.||.. ..+..........+
T Consensus        99 ~~~~~---------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i  163 (231)
T d1iqpa2          99 FARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIF  163 (231)
T ss_dssp             HHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEE
T ss_pred             HHhhh---------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccc
Confidence            10000               001246788999999654  2333333333223334556666554 33322233445689


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      .+.+.+.++....+++.+......- -.+..+.|++.|+|.+-.
T Consensus       164 ~~~~~~~~~~~~~l~~~~~~e~i~i-~~~~l~~I~~~~~gdiR~  206 (231)
T d1iqpa2         164 RFRPLRDEDIAKRLRYIAENEGLEL-TEEGLQAILYIAEGDMRR  206 (231)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCEE-CHHHHHHHHHHHTTCHHH
T ss_pred             cccccchhhHHHHHHHHHHHhCCCC-CHHHHHHHHHHcCCCHHH
Confidence            9999999999999998885433221 134678899999997543

>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=99.08  E-value=1.3e-10  Score=100.35  Aligned_cols=193  Identities=13%  Similarity=0.139  Sum_probs=115.8

Q ss_pred             cccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC-CCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK-LFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      |....+++|++..++.|..++.....+.+.++|++|+||||+++.+++...... .......++.+.......+...+-.
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKN   87 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHH
Confidence            455667889998899999999888777789999999999999999988743211 1222445555555554443333322


Q ss_pred             HhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecch-hhhhhcCCCccee
Q 047930          229 KLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSL-DVLSRKMDSQQNF  305 (395)
Q Consensus       229 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~-~va~~~~~~~~~~  305 (395)
                      ......... ..    .........+.-++|+|++....  .+..+...+......+++|+|+.+. .+..........+
T Consensus        88 ~~~~~~~~~-~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i  162 (237)
T d1sxjd2          88 FARLTVSKP-SK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  162 (237)
T ss_dssp             HHHSCCCCC-CT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             Hhhhhhhhh-hH----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhh
Confidence            211111110 00    11111122344478999997542  3333322222233456676666542 2222222334689


Q ss_pred             ecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchH
Q 047930          306 SFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPV  348 (395)
Q Consensus       306 ~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPl  348 (395)
                      ++.+++.++...++.+.+......-+ .+..+.|++.++|.+-
T Consensus       163 ~f~~~~~~~~~~~L~~i~~~e~i~i~-~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         163 RFKALDASNAIDRLRFISEQENVKCD-DGVLERILDISAGDLR  204 (237)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCCC-HHHHHHHHHHTSSCHH
T ss_pred             ccccccccccchhhhhhhhhhcCcCC-HHHHHHHHHHcCCCHH
Confidence            99999999999999988754332222 2467899999988653

>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=99.01  E-value=5e-10  Score=97.46  Aligned_cols=194  Identities=14%  Similarity=0.111  Sum_probs=103.3

Q ss_pred             cccccchhchHHHHHHHHHHhcCC-CceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCc--------
Q 047930          150 NKDYEAFESRMSTLNDILDALKNP-DVNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQI--------  216 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~~-~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~--------  216 (395)
                      |....+++|+++..+.|..++... ..+.+.++|++|+||||+|+.+++......    .++...+...+..        
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   86 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhcc
Confidence            455677999998888888877643 355678999999999999999998742211    1122222111100        


Q ss_pred             -------------CCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCC
Q 047930          217 -------------QDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHK  281 (395)
Q Consensus       217 -------------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~  281 (395)
                                   .....................     ...-... ..++.-++|||+++..  ..+..+...+.....
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~-~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~  160 (252)
T d1sxje2          87 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD-----FQDSKDG-LAHRYKCVIINEANSLTKDAQAALRRTMEKYSK  160 (252)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             CCccceeeecccccCCcceeeehhhhhhhhhhhh-----hhhcccc-cCCCceEEEeccccccccccchhhhcccccccc
Confidence                         000111111111111000000     0000000 1134558899999764  233334333333345


Q ss_pred             CcEEEEeecchh-hhhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          282 GSKVLLTARSLD-VLSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       282 gs~iivTtR~~~-va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      .+++|+||.+.. +..........+++.+++.++..+++...+......-..+++.+.|++.|.|.+-.
T Consensus       161 ~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         161 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHH
T ss_pred             cccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHHH
Confidence            677777776532 22222234468999999999999999877632111111124678899999998754

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.99  E-value=3.3e-08  Score=86.39  Aligned_cols=168  Identities=15%  Similarity=0.235  Sum_probs=108.3

Q ss_pred             chhchHHHHHHHHHHhc------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHH
Q 047930          155 AFESRMSTLNDILDALK------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFAD  228 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~  228 (395)
                      .++||+.+++++.++|.      ....+.+.|+|++|+||||+|+.+++.......+ ..+++...........+..+..
T Consensus        17 ~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   95 (276)
T d1fnna2          17 RLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGEIAR   95 (276)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCC-cEEEecchhhhhhhhhhhhhHH
Confidence            47899999999888875      2345789999999999999999999987643322 3567777778888888898888


Q ss_pred             HhCCCcccc--chhhhHHHHHHHHh-cCCeEEEEEeCCCCccc-----cchhccccC-CCCCCcEEEEeecchhhhhh--
Q 047930          229 KLGLTLHEE--TESGRARSLCNRLK-KEKRILVILDNIWENLD-----FQAVGIPHG-DGHKGSKVLLTARSLDVLSR--  297 (395)
Q Consensus       229 ~l~~~~~~~--~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~~-----~~~l~~~l~-~~~~gs~iivTtR~~~va~~--  297 (395)
                      ..+......  ........+.+.+. .....++++|++++...     ...+..... .......+|.++........  
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  175 (276)
T d1fnna2          96 SLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLD  175 (276)
T ss_dssp             HTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSC
T ss_pred             hhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhcc
Confidence            876544322  22333444444443 34677888888865421     111211111 12223445555554332110  


Q ss_pred             ----cCCCcceeecCCCChHHHHHHHHHhh
Q 047930          298 ----KMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       298 ----~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                          .......+.+.+++.++.++++.+.+
T Consensus       176 ~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         176 PSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence                00123468899999999999998776

>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=98.94  E-value=8.8e-09  Score=89.34  Aligned_cols=157  Identities=16%  Similarity=0.206  Sum_probs=100.6

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEE-EEeCCcCCHHHHHHHHH
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIF-VEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~w-v~~s~~~~~~~~~~~i~  227 (395)
                      ..+.+||++++++++..|.......+.++|++|+|||+|+..++......+    ..+..+| ++++.-           
T Consensus        17 ld~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l-----------   85 (268)
T d1r6bx2          17 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-----------   85 (268)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------
T ss_pred             CCcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH-----------
Confidence            345789999999999999877667788999999999999999987643321    1233444 332211           


Q ss_pred             HHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc----------ccchhccccCCCCCCcEEEEeecchhhhhh
Q 047930          228 DKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL----------DFQAVGIPHGDGHKGSKVLLTARSLDVLSR  297 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~----------~~~~l~~~l~~~~~gs~iivTtR~~~va~~  297 (395)
                        +........-...+..+.+.+...++.+|++||+....          +...+..|... ...-++|.||..+.....
T Consensus        86 --iag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~~  162 (268)
T d1r6bx2          86 --LAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNI  162 (268)
T ss_dssp             ---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHCC
T ss_pred             --hccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHHHH
Confidence              00011112233345566666665678999999986541          12233333322 335678888876654311


Q ss_pred             ------cCCCcceeecCCCChHHHHHHHHHhh
Q 047930          298 ------KMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       298 ------~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                            .......+++++++.+++..++....
T Consensus       163 ~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         163 FEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence                  12234689999999999999997654

>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=98.85  E-value=6.3e-09  Score=90.37  Aligned_cols=190  Identities=13%  Similarity=0.073  Sum_probs=108.1

Q ss_pred             cccccchhchHHHHHHHHHHhcC-----------------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 047930          150 NKDYEAFESRMSTLNDILDALKN-----------------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVE  212 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~~-----------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~  212 (395)
                      |.....++|.+..+++|..++..                 ...+.+.++|++|+||||+|+.+++....     .+.+++
T Consensus        10 P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~-----~~~~~~   84 (253)
T d1sxja2          10 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY-----DILEQN   84 (253)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-----hhhccc
Confidence            34567788999889998888742                 23467999999999999999999987542     255666


Q ss_pred             eCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc-----cchhccccCCCCCCcEEEE
Q 047930          213 VSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD-----FQAVGIPHGDGHKGSKVLL  287 (395)
Q Consensus       213 ~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~-----~~~l~~~l~~~~~gs~iiv  287 (395)
                      .+...+...+.. .................  ........++..++++|++.....     +..+..... . ....+++
T Consensus        85 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~-~-~~~~ii~  159 (253)
T d1sxja2          85 ASDVRSKTLLNA-GVKNALDNMSVVGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR-K-TSTPLIL  159 (253)
T ss_dssp             TTSCCCHHHHHH-TGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH-H-CSSCEEE
T ss_pred             cccchhhHHHHH-HHHHHhhcchhhhhhhh--hhhcccccccceEEEeeeccccccchhhhhHHHhhhhc-c-ccccccc
Confidence            665555443322 22222111110000000  000001135678899999864321     222211111 1 1223444


Q ss_pred             eecc--hhhhhhcCCCcceeecCCCChHHHHHHHHHhhC--CCCCCCchHHHHHHHHHHcCCch-HHHHH
Q 047930          288 TARS--LDVLSRKMDSQQNFSFDVLKEDEAWSLFKKMAG--DYIEGSEFKWVAREVAKECAGLP-VSIVT  352 (395)
Q Consensus       288 TtR~--~~va~~~~~~~~~~~l~~L~~~e~~~lf~~~~~--~~~~~~~~~~~~~~i~~~c~GlP-lai~~  352 (395)
                      |+.+  .............+++.+++.++....+...+.  +...+++   ...+|++.++|.. -||..
T Consensus       160 i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~---~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         160 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPN---VIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTT---HHHHHHHHTTTCHHHHHHH
T ss_pred             ccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHH---HHHHHHHhCCCcHHHHHHH
Confidence            4432  222222344567899999999999999888763  1122222   4678999999977 44433

>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=98.81  E-value=2.6e-07  Score=79.04  Aligned_cols=193  Identities=15%  Similarity=0.121  Sum_probs=110.8

Q ss_pred             ccccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      ....+++|.+..+++|..++.     ....+.+.++|++|+||||+|+.+++.....     .+.++.+......++. .
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~-----~~~~~~~~~~~~~~~~-~   79 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN-----IHVTSGPVLVKQGDMA-A   79 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC-----EEEEETTTCCSHHHHH-H
T ss_pred             CcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCC-----cccccCcccccHHHHH-H
Confidence            456778999998888888774     3345668899999999999999999886532     2344444333332221 1


Q ss_pred             HHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc---------cch--hcc---------ccCCCCCCcEE
Q 047930          226 FADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD---------FQA--VGI---------PHGDGHKGSKV  285 (395)
Q Consensus       226 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~---------~~~--l~~---------~l~~~~~gs~i  285 (395)
                      ++..                      .+++..+++|++.....         ...  +..         .+....+...+
T Consensus        80 ~~~~----------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          80 ILTS----------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             HHHH----------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             HHHh----------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEE
Confidence            1111                      13345566666643310         000  000         00001223445


Q ss_pred             EEeecch-hhh-hhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh------
Q 047930          286 LLTARSL-DVL-SRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL------  357 (395)
Q Consensus       286 ivTtR~~-~va-~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l------  357 (395)
                      |.+|... ... .........+.+++.+.++...++.......... ...+....|++.++|.+-.+..+...+      
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~l~~i~~~s~gd~R~ai~~l~~~~~~~~~  216 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE-IEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTV  216 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC-BCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccch-hhHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHH
Confidence            5555543 222 1122344578999999999999998877533222 223468899999999977664433221      


Q ss_pred             h--CC-CHHHHHHHHHHh
Q 047930          358 R--NK-RLFEWKDALEQL  372 (395)
Q Consensus       358 ~--~~-~~~~w~~~l~~l  372 (395)
                      .  .+ +.+....+++.|
T Consensus       217 ~~~~~it~~~~~~al~~l  234 (238)
T d1in4a2         217 VKADRINTDIVLKTMEVL  234 (238)
T ss_dssp             HTCSSBCHHHHHHHHHHH
T ss_pred             hcCCccCHHHHHHHHHhh
Confidence            1  12 566666666655

>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=98.79  E-value=7e-08  Score=80.90  Aligned_cols=179  Identities=11%  Similarity=0.042  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHhcCCC-ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCc----
Q 047930          160 MSTLNDILDALKNPD-VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTL----  234 (395)
Q Consensus       160 ~~~~~~l~~~l~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~----  234 (395)
                      +...+++...+..++ ...+.++|+.|+||||+|+.+++..-......   +-......+    ...+........    
T Consensus         8 ~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~----~~~i~~~~~~~~~~~~   80 (207)
T d1a5ta2           8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRG----CQLMQAGTHPDYYTLA   80 (207)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHH----HHHHHHTCCTTEEEEC
T ss_pred             HHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccc---cccccccch----hhhhhhccccccchhh
Confidence            455777888777666 44589999999999999999988643111000   000000000    111111111000    


Q ss_pred             -cc---cchhhhHHHHHHHHh----cCCeEEEEEeCCCCcc--ccchhccccCCCCCCcEEEEeecchh-hhhhcCCCcc
Q 047930          235 -HE---ETESGRARSLCNRLK----KEKRILVILDNIWENL--DFQAVGIPHGDGHKGSKVLLTARSLD-VLSRKMDSQQ  303 (395)
Q Consensus       235 -~~---~~~~~~~~~l~~~l~----~~kr~LlVlDdv~~~~--~~~~l~~~l~~~~~gs~iivTtR~~~-va~~~~~~~~  303 (395)
                       ..   ....+.+..+.+.+.    .+++-++|+||++...  ....+...+-....++.+|+||++.. +.....+...
T Consensus        81 ~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~  160 (207)
T d1a5ta2          81 PEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCR  160 (207)
T ss_dssp             CCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             hhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeE
Confidence             00   001112233333332    2566799999997653  34455545544456788888887743 4333445667


Q ss_pred             eeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHH
Q 047930          304 NFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIV  351 (395)
Q Consensus       304 ~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~  351 (395)
                      .+.+.+++.++....+.....-    +  ++.+..|++.++|.|-.+.
T Consensus       161 ~i~~~~~~~~~~~~~L~~~~~~----~--~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         161 LHYLAPPPEQYAVTWLSREVTM----S--QDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             EEECCCCCHHHHHHHHHHHCCC----C--HHHHHHHHHHTTTCHHHHH
T ss_pred             EEecCCCCHHHHHHHHHHcCCC----C--HHHHHHHHHHcCCCHHHHH
Confidence            9999999999999999776421    1  2457889999999987553

>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=98.78  E-value=3.1e-07  Score=78.66  Aligned_cols=196  Identities=14%  Similarity=0.069  Sum_probs=110.7

Q ss_pred             cccccchhchHHHHHHHHHHhc-----CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHH
Q 047930          150 NKDYEAFESRMSTLNDILDALK-----NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQG  224 (395)
Q Consensus       150 ~~~~~~~~gr~~~~~~l~~~l~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~  224 (395)
                      |....+++|.+..+++|..++.     ....+.+.++|++|+||||+|+.+++.....     ..+++.+..........
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~-----~~~~~~~~~~~~~~~~~   79 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN-----LRVTSGPAIEKPGDLAA   79 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC-----EEEEETTTCCSHHHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC-----eEeccCCccccchhhHH
Confidence            3456778999888888777664     2345678899999999999999999876432     34455444333222211


Q ss_pred             HHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCccc---------cch----hcccc-------CCCCCCcE
Q 047930          225 EFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENLD---------FQA----VGIPH-------GDGHKGSK  284 (395)
Q Consensus       225 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~~---------~~~----l~~~l-------~~~~~gs~  284 (395)
                      .+...                     . +.+.++++|++.....         .+.    .....       ....+...
T Consensus        80 ~~~~~---------------------~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~  137 (239)
T d1ixsb2          80 ILANS---------------------L-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  137 (239)
T ss_dssp             HHHTT---------------------C-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCE
T ss_pred             HHHhh---------------------c-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEE
Confidence            11111                     1 2234556676643310         000    00000       00112333


Q ss_pred             EEEee-cchhh-hhhcCCCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh----h
Q 047930          285 VLLTA-RSLDV-LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL----R  358 (395)
Q Consensus       285 iivTt-R~~~v-a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l----~  358 (395)
                      ++.+| +.... ..........+.+.+.+.++...++.+.+......- ..+....|++.++|.+-.+..+....    .
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~-~~~~l~~ia~~s~gd~R~a~~~l~~~~~~a~  216 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI-TEEAALEIGRRSRGTMRVAKRLFRRVRDFAQ  216 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCB-CHHHHHHHHHHTTSSHHHHHHHHHHHHHHHT
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCcc-chHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            44444 33221 122234466889999999999998887775332222 24478899999999876664443322    1


Q ss_pred             ----CC-CHHHHHHHHHHhc
Q 047930          359 ----NK-RLFEWKDALEQLR  373 (395)
Q Consensus       359 ----~~-~~~~w~~~l~~l~  373 (395)
                          .+ +.+.+..++..|.
T Consensus       217 ~~~~~~It~~~~~~~l~~l~  236 (239)
T d1ixsb2         217 VAGEEVITRERALEALAALG  236 (239)
T ss_dssp             TSCCSCBCHHHHHHHHHHHT
T ss_pred             HhCCCCcCHHHHHHHHhhhC
Confidence                12 6677777776653

>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=98.76  E-value=1.4e-08  Score=83.23  Aligned_cols=153  Identities=13%  Similarity=0.148  Sum_probs=91.4

Q ss_pred             cchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          154 EAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .+.+||++++++++..|...+...+.++|.+|+|||+++..++......+    ..+..+|.-     +...+    +. 
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~L----iA-   91 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGAL----VA-   91 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHH----HT-
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHH----hc-
Confidence            45789999999999999977667788999999999999999988654321    123444421     11111    11 


Q ss_pred             hCCCccccchhhhHHHHHHHHh-cCCeEEEEEeCCCCcc---------ccchhccccCCCCCCcEEEEeecchhhhh---
Q 047930          230 LGLTLHEETESGRARSLCNRLK-KEKRILVILDNIWENL---------DFQAVGIPHGDGHKGSKVLLTARSLDVLS---  296 (395)
Q Consensus       230 l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~iivTtR~~~va~---  296 (395)
                        .......-.+.+..+.+.+. ...+.+|++||+....         +...+..|... ...-++|.||..+....   
T Consensus        92 --g~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-rg~l~~IgatT~eey~~~~e  168 (195)
T d1jbka_          92 --GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTLDEYRQYIE  168 (195)
T ss_dssp             --TTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECHHHHHHHTT
T ss_pred             --cCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh-CCCceEEecCCHHHHHHHHH
Confidence              01111112234445555553 3457999999986541         12222222211 22456777776544321   


Q ss_pred             ---hcCCCcceeecCCCChHHHHHHH
Q 047930          297 ---RKMDSQQNFSFDVLKEDEAWSLF  319 (395)
Q Consensus       297 ---~~~~~~~~~~l~~L~~~e~~~lf  319 (395)
                         ........+++...+.+++..++
T Consensus       169 ~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         169 KDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             cCHHHHhcCCEeecCCCCHHHHHHHh
Confidence               12234578999999998887653

>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=98.73  E-value=3.1e-07  Score=80.46  Aligned_cols=195  Identities=16%  Similarity=0.165  Sum_probs=113.2

Q ss_pred             cchhchHHHHHHHHHHhc----C-C---C-ceEEEEEecCCCcHHHHHHHHHHHhcc----cCCCCEEEEEEeCCcCCHH
Q 047930          154 EAFESRMSTLNDILDALK----N-P---D-VNMLGIYGMGGIGKTTLAKEVARKAEN----EKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       154 ~~~~gr~~~~~~l~~~l~----~-~---~-~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~~f~~~~wv~~s~~~~~~  220 (395)
                      ..+.||+.++++|.+++.    . .   . ..++.++|++|+|||++++.+++....    ........+++.....+..
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            457899999999888663    1 1   1 234567899999999999999987432    1122346778888888888


Q ss_pred             HHHHHHHHHhCCCccc--cchhhhHHHHHHHHh-cCCeEEEEEeCCCCccc-----------cchhc---cccCCCCCCc
Q 047930          221 KIQGEFADKLGLTLHE--ETESGRARSLCNRLK-KEKRILVILDNIWENLD-----------FQAVG---IPHGDGHKGS  283 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~--~~~~~~~~~l~~~l~-~~kr~LlVlDdv~~~~~-----------~~~l~---~~l~~~~~gs  283 (395)
                      ..+..+...++.....  .........+.+... .+...++++|.+.....           +..+.   ..+.....-.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~  175 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIG  175 (287)
T ss_dssp             HHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEE
T ss_pred             hHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhccccee
Confidence            8888888877654332  222223333443332 35678888888753311           11111   1111122222


Q ss_pred             EEEEeecchhh-------hhhcCCCcceeecCCCChHHHHHHHHHhhCCC-CCCCchHHHHHHHHHHc------CCchH
Q 047930          284 KVLLTARSLDV-------LSRKMDSQQNFSFDVLKEDEAWSLFKKMAGDY-IEGSEFKWVAREVAKEC------AGLPV  348 (395)
Q Consensus       284 ~iivTtR~~~v-------a~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~-~~~~~~~~~~~~i~~~c------~GlPl  348 (395)
                      .|++++.....       ..........+.+++++.++..+++...+... ....--.+..+.|+++.      .|.|-
T Consensus       176 ~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~~~~~~~~gd~R  254 (287)
T d1w5sa2         176 FLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSAR  254 (287)
T ss_dssp             EEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGGTSCCCHH
T ss_pred             EEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHHhccccCCCCHH
Confidence            34444433211       01112235689999999999999999876311 11111134566676655      57774

>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=98.73  E-value=6.5e-08  Score=83.29  Aligned_cols=176  Identities=17%  Similarity=0.185  Sum_probs=98.0

Q ss_pred             cccchhchHHHHHHHH---HHhcC---------CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH
Q 047930          152 DYEAFESRMSTLNDIL---DALKN---------PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI  219 (395)
Q Consensus       152 ~~~~~~gr~~~~~~l~---~~l~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~  219 (395)
                      ...++.|-++.++.|.   ..+..         ...+-+.++|++|+|||+||+.+++.....     .+.++.+     
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~-----~~~i~~~-----   76 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP-----FITASGS-----   76 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC-----EEEEEHH-----
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC-----EEEEEhH-----
Confidence            3455667665554443   33321         234568899999999999999999876422     2333321     


Q ss_pred             HHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc----------------ccchhccccC--CCCC
Q 047930          220 RKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL----------------DFQAVGIPHG--DGHK  281 (395)
Q Consensus       220 ~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~----------------~~~~l~~~l~--~~~~  281 (395)
                       ++..    .    ... .....+..+.+......+++|+|||++...                ....+...+.  ....
T Consensus        77 -~l~~----~----~~g-~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  146 (247)
T d1ixza_          77 -DFVE----M----FVG-VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  146 (247)
T ss_dssp             -HHHH----S----CTT-HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC
T ss_pred             -Hhhh----c----ccc-HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC
Confidence             2111    0    000 111234455555555678999999985320                0111111111  1223


Q ss_pred             CcEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          282 GSKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       282 gs~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      +.-||.||....-. ....   .-...+++.+.+.++-.++|+..+.......+..  ...+++.|.|+.-+
T Consensus       147 ~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~--~~~la~~t~g~s~~  216 (247)
T d1ixza_         147 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD--LALLAKRTPGFVGA  216 (247)
T ss_dssp             CEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC--HHHHHHTCTTCCHH
T ss_pred             CEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccC--HHHHHHHCCCCCHH
Confidence            33344466653322 1111   2346899999999999999998885433222221  45788889886443

>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=98.69  E-value=1.2e-07  Score=81.90  Aligned_cols=175  Identities=16%  Similarity=0.193  Sum_probs=100.6

Q ss_pred             ccchhchHHHHHHHH---HHhc---------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHH
Q 047930          153 YEAFESRMSTLNDIL---DALK---------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~---~~l~---------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~  220 (395)
                      ..++.|.++.+++|.   .++.         ....+.+.++|++|+|||++|+.+++.....     .+.++.+.-.+  
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~-----~~~i~~~~l~~--   83 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP-----FFTISGSDFVE--   83 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC-----EEEECSCSSTT--
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC-----EEEEEhHHhhh--
Confidence            345667766665554   4332         1235678899999999999999999876532     23333332211  


Q ss_pred             HHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc------------ccc----chhccccC--CCCCC
Q 047930          221 KIQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN------------LDF----QAVGIPHG--DGHKG  282 (395)
Q Consensus       221 ~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~------------~~~----~~l~~~l~--~~~~g  282 (395)
                                  ..... ....+..+.+...+..+++|+|||++..            ...    ..+...+.  ....+
T Consensus        84 ------------~~~g~-~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  150 (256)
T d1lv7a_          84 ------------MFVGV-GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  150 (256)
T ss_dssp             ------------SCCCC-CHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSC
T ss_pred             ------------cchhH-HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCC
Confidence                        00111 1123445555555578899999998531            011    11111111  22334


Q ss_pred             cEEEEeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          283 SKVLLTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       283 s~iivTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      .-||.||...... ....   .-.+.+.+.+.+.++-.++|+.........++..  ...+++.+.|+.-|
T Consensus       151 v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~--~~~la~~t~G~s~a  219 (256)
T d1lv7a_         151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID--AAIIARGTPGFSGA  219 (256)
T ss_dssp             EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC--HHHHHHTCTTCCHH
T ss_pred             EEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccC--HHHHHHhCCCCCHH
Confidence            5566677764332 1111   2356899999999999999998885433222221  35788889887543

>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=98.59  E-value=3.8e-07  Score=79.07  Aligned_cols=173  Identities=12%  Similarity=0.121  Sum_probs=98.6

Q ss_pred             chhchHHHHHHHHHHh----c---------CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHH
Q 047930          155 AFESRMSTLNDILDAL----K---------NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRK  221 (395)
Q Consensus       155 ~~~gr~~~~~~l~~~l----~---------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~  221 (395)
                      .+.|-+..+++|.+.+    .         -..++-+.++|++|+|||++|+.+.+.....     .+.++.+.      
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~-----~~~i~~~~------   73 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE------   73 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE-----EEEECHHH------
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe-----EEEEEchh------
Confidence            4556666655555542    2         1235668899999999999999999875422     22332211      


Q ss_pred             HHHHHHHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCcc---------ccc----hhcccc--CCCCCCcEEE
Q 047930          222 IQGEFADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWENL---------DFQ----AVGIPH--GDGHKGSKVL  286 (395)
Q Consensus       222 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~~---------~~~----~l~~~l--~~~~~gs~ii  286 (395)
                              +....... ....+..+.+.....++++|+|||++...         ...    .+...+  .....+.-||
T Consensus        74 --------l~~~~~g~-~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi  144 (258)
T d1e32a2          74 --------IMSKLAGE-SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVM  144 (258)
T ss_dssp             --------HTTSCTTH-HHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEE
T ss_pred             --------hccccccc-HHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEE
Confidence                    11111110 11123334444334678999999997541         111    111111  1233445566


Q ss_pred             Eeecchhhh-hhcC---CCcceeecCCCChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          287 LTARSLDVL-SRKM---DSQQNFSFDVLKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       287 vTtR~~~va-~~~~---~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      .||....-. ....   .-...++++..+.++-..+|+.........++..  ...|++.+.|+--|
T Consensus       145 ~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~--~~~la~~t~G~s~a  209 (258)
T d1e32a2         145 AATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD--LEQVANETHGHVGA  209 (258)
T ss_dssp             EEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC--HHHHHHHCTTCCHH
T ss_pred             EeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc--hhhhhhcccCCCHH
Confidence            688764332 1111   2457899999999999999998886433333222  46899999996443

>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=98.54  E-value=3.1e-07  Score=83.93  Aligned_cols=157  Identities=12%  Similarity=0.155  Sum_probs=89.9

Q ss_pred             ccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEE-EEeCCcCCHHHHHHHHH
Q 047930          153 YEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIF-VEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       153 ~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~w-v~~s~~~~~~~~~~~i~  227 (395)
                      .++++||+.++++++..|...+...+.++|.+|+|||+|+..++......    ...+..+| ++++.-.          
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~----------   90 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLL----------   90 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhh----------
Confidence            35678999999999999986655566789999999999988777653221    22344555 3332210          


Q ss_pred             HHhCCCccccchhhhHHHHHHHHhc-CCeEEEEEeCCCCcc---------ccchhccccCCCCCCcEEEEeecchhhh--
Q 047930          228 DKLGLTLHEETESGRARSLCNRLKK-EKRILVILDNIWENL---------DFQAVGIPHGDGHKGSKVLLTARSLDVL--  295 (395)
Q Consensus       228 ~~l~~~~~~~~~~~~~~~l~~~l~~-~kr~LlVlDdv~~~~---------~~~~l~~~l~~~~~gs~iivTtR~~~va--  295 (395)
                      ...   .........+..+...+.. ..+++|++|++....         +...+..|... ...-++|-+|..+...  
T Consensus        91 ag~---~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~-rg~~~~I~~tT~~ey~~~  166 (387)
T d1qvra2          91 AGA---KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-RGELRLIGATTLDEYREI  166 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH-TTCCCEEEEECHHHHHHH
T ss_pred             ccc---CcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh-CCCcceeeecCHHHHHHh
Confidence            000   0011122344555555543 347999999996541         11122222211 1234566666544332  


Q ss_pred             ---hhcCCCcceeecCCCChHHHHHHHHHhh
Q 047930          296 ---SRKMDSQQNFSFDVLKEDEAWSLFKKMA  323 (395)
Q Consensus       296 ---~~~~~~~~~~~l~~L~~~e~~~lf~~~~  323 (395)
                         .........+.+.+.+.+++..++....
T Consensus       167 e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         167 EKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             TTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             cccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence               1123445689999999999999998665

>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=98.45  E-value=5.9e-06  Score=70.67  Aligned_cols=73  Identities=18%  Similarity=0.167  Sum_probs=43.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ..+-|.++|++|+|||++|+.+++.....     .+.++.+....              ..........+..+.+.....
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~~~~-----~~~i~~~~~~~--------------g~~~~~~~~~i~~if~~A~~~   99 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEESNFP-----FIKICSPDKMI--------------GFSETAKCQAMKKIFDDAYKS   99 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHTCS-----EEEEECGGGCT--------------TCCHHHHHHHHHHHHHHHHTS
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhccccc-----ccccccccccc--------------cccccchhhhhhhhhhhhhhc
Confidence            45668899999999999999999876532     23333332110              000111112233444444446


Q ss_pred             CeEEEEEeCCCC
Q 047930          254 KRILVILDNIWE  265 (395)
Q Consensus       254 kr~LlVlDdv~~  265 (395)
                      .+++|+|||++.
T Consensus       100 ~p~il~iDEid~  111 (246)
T d1d2na_         100 QLSCVVVDDIER  111 (246)
T ss_dssp             SEEEEEECCHHH
T ss_pred             ccceeehhhhhh
Confidence            789999999853

>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=98.41  E-value=3.4e-07  Score=79.64  Aligned_cols=154  Identities=14%  Similarity=0.167  Sum_probs=86.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKE  253 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  253 (395)
                      ..+.|.++|++|+|||+||+.+++.....     .+  .++    ...+.       + ... ......+..+.......
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~~~~~-----~~--~~~----~~~l~-------~-~~~-~~~~~~l~~~f~~A~~~   99 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANECQAN-----FI--SIK----GPELL-------T-MWF-GESEANVREIFDKARQA   99 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHHTTCE-----EE--EEC----HHHHH-------T-SCT-TTHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHHhCCc-----EE--EEE----HHHhh-------h-ccc-cchHHHHHHHHHHHHhc
Confidence            35678899999999999999999887532     12  221    11111       1 111 11122333444444446


Q ss_pred             CeEEEEEeCCCCcc--------c--------cchhccccC--CCCCCcEEEEeecchhhh-hhc---CCCcceeecCCCC
Q 047930          254 KRILVILDNIWENL--------D--------FQAVGIPHG--DGHKGSKVLLTARSLDVL-SRK---MDSQQNFSFDVLK  311 (395)
Q Consensus       254 kr~LlVlDdv~~~~--------~--------~~~l~~~l~--~~~~gs~iivTtR~~~va-~~~---~~~~~~~~l~~L~  311 (395)
                      .+++|+|||++...        .        ...+...+.  ...++.-||.||....-. ...   ......+++++.+
T Consensus       100 ~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~  179 (265)
T d1r7ra3         100 APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD  179 (265)
T ss_dssp             CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCC
T ss_pred             CCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchH
Confidence            78999999996431        0        011222221  122344567777754322 111   1245689999999


Q ss_pred             hHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHH
Q 047930          312 EDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVS  349 (395)
Q Consensus       312 ~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPla  349 (395)
                      .++-.++|+..+.......+..  ..++++++.|+..+
T Consensus       180 ~~~R~~il~~~l~~~~~~~~~~--l~~la~~t~g~s~~  215 (265)
T d1r7ra3         180 EKSRVAILKANLRKSPVAKDVD--LEFLAKMTNGFSGA  215 (265)
T ss_dssp             CHHHHHHHHHHTTCC----CCC--CHHHHHHHCSSCCH
T ss_pred             HHHHHHHHHHHhccCCchhhhh--HHHHHhcCCCCCHH
Confidence            9999999988775432222111  35788888887644

>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=98.26  E-value=7e-06  Score=68.58  Aligned_cols=148  Identities=16%  Similarity=0.150  Sum_probs=86.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      ..+.|+|++|+|||.|++.+++....+  ...+++++      ..++...+...+...        ......+.+.  .-
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~--~~~~~~~~------~~~~~~~~~~~~~~~--------~~~~~~~~~~--~~   98 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSS------ADDFAQAMVEHLKKG--------TINEFRNMYK--SV   98 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEE------HHHHHHHHHHHHHHT--------CHHHHHHHHH--TC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccC--ccceEEec------hHHHHHHHHHHHHcc--------chhhHHHHHh--hc
Confidence            347899999999999999999987654  33456654      334444554443211        1233444444  35


Q ss_pred             EEEEEeCCCCc---cccch-hccccCC-CCCCcEEEEeecchhhh--------hhcCCCcceeecCCCChHHHHHHHHHh
Q 047930          256 ILVILDNIWEN---LDFQA-VGIPHGD-GHKGSKVLLTARSLDVL--------SRKMDSQQNFSFDVLKEDEAWSLFKKM  322 (395)
Q Consensus       256 ~LlVlDdv~~~---~~~~~-l~~~l~~-~~~gs~iivTtR~~~va--------~~~~~~~~~~~l~~L~~~e~~~lf~~~  322 (395)
                      -+|+|||+...   ..|+. +...+.. ...|.+||+|++.....        ........+++++ +++++-..++++.
T Consensus        99 dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~  177 (213)
T d1l8qa2          99 DLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEK  177 (213)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHH
T ss_pred             cchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHH
Confidence            69999999644   34543 2222211 23577899999864321        0112344577775 4777778888887


Q ss_pred             hCCCCCCCchHHHHHHHHHHc
Q 047930          323 AGDYIEGSEFKWVAREVAKEC  343 (395)
Q Consensus       323 ~~~~~~~~~~~~~~~~i~~~c  343 (395)
                      +......-. .++.+-|++++
T Consensus       178 a~~rgl~l~-~~v~~yl~~~~  197 (213)
T d1l8qa2         178 LKEFNLELR-KEVIDYLLENT  197 (213)
T ss_dssp             HHHTTCCCC-HHHHHHHHHHC
T ss_pred             HHHcCCCCC-HHHHHHHHHhc
Confidence            742221111 23555666655

>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=98.02  E-value=2e-05  Score=64.85  Aligned_cols=131  Identities=15%  Similarity=0.066  Sum_probs=78.7

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcc--cCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCCccccch
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAEN--EKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLTLHEETE  239 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~--~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~~~~~~  239 (395)
                      ++-+-.++.......+.++|++|+||||+|..+.+....  ..|.|. .++...+ ...++++ +++.+.+.....    
T Consensus         3 ~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~I-R~i~~~~~~~~~----   76 (198)
T d2gnoa2           3 LETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLNYSPE----   76 (198)
T ss_dssp             HHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHTSCCS----
T ss_pred             HHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHH-HHHHHHHhhCcc----
Confidence            444555566677889999999999999999999886542  234443 3443222 2233333 234444432211    


Q ss_pred             hhhHHHHHHHHhcCCeEEEEEeCCCCc--cccchhccccCCCCCCcEEEEeecc-hhhhhhcCCCcceeecCCCC
Q 047930          240 SGRARSLCNRLKKEKRILVILDNIWEN--LDFQAVGIPHGDGHKGSKVLLTARS-LDVLSRKMDSQQNFSFDVLK  311 (395)
Q Consensus       240 ~~~~~~l~~~l~~~kr~LlVlDdv~~~--~~~~~l~~~l~~~~~gs~iivTtR~-~~va~~~~~~~~~~~l~~L~  311 (395)
                                  .+++-++|+|+++..  .....+...+-....++.+|++|.+ ..+.......+..+.+.+.+
T Consensus        77 ------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~  139 (198)
T d2gnoa2          77 ------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPK  139 (198)
T ss_dssp             ------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCH
T ss_pred             ------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCch
Confidence                        145568999999765  3555665555444456777776665 44444444566777876543

>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=97.41  E-value=0.00026  Score=62.41  Aligned_cols=101  Identities=15%  Similarity=0.227  Sum_probs=55.2

Q ss_pred             hhchHHHHHHHHHHhc-------C--CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          156 FESRMSTLNDILDALK-------N--PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~-------~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ++|.++.++.+...+.       +  ....++.++|+.|+|||.||+.+..-..     ...+-++.+.-.+...    +
T Consensus        24 viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~-----~~~i~~d~s~~~~~~~----~   94 (315)
T d1r6bx3          24 VFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT----V   94 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSC----C
T ss_pred             ecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc-----CCeeEeccccccchhh----h
Confidence            5677777777665542       2  2345788999999999999999998653     3344455443211100    0


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                      .+-++.+... ........+.+.+......+++||+++..
T Consensus        95 ~~l~g~~~gy-~g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3          95 SRLIGAPPGY-VGFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             SSSCCCCSCS-HHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             hhhcccCCCc-cccccCChhhHHHHhCccchhhhcccccc
Confidence            0001111110 00011112334444456789999999754

>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=97.27  E-value=8e-05  Score=59.08  Aligned_cols=28  Identities=29%  Similarity=0.380  Sum_probs=24.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      .+|+.|+|+.|+|||||++.+.+....+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            3689999999999999999999876543

>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=97.27  E-value=0.00021  Score=58.08  Aligned_cols=32  Identities=34%  Similarity=0.528  Sum_probs=27.2

Q ss_pred             hcCCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          170 LKNPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       170 l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +...++-+|+|.|.+|+||||||+.+.+....
T Consensus        17 ~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_          17 IKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             SCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             ccCCCCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            44566778999999999999999999887664

>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=97.23  E-value=0.00019  Score=63.29  Aligned_cols=104  Identities=16%  Similarity=0.310  Sum_probs=53.1

Q ss_pred             hhchHHHHHHHHHHhc-------CC--CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          156 FESRMSTLNDILDALK-------NP--DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~-------~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      ++|.++.++.+...+.       ++  ...++.++|+.|+|||.+|+.+.+.....  -...+-++.+...+...+. .+
T Consensus        25 v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~--~~~~~~~~~~~~~~~~~~~-~L  101 (315)
T d1qvra3          25 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVS-RL  101 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGGG-GC
T ss_pred             EeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC--CcceEEEeccccccchhhh-hh
Confidence            4566666666655442       22  23478899999999999999999875211  1122333333322211100 00


Q ss_pred             HHHhCCCccccchhhhHHHHHHHHhcCCeEEEEEeCCCCc
Q 047930          227 ADKLGLTLHEETESGRARSLCNRLKKEKRILVILDNIWEN  266 (395)
Q Consensus       227 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlVlDdv~~~  266 (395)
                         ++.+..-. .......+.+.+.+....+++||+++..
T Consensus       102 ---~g~~~gyv-G~~~~~~l~~~~~~~p~~Vvl~DEieK~  137 (315)
T d1qvra3         102 ---IGAPPGYV-GYEEGGQLTEAVRRRPYSVILFDEIEKA  137 (315)
T ss_dssp             ------------------CHHHHHHHCSSEEEEESSGGGS
T ss_pred             ---cCCCCCCc-CcccCChHHHHHHhCCCcEEEEehHhhc
Confidence               01110000 0011123455555566789999999754

>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=97.21  E-value=0.0014  Score=55.96  Aligned_cols=86  Identities=22%  Similarity=0.297  Sum_probs=57.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-----cchhhhHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-----ETESGRARSLCN  248 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~l~~  248 (395)
                      .-++.-|.|+.|+||||||.+++......  -..++|+.....++.+.     +++++.+.+.     ....+..-.+.+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~--g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~  131 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIAD  131 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHT--TCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcC--CCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHH
Confidence            35788899999999999998888765544  34589999999888654     5666665432     111122223333


Q ss_pred             HH-hcCCeEEEEEeCCCCc
Q 047930          249 RL-KKEKRILVILDNIWEN  266 (395)
Q Consensus       249 ~l-~~~kr~LlVlDdv~~~  266 (395)
                      .| ..++.-|||+|.+-..
T Consensus       132 ~l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         132 MLIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHHTTCEEEEEEECSTTC
T ss_pred             HHHhcCCCCEEEEeccccc
Confidence            33 3466789999998543

>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=97.20  E-value=9.3e-05  Score=59.55  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+.|+|.|+.|+||||||+.+.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999999865

>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=97.18  E-value=8.8e-05  Score=58.34  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.|.+.|++|+||||+|+.+.....
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998754

>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=97.12  E-value=0.00014  Score=56.64  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++|.|+|++|+||||+|+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            478899999999999999987643

>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=97.11  E-value=0.00021  Score=56.97  Aligned_cols=37  Identities=14%  Similarity=0.090  Sum_probs=27.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFV  211 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv  211 (395)
                      +-.+|.|+|++|+||||+|+.+......+ +++...++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~-~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQ-GGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHH-CSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc-CCCchhhh
Confidence            34688899999999999999999886543 34444444

>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=97.08  E-value=0.00019  Score=58.40  Aligned_cols=29  Identities=24%  Similarity=0.314  Sum_probs=25.4

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+.+.+|.|+|++|+||||+|+.+++...
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            45678999999999999999999998753

>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=97.07  E-value=0.0015  Score=55.75  Aligned_cols=85  Identities=24%  Similarity=0.339  Sum_probs=57.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-----cchhhhHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-----ETESGRARSLCN  248 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~l~~  248 (395)
                      .-++.-|.|++|+|||||+.+++.......  ..++|+.....++.+     +++.++.+.+.     ....+..-.+.+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~  128 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  128 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHH
Confidence            346899999999999999999887765432  348999998888874     67777776443     111122223334


Q ss_pred             HH-hcCCeEEEEEeCCCC
Q 047930          249 RL-KKEKRILVILDNIWE  265 (395)
Q Consensus       249 ~l-~~~kr~LlVlDdv~~  265 (395)
                      .+ ..+..-|||+|-+-.
T Consensus       129 ~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         129 LLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHTTTCCSEEEEECTTT
T ss_pred             HHHhcCCCcEEEEecccc
Confidence            44 345566999999854

>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=97.07  E-value=0.00016  Score=57.31  Aligned_cols=24  Identities=33%  Similarity=0.502  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999998764

>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=97.03  E-value=0.0012  Score=53.64  Aligned_cols=28  Identities=21%  Similarity=0.342  Sum_probs=24.8

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+..++|.|.|++|+||||+|+.+++..
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3567899999999999999999999865

>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=97.00  E-value=0.00017  Score=57.22  Aligned_cols=25  Identities=44%  Similarity=0.586  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.|.|.|++|+||||+|+.+.+...
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4578999999999999999998754

>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=96.99  E-value=0.00027  Score=56.55  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=23.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +.|.|+|++|+|||||++.++.....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            56899999999999999999987653

>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=96.95  E-value=0.0026  Score=51.86  Aligned_cols=60  Identities=22%  Similarity=0.351  Sum_probs=42.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-cCCHHHHHHHHHHHhCCCc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ-IQDIRKIQGEFADKLGLTL  234 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~-~~~~~~~~~~i~~~l~~~~  234 (395)
                      ++.++|.++|+.|+||||.+.+++.....++  ..+..+++.. .....+-++..++.++.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTT--CCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEeccccccchhhHhhcccccCceE
Confidence            4568999999999999998888887665332  3466776643 3455666777777776543

>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=96.94  E-value=0.00029  Score=55.75  Aligned_cols=28  Identities=32%  Similarity=0.535  Sum_probs=24.6

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ...+++.|.|++|+||||+|+.+.....
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578999999999999999999998753

>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=96.94  E-value=0.00033  Score=55.36  Aligned_cols=27  Identities=33%  Similarity=0.362  Sum_probs=24.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ++++|+|..|+|||||+.++......+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            589999999999999999999887654

>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=96.93  E-value=0.0021  Score=52.51  Aligned_cols=59  Identities=24%  Similarity=0.316  Sum_probs=39.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTL  234 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~  234 (395)
                      +.+||.++|+.|+||||.+.+++.....+. . .+..+++... ....+-++...+.++.+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g-~-kV~lit~Dt~R~gA~eQL~~~a~~l~v~~   68 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG-R-RPLLVAADTQRPAAREQLRLLGEKVGVPV   68 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTT-C-CEEEEECCSSCHHHHHHHHHHHHHHTCCE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCC-C-cEEEEecccccchHHHHHHHHHHhcCCcc
Confidence            457899999999999998888877765432 2 3555555322 234556666777776553

>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=96.92  E-value=0.0032  Score=51.42  Aligned_cols=61  Identities=15%  Similarity=0.246  Sum_probs=40.9

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCH--HHHHHHHHHHhCCCcc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDI--RKIQGEFADKLGLTLH  235 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~--~~~~~~i~~~l~~~~~  235 (395)
                      .+.+.||.++|+.|+||||.+.+++.....+.   ..+.+-..+.+.+  .+-++...+.++.+..
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g---~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~   68 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQG---KSVMLAAGDTFRAAAVEQLQVWGQRNNIPVI   68 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTT---CCEEEECCCTTCHHHHHHHHHHHHHTTCCEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC---CcEEEEecccccccchhhhhhhhhhcCCccc
Confidence            44578999999999999988888887665322   2334433444443  5566777777776543

>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=96.90  E-value=0.0021  Score=54.73  Aligned_cols=84  Identities=23%  Similarity=0.330  Sum_probs=55.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc------cchhhhHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE------ETESGRARSLCN  248 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  248 (395)
                      -+++-|+|++|+|||||+.+++.....+.  ..++|+.....++..     .++.++.+.+.      ....+..+.+..
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~  126 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  126 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHHH
Confidence            46899999999999999999988765442  347899998888764     35667765432      111122222222


Q ss_pred             HHhcCCeEEEEEeCCCC
Q 047930          249 RLKKEKRILVILDNIWE  265 (395)
Q Consensus       249 ~l~~~kr~LlVlDdv~~  265 (395)
                      ....+..-|+|+|.+-.
T Consensus       127 l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         127 LARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHTCCSEEEEECGGG
T ss_pred             HHhcCCCCEEEEECccc
Confidence            22334556899999843

>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=96.89  E-value=0.00033  Score=55.55  Aligned_cols=27  Identities=33%  Similarity=0.418  Sum_probs=23.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +....|.|.|++|+||||+|+.+.+..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            455679999999999999999999764

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.82  E-value=0.0022  Score=53.66  Aligned_cols=86  Identities=14%  Similarity=0.172  Sum_probs=53.7

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCcc----------------cc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLH----------------EE  237 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~----------------~~  237 (395)
                      .-.++.|.|.+|+|||+++.++..+...  ....++|++...+  ...+.+. +..++....                ..
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~--~~~~~~~is~e~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACA--NKERAILFAYEES--RAQLLRN-AYSWGMDFEEMERQNLLKIVCAYPESA   99 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHT--TTCCEEEEESSSC--HHHHHHH-HHTTSCCHHHHHHTTSEEECCCCGGGS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH--hccccceeeccCC--HHHHHHH-HHHcCCChHHHhhcCceEEEEeecchh
Confidence            3468899999999999999999988653  3556788876543  3333332 233322111                11


Q ss_pred             chhhhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          238 TESGRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       238 ~~~~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                      ........+...+.+.+.-++|+|.+.
T Consensus       100 ~~~~~~~~i~~~i~~~~~~~vviDs~~  126 (242)
T d1tf7a2         100 GLEDHLQIIKSEINDFKPARIAIDSLS  126 (242)
T ss_dssp             CHHHHHHHHHHHHHTTCCSEEEEECHH
T ss_pred             hHHHHHHHHHHHHHhcCCceeeeecch
Confidence            122334556666666677789999863

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.82  E-value=0.00036  Score=55.35  Aligned_cols=26  Identities=15%  Similarity=0.235  Sum_probs=23.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .++|.|.|++|+||||+|+.+.+...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998754

>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=96.79  E-value=0.00034  Score=55.83  Aligned_cols=27  Identities=26%  Similarity=0.438  Sum_probs=23.2

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++.+|.++|++|+||||+|+.+...
T Consensus        11 ~~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          11 SPNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             CSSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            456789999999999999999988654

>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=96.78  E-value=0.0036  Score=51.25  Aligned_cols=61  Identities=18%  Similarity=0.285  Sum_probs=42.1

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTL  234 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~  234 (395)
                      ...+.||.++|+.|+||||.+.+++.....++  ..+..+++... ....+-++..++.++.+.
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTCEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEeecccccchhHHHHHHhhhcCccc
Confidence            34677999999999999988888877664432  34666766432 234556777777777654

>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=96.77  E-value=0.00034  Score=56.65  Aligned_cols=27  Identities=22%  Similarity=0.250  Sum_probs=23.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ..+|.++|++|+||||+|+.+......
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468889999999999999999987653

>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=96.77  E-value=0.0027  Score=51.97  Aligned_cols=61  Identities=18%  Similarity=0.257  Sum_probs=36.7

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCc-CCHHHHHHHHHHHhCCCc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQI-QDIRKIQGEFADKLGLTL  234 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~-~~~~~~~~~i~~~l~~~~  234 (395)
                      ...+.||.++|+.|+||||.+.+++.....+. . .+..+++... ....+-++..++.++.+.
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g-~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYKKKG-F-KVGLVGADVYRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHHHTT-C-CEEEEECCCSSHHHHHHHHHHHHHHTCCE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC-C-ceEEEEeeccccchhHHHHHhccccCcce
Confidence            34678999999999999988777776655432 2 3666766432 234455666666666553

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.73  E-value=0.00064  Score=58.15  Aligned_cols=28  Identities=21%  Similarity=0.301  Sum_probs=24.5

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ..++.|.++|++|+||||||+.+++...
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3467788999999999999999998765

>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=96.73  E-value=0.00046  Score=55.30  Aligned_cols=26  Identities=19%  Similarity=0.357  Sum_probs=23.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++|+|.|+.|+||||+++.+.+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999987654

>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=96.72  E-value=0.00038  Score=54.81  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|+|++|+||||+++.++....
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhC
Confidence            377889999999999999999874

>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=96.72  E-value=0.00046  Score=56.68  Aligned_cols=27  Identities=22%  Similarity=0.354  Sum_probs=23.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +.+|.++|.+|+||||+|+++......
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            467999999999999999999976543

>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=96.69  E-value=0.00041  Score=54.86  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=20.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.++|++|+||||+++.+++...
T Consensus         4 IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            55669999999999999998875

>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=96.63  E-value=0.00047  Score=54.74  Aligned_cols=24  Identities=33%  Similarity=0.450  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.++|++|+||||+++.+++...
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            467889999999999999998865

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.60  E-value=0.00066  Score=53.79  Aligned_cols=26  Identities=35%  Similarity=0.450  Sum_probs=22.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +-++|.|.|++|+||||+|+.+.+..
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999997643

>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=96.56  E-value=0.0037  Score=54.54  Aligned_cols=71  Identities=13%  Similarity=0.211  Sum_probs=42.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhhHHHHHHHHhcCCe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGRARSLCNRLKKEKR  255 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  255 (395)
                      .++.++|++|+|||.||+.++.....+..|-   -+..+.-.+              ... ......+..+.+...+  +
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~~---~~~~~~~~~--------------~~~-G~~e~~~~~~f~~a~~--~  183 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYA---TVRFGEPLS--------------GYN-TDFNVFVDDIARAMLQ--H  183 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCCE---EEEBSCSST--------------TCB-CCHHHHHHHHHHHHHH--C
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCeE---EEEhhHhhh--------------ccc-chHHHHHHHHHHHHhh--c
Confidence            4566689999999999999999865332331   233333221              011 1122234455555542  5


Q ss_pred             EEEEEeCCCCc
Q 047930          256 ILVILDNIWEN  266 (395)
Q Consensus       256 ~LlVlDdv~~~  266 (395)
                      ++|++|+++..
T Consensus       184 ~ilf~DEid~~  194 (321)
T d1w44a_         184 RVIVIDSLKNV  194 (321)
T ss_dssp             SEEEEECCTTT
T ss_pred             cEEEeehhhhh
Confidence            79999999754

>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=96.54  E-value=0.00066  Score=54.02  Aligned_cols=23  Identities=39%  Similarity=0.590  Sum_probs=21.0

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.|+|+.|+|||||++.+.....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCC
Confidence            78999999999999999998754

>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=96.53  E-value=0.0015  Score=56.14  Aligned_cols=40  Identities=28%  Similarity=0.563  Sum_probs=32.6

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      +..+.+.+..+..++|.+.|-||+||||++.++......+
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~   47 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADM   47 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            5566677778889999999999999999988887765443

>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=96.49  E-value=0.0045  Score=52.62  Aligned_cols=88  Identities=18%  Similarity=0.352  Sum_probs=56.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC-CHHHHHHHHHHHhCCC----c---------cccchhh-
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ-DIRKIQGEFADKLGLT----L---------HEETESG-  241 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~-~~~~~~~~i~~~l~~~----~---------~~~~~~~-  241 (395)
                      -++|.|..|+|||+|+..+.++... .+-+.++++-+.+.. ...++.+++.+.--..    .         ...+... 
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~~~~-~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r  148 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGAR  148 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHh-hCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHHHH
Confidence            3889999999999999999887432 234567888887654 4566777776642110    0         0011111 


Q ss_pred             -----hHHHHHHHHh--cCCeEEEEEeCCCC
Q 047930          242 -----RARSLCNRLK--KEKRILVILDNIWE  265 (395)
Q Consensus       242 -----~~~~l~~~l~--~~kr~LlVlDdv~~  265 (395)
                           ..-.+.+++.  +++..|+++||+..
T Consensus       149 ~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         149 ARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             HHHHHHHHHHHHHHHhcCCCeEEEEEcchhH
Confidence                 1224556664  38999999999843

>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=96.48  E-value=0.00084  Score=54.38  Aligned_cols=26  Identities=23%  Similarity=0.229  Sum_probs=23.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.+|.|.|++|+||||+|+.+++...
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998653

>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=96.46  E-value=0.0046  Score=53.63  Aligned_cols=46  Identities=15%  Similarity=0.128  Sum_probs=31.1

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD  218 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~  218 (395)
                      ..+-+|+|.|.+|+||||+|+.+.........-..+.-++...-+-
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~~  123 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFLH  123 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBC
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeEC
Confidence            4567999999999999999999988764321112244455544433

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.46  E-value=0.00097  Score=58.49  Aligned_cols=45  Identities=22%  Similarity=0.321  Sum_probs=32.4

Q ss_pred             hhchHHHHHHHHHHhc--------------CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          156 FESRMSTLNDILDALK--------------NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~--------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ++|.++.++.+...+.              ....+.+.++||+|+|||.||+.+++...
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            4577766666654331              11346778999999999999999998753

>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=96.46  E-value=0.00083  Score=55.57  Aligned_cols=42  Identities=29%  Similarity=0.313  Sum_probs=32.2

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .+||+|-|++|+||||+|+.+.++..    |.+         .+..+++++++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g----l~~---------iStGdLlR~~a~~   44 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ----WHL---------LDSGAIYRVLALA   44 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT----CEE---------EEHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC----CcE---------ECHHHHHHHHHHH
Confidence            46999999999999999999999875    221         1456777776543

>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=96.41  E-value=0.0011  Score=53.17  Aligned_cols=26  Identities=27%  Similarity=0.445  Sum_probs=23.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      ++|.|.|+.|+||||+++.+......
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            67899999999999999999988754

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.37  E-value=0.001  Score=53.65  Aligned_cols=27  Identities=26%  Similarity=0.194  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ++..|.|.|++|+||||+|+.+.+...
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            345688999999999999999988764

>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=96.30  E-value=0.0013  Score=54.20  Aligned_cols=26  Identities=15%  Similarity=0.331  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +-+|+|.|..|+||||+|+.+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45899999999999999999988754

>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=96.29  E-value=0.0037  Score=54.92  Aligned_cols=62  Identities=29%  Similarity=0.302  Sum_probs=34.8

Q ss_pred             HHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHH
Q 047930          164 NDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGE  225 (395)
Q Consensus       164 ~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~  225 (395)
                      .++++.+.  .++..+|+|.|++|+|||||...+......+.+=-+++=+..+.+++-..++.+
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-----------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccc
Confidence            34444443  567899999999999999999999877665433223444444444444444443

>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=96.28  E-value=0.0036  Score=54.89  Aligned_cols=55  Identities=24%  Similarity=0.322  Sum_probs=37.3

Q ss_pred             HHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcC
Q 047930          163 LNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQ  217 (395)
Q Consensus       163 ~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~  217 (395)
                      ..++++.+.  ..+..+|+|.|++|+|||||...+......+.+=-.++=+..+.++
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGS
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHH
Confidence            344555443  5678899999999999999999999775543322334555444444

>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=96.26  E-value=0.008  Score=49.93  Aligned_cols=89  Identities=11%  Similarity=0.222  Sum_probs=50.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCcCCHHHHHHHHHHHhCCCccc-------------c
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKL----FDQVIFVEVSQIQDIRKIQGEFADKLGLTLHE-------------E  237 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~-------------~  237 (395)
                      -+++.|.|.+|+|||||+.++.........    -..++|++....+..... ......++.....             .
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  112 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGG-HHHHHHTCCCHHHHGGGEEEEECCSTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHH-HHHHHhcCCchhhhhcceEEEeccchh
Confidence            468999999999999999998765432211    245788887766654332 2233333322110             0


Q ss_pred             chhhhHHHHHHHHhcCCeEEEEEeCCC
Q 047930          238 TESGRARSLCNRLKKEKRILVILDNIW  264 (395)
Q Consensus       238 ~~~~~~~~l~~~l~~~kr~LlVlDdv~  264 (395)
                      ........+...+......++++|.+-
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~ds~~  139 (251)
T d1szpa2         113 HQLRLLDAAAQMMSESRFSLIVVDSVM  139 (251)
T ss_dssp             THHHHHHHTHHHHHHSCEEEEEEETGG
T ss_pred             HHHHHHHHHHHHhhccccceeeehhhh
Confidence            111122333444444667788888773

>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=96.16  E-value=0.0017  Score=52.59  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.++|.|.|++|+||||+|+.+.+..
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998864

>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=96.15  E-value=0.0025  Score=52.28  Aligned_cols=29  Identities=28%  Similarity=0.370  Sum_probs=25.0

Q ss_pred             cCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          171 KNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       171 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+..+|.+.|++|+||||||+.+....
T Consensus        20 ~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          20 RNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34567799999999999999999998764

>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=96.13  E-value=0.0016  Score=52.07  Aligned_cols=24  Identities=17%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++|.|+|++|+|||||++.+.++.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            478899999999999999998764

>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=96.12  E-value=0.0018  Score=55.30  Aligned_cols=36  Identities=28%  Similarity=0.493  Sum_probs=27.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEV  213 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~  213 (395)
                      +.|+|+|-||+||||+|.++.......+ + .++-+.+
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G-~-rVllID~   37 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG-K-TIMVVGC   37 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT-C-CEEEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCC-C-cEEEEec
Confidence            6799999999999999999988876442 2 3555555

>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=96.09  E-value=0.0013  Score=58.24  Aligned_cols=47  Identities=19%  Similarity=0.291  Sum_probs=34.3

Q ss_pred             ccccchhchHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHH
Q 047930          151 KDYEAFESRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       151 ~~~~~~~gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+...++|.+..+..|.-.....+.+.+.+.|.+|+||||||+.+..
T Consensus         4 ~~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           4 FPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             CChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            34567889987766554333333345688999999999999999875

>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=96.09  E-value=0.0015  Score=52.83  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|+|+|++|+|||||++.+.+...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            377999999999999999988754

>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=96.07  E-value=0.0017  Score=51.84  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            377999999999999999988763

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.06  E-value=0.0042  Score=53.57  Aligned_cols=41  Identities=24%  Similarity=0.344  Sum_probs=29.8

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      ++.+++|.+.|-||+||||++..++.....+++  .+.-|...
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~--rVLlvD~D   45 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLAEQGK--RVLLVSTD   45 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEECC
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHHHCCC--CEEEEeCC
Confidence            456789999999999999999988877654321  24455543

>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=96.03  E-value=0.0017  Score=52.27  Aligned_cols=25  Identities=32%  Similarity=0.381  Sum_probs=21.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.|.|+|++|+|||||++.+.+...
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            3478999999999999999988754

>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=96.02  E-value=0.0019  Score=53.31  Aligned_cols=41  Identities=22%  Similarity=0.233  Sum_probs=30.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      -+|+|-|++|+||||+|+.+..+....       ++      +..++++.++..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg~~-------~i------stGdl~R~~a~~   44 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFGFT-------YL------DTGAMYRAATYM   44 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCCE-------EE------EHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCc-------EE------CHHHHHHHHHHH
Confidence            368899999999999999999887521       12      456677776544

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.96  E-value=0.002  Score=51.45  Aligned_cols=24  Identities=33%  Similarity=0.337  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            477899999999999999998764

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=95.91  E-value=0.0021  Score=51.31  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            477999999999999999998764

>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=95.91  E-value=0.0048  Score=52.74  Aligned_cols=96  Identities=20%  Similarity=0.203  Sum_probs=51.2

Q ss_pred             HHHHHhcC-CCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEE-EeCCcCCHHHHHHHHHHHhCCC-----cccc
Q 047930          165 DILDALKN-PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFV-EVSQIQDIRKIQGEFADKLGLT-----LHEE  237 (395)
Q Consensus       165 ~l~~~l~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv-~~s~~~~~~~~~~~i~~~l~~~-----~~~~  237 (395)
                      ++++.+.. ..-.-++|.|..|+|||+|+.++.+....+ +-++++.+ .+....  +++ .++.......     .+..
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~-~~~~v~~~~~iger~--~ev-~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN-HPDCVLMVLLIDERP--EEV-TEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHH-CTTSEEEEEEEEECH--HHH-HHHHHHCSSEEEEEETTSC
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhc-CCCeEEEEEeeceeH--HHH-HhHHhhcceEEEeccCCCc
Confidence            45666551 222358899999999999999999876543 23333333 333221  221 2222222110     0111


Q ss_pred             chh-----hhHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          238 TES-----GRARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       238 ~~~-----~~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                      ...     ...-.+.+++. +++.+||++||+-
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dslt  140 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSIT  140 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCceeecCcHH
Confidence            100     12234445553 5899999999984

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.90  E-value=0.0024  Score=50.91  Aligned_cols=25  Identities=20%  Similarity=0.434  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.|.|+|++|+|||||++.+..+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCC
Confidence            5788999999999999999987643

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.88  E-value=0.0094  Score=50.99  Aligned_cols=80  Identities=9%  Similarity=0.018  Sum_probs=46.0

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhcccCCC-CEEEEEEeCCcCCHHHHHHHHHHHhCC-------CccccchhhhHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENEKLF-DQVIFVEVSQIQDIRKIQGEFADKLGL-------TLHEETESGRAR  244 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f-~~~~wv~~s~~~~~~~~~~~i~~~l~~-------~~~~~~~~~~~~  244 (395)
                      ..+-+|+|.|..|+|||||+..+......+..+ ..++-++...-+-..+-...+.+....       ..+..-+...+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~  104 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQ  104 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHH
Confidence            345689999999999999999887664332112 235556655544333333444444321       112333445566


Q ss_pred             HHHHHHhc
Q 047930          245 SLCNRLKK  252 (395)
Q Consensus       245 ~l~~~l~~  252 (395)
                      ...+.|.+
T Consensus       105 ~~l~~l~~  112 (286)
T d1odfa_         105 EVLNTIFN  112 (286)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHHh
Confidence            66666654

>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=95.87  E-value=0.0029  Score=50.95  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..-|.|.|++|+||||+|+.+....
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3456788999999999999999865

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=95.77  E-value=0.003  Score=50.85  Aligned_cols=23  Identities=35%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             CceEEEEEecCCCcHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVA  196 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~  196 (395)
                      ++-+|+|+|..|+||||+|..+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            46789999999999999999774

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=95.67  E-value=0.0043  Score=55.30  Aligned_cols=52  Identities=15%  Similarity=0.045  Sum_probs=31.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCcCCHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE-KLFDQVIFVEVSQIQDIRKIQGEF  226 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~f~~~~wv~~s~~~~~~~~~~~i  226 (395)
                      .++..|.|++|+||||++..+....... ..-...+.++.+.......+...+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            3588899999999999987665443211 112235666665554444444443

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.66  E-value=0.0031  Score=50.24  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=20.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+|+.+.+...
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            355789999999999999998753

>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=95.64  E-value=0.0033  Score=49.95  Aligned_cols=24  Identities=25%  Similarity=0.171  Sum_probs=20.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|++|+||||+|+.+++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            367899999999999999998754

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.51  E-value=0.019  Score=47.86  Aligned_cols=55  Identities=25%  Similarity=0.326  Sum_probs=38.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCcCCHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIFVEVSQIQDIRKIQGEFADKL  230 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~s~~~~~~~~~~~i~~~l  230 (395)
                      -+++.|.|++|+||||++.++..+...+    ......+|+......+...+ +......
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~   94 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNR   94 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH-HHHHHhc
Confidence            4689999999999999999998765322    12356788888777665443 3444333

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.50  E-value=0.0028  Score=51.22  Aligned_cols=27  Identities=26%  Similarity=0.175  Sum_probs=23.1

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .++.+|+|-|..|+||||+++.+.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            456689999999999999999987654

>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=95.49  E-value=0.0044  Score=53.44  Aligned_cols=37  Identities=30%  Similarity=0.485  Sum_probs=27.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      +.|+|.|-||+||||++.++.......+ + .++-+.+.
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G-~-rVLlID~D   39 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMG-K-KVMIVGCD   39 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT-C-CEEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCC-C-CEEEEecC
Confidence            5688999999999999999887655432 2 25555553

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.49  E-value=0.0049  Score=49.46  Aligned_cols=26  Identities=31%  Similarity=0.400  Sum_probs=21.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.++| |.|++|+||||+|+.+.+...
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHHT
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHhC
Confidence            34555 789999999999999997653

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.44  E-value=0.0049  Score=50.28  Aligned_cols=25  Identities=16%  Similarity=0.328  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+|.|+|++|+|||||.+.+.....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5788999999999999999988643

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.27  E-value=0.006  Score=50.76  Aligned_cols=24  Identities=42%  Similarity=0.552  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      ||+|.|+.|+|||||...+.+...
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            789999999999999999987654

>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=95.27  E-value=0.027  Score=47.70  Aligned_cols=85  Identities=18%  Similarity=0.259  Sum_probs=49.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCC-HHHHHHHHHHHhCC--------Cccccchh-----hhH
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQD-IRKIQGEFADKLGL--------TLHEETES-----GRA  243 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~-~~~~~~~i~~~l~~--------~~~~~~~~-----~~~  243 (395)
                      ++|.|..|+|||+|+........  .+-+.++++.+..... ..++..++...-..        ..++....     ...
T Consensus        70 ~~Ifg~~g~GKt~l~~~~~~~~~--~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~a  147 (276)
T d1fx0a3          70 ELIIGDRQTGKTAVATDTILNQQ--GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTG  147 (276)
T ss_dssp             CBEEESSSSSHHHHHHHHHHTCC--TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHH
T ss_pred             EeeccCCCCChHHHHHHHHhhhc--ccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHHHH
Confidence            77899999999999998665543  2345677887766532 33344433322100        00111111     122


Q ss_pred             HHHHHHHh-cCCeEEEEEeCCC
Q 047930          244 RSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       244 ~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                      -.+.+++. ++++.|+++||+.
T Consensus       148 ~tiAEyfrd~G~~Vlll~Dslt  169 (276)
T d1fx0a3         148 AALAEYFMYRERHTLIIYDDLS  169 (276)
T ss_dssp             HHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHcCCceeEEeeccH
Confidence            34445553 4799999999984

>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=95.27  E-value=0.0041  Score=51.55  Aligned_cols=23  Identities=26%  Similarity=0.446  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCcchhhHhccCC
Confidence            47999999999999999988753

>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=95.26  E-value=0.015  Score=48.25  Aligned_cols=165  Identities=22%  Similarity=0.230  Sum_probs=79.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhc--cc-----------CCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccch
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAE--NE-----------KLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETE  239 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~-----------~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~  239 (395)
                      ++.+++.|.|+.+.||||+.+.+.-..-  .-           ..|+. ++..+....++..-..             .-
T Consensus        39 ~~~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~-I~~~~~~~d~~~~~~S-------------~F  104 (234)
T d1wb9a2          39 PQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDR-IFTRVGAADDLASGRS-------------TF  104 (234)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCE-EEEEEC------------------------C
T ss_pred             CCceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchh-heeEEccCcccccchh-------------HH
Confidence            3457889999999999999999876421  11           12332 3333433322221111             11


Q ss_pred             hhhHHHHHHHHh-cCCeEEEEEeCCCCcccc-c------hhccccCCCCCCcEEEEeecchhhhh--hcCCCcceeecCC
Q 047930          240 SGRARSLCNRLK-KEKRILVILDNIWENLDF-Q------AVGIPHGDGHKGSKVLLTARSLDVLS--RKMDSQQNFSFDV  309 (395)
Q Consensus       240 ~~~~~~l~~~l~-~~kr~LlVlDdv~~~~~~-~------~l~~~l~~~~~gs~iivTtR~~~va~--~~~~~~~~~~l~~  309 (395)
                      ...+.++.+.+. ..++.|+++|++-.-..- +      .+...+ ....++.+|+||....+..  ........+.+..
T Consensus       105 ~~E~~~~~~il~~~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l-~~~~~~~~i~tTH~~~l~~~~~~~~~v~~~~~~~  183 (234)
T d1wb9a2         105 MVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENL-ANKIKALTLFATHYFELTQLPEKMEGVANVHLDA  183 (234)
T ss_dssp             HHHHHHHHHHHHHCCTTEEEEEESCCCCSSSSHHHHHHHHHHHHH-HHTTCCEEEEECSCGGGGGHHHHSTTEEEEEEEE
T ss_pred             HHHHHHHHHHHHhcccccEEeecccccCCChhhhhHHHHHhhhhh-hccccceEEEecchHHHhhhhhcccceEEEEEEE
Confidence            112223333332 356889999999643211 1      111122 1234678999998765542  1122333445544


Q ss_pred             CChHHHHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          310 LKEDEAWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       310 L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      ..+++...+. .++....+..   ..|-++++++ |+|-.+..-|..+
T Consensus       184 ~~~~~~i~f~-YkL~~G~~~~---s~ai~iA~~~-Glp~~ii~~A~~i  226 (234)
T d1wb9a2         184 LEHGDTIAFM-HSVQDGAASK---SYGLAVAALA-GVPKEVIKRARQK  226 (234)
T ss_dssp             EEETTEEEEE-EEEEESCCSS---CCHHHHHHHT-TCCHHHHHHHHHH
T ss_pred             eeccCcceEE-EEecCCCCCC---cHHHHHHHHh-CcCHHHHHHHHHH
Confidence            4443322111 1111111111   1466788777 5888776666443

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.24  E-value=0.005  Score=51.02  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+.--
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            47999999999999999998753

>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=95.24  E-value=0.005  Score=51.30  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.++--
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            47999999999999999999754

>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=95.20  E-value=0.0057  Score=47.12  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999988764

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.20  E-value=0.014  Score=47.52  Aligned_cols=27  Identities=15%  Similarity=0.288  Sum_probs=23.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ..|+|.|+-|+||||+++.+.+....+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            578899999999999999999887654

>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=95.19  E-value=0.0045  Score=51.57  Aligned_cols=24  Identities=33%  Similarity=0.553  Sum_probs=21.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||++.++--.
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCc
Confidence            579999999999999999997543

>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=95.17  E-value=0.0068  Score=50.51  Aligned_cols=27  Identities=26%  Similarity=0.309  Sum_probs=24.0

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +++.|+|-|.-|+||||+++.+.+...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            467899999999999999999998754

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.07  E-value=0.0044  Score=50.34  Aligned_cols=24  Identities=42%  Similarity=0.598  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||.+.++.-.
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhccc
Confidence            479999999999999999998643

>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=95.06  E-value=0.0061  Score=50.70  Aligned_cols=23  Identities=35%  Similarity=0.458  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||.+.+.--
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHHcC
Confidence            47999999999999999998764

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.99  E-value=0.0066  Score=50.46  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||.+.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            378899999999999999998654

>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=94.99  E-value=0.055  Score=44.54  Aligned_cols=56  Identities=14%  Similarity=0.220  Sum_probs=36.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC--------------CCCEEEEEEeCCcCCHHHHHHHHHHHhC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK--------------LFDQVIFVEVSQIQDIRKIQGEFADKLG  231 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------~f~~~~wv~~s~~~~~~~~~~~i~~~l~  231 (395)
                      -.++.|.|.+|+|||+++.+++.+.....              ....+.|++........ ....+...+.
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~~  103 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHAG  103 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhcc
Confidence            36889999999999999999987653221              12246788776555433 3444444443

>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=94.94  E-value=0.0064  Score=50.78  Aligned_cols=24  Identities=42%  Similarity=0.637  Sum_probs=21.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..++|+|+.|+|||||++.+..-.
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            469999999999999999987643

>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=94.94  E-value=0.0066  Score=51.15  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..++|+|+.|+|||||++.+..-
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCChHHHHHHHHhcc
Confidence            47999999999999999998653

>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=94.88  E-value=0.016  Score=48.49  Aligned_cols=44  Identities=20%  Similarity=0.437  Sum_probs=31.3

Q ss_pred             hhchHHHHHHHHHHhc---CCCceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          156 FESRMSTLNDILDALK---NPDVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       156 ~~gr~~~~~~l~~~l~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |+|....+.++.+.+.   ..+.+ |.|.|..|+|||++|+.++....
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~p-vlI~Ge~GtGK~~~A~~ih~~s~   48 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECP-VLITGESGVGKEVVARLIHKLSD   48 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSC-EEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCC-EEEECCCCcCHHHHHHHHHHhcC
Confidence            5666666666655554   23333 67899999999999999987643

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.85  E-value=0.0069  Score=46.97  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |+|+|.+|+|||||...+.++..
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~~   30 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGEV   30 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            67999999999999999987643

>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=94.80  E-value=0.0073  Score=50.79  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..++|+|+.|+|||||++.+..-
T Consensus        41 e~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcc
Confidence            57999999999999999998754

>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=94.76  E-value=0.0082  Score=51.41  Aligned_cols=25  Identities=36%  Similarity=0.411  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCCC
Confidence            3579999999999999999998643

>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=94.75  E-value=0.0043  Score=53.13  Aligned_cols=27  Identities=15%  Similarity=0.320  Sum_probs=20.5

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.++|+|.|.+|+||||+++.+.+...
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~   29 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFR   29 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHh
Confidence            457999999999999999998877654

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=94.74  E-value=0.0081  Score=50.21  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=20.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -..++|+|+.|+|||||++.+..-
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999998653

>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=94.74  E-value=0.034  Score=45.64  Aligned_cols=161  Identities=22%  Similarity=0.235  Sum_probs=77.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc--cc-----------CCCCEEEEEEeCCcCCHHHHHHHHHHHhCCCccccchhhh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE--NE-----------KLFDQVIFVEVSQIQDIRKIQGEFADKLGLTLHEETESGR  242 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~--~~-----------~~f~~~~wv~~s~~~~~~~~~~~i~~~l~~~~~~~~~~~~  242 (395)
                      +++.|.|+...||||+.+.+.-..-  .-           ..|+. ++..+....++..             ....-...
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~-I~~~~~~~d~~~~-------------~~StF~~e  101 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDG-IYTRIGASDDLAG-------------GKSTFMVE  101 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSE-EEEECCC-------------------CCSHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecce-EEEEECCCccccC-------------CccHHHHh
Confidence            3788999999999999998875421  11           12332 3333333222211             00111112


Q ss_pred             HHHHHHHHh-cCCeEEEEEeCCCCcccc-------chhccccCCCCCCcEEEEeecchhhhhhcCCCcceeecCCCChHH
Q 047930          243 ARSLCNRLK-KEKRILVILDNIWENLDF-------QAVGIPHGDGHKGSKVLLTARSLDVLSRKMDSQQNFSFDVLKEDE  314 (395)
Q Consensus       243 ~~~l~~~l~-~~kr~LlVlDdv~~~~~~-------~~l~~~l~~~~~gs~iivTtR~~~va~~~~~~~~~~~l~~L~~~e  314 (395)
                      +.++.+.+. .+++.|+++|++-....-       ..+...|  ...++.+++||....+..........+++.....++
T Consensus       102 l~~~~~il~~~~~~sLvliDE~~~gT~~~eg~ala~aile~L--~~~~~~~i~tTH~~eL~~l~~~~~~~~~~~~~~~~~  179 (224)
T d1ewqa2         102 MEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEAL--HERRAYTLFATHYFELTALGLPRLKNLHVAAREEAG  179 (224)
T ss_dssp             HHHHHHHHHHCCTTEEEEEESTTTTSCHHHHHHHHHHHHHHH--HHHTCEEEEECCCHHHHTCCCTTEEEEEEEEECCSS
T ss_pred             HHHHHHHhccCCCCcEEeecccccCcchhhhcchHHHHHHHH--hhcCcceEEeeechhhhhhhhcccceEEEEEEEeCC
Confidence            233333333 267899999999654211       1111222  123678899998776643222222233333222222


Q ss_pred             HHHHHHHhhCCCCCCCchHHHHHHHHHHcCCchHHHHHHHHHh
Q 047930          315 AWSLFKKMAGDYIEGSEFKWVAREVAKECAGLPVSIVTVARAL  357 (395)
Q Consensus       315 ~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~GlPlai~~i~~~l  357 (395)
                      ... |..++.......   ..+-++++++ |+|-.+..-|..+
T Consensus       180 ~~~-f~Ykl~~G~~~~---s~ai~iA~~~-Glp~~II~rA~~i  217 (224)
T d1ewqa2         180 GLV-FYHQVLPGPASK---SYGVEVAAMA-GLPKEVVARARAL  217 (224)
T ss_dssp             SCE-EEEEEEESCCSS---CCHHHHHHHT-TCCHHHHHHHHHH
T ss_pred             CeE-EEEEEeeCCCCc---cHHHHHHHHh-CcCHHHHHHHHHH
Confidence            111 111111111111   2467788776 6888877665443

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=94.73  E-value=0.0063  Score=50.26  Aligned_cols=24  Identities=29%  Similarity=0.319  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|+|||||.+.+.--.
T Consensus        27 e~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCc
Confidence            479999999999999999998643

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=94.73  E-value=0.015  Score=45.63  Aligned_cols=34  Identities=21%  Similarity=0.324  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          164 NDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       164 ~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ..+..++.....+ |.|+|.+|+|||||..++...
T Consensus         5 ~~~~~~~~~k~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQEHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSCEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3455555555554 669999999999999998764

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.69  E-value=0.008  Score=50.73  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+.--
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcC
Confidence            57999999999999999999753

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.69  E-value=0.01  Score=47.64  Aligned_cols=26  Identities=12%  Similarity=0.374  Sum_probs=22.3

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ++.+.|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            44567999999999999999999753

>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=94.67  E-value=0.03  Score=45.34  Aligned_cols=51  Identities=20%  Similarity=0.251  Sum_probs=32.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFA  227 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~  227 (395)
                      +.|+|-|+-|+||||+++.+.+.....+ +..+.+..-+......+.+++..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~g-~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQLG-IRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhCC-CCeEEEecCCCCccchhhhHHHH
Confidence            4688999999999999999998765432 33344433222223334444443

>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=94.60  E-value=0.014  Score=45.84  Aligned_cols=25  Identities=28%  Similarity=0.376  Sum_probs=20.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +..-|.++|.+|+|||||...+...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3345779999999999999988543

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.56  E-value=0.0091  Score=46.45  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999998763

>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=94.55  E-value=0.036  Score=45.38  Aligned_cols=40  Identities=20%  Similarity=0.173  Sum_probs=26.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQ  215 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~  215 (395)
                      -.++.|.|.+|+|||+++.++......+. -..++|++...
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~~~~~~~-~~~~~~~s~e~   65 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLYNGIIEF-DEPGVFVTFEE   65 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHH-CCCEEEEESSS
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCcccccccC
Confidence            46788999999999999988654322211 12356666543

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.53  E-value=0.0091  Score=46.97  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||+..+.++.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            6789999999999999988653

>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=94.52  E-value=0.034  Score=45.35  Aligned_cols=26  Identities=27%  Similarity=0.331  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      -+.|+|-|+-|+||||+++.+.+...
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            36799999999999999999998765

>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=94.50  E-value=0.022  Score=50.56  Aligned_cols=30  Identities=27%  Similarity=0.172  Sum_probs=25.8

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+..+.+.++|++|+|||++|..+++....
T Consensus       151 ~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         151 IPKKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCCcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            355678999999999999999999998753

>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=94.48  E-value=0.019  Score=46.39  Aligned_cols=26  Identities=27%  Similarity=0.506  Sum_probs=22.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      .|+|-|.-|+||||+++.+.+....+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58899999999999999999876543

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.47  E-value=0.0098  Score=46.39  Aligned_cols=22  Identities=32%  Similarity=0.431  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||+..+.++.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988753

>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=94.46  E-value=0.018  Score=47.33  Aligned_cols=37  Identities=24%  Similarity=0.380  Sum_probs=28.5

Q ss_pred             eEEEEE-ecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          176 NMLGIY-GMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       176 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      ++|+|+ |-||+||||+|..++.....+  -..++.+...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~--g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQL--GHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHT--TCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhC--CCCEEEEeCC
Confidence            678888 789999999999998876643  2347777654

>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=94.45  E-value=0.041  Score=45.61  Aligned_cols=47  Identities=17%  Similarity=0.212  Sum_probs=35.1

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCcCCHH
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENE----KLFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~f~~~~wv~~s~~~~~~  220 (395)
                      .-.++.|.|.+|+|||++|.++.......    ..+..+.|+.....+...
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            34689999999999999999998764321    235668888877766543

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.43  E-value=0.012  Score=45.82  Aligned_cols=22  Identities=18%  Similarity=0.501  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6699999999999999988653

>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=94.40  E-value=0.06  Score=43.24  Aligned_cols=46  Identities=11%  Similarity=0.138  Sum_probs=31.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCcCCHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAENEK----LFDQVIFVEVSQIQDIR  220 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~----~f~~~~wv~~s~~~~~~  220 (395)
                      -.++.|.|++|+|||+|+.+++.+.....    .+....++.........
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHH
Confidence            36889999999999999999987644322    12345555555554443

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.34  E-value=0.011  Score=46.27  Aligned_cols=22  Identities=27%  Similarity=0.533  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||+..+.+..
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999998753

>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=94.33  E-value=0.013  Score=45.80  Aligned_cols=22  Identities=36%  Similarity=0.678  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5689999999999999998764

>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=94.32  E-value=0.0069  Score=50.43  Aligned_cols=23  Identities=39%  Similarity=0.590  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+++|+|+.|+|||||++.+..-
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcC
Confidence            57999999999999999999864

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.30  E-value=0.012  Score=45.76  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||+..+.++.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988754

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.28  E-value=0.011  Score=46.17  Aligned_cols=21  Identities=29%  Similarity=0.370  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999998765

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.28  E-value=0.011  Score=46.01  Aligned_cols=22  Identities=27%  Similarity=0.593  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.++.
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999998764

>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=94.25  E-value=0.044  Score=42.07  Aligned_cols=30  Identities=27%  Similarity=0.326  Sum_probs=25.4

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHHhccc
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARKAENE  202 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  202 (395)
                      ....+|.+.|.=|+||||+++.+++....+
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            344589999999999999999999987654

>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=94.24  E-value=0.014  Score=45.55  Aligned_cols=22  Identities=18%  Similarity=0.438  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||...+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6689999999999999998764

>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=94.23  E-value=0.012  Score=45.97  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||+..+.++.
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988653

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.17  E-value=0.011  Score=46.33  Aligned_cols=22  Identities=27%  Similarity=0.762  Sum_probs=19.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||...+.++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5689999999999999988753

>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=94.16  E-value=0.013  Score=46.07  Aligned_cols=23  Identities=30%  Similarity=0.515  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999988753

>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=94.15  E-value=0.015  Score=45.20  Aligned_cols=23  Identities=22%  Similarity=0.452  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|..|+|||||+..+.+..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999987653

>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=94.13  E-value=0.022  Score=50.62  Aligned_cols=26  Identities=27%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ....+..+|+.|+|||-||+.++...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            45668899999999999999998764

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.11  E-value=0.015  Score=45.44  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|..|+|||||+..+.+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999998654

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.10  E-value=0.0073  Score=50.19  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=22.3

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -+.|+|-|+-|+||||+++.+.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999988764

>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=94.09  E-value=0.013  Score=48.21  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+|..|.|+-|+|||||.+++....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            46889999999999999999998753

>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=94.07  E-value=0.014  Score=45.46  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988753

>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=94.07  E-value=0.016  Score=45.33  Aligned_cols=22  Identities=32%  Similarity=0.560  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||...+.++.
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999988753

>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=94.06  E-value=0.013  Score=45.50  Aligned_cols=21  Identities=33%  Similarity=0.509  Sum_probs=18.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.|+|.+|+|||||...+...
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            679999999999999998654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.01  E-value=0.016  Score=45.43  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |+|+|.+|+|||||...+.++.
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            6799999999999999987643

>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=94.01  E-value=0.014  Score=48.62  Aligned_cols=24  Identities=29%  Similarity=0.459  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|.|||||.+.+.--.
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            479999999999999999997643

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.99  E-value=0.016  Score=46.75  Aligned_cols=23  Identities=26%  Similarity=0.237  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999999865

>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=93.98  E-value=0.014  Score=48.48  Aligned_cols=25  Identities=28%  Similarity=0.462  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -.+++|+|+.|.|||||.+.+..-.
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999987643

>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=93.96  E-value=0.11  Score=44.10  Aligned_cols=88  Identities=17%  Similarity=0.204  Sum_probs=48.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhccc-----CC-CCEEEEEEeCCcCC-HHHHHHHHHHHhCCC--------ccccchhh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAENE-----KL-FDQVIFVEVSQIQD-IRKIQGEFADKLGLT--------LHEETESG  241 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~~~-----~~-f~~~~wv~~s~~~~-~~~~~~~i~~~l~~~--------~~~~~~~~  241 (395)
                      -++|.|.+|+|||+|+..+.......     .. =..++++-+..... ..++...+...-...        .++.....
T Consensus        70 r~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~r  149 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQ  149 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHHHH
Confidence            37889999999999998887653211     11 12356666665443 345555544332111        01111110


Q ss_pred             -----hHHHHHHHHh-cCCeEEEEEeCCC
Q 047930          242 -----RARSLCNRLK-KEKRILVILDNIW  264 (395)
Q Consensus       242 -----~~~~l~~~l~-~~kr~LlVlDdv~  264 (395)
                           ..-.+.+++. ++++.|+++||+.
T Consensus       150 ~~~~~~a~tiAEyfrd~G~~VLll~Dslt  178 (285)
T d2jdia3         150 YLAPYSGCSMGEYFRDNGKHALIIYDDLS  178 (285)
T ss_dssp             HHHHHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEEcChH
Confidence                 1123344442 4899999999984

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.94  E-value=0.015  Score=45.60  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+..+.
T Consensus         8 I~lvG~~~vGKTsll~~~~~~~   29 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEKK   29 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999987653

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.93  E-value=0.015  Score=45.78  Aligned_cols=22  Identities=36%  Similarity=0.391  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||+..+.+..
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5688999999999999988764

>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=93.92  E-value=0.017  Score=46.00  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHhc
Q 047930          178 LGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      |.++|.+|+|||+|..++..+..
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~~   27 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIHE   27 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhCCC
Confidence            56899999999999999876543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.91  E-value=0.016  Score=44.37  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -|+++|.+|+|||||+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998765

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.91  E-value=0.015  Score=45.33  Aligned_cols=22  Identities=32%  Similarity=0.631  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|..|+|||+|+..+....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6789999999999999988764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.87  E-value=0.016  Score=45.11  Aligned_cols=22  Identities=32%  Similarity=0.659  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.++.
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999998754

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.83  E-value=0.018  Score=46.55  Aligned_cols=24  Identities=21%  Similarity=0.184  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.|+|+|.+|+|||||...+....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.82  E-value=0.015  Score=45.35  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.++|.+|+|||||+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999988654

>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=93.79  E-value=0.016  Score=45.58  Aligned_cols=21  Identities=29%  Similarity=0.566  Sum_probs=19.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.|+|..|+|||||+..+.++
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999998775

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.77  E-value=0.018  Score=44.94  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=19.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .|+|+|..|+|||||...+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999998743

>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=93.77  E-value=0.019  Score=45.98  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||||+..+.+..
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHhhCC
Confidence            6799999999999999998754

>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=93.74  E-value=0.017  Score=45.14  Aligned_cols=22  Identities=18%  Similarity=0.406  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|..|+|||||+..+.+..
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999988764

>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=93.74  E-value=0.015  Score=48.96  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+++|+|+.|.|||||++.+.--.
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCC
Confidence            479999999999999999998654

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=93.71  E-value=0.017  Score=46.77  Aligned_cols=21  Identities=38%  Similarity=0.517  Sum_probs=18.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVA  196 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~  196 (395)
                      -+|+|+|..|+||||+++.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998663

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=93.71  E-value=0.017  Score=46.92  Aligned_cols=20  Identities=35%  Similarity=0.507  Sum_probs=17.9

Q ss_pred             EEEEEecCCCcHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVA  196 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~  196 (395)
                      +|+|+|..|+||||.++.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.70  E-value=0.017  Score=45.77  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|.+|+|||||..++.++.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37799999999999999988754

>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=93.65  E-value=0.019  Score=45.09  Aligned_cols=24  Identities=25%  Similarity=0.483  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999864

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.65  E-value=0.015  Score=46.12  Aligned_cols=21  Identities=33%  Similarity=0.420  Sum_probs=18.8

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.|+|.+|+|||||+..+.+.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998764

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=93.63  E-value=0.018  Score=45.17  Aligned_cols=22  Identities=36%  Similarity=0.551  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -|.++|.+|+|||||...+...
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4779999999999999988653

>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=93.60  E-value=0.023  Score=46.75  Aligned_cols=37  Identities=27%  Similarity=0.440  Sum_probs=28.0

Q ss_pred             eEEEEE-ecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 047930          176 NMLGIY-GMGGIGKTTLAKEVARKAENEKLFDQVIFVEVS  214 (395)
Q Consensus       176 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s  214 (395)
                      ++|+|+ +-||+||||+|..++......  -..++.+...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~--g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDR--GRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHT--TCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhC--CCCEEEEeCC
Confidence            688899 669999999999998876643  2346666653

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.59  E-value=0.022  Score=45.23  Aligned_cols=22  Identities=36%  Similarity=0.439  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||+|...+.++.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7799999999999999988754

>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=93.57  E-value=0.02  Score=45.01  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .+.|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999865

>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=93.56  E-value=0.011  Score=49.80  Aligned_cols=22  Identities=36%  Similarity=0.591  Sum_probs=19.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      ..++|+|+.|+|||||++.+..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            4789999999999999998864

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=93.52  E-value=0.019  Score=44.48  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||..++....
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            5688999999999999987654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=93.51  E-value=0.015  Score=48.18  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=20.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .+++|+|+.|.|||||.+.+..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4799999999999999998875

>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=93.50  E-value=0.021  Score=44.52  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.|+|.+|+|||+|+.++.+..
T Consensus         9 i~vvG~~~vGKTsli~~~~~~~   30 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDGA   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999987753

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=93.49  E-value=0.023  Score=44.27  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999987654

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.42  E-value=0.024  Score=45.25  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=19.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||+|..++....
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5689999999999999986653

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.42  E-value=0.024  Score=44.23  Aligned_cols=22  Identities=36%  Similarity=0.613  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|..|+|||||+..+.++.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5688999999999999998754

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.41  E-value=0.024  Score=44.69  Aligned_cols=22  Identities=27%  Similarity=0.365  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|..|+|||+|+..+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999998764

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.37  E-value=0.02  Score=45.86  Aligned_cols=18  Identities=33%  Similarity=0.597  Sum_probs=16.9

Q ss_pred             EEEEecCCCcHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEV  195 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v  195 (395)
                      |.++|.+|+|||||+.++
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            669999999999999998

>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=93.29  E-value=0.024  Score=44.90  Aligned_cols=22  Identities=36%  Similarity=0.557  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988753

>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=93.26  E-value=0.023  Score=44.45  Aligned_cols=22  Identities=27%  Similarity=0.554  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.+..
T Consensus         9 I~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7799999999999999887653

>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=93.26  E-value=0.029  Score=43.85  Aligned_cols=26  Identities=23%  Similarity=0.405  Sum_probs=20.7

Q ss_pred             CCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          172 NPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       172 ~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ....+ |.++|.+|+|||||...+.+.
T Consensus        10 ~k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          10 NKEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             TCCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            34455 668999999999999998754

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.20  E-value=0.023  Score=44.68  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||||+..+.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999987654

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.07  E-value=0.026  Score=44.20  Aligned_cols=21  Identities=38%  Similarity=0.509  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.++|.+|+|||||+..+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988753

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.07  E-value=0.029  Score=44.66  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |.++|.+|+|||+|+..+.+..
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6689999999999999988754

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.02  E-value=0.031  Score=46.28  Aligned_cols=24  Identities=21%  Similarity=0.241  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      .+|+|+|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999987653

>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=92.91  E-value=0.047  Score=44.62  Aligned_cols=33  Identities=21%  Similarity=0.529  Sum_probs=24.9

Q ss_pred             HHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          163 LNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       163 ~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ++.|..+|.+   +...++|.+|+|||||...+..+
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcch
Confidence            4556666642   45678999999999999988654

>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=92.83  E-value=0.015  Score=45.48  Aligned_cols=21  Identities=43%  Similarity=0.550  Sum_probs=17.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.++|.+|+|||||+..+.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999987654

>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=92.78  E-value=0.029  Score=44.16  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      -|.++|.+|+|||||+..+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36799999999999999988764

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.75  E-value=0.027  Score=44.32  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999764

>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=92.72  E-value=0.04  Score=44.60  Aligned_cols=28  Identities=18%  Similarity=0.202  Sum_probs=23.7

Q ss_pred             eEEEEEecC-CCcHHHHHHHHHHHhcccC
Q 047930          176 NMLGIYGMG-GIGKTTLAKEVARKAENEK  203 (395)
Q Consensus       176 ~vi~I~G~~-GiGKTtLa~~v~~~~~~~~  203 (395)
                      +.+.|.|-+ |+||||++..++.-...+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G   30 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAG   30 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCC
Confidence            467899998 9999999999998876543

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.71  E-value=0.021  Score=45.00  Aligned_cols=21  Identities=29%  Similarity=0.575  Sum_probs=18.8

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998643

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=92.70  E-value=0.029  Score=51.19  Aligned_cols=27  Identities=30%  Similarity=0.471  Sum_probs=23.4

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      .+.|.++||.|+|||.||+.++....+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~V   75 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLANA   75 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHhCC
Confidence            356889999999999999999987654

>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=92.63  E-value=0.034  Score=45.51  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -|.++|.+|+|||||++++...
T Consensus         8 KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4679999999999999998654

>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=92.62  E-value=0.023  Score=44.80  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=18.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      --|.++|.+|+|||||...+...
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34569999999999999987543

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=92.52  E-value=0.036  Score=42.55  Aligned_cols=21  Identities=29%  Similarity=0.406  Sum_probs=18.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |+++|.+|+|||||...+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998754

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=92.44  E-value=0.025  Score=44.76  Aligned_cols=21  Identities=33%  Similarity=0.577  Sum_probs=18.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      -|+|+|.+++|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998854

>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=92.28  E-value=0.04  Score=43.19  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +-|.|.|.+|+||||+|..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45789999999999999998865

>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=92.26  E-value=0.024  Score=44.59  Aligned_cols=25  Identities=12%  Similarity=0.149  Sum_probs=20.9

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      ++..-|+|+|.+++|||||...+..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456799999999999999988754

>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=92.19  E-value=0.069  Score=45.06  Aligned_cols=52  Identities=12%  Similarity=0.160  Sum_probs=34.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKL  230 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l  230 (395)
                      .++.|.|.+|+||||++.++..+......+ .+++++..  .+..++...++...
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLIGLH   87 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec--cchhhHHhHHHHHh
Confidence            467899999999999999998764332222 35555543  44566666665543

>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=92.11  E-value=0.022  Score=44.56  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=8.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHH
Q 047930          178 LGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~  198 (395)
                      |.|+|.+|+|||||+..+..+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999987754

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=92.00  E-value=0.057  Score=45.46  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .+..|+|.+|+|||||+.+++-...
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4677999999999999999887643

>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=91.84  E-value=0.044  Score=43.00  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=19.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .-+.|.|.+|+||||||..+...
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            34779999999999999998764

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.79  E-value=0.043  Score=43.23  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=19.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      -|+|+|..|+|||||...+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999998764

>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=91.69  E-value=0.054  Score=42.16  Aligned_cols=23  Identities=35%  Similarity=0.416  Sum_probs=19.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHH
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .-+.|.|.+|+||||+|..+...
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            35779999999999999888775

>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=91.58  E-value=0.065  Score=45.32  Aligned_cols=27  Identities=22%  Similarity=0.228  Sum_probs=23.2

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhc
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      +.+.|+|+|.+|.|||||+..+.....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            467899999999999999999876543

>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=91.30  E-value=0.1  Score=43.63  Aligned_cols=36  Identities=25%  Similarity=0.495  Sum_probs=25.9

Q ss_pred             HHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          163 LNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       163 ~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      +.++...+.  ....-.|.|+|..|+|||||...+...
T Consensus        18 l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          18 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            344444443  234456889999999999999999865

>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=90.87  E-value=1.3  Score=35.99  Aligned_cols=71  Identities=21%  Similarity=0.214  Sum_probs=46.4

Q ss_pred             chHHHHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhC
Q 047930          158 SRMSTLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLG  231 (395)
Q Consensus       158 gr~~~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~  231 (395)
                      ......+++.+.+..+......|+|..|+|||-++-......-.. .+.  +-+-++...-..+.+..+.+.+.
T Consensus        59 ~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~-g~q--v~~l~Pt~~La~Q~~~~~~~~~~  129 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDN-HKQ--VAVLVPTTLLAQQHYDNFRDRFA  129 (233)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTT-TCE--EEEECSSHHHHHHHHHHHHHHST
T ss_pred             hHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHc-CCc--eEEEccHHHhHHHHHHHHHHHHh
Confidence            345667788888888888889999999999999998877665432 122  23334443334455555555443

>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=90.15  E-value=0.1  Score=43.89  Aligned_cols=24  Identities=33%  Similarity=0.556  Sum_probs=20.8

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .|.|+|+|..|.|||||+..+...
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHH
Confidence            367999999999999999998543

>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=90.10  E-value=0.078  Score=46.03  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|.|.|..|+||||+++.+.....
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CEEEEeeccccchHHHHHHhhhcc
Confidence            478999999999999999987653

>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=89.81  E-value=0.027  Score=43.22  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHHh
Q 047930          178 LGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       178 i~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      |+++|.+|+|||||+..+....
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998653

>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=89.81  E-value=0.2  Score=42.53  Aligned_cols=53  Identities=15%  Similarity=0.172  Sum_probs=27.3

Q ss_pred             EEEEEecCCCcHHHHHH-HHHHHhcc-cCCCCEEEEEEeCCcCCHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAK-EVARKAEN-EKLFDQVIFVEVSQIQDIRKIQGEFADKL  230 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~-~v~~~~~~-~~~f~~~~wv~~s~~~~~~~~~~~i~~~l  230 (395)
                      .+.|.|.+|+||||.+. .+..-... ...-..++.++.+.. ...++...+....
T Consensus        16 ~~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~tn~-a~~~i~~~~~~~~   70 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNK-AAREMKERVGQTL   70 (306)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSHH-HHHHHHHHHHHHS
T ss_pred             CEEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCcHH-HHHHHHHHHHHhc
Confidence            46788999999997643 33322211 111234666665432 2334444444333

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=89.67  E-value=0.14  Score=40.76  Aligned_cols=37  Identities=24%  Similarity=0.292  Sum_probs=28.4

Q ss_pred             HHHHHHHhc-CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          163 LNDILDALK-NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       163 ~~~l~~~l~-~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +..+..+|. .++...+.++|++++|||++|..+.+-.
T Consensus        40 l~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          40 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            444555554 4566789999999999999999888764

>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=89.46  E-value=0.18  Score=45.11  Aligned_cols=37  Identities=16%  Similarity=0.157  Sum_probs=28.3

Q ss_pred             HHHHHHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          162 TLNDILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       162 ~~~~l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..+.+.. +.....+.|.|.|+.|+||||....+.+..
T Consensus       146 ~~~~l~~-l~~~~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         146 NHDNFRR-LIKRPHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             HHHHHHH-HHTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHH-HHhhhhceEEEEcCCCCCccHHHHHHhhhh
Confidence            3444433 445566899999999999999999998865

>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=89.26  E-value=0.19  Score=43.10  Aligned_cols=52  Identities=15%  Similarity=0.142  Sum_probs=26.9

Q ss_pred             EEEEEecCCCcHHHHHHH-HHHHhccc-CCCCEEEEEEeCCcCCHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKE-VARKAENE-KLFDQVIFVEVSQIQDIRKIQGEFADK  229 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~-v~~~~~~~-~~f~~~~wv~~s~~~~~~~~~~~i~~~  229 (395)
                      .+.|.|.+|+||||.+.+ +..-.... ..-..++.++.+.. ....+...+...
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~~-aa~~~~~~~~~~   79 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNK-AAREMRERVQSL   79 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHH-HHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccHH-HHHHHHHHHHhh
Confidence            366889999999976543 33222111 11234566655432 233444444433

>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=88.75  E-value=0.26  Score=36.32  Aligned_cols=52  Identities=12%  Similarity=0.101  Sum_probs=33.9

Q ss_pred             CceEEEEEecCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCcCCHHHHHHHHHHHhC
Q 047930          174 DVNMLGIYGMGGIGKTTLAKEVARKAENEKLFDQVIFVEVSQIQDIRKIQGEFADKLG  231 (395)
Q Consensus       174 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~f~~~~wv~~s~~~~~~~~~~~i~~~l~  231 (395)
                      +.++..|+++.|+|||+++-.++...      ...+.+.+....-..+..+.+.+.+.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~~------~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAAQ------GYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHTT------TCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHc------CCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            45678899999999999987766432      22455666554445555555555543

>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=88.63  E-value=0.15  Score=41.70  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .++|+|+|-.+.|||||+..+...
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhh
Confidence            357999999999999999988765

>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=88.28  E-value=0.062  Score=44.05  Aligned_cols=22  Identities=23%  Similarity=0.459  Sum_probs=18.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ...++|.+|+|||||...+..+
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4568899999999999988644

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=88.11  E-value=0.16  Score=44.02  Aligned_cols=27  Identities=30%  Similarity=0.409  Sum_probs=22.9

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHHHhcc
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVARKAEN  201 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~~~~~  201 (395)
                      +-.|.|-|.-|+||||+++.+.+....
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhcc
Confidence            346788899999999999999987653

>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=86.91  E-value=0.22  Score=42.05  Aligned_cols=33  Identities=30%  Similarity=0.445  Sum_probs=26.6

Q ss_pred             HHHHhcCCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          166 ILDALKNPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       166 l~~~l~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ++..+ ++.+.||+|+|+-++|||||+..++...
T Consensus        24 ~l~~~-~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          24 ILSAI-TQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             HHHTC-CSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             HHHcC-CCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            44444 4568899999999999999999998643

>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=86.91  E-value=0.18  Score=39.37  Aligned_cols=21  Identities=48%  Similarity=0.638  Sum_probs=19.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .|+|+|..+.|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999874

>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=85.85  E-value=0.17  Score=43.72  Aligned_cols=24  Identities=29%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHHh
Q 047930          176 NMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       176 ~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ..|+|-|.-|+||||+++.+.+..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC--
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHh
Confidence            458899999999999999987654

>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=85.17  E-value=0.51  Score=39.35  Aligned_cols=37  Identities=22%  Similarity=0.266  Sum_probs=28.1

Q ss_pred             HHHHHHHhc--CCCceEEEEEecCCCcHHHHHHHHHHHh
Q 047930          163 LNDILDALK--NPDVNMLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       163 ~~~l~~~l~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      ...+..+|.  .+....+.++|+|+.|||+++..+..-.
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344555664  2456788899999999999999988754

>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=84.97  E-value=0.19  Score=43.54  Aligned_cols=24  Identities=38%  Similarity=0.393  Sum_probs=21.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHhc
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKAE  200 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~~  200 (395)
                      .|+|-|.-|+||||+++.+.+...
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~   30 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFA   30 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            478889999999999999988754

>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=84.46  E-value=0.088  Score=41.63  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=19.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHHh
Q 047930          177 MLGIYGMGGIGKTTLAKEVARKA  199 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~~  199 (395)
                      +.+|+|+.|+||||+...+.--.
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            34578999999999999997543

>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=83.49  E-value=0.4  Score=42.68  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.1

Q ss_pred             ceEEEEEecCCCcHHHHHHHHHH
Q 047930          175 VNMLGIYGMGGIGKTTLAKEVAR  197 (395)
Q Consensus       175 ~~vi~I~G~~GiGKTtLa~~v~~  197 (395)
                      .--|+|+|.+|+|||||...+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            34589999999999999999874

>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=82.92  E-value=0.39  Score=38.28  Aligned_cols=22  Identities=32%  Similarity=0.345  Sum_probs=19.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHH
Q 047930          177 MLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       177 vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      .|+|+|-.+.|||||+.++...
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Confidence            4889999999999999998644

>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=82.84  E-value=0.38  Score=41.74  Aligned_cols=26  Identities=19%  Similarity=0.365  Sum_probs=22.7

Q ss_pred             CCceEEEEEecCCCcHHHHHHHHHHH
Q 047930          173 PDVNMLGIYGMGGIGKTTLAKEVARK  198 (395)
Q Consensus       173 ~~~~vi~I~G~~GiGKTtLa~~v~~~  198 (395)
                      ++.|.|+|+|..|.|||||+..+...
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~~   40 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQR   40 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHHHH
Confidence            46788999999999999999988643