Citrus Sinensis ID: 022155

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300--
Protein Sequence
MGAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVER
Secondary Structure (PSIPRED)
ccccccHHHHHHccccccccccccHHHHHHHccccccccEEEEEcccccHHHHHHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHHccccccccccccEEEEEEccHHHHHHHHHHHHHHHHHcccccccEEEEEEEcccccEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEccccccccccccccccccccccccccccccccccHHHHHHcccEEEEEEEccccHHHHcccccccccccccccccccccEEEEEEEEccccccEEEEEEEEccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHEEccccHHHHHHHccccccccEHHHHccccccccEEEEEEEEEEEccccccccccEEEEEEccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccccEEEEEEEcHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEcEEEEccccccccccEEEEccHHHHHccccccccccEEEEEcccEEEEEEccccccEEEEEEEEEccccccccccccccccEEEEEEcccccccccEEEEEcccccccccc
Coil and Loop (DISEMBL)
mgapmtpqnlldnplttekctvgcpiidrclgggipcnsITELVaesgsgktqFCLQLTlsaqlpsshgglsasslylhtefpfpmrrlhqlshtfrpsndhnpcdyifvQSVHSVDQLLDIMPKIESFIknssnsrlpiRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQvvdlmepnegvnglrvgnlgclyssgrpicpalGIAWANcvnsrlflsrneDFVVRENqmvnggvggsgsedfvCRRTrrslhvvfaphladtscefeitregvfgver
Flexible Loop (DISEMBL)
mgapmtpqnlldnplttEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFiknssnsrlpiRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQmvnggvggsgseDFVCRRTRRSLHVvfaphladtscefeitregvfgver
Low Complexity Region (SEG)
MGAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVER
Disordered region (IsUnstruct)
**************LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL****GGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVF****
Disordered Region (DISOPRED)
*GAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQL**********NPCDYIFVQSVHSVDQLLDIMPKIESFIKN*SNSRLPIRLIVIDSIAALFRSDFDN*****KKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVV****************DFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG***
Disordered Region (DISEMBL)
********NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVER
Disordered Region (DISPRO)
*GAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV*****
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVER
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	302	2.2.26 [Sep-21-2011]
Q9FKM5	304	DNA repair protein XRCC3	yes	no	0.963	0.957	0.582	2e-98
Q9CXE6	349	DNA repair protein XRCC3	yes	no	0.857	0.742	0.341	6e-35
O43542	346	DNA repair protein XRCC3	yes	no	0.847	0.739	0.347	3e-34
Q08DH8	341	DNA repair protein XRCC3	yes	no	0.827	0.733	0.346	4e-34
O35719	350	DNA repair protein RAD51	no	no	0.675	0.582	0.316	1e-23
B1YC14	330	DNA repair and recombinat	yes	no	0.685	0.627	0.3	1e-23
P0CW91	319	DNA repair and recombinat	yes	no	0.807	0.764	0.284	1e-23
P0CW92	319	DNA repair and recombinat	yes	no	0.807	0.764	0.284	2e-23
A3MXX9	332	DNA repair and recombinat	yes	no	0.675	0.614	0.303	3e-23
Q8ZYR9	333	DNA repair and recombinat	yes	no	0.675	0.612	0.303	4e-23

>sp|Q9FKM5|XRCC3_ARATH DNA repair protein XRCC3 homolog OS=Arabidopsis thaliana GN=XRCC3 PE=1 SV=1

 Score =  358 bits (920), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 177/304 (58%), Positives = 226/304 (74%), Gaps = 13/304 (4%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           + P+NLL    T  K T GC I+D CL GGI C+S+TE+VAESG GKTQ CLQL+L  QL
Sbjct: 6   IKPENLLRRSPTNRKLTTGCEILDGCLRGGISCDSLTEIVAESGCGKTQLCLQLSLCTQL 65

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSN-------DHNPCDYIFVQSVHSVD 117
           P SHGGL+ SSLYLH+EFPFP RRLHQLSHTF  SN       + NPCD++FVQ+VHSVD
Sbjct: 66  PISHGGLNGSSLYLHSEFPFPFRRLHQLSHTFHQSNPSIYANYNDNPCDHVFVQNVHSVD 125

Query: 118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGML 177
            L DIMP+I+ F+ NS  +R P++LIV+DS+AALFRS+FDNT  DLKKRS LFFKISG L
Sbjct: 126 HLFDIMPRIDGFVGNS-KTRFPLKLIVLDSVAALFRSEFDNTPSDLKKRSSLFFKISGKL 184

Query: 178 KAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSR 237
           K +A  F LA+++TNQV DL+E ++G++GLR+GNL  LYSSGR + P+LG+AWANCVNSR
Sbjct: 185 KQLASKFDLAIVITNQVTDLVETSDGLSGLRIGNLRYLYSSGRRVVPSLGLAWANCVNSR 244

Query: 238 LFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
            F+SR++  +V++    +     S     V R  +R L +VF+P+L  +SCEF ITREG+
Sbjct: 245 FFISRSDGSIVKDRSEKDENCSSS-----VSRSAKRRLDIVFSPYLPGSSCEFMITREGI 299

Query: 298 FGVE 301
             V+
Sbjct: 300 CAVQ 303

Plays essential roles in DNA damage repair in both somatic and meiotic cells. It is important for postsynaptic events following pachytene in meiosis. It is also required for DNA cross-links repair and is involved in double strand breaks (DSBs) repair.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9CXE6|XRCC3_MOUSE DNA repair protein XRCC3 OS=Mus musculus GN=Xrcc3 PE=2 SV=1

 Score =  147 bits (372), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 101/296 (34%), Positives = 152/296 (51%), Gaps = 37/296 (12%)

Query: 14  PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
           P   ++ ++GCP++D+ LGGG+P   IT L   S +GKTQ  LQL L+ Q P  +GGL A
Sbjct: 76  PEQHQRLSLGCPVLDQFLGGGLPLEGITGLAGCSSAGKTQLALQLCLAVQFPRQYGGLEA 135

Query: 74  SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNP---------CDYIFVQSVHSVDQLLDIMP 124
            ++Y+ TE  FP +RL QL    R      P          ++IF++    VD LL+ + 
Sbjct: 136 GAVYICTEDAFPSKRLWQLIAQQRRLRTDAPEELIEKIRFSNHIFIEHAADVDTLLECVS 195

Query: 125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
           K    +     SR   RL+V+DSIAA FR +F      +  R+ L   +   L+ ++  F
Sbjct: 196 KKVPILL----SRGMARLVVVDSIAAPFRCEFHLQASAI--RAKLLLSLGATLRRLSSTF 249

Query: 185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNE 244
              VL  NQV D++E  + V+     +LG   +S   + PALGI WAN +  RL + R  
Sbjct: 250 RSPVLCINQVTDMVEDQQSVS----RSLG---ASEERLSPALGITWANQLLMRLMVDRTH 302

Query: 245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGV 300
                E+ +  G          + R   R+L V+FAPHL  +SC + ++ EG+ G+
Sbjct: 303 -----EDDVTTG----------LPRSPVRTLRVLFAPHLPLSSCCYTVSGEGIRGM 343

Involved in the homologous recombination repair (HRR) pathway of double-stranded DNA, thought to repair chromosomal fragmentation, translocations and deletions. Plays a role in regulating mitochondrial DNA copy number under conditions of oxidative stress in the presence of RAD51 and RAD51C.

Mus musculus (taxid: 10090)

>sp|O43542|XRCC3_HUMAN DNA repair protein XRCC3 OS=Homo sapiens GN=XRCC3 PE=1 SV=1

 Score =  145 bits (367), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 103/296 (34%), Positives = 144/296 (48%), Gaps = 40/296 (13%)

Query: 14  PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
           P   ++ ++GCP++D  L GG+P + ITEL   S +GKTQ  LQL L+ Q P  HGGL A
Sbjct: 76  PTQHQRLSLGCPVLDALLRGGLPLDGITELAGRSSAGKTQLALQLCLAVQFPRQHGGLEA 135

Query: 74  SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDY---------IFVQSVHSVDQLLDIMP 124
            ++Y+ TE  FP +RL QL           P +          IF++ V  VD LL+ + 
Sbjct: 136 GAVYICTEDAFPHKRLQQLMAQQPRLRTDVPGELLQKLRFGSQIFIEHVADVDTLLECVN 195

Query: 125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
           K    +     SR   RL+VIDS+AA FR +FD+     + R      +   L+ ++  F
Sbjct: 196 KKVPVLL----SRGMARLVVIDSVAAPFRCEFDSQASAPRARHLQ--SLGATLRELSSAF 249

Query: 185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNE 244
              VL  NQV + ME     +    G LG  +   R + PALGI WAN +  RL   R  
Sbjct: 250 QSPVLCINQVTEAMEEQGAAH----GPLG--FWDER-VSPALGITWANQLLVRLLADR-- 300

Query: 245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGV 300
              +RE +   G                R+L V+ APHL  +SC + I+ EGV G 
Sbjct: 301 ---LREEEAALGCPA-------------RTLRVLSAPHLPPSSCSYTISAEGVRGT 340

Involved in the homologous recombination repair (HRR) pathway of double-stranded DNA, thought to repair chromosomal fragmentation, translocations and deletions. Plays a role in regulating mitochondrial DNA copy number under conditions of oxidative stress in the presence of RAD51 and RAD51C.

Homo sapiens (taxid: 9606)

>sp|Q08DH8|XRCC3_BOVIN DNA repair protein XRCC3 OS=Bos taurus GN=XRCC3 PE=2 SV=1

 Score =  145 bits (366), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 103/297 (34%), Positives = 142/297 (47%), Gaps = 47/297 (15%)

Query: 14  PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
           P   ++ ++GCP++D  L GG+P + ITEL   S +GKTQ  LQL L+ QLP  HGGL A
Sbjct: 76  PEQHQRLSLGCPVLDALLRGGLPLDGITELAGRSSAGKTQLALQLCLAVQLPPRHGGLGA 135

Query: 74  SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDY---------IFVQSVHSVDQLLD-IM 123
            ++Y+ TE  FP RRL QL    +      P            IF++    VD LL  + 
Sbjct: 136 GAVYVCTEDAFPSRRLQQLIAQQQRLRADVPGHVISKIRFGHQIFIEHAADVDTLLQCVR 195

Query: 124 PKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG 183
            K+   +     +R   RL+VIDS+AA FR +FD     L+ +  L   +   L+ ++  
Sbjct: 196 EKVPVLL-----ARGMARLVVIDSVAAPFRCEFDGAALALRAQRLL--ALGAELRRLSCA 248

Query: 184 FGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRN 243
           F   VL  NQV + +E  + V G            G  + PALGI WAN +  RL   R 
Sbjct: 249 FRSPVLCVNQVTEAVEEQDLVAG----------PPG--MSPALGITWANQLLVRLLADRQ 296

Query: 244 EDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGV 300
                 E  +   G               R+L VVFAPHL  +SC + I  EGV G+
Sbjct: 297 RP---EEAPLTPPG---------------RTLRVVFAPHLPASSCSYTIAAEGVRGM 335

Involved in the homologous recombination repair (HRR) pathway of double-stranded DNA, thought to repair chromosomal fragmentation, translocations and deletions. Plays a role in regulating mitochondrial DNA copy number under conditions of oxidative stress in the presence of RAD51 and RAD51C.

Bos taurus (taxid: 9913)

>sp|O35719|RA51B_MOUSE DNA repair protein RAD51 homolog 2 OS=Mus musculus GN=Rad51b PE=2 SV=2

 Score =  110 bits (275), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 73/231 (31%), Positives = 125/231 (54%), Gaps = 27/231 (11%)

Query: 27  IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM 86
           +D  L GG+PC S+TE+    G GKTQFC+ +++ A LP+S GGL  + +Y+ TE  F  
Sbjct: 90  LDEALHGGVPCGSLTEITGPPGCGKTQFCIMMSVLATLPTSLGGLEGAVVYIDTESAFTA 149

Query: 87  RRLHQLSHTFRPSNDHNPCDYIFVQS-VHSVDQLL--DIMPKIESFIKNSSNSRLPIRLI 143
            RL +++ +  P   +     +   S VH   +L    ++ ++ES  +   +    ++L+
Sbjct: 150 ERLVEIAESRFPQYFNTEEKLLLTSSRVHLCRELTCEGLLQRLESLEEEIISK--GVKLV 207

Query: 144 VIDSIAALFRSDFDNTMD-DLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV-------- 194
           ++DSIA++ R +FD  +  ++K+R+    K + +LK +A  F + V++TNQ+        
Sbjct: 208 IVDSIASVVRKEFDPKLQGNIKERNKFLGKGASLLKYLAGEFSIPVILTNQITTHLSGAL 267

Query: 195 ---VDLMEPNEGVNGLRVGNLG--CLYSSGRPICPALGIAWANCVNSRLFL 240
               DL+ P + ++ L  G  G  CL +       ALG  W +CVN+RL L
Sbjct: 268 PSQADLVSPADDLS-LSEGTSGSSCLVA-------ALGNTWGHCVNTRLIL 310

Involved in the homologous recombination repair (HRR) pathway of double-stranded DNA breaks arising during DNA replication or induced by DNA-damaging agents. May promote the assembly of presynaptic RAD51 nucleoprotein filaments. The RAD51B-RAD51C dimer exhibits single-stranded DNA-dependent ATPase activity. The BCDX2 complex binds single-stranded DNA, single-stranded gaps in duplex DNA and specifically to nicks in duplex DNA.

Mus musculus (taxid: 10090)

>sp|B1YC14|RADA_PYRNV DNA repair and recombination protein RadA OS=Pyrobaculum neutrophilum (strain DSM 2338 / JCM 9278 / V24Sta) GN=radA PE=3 SV=1

 Score =  110 bits (275), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 69/230 (30%), Positives = 121/230 (52%), Gaps = 23/230 (10%)

Query: 16  TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
           T  + + G   +D  LGGGI   ++TE+  E GSGKTQ C QL +  QLP   GGL A +
Sbjct: 95  TIRRISTGVKALDELLGGGIETRAVTEVAGEFGSGKTQLCHQLAVMVQLPEERGGLGAKA 154

Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
           +Y+ TE  F   R+ Q++   R  +     + IF    +S D  + ++ + +S IK ++ 
Sbjct: 155 IYIDTENTFRPERIMQIAKA-RGLDPDQALNNIFYARAYSSDHQMILVDQAKSIIKQNN- 212

Query: 136 SRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
               + L+V+DS+ A FRS+F    +  +++  L   ++ +L+ +A  + +AV++TNQV 
Sbjct: 213 ----VALLVVDSVIAHFRSEFPGRENLAERQQKLNKHVADLLR-LADAYDVAVVITNQV- 266

Query: 196 DLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED 245
            + +P+              +  G P+ PA G   A+    RL+L ++++
Sbjct: 267 -MAQPD------------VFF--GNPLRPAGGNILAHGATYRLWLRKSKE 301

Involved in DNA repair and in homologous recombination. Binds and assemble on single-stranded DNA to form a nucleoprotein filament. Hydrolyzes ATP in a ssDNA-dependent manner and promotes DNA strand exchange between homologous DNA molecules.

Thermoproteus neutrophilus (strain DSM 2338 / JCM 9278 / V24Sta) (taxid: 444157)

>sp|P0CW91|RADA_AERPX DNA repair and recombination protein RadA OS=Aeropyrum pernix GN=radA PE=3 SV=1

 Score =  110 bits (275), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 83/292 (28%), Positives = 133/292 (45%), Gaps = 48/292 (16%)

Query: 6   TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLP 65
           T  +L    +  +K T G   +D  LGGGI   +ITEL  E GSGKTQ C QL+++ QLP
Sbjct: 72  TAYDLKIESMNIKKITTGSRNLDELLGGGIETKTITELFGEFGSGKTQICHQLSVNVQLP 131

Query: 66  SSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPK 125
              GGL   ++Y+ TE  F   R+ Q++       D    +  ++++++S  Q+  I+ K
Sbjct: 132 EDKGGLEGKAVYIDTEGTFRWERIEQMARGVGLDPDEVMKNIYWIRAINSHHQIA-IVDK 190

Query: 126 IESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
           + + +KN +     I+L+V+DS+ + FR++F    ++L  R  L  +    L  +A  F 
Sbjct: 191 LFTMVKNDN-----IKLVVVDSVTSHFRAEFPGR-ENLAMRQQLLNRHLHQLMRLADIFN 244

Query: 186 LAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED 245
           +AV++TNQV  +  P+              Y  G P     G    +    R++L +   
Sbjct: 245 VAVVITNQV--MARPD------------VFY--GDPTQAVGGHVLGHAPGVRVYLKK--- 285

Query: 246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
                                  R  +R   VV APHL +    F IT  G+
Sbjct: 286 ----------------------SRGNKRIARVVDAPHLPEGETVFAITEWGI 315

Involved in DNA repair and in homologous recombination. Binds and assemble on single-stranded DNA to form a nucleoprotein filament. Hydrolyzes ATP in a ssDNA-dependent manner and promotes DNA strand exchange between homologous DNA molecules.

Aeropyrum pernix (taxid: 56636)

>sp|P0CW92|RADA_AERPE DNA repair and recombination protein RadA OS=Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1) GN=radA PE=3 SV=1

 Score =  110 bits (274), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 83/292 (28%), Positives = 133/292 (45%), Gaps = 48/292 (16%)

Query: 6   TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLP 65
           T  +L    +  +K T G   +D  LGGGI   +ITEL  E GSGKTQ C QL+++ QLP
Sbjct: 72  TAYDLKIESMNIKKITTGSRNLDELLGGGIETKTITELFGEFGSGKTQICHQLSVNVQLP 131

Query: 66  SSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPK 125
              GGL   ++Y+ TE  F   R+ Q++       D    +  ++++++S  Q+  I+ K
Sbjct: 132 EDKGGLEGKAVYVDTEGTFRWERIEQMARGVGLDPDEVMKNIYWIRAINSHHQIA-IVDK 190

Query: 126 IESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
           + + +KN +     I+L+V+DS+ + FR++F    ++L  R  L  +    L  +A  F 
Sbjct: 191 LFTMVKNDN-----IKLVVVDSVTSHFRAEFPGR-ENLAMRQQLLNRHLHQLMRLADIFN 244

Query: 186 LAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED 245
           +AV++TNQV  +  P+              Y  G P     G    +    R++L +   
Sbjct: 245 VAVVITNQV--MARPD------------VFY--GDPTQAVGGHVLGHAPGVRVYLKK--- 285

Query: 246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
                                  R  +R   VV APHL +    F IT  G+
Sbjct: 286 ----------------------SRGNKRIARVVDAPHLPEGETVFAITEWGI 315

Involved in DNA repair and in homologous recombination. Binds and assemble on single-stranded DNA to form a nucleoprotein filament. Hydrolyzes ATP in a ssDNA-dependent manner and promotes DNA strand exchange between homologous DNA molecules.

Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1) (taxid: 272557)

>sp|A3MXX9|RADA_PYRCJ DNA repair and recombination protein RadA OS=Pyrobaculum calidifontis (strain JCM 11548 / VA1) GN=radA PE=3 SV=1

 Score =  109 bits (272), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 69/227 (30%), Positives = 120/227 (52%), Gaps = 23/227 (10%)

Query: 19  KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
           + + G   +D  LGGGI   ++TE+V E GSGKTQ C QL +  QLP   GGL A ++Y+
Sbjct: 100 RISTGVRALDELLGGGIETRAVTEVVGEFGSGKTQLCHQLAVMVQLPEDRGGLGAKAIYI 159

Query: 79  HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
            TE  F   R+ Q++   R  +     + IF    +S D  + ++ + +S I+  +    
Sbjct: 160 DTENTFRPERIMQIAKA-RGLDPDQALNNIFYARAYSADHQMVLVEQAKSLIRQHN---- 214

Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM 198
            + L+V+DS+ A FR++F    +  +++  L   I+ +L+ +A  + +AV+VTNQV  + 
Sbjct: 215 -VALLVVDSVIAHFRAEFPGRENLAERQQKLNKHIADLLR-LADAYDVAVVVTNQV--MA 270

Query: 199 EPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED 245
           +P+              +  G P+ PA G   A+    RL+L ++++
Sbjct: 271 QPD------------VFF--GNPLRPAGGNILAHGATYRLWLRKSKE 303

Involved in DNA repair and in homologous recombination. Binds and assemble on single-stranded DNA to form a nucleoprotein filament. Hydrolyzes ATP in a ssDNA-dependent manner and promotes DNA strand exchange between homologous DNA molecules.

Pyrobaculum calidifontis (strain JCM 11548 / VA1) (taxid: 410359)

>sp|Q8ZYR9|RADA_PYRAE DNA repair and recombination protein RadA OS=Pyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827) GN=radA PE=3 SV=1

 Score =  108 bits (271), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 69/227 (30%), Positives = 119/227 (52%), Gaps = 23/227 (10%)

Query: 19  KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
           + + G   +D  LGGGI   ++TE+V E GSGKTQ C QL +  QLP   GGL A ++Y+
Sbjct: 101 RISTGVRSLDELLGGGIETRAVTEIVGEFGSGKTQLCHQLAVMVQLPEERGGLGAKAIYI 160

Query: 79  HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
            TE  F   R+ Q++   R  +       IF    +S D  + ++ + +S IK  +    
Sbjct: 161 DTENTFRPERIMQIAKA-RGLDSDQALHNIFYARAYSSDHQMILVEQAKSIIKQHN---- 215

Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM 198
            + L+V+DS+ A FRS+F    +  +++  L   ++ +L+ +A  + +AV++TNQV  + 
Sbjct: 216 -VALLVVDSVIAHFRSEFPGRENLAERQQKLNKHVADLLR-LADAYDVAVVITNQV--MA 271

Query: 199 EPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED 245
           +P+              +  G P+ PA G   A+    RL+L ++++
Sbjct: 272 QPD------------VFF--GNPLRPAGGNILAHGATYRLWLRKSKE 304

Involved in DNA repair and in homologous recombination. Binds and assemble on single-stranded DNA to form a nucleoprotein filament. Hydrolyzes ATP in a ssDNA-dependent manner and promotes DNA strand exchange between homologous DNA molecules.

Pyrobaculum aerophilum (strain ATCC 51768 / IM2 / DSM 7523 / JCM 9630 / NBRC 100827) (taxid: 178306)

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	302
225446054	300	PREDICTED: DNA repair protein XRCC3 homo	0.966	0.973	0.656	1e-108
147777505	2077	hypothetical protein VITISV_027869 [Viti	0.966	0.140	0.656	1e-108
255581709	301	X-ray repair cross complementing protein	0.943	0.946	0.637	1e-105
449466133	294	PREDICTED: DNA repair protein XRCC3 homo	0.960	0.986	0.665	1e-104
224142257	290	predicted protein [Populus trichocarpa]	0.940	0.979	0.625	1e-102
297735394	260	unnamed protein product [Vitis vinifera]	0.854	0.992	0.63	1e-97
15242137	304	DNA repair protein XRCC3-like protein [A	0.963	0.957	0.582	1e-96
356567224	288	PREDICTED: DNA repair protein XRCC3 homo	0.900	0.944	0.562	6e-86
242065454	292	hypothetical protein SORBIDRAFT_04g02309	0.870	0.900	0.473	1e-51
413937284	291	hypothetical protein ZEAMMB73_748424 [Ze	0.824	0.855	0.477	1e-46

>gi|225446054|ref|XP_002268968.1| PREDICTED: DNA repair protein XRCC3 homolog [Vitis vinifera]

 Score =  397 bits (1019), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 201/306 (65%), Positives = 239/306 (78%), Gaps = 14/306 (4%)

Query: 5   MTPQNLLDNPL--TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA 62
           M PQNLL NPL  TT+KCT+GCPI+DRCL GG+PCNSITELVAESGSGKTQ CLQL LSA
Sbjct: 1   MIPQNLLQNPLALTTQKCTLGCPILDRCLAGGVPCNSITELVAESGSGKTQLCLQLVLSA 60

Query: 63  QLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDH------NPCDYIFVQSVHSV 116
           QLP+S GGL+ASSLY+H+EFPFP RRL QLS +FR S  H      NP D++ V+ V S 
Sbjct: 61  QLPTSLGGLAASSLYIHSEFPFPSRRLQQLSQSFRSSYSHVLDSEYNPLDFVLVRGVQSA 120

Query: 117 DQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM 176
           DQL D++ K++S +     ++LP+RLIVIDSIAALFR +F+NT  DLK+RS LFFKISG 
Sbjct: 121 DQLFDVLLKMDSVLLRPP-TQLPVRLIVIDSIAALFRGEFENTPFDLKRRSSLFFKISGK 179

Query: 177 LKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNS 236
           LKA+A  FGLAV+VTNQVVD +    G+NGLRVGNLG L+SSGR +C ALG++WANCVNS
Sbjct: 180 LKALAERFGLAVVVTNQVVDFVGQAGGLNGLRVGNLGSLWSSGRRVCAALGLSWANCVNS 239

Query: 237 RLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREG 296
           RLFLSRNE+ V         G+GG G+ D V R TRR LHV+FAPHL ++SCEF I+REG
Sbjct: 240 RLFLSRNEEIVGEVT-----GLGGVGAGDTVSRLTRRHLHVIFAPHLPESSCEFVISREG 294

Query: 297 VFGVER 302
           V GVER
Sbjct: 295 VLGVER 300

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147777505|emb|CAN60498.1| hypothetical protein VITISV_027869 [Vitis vinifera]

 Score =  397 bits (1019), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 201/306 (65%), Positives = 239/306 (78%), Gaps = 14/306 (4%)

Query: 5    MTPQNLLDNPL--TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA 62
            M PQNLL NPL  TT+KCT+GCPI+DRCL GG+PCNSITELVAESGSGKTQ CLQL LSA
Sbjct: 1778 MIPQNLLQNPLALTTQKCTLGCPILDRCLAGGVPCNSITELVAESGSGKTQLCLQLVLSA 1837

Query: 63   QLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDH------NPCDYIFVQSVHSV 116
            QLP+S GGL+ASSLY+H+EFPFP RRL QLS +FR S  H      NP D++ V+ V S 
Sbjct: 1838 QLPTSLGGLAASSLYIHSEFPFPSRRLQQLSQSFRSSYSHVLDSEYNPLDFVLVRGVQSA 1897

Query: 117  DQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM 176
            DQL D++ K++S +     ++LP+RLIVIDSIAALFR +F+NT  DLK+RS LFFKISG 
Sbjct: 1898 DQLFDVLLKMDSVLLRPP-TQLPVRLIVIDSIAALFRGEFENTPFDLKRRSSLFFKISGK 1956

Query: 177  LKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNS 236
            LKA+A  FGLAV+VTNQVVD +    G+NGLRVGNLG L+SSGR +C ALG++WANCVNS
Sbjct: 1957 LKALAERFGLAVVVTNQVVDFVGQAGGLNGLRVGNLGSLWSSGRRVCAALGLSWANCVNS 2016

Query: 237  RLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREG 296
            RLFLSRNE+ V         G+GG G+ D V R TRR LHV+FAPHL ++SCEF I+REG
Sbjct: 2017 RLFLSRNEEIVXEVT-----GLGGVGAGDTVSRLTRRHLHVIFAPHLPESSCEFVISREG 2071

Query: 297  VFGVER 302
            V GVER
Sbjct: 2072 VLGVER 2077

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255581709|ref|XP_002531657.1| X-ray repair cross complementing protein 3, xrcc3, putative [Ricinus communis] gi|223528715|gb|EEF30727.1| X-ray repair cross complementing protein 3, xrcc3, putative [Ricinus communis]

 Score =  388 bits (996), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 199/312 (63%), Positives = 235/312 (75%), Gaps = 27/312 (8%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           M P+NL+  P+ T+KCT+GCPI+DRCL GGIPCNSITE+VAESG+GKTQ CLQL+L AQL
Sbjct: 1   MKPENLVFQPIPTQKCTLGCPILDRCLNGGIPCNSITEIVAESGTGKTQLCLQLSLYAQL 60

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDH---------------NPCDYIF 109
           P S GGLSASSLYLHTEFPFP RRLHQLSH+F+  +                 NPCD IF
Sbjct: 61  PLSLGGLSASSLYLHTEFPFPFRRLHQLSHSFQSQHPQIFINNNNNDTINNYDNPCDNIF 120

Query: 110 VQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFL 169
           V SV S D L DIMPKIESF+  S  + LP+RLIVIDS+AALFRS+F+NT  DLK+RS L
Sbjct: 121 VHSVRSADYLFDIMPKIESFLVYS-KTHLPVRLIVIDSVAALFRSEFENTATDLKRRSAL 179

Query: 170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIA 229
           FFKIS  L+A+A  F LAV+V+NQVVD +   +G+NG R+G+LG LYSSGR +CPALG+A
Sbjct: 180 FFKISAKLRALAWRFNLAVVVSNQVVDFVGSGDGLNGARIGDLGSLYSSGRRVCPALGLA 239

Query: 230 WANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCE 289
           WANCVNSRLFLSR+      EN MV+G   GS      C +TRR LHVVFAPHL  +SCE
Sbjct: 240 WANCVNSRLFLSRD------ENGMVDGAESGS-----FCSQTRRRLHVVFAPHLPYSSCE 288

Query: 290 FEITREGVFGVE 301
           F I REGVFG++
Sbjct: 289 FVIRREGVFGID 300

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449466133|ref|XP_004150781.1| PREDICTED: DNA repair protein XRCC3 homolog [Cucumis sativus] gi|449506730|ref|XP_004162832.1| PREDICTED: DNA repair protein XRCC3 homolog [Cucumis sativus]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 199/299 (66%), Positives = 231/299 (77%), Gaps = 9/299 (3%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           MTP+NLL    TT+KCT GCPIIDR +GGG+ C+S+TE+VAESG GKTQ CLQL+L AQL
Sbjct: 1   MTPENLLHLLQTTQKCTFGCPIIDRSVGGGVACSSLTEIVAESGCGKTQLCLQLSLCAQL 60

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDH--NPCDYIFVQSVHSVDQLLDI 122
           P S+GGL+ASSLY+HTEFPFP RRL QLS  F  S     NP D+IFV+ VHS  QL DI
Sbjct: 61  PLSNGGLNASSLYIHTEFPFPFRRLQQLSQAFSSSYPQFSNPSDHIFVEPVHSAHQLFDI 120

Query: 123 MPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAV 182
           MPKIES ++N  NS+LPIRLIVIDSIAALFRSDF+NT  DLK+RS LFFKISG LK +A 
Sbjct: 121 MPKIESSLENR-NSQLPIRLIVIDSIAALFRSDFNNTPSDLKRRSSLFFKISGKLKLLAK 179

Query: 183 GFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
            + LAV++TNQVVDLM  ++G+N LR+GNL  L SS R +CPALG+AWANCVNSRLFLSR
Sbjct: 180 KYSLAVVLTNQVVDLMGSSDGLNALRIGNLKFLCSSERRVCPALGLAWANCVNSRLFLSR 239

Query: 243 NEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
           NE+ V     M+N      GSE    RRTRR LHVVFAPHL  +SCE+ I REGV GVE
Sbjct: 240 NEEVVGEGEGMMN------GSELVQRRRTRRWLHVVFAPHLPKSSCEYVINREGVVGVE 292

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142257|ref|XP_002324475.1| predicted protein [Populus trichocarpa] gi|222865909|gb|EEF03040.1| predicted protein [Populus trichocarpa]

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 190/304 (62%), Positives = 232/304 (76%), Gaps = 20/304 (6%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           MTPQ LL      EKC++GCPI+D C+GGGIPCNSITE+VAESGSGKTQ CLQL+L AQL
Sbjct: 1   MTPQKLL----PVEKCSLGCPILDCCMGGGIPCNSITEIVAESGSGKTQLCLQLSLRAQL 56

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPS------NDHNPCDYIFVQSVHSVDQ 118
           P   GGLSASSLYL+TEFPFP RRLHQLS   +        ++++PCD IF+QSV++ DQ
Sbjct: 57  PPFLGGLSASSLYLYTEFPFPTRRLHQLSSALQCQYPQIFVSNYDPCDSIFLQSVNTADQ 116

Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
           LLDIMP++ESF++NS  +RLP+R+IVIDS+AALFR++F+NT  DL +RS LFFKISG LK
Sbjct: 117 LLDIMPQVESFLENS-KTRLPVRVIVIDSMAALFRAEFENTASDLIRRSSLFFKISGKLK 175

Query: 179 AMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRL 238
             A  F L VLVTNQV+D+++  EG+N +R+GNL  +YSSGR +CPALG++WANCVNSRL
Sbjct: 176 EFAKRFNLVVLVTNQVMDVVDSGEGLNEVRIGNLSGMYSSGRRVCPALGLSWANCVNSRL 235

Query: 239 FLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVF 298
           FLS++E            G+ G G   F+ R TRR LHVVFAPHL D SCEF I REGV 
Sbjct: 236 FLSKDE---------YESGLVGGGESGFLSRETRRRLHVVFAPHLPDLSCEFVIRREGVV 286

Query: 299 GVER 302
           GV R
Sbjct: 287 GVNR 290

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735394|emb|CBI17834.3| unnamed protein product [Vitis vinifera]

 Score =  362 bits (928), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 189/300 (63%), Positives = 217/300 (72%), Gaps = 42/300 (14%)

Query: 5   MTPQNLLDNPL--TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA 62
           M PQNLL NPL  TT+KCT+GCPI+DRCL GG+PCNSITELVAESGSGKTQ CLQL LSA
Sbjct: 1   MIPQNLLQNPLALTTQKCTLGCPILDRCLAGGVPCNSITELVAESGSGKTQLCLQLVLSA 60

Query: 63  QLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDI 122
           QLP+S GGL+ASSLY+H+EFPFP RRL QLS +FR S  H                    
Sbjct: 61  QLPTSLGGLAASSLYIHSEFPFPSRRLQQLSQSFRSSYSH-------------------- 100

Query: 123 MPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAV 182
                          LP+RLIVIDSIAALFR +F+NT  DLK+RS LFFKISG LKA+A 
Sbjct: 101 ---------------LPVRLIVIDSIAALFRGEFENTPFDLKRRSSLFFKISGKLKALAE 145

Query: 183 GFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
            FGLAV+VTNQVVD +    G+NGLRVGNLG L+SSGR +C ALG++WANCVNSRLFLSR
Sbjct: 146 RFGLAVVVTNQVVDFVGQAGGLNGLRVGNLGSLWSSGRRVCAALGLSWANCVNSRLFLSR 205

Query: 243 NEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVER 302
           NE+ V         G+GG G+ D V R TRR LHV+FAPHL ++SCEF I+REGV GVER
Sbjct: 206 NEEIVGEVT-----GLGGVGAGDTVSRLTRRHLHVIFAPHLPESSCEFVISREGVLGVER 260

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15242137|ref|NP_200554.1| DNA repair protein XRCC3-like protein [Arabidopsis thaliana] gi|30696870|ref|NP_851202.1| DNA repair protein XRCC3-like protein [Arabidopsis thaliana] gi|55583983|sp|Q9FKM5.1|XRCC3_ARATH RecName: Full=DNA repair protein XRCC3 homolog; AltName: Full=X-ray repair cross-complementing protein 3 homolog; Short=AtXRCC3 gi|9758307|dbj|BAB08781.1| unnamed protein product [Arabidopsis thaliana] gi|15425729|dbj|BAB64342.1| AtXRCC3alpha [Arabidopsis thaliana] gi|16444953|dbj|BAB70684.1| AtXRCC3beta [Arabidopsis thaliana] gi|19571703|emb|CAD27641.1| Rad51B protein [Arabidopsis thaliana] gi|19571705|emb|CAD27642.1| Rad51B protein [Arabidopsis thaliana] gi|20384750|gb|AAK54457.1| DNA repair protein XRCC3 [Arabidopsis thaliana] gi|109946499|gb|ABG48428.1| At5g57450 [Arabidopsis thaliana] gi|332009520|gb|AED96903.1| DNA repair protein XRCC3-like protein [Arabidopsis thaliana] gi|332009521|gb|AED96904.1| DNA repair protein XRCC3-like protein [Arabidopsis thaliana]

 Score =  358 bits (920), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 177/304 (58%), Positives = 226/304 (74%), Gaps = 13/304 (4%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           + P+NLL    T  K T GC I+D CL GGI C+S+TE+VAESG GKTQ CLQL+L  QL
Sbjct: 6   IKPENLLRRSPTNRKLTTGCEILDGCLRGGISCDSLTEIVAESGCGKTQLCLQLSLCTQL 65

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSN-------DHNPCDYIFVQSVHSVD 117
           P SHGGL+ SSLYLH+EFPFP RRLHQLSHTF  SN       + NPCD++FVQ+VHSVD
Sbjct: 66  PISHGGLNGSSLYLHSEFPFPFRRLHQLSHTFHQSNPSIYANYNDNPCDHVFVQNVHSVD 125

Query: 118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGML 177
            L DIMP+I+ F+ NS  +R P++LIV+DS+AALFRS+FDNT  DLKKRS LFFKISG L
Sbjct: 126 HLFDIMPRIDGFVGNS-KTRFPLKLIVLDSVAALFRSEFDNTPSDLKKRSSLFFKISGKL 184

Query: 178 KAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSR 237
           K +A  F LA+++TNQV DL+E ++G++GLR+GNL  LYSSGR + P+LG+AWANCVNSR
Sbjct: 185 KQLASKFDLAIVITNQVTDLVETSDGLSGLRIGNLRYLYSSGRRVVPSLGLAWANCVNSR 244

Query: 238 LFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
            F+SR++  +V++    +     S     V R  +R L +VF+P+L  +SCEF ITREG+
Sbjct: 245 FFISRSDGSIVKDRSEKDENCSSS-----VSRSAKRRLDIVFSPYLPGSSCEFMITREGI 299

Query: 298 FGVE 301
             V+
Sbjct: 300 CAVQ 303

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567224|ref|XP_003551821.1| PREDICTED: DNA repair protein XRCC3 homolog [Glycine max]

 Score =  323 bits (828), Expect = 6e-86,   Method: Compositional matrix adjust.
 Identities = 170/302 (56%), Positives = 214/302 (70%), Gaps = 30/302 (9%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           M  +NLL     T+KCT+GCP++DRCL GG+PC S+TE V ESG GKTQ CLQL LSAQL
Sbjct: 1   MRAENLLQLQHRTQKCTLGCPVLDRCLAGGVPCASVTEFVGESGCGKTQLCLQLALSAQL 60

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSND----HNPCDYIFVQSVHSVDQLL 120
           P SHGGLSASS+++HTEFPFP RRL  LS  FR S+      +PCD +F+++VHS  +LL
Sbjct: 61  PPSHGGLSASSIFIHTEFPFPFRRLRHLSRAFRASHPDLPCSDPCDRVFLRAVHSAHELL 120

Query: 121 DIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM 180
           +++P IE+F+ +S +   P+R+IVIDSIAALFRSDF+NT  DL++RS LFF ISG L+ +
Sbjct: 121 NLIPTIETFLLHSKSPWRPVRIIVIDSIAALFRSDFENTGSDLRRRSSLFFGISGGLRQL 180

Query: 181 AVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLG-CLYSSGRPICPALGIAWANCVNSRLF 239
           A  FG+AV+VTNQVVDL+    G   +  G+LG  LYSSGR +CPALG+AWA+CVNSRLF
Sbjct: 181 AKRFGIAVVVTNQVVDLI----GDGDVSFGSLGNGLYSSGRRVCPALGLAWAHCVNSRLF 236

Query: 240 LSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG 299
           LS++ED                  E  V     R + VVFAPHL  +SCE+ I  EGVFG
Sbjct: 237 LSKDED------------------EPPV---KTRKMRVVFAPHLPHSSCEYVIKGEGVFG 275

Query: 300 VE 301
           VE
Sbjct: 276 VE 277

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242065454|ref|XP_002454016.1| hypothetical protein SORBIDRAFT_04g023090 [Sorghum bicolor] gi|241933847|gb|EES06992.1| hypothetical protein SORBIDRAFT_04g023090 [Sorghum bicolor]

 Score =  209 bits (532), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 142/300 (47%), Positives = 185/300 (61%), Gaps = 37/300 (12%)

Query: 4   PMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
           P  P  LL +   T K ++GCP++DR L GG+P  S+TE+  ES +GKTQ CLQL L   
Sbjct: 24  PENPLLLLPSSRVT-KLSLGCPLLDRLLSGGLPAASVTEIAGESATGKTQLCLQLALL-- 80

Query: 64  LPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIM 123
             +    LSASSL+LH++ PFP+ RL +L+   RP    +  D++ V + HS   LL ++
Sbjct: 81  --APQSPLSASSLFLHSDLPFPLHRLRRLAPKSRP----DILDHVLVAAAHSPTDLLSLL 134

Query: 124 PKIESFIKNSSNS--RLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMA 181
            + +  + N   S  RLPIRLI++DSIA+LFR+DFD +  DL++RS LFF+IS  LK +A
Sbjct: 135 ARAQRLLANPGRSPHRLPIRLILLDSIASLFRADFDASPADLRRRSALFFQISAKLKELA 194

Query: 182 VGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLS 241
                 V+VTNQVVD++E  EG      GN    +SSGR + PALGIAWANCVN RLFL+
Sbjct: 195 YRHQCVVVVTNQVVDVVE--EG-----AGNT-VAWSSGRRVSPALGIAWANCVNMRLFLT 246

Query: 242 RNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
           R             GG G SGS        RR + V FAPHL + SCEF I R+GVFGVE
Sbjct: 247 RE-----------VGGDGASGS-------ARRRMKVAFAPHLPERSCEFMIRRDGVFGVE 288

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413937284|gb|AFW71835.1| hypothetical protein ZEAMMB73_748424 [Zea mays]

 Score =  192 bits (488), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 136/285 (47%), Positives = 178/285 (62%), Gaps = 36/285 (12%)

Query: 19  KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
           K ++GCP++DR L GG+P  S+TE+  ES SGKTQ CLQL L A L      LSASSL+L
Sbjct: 38  KLSLGCPLLDRLLCGGLPAASVTEIAGESASGKTQLCLQLALLAPL----SPLSASSLFL 93

Query: 79  HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNS-- 136
           H++ PFP+ RL +L+   RP    +  D++ V + HS   LL ++ + +  + N   S  
Sbjct: 94  HSDLPFPLHRLRRLAPKSRP----DILDHVLVAAAHSPTDLLSLLARAQRLLANPGRSPH 149

Query: 137 RLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD 196
           RLPIRLI++DSIA+LFR DFD +  DL++RS LFF+IS  LK +A      V+VTNQVVD
Sbjct: 150 RLPIRLILLDSIASLFRGDFDASPADLRRRSALFFQISAKLKELAYRHQCVVVVTNQVVD 209

Query: 197 LMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNG 256
           ++E + G            +SSGR + PALGIAWANCVN+RLFL+R  +           
Sbjct: 210 VVEGDAGNT--------VAWSSGRRLSPALGIAWANCVNTRLFLTREVE----------- 250

Query: 257 GVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
           G G SGS        RR + V FAPHL + SCEF I R+GVFGVE
Sbjct: 251 GNGTSGS-------ARRWMKVAFAPHLPEQSCEFVIRRDGVFGVE 288

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	302
TAIR|locus:2174577	304	XRCC3 "homolog of X-ray repair	0.956	0.950	0.586	1.7e-91
DICTYBASE|DDB_G0283637	564	xrcc3 "putative DNA repair pro	0.324	0.173	0.474	5.8e-38
UNIPROTKB|O43542	346	XRCC3 "DNA repair protein XRCC	0.715	0.624	0.369	4.4e-34
UNIPROTKB|F1S9W9	347	XRCC3 "Uncharacterized protein	0.698	0.608	0.355	4.4e-34
UNIPROTKB|E2RAE7	349	XRCC3 "Uncharacterized protein	0.711	0.616	0.351	4.4e-34
UNIPROTKB|Q08DH8	341	XRCC3 "DNA repair protein XRCC	0.695	0.615	0.359	1.1e-33
UNIPROTKB|Q5ZM26	347	XRCC3 "Uncharacterized protein	0.854	0.743	0.353	4.2e-31
ZFIN|ZDB-GENE-050320-116	352	xrcc3 "X-ray repair complement	0.692	0.593	0.378	8.8e-31
MGI|MGI:1921585	349	Xrcc3 "X-ray repair complement	0.731	0.633	0.356	1.2e-28
RGD|1306849	349	Xrcc3 "X-ray repair complement	0.731	0.633	0.340	1.3e-27

TAIR|locus:2174577 XRCC3 "homolog of X-ray repair cross complementing 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 912 (326.1 bits), Expect = 1.7e-91, P = 1.7e-91
 Identities = 177/302 (58%), Positives = 225/302 (74%)

Query:     7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS 66
             P+NLL    T  K T GC I+D CL GGI C+S+TE+VAESG GKTQ CLQL+L  QLP 
Sbjct:     8 PENLLRRSPTNRKLTTGCEILDGCLRGGISCDSLTEIVAESGCGKTQLCLQLSLCTQLPI 67

Query:    67 SHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSN-------DHNPCDYIFVQSVHSVDQL 119
             SHGGL+ SSLYLH+EFPFP RRLHQLSHTF  SN       + NPCD++FVQ+VHSVD L
Sbjct:    68 SHGGLNGSSLYLHSEFPFPFRRLHQLSHTFHQSNPSIYANYNDNPCDHVFVQNVHSVDHL 127

Query:   120 LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKA 179
              DIMP+I+ F+ NS  +R P++LIV+DS+AALFRS+FDNT  DLKKRS LFFKISG LK 
Sbjct:   128 FDIMPRIDGFVGNSK-TRFPLKLIVLDSVAALFRSEFDNTPSDLKKRSSLFFKISGKLKQ 186

Query:   180 MAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLF 239
             +A  F LA+++TNQV DL+E ++G++GLR+GNL  LYSSGR + P+LG+AWANCVNSR F
Sbjct:   187 LASKFDLAIVITNQVTDLVETSDGLSGLRIGNLRYLYSSGRRVVPSLGLAWANCVNSRFF 246

Query:   240 LSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG 299
             +SR++  +V++    +     S     V R  +R L +VF+P+L  +SCEF ITREG+  
Sbjct:   247 ISRSDGSIVKDRSEKDENCSSS-----VSRSAKRRLDIVFSPYLPGSSCEFMITREGICA 301

Query:   300 VE 301
             V+
Sbjct:   302 VQ 303

GO:0003677 "DNA binding" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0006281 "DNA repair" evidence=ISS

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0006302 "double-strand break repair" evidence=RCA;IMP

GO:0007126 "meiosis" evidence=IMP

GO:0000724 "double-strand break repair via homologous recombination" evidence=RCA

GO:0006312 "mitotic recombination" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0010212 "response to ionizing radiation" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

GO:0045003 "double-strand break repair via synthesis-dependent strand annealing" evidence=IDA

DICTYBASE|DDB_G0283637 xrcc3 "putative DNA repair protein XRCC3" [Dictyostelium discoideum (taxid:44689)]

 Score = 232 (86.7 bits), Expect = 5.8e-38, Sum P(3) = 5.8e-38
 Identities = 47/99 (47%), Positives = 65/99 (65%)

Query:     5 MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
             MT   L    +++ K + GC I+D+CLGGGI    ITE+  ESGSGKTQ C+QL+L  QL
Sbjct:   152 MTSLELEKLQISSIKLSTGCKIMDKCLGGGISPIGITEIAGESGSGKTQLCIQLSLQVQL 211

Query:    65 PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHN 103
             P   GGL+ + LY+ TE PFP +RL+Q+ +T +   + N
Sbjct:   212 PFEMGGLNGACLYITTEPPFPTKRLNQM-YTVKSGKNTN 249

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

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

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0006310 "DNA recombination" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0005634 "nucleus" evidence=IC

UNIPROTKB|O43542 XRCC3 "DNA repair protein XRCC3" [Homo sapiens (taxid:9606)]

 Score = 314 (115.6 bits), Expect = 4.4e-34, Sum P(2) = 4.4e-34
 Identities = 88/238 (36%), Positives = 121/238 (50%)

Query:    14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
             P   ++ ++GCP++D  L GG+P + ITEL   S +GKTQ  LQL L+ Q P  HGGL A
Sbjct:    76 PTQHQRLSLGCPVLDALLRGGLPLDGITELAGRSSAGKTQLALQLCLAVQFPRQHGGLEA 135

Query:    74 SSLYLHTEFPFPMRRLHQLS------HTFRPSNDHNPCDY---IFVQSVHSVDQLLDIMP 124
              ++Y+ TE  FP +RL QL        T  P        +   IF++ V  VD LL+ + 
Sbjct:   136 GAVYICTEDAFPHKRLQQLMAQQPRLRTDVPGELLQKLRFGSQIFIEHVADVDTLLECVN 195

Query:   125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
             K    +     SR   RL+VIDS+AA FR +FD+     + R      +   L+ ++  F
Sbjct:   196 KKVPVLL----SRGMARLVVIDSVAAPFRCEFDSQASAPRARHLQ--SLGATLRELSSAF 249

Query:   185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
                VL  NQV + ME      G   G LG  +   R + PALGI WAN +  RL   R
Sbjct:   250 QSPVLCINQVTEAMEEQ----GAAHGPLG--FWDER-VSPALGITWANQLLVRLLADR 300

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

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0010033 "response to organic substance" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0048471 "perinuclear region of cytoplasm" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0006281 "DNA repair" evidence=IGI

UNIPROTKB|F1S9W9 XRCC3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 310 (114.2 bits), Expect = 4.4e-34, Sum P(2) = 4.4e-34
 Identities = 85/239 (35%), Positives = 121/239 (50%)

Query:    14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
             P   ++ ++GCP++D  L GG+P + ITEL   S +GKTQ  LQL L+ QLP  HGGL  
Sbjct:    77 PEQHQRLSLGCPVLDGLLRGGLPLDGITELAGRSSTGKTQLALQLCLAVQLPRQHGGLGT 136

Query:    74 SSLYLHTEFPFPMRRLHQL---SHTFRPSNDHNPC------DYIFVQSVHSVDQLLD-IM 123
              ++Y+ TE  FP RRL QL       RP    +        D IFV+ V  VD LLD + 
Sbjct:   137 GAVYVCTEGAFPSRRLQQLVAQQQLLRPDVPGDVLGKIKFGDQIFVEHVADVDTLLDCVS 196

Query:   124 PKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG 183
              K+   +     SR   RL+VIDS+AA FR +F     D  +R+     +   L+ ++  
Sbjct:   197 RKVPVLL-----SRGVARLLVIDSVAAPFRCEFAGA--DSARRARRLQALGAELRRLSCA 249

Query:   184 FGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
             F   VL  NQV + ++ +E              + G    PALGI W++ +  RL + R
Sbjct:   250 FRSPVLCINQVTEAVDAHEAAG-----------AGGERTSPALGITWSSQLLMRLLMDR 297

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|E2RAE7 XRCC3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 293 (108.2 bits), Expect = 4.4e-34, Sum P(2) = 4.4e-34
 Identities = 84/239 (35%), Positives = 121/239 (50%)

Query:    14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
             P   ++ ++GCP++DR L GG+P + +TEL   S +GKTQ  LQL L+ Q P  HGGL A
Sbjct:    76 PARPQRLSLGCPVLDRLLRGGLPLDGVTELAGLSSAGKTQLALQLCLAVQFPPRHGGLDA 135

Query:    74 SSLYLHTEFPFPMRRLHQLS------HTFRPSNDHNPCDY---IFVQSVHSVDQLLD-IM 123
              ++Y+ TE  FP  RL QL        T  P    +   +   IF++ V  VD LL+ + 
Sbjct:   136 GAMYICTEDVFPNLRLQQLIAQQQRLRTDVPGEVVSRIKFSNQIFIEHVADVDSLLECVR 195

Query:   124 PKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG 183
              K+   +     SR   RL+VIDS+AA FR +FD     L  R+     +   L+ ++  
Sbjct:   196 EKVPVLL-----SRGMARLVVIDSVAAPFRCEFDGPA--LVPRARHLQALGAALRRLSCA 248

Query:   184 FGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
             F   VL  NQV +  E  +G    R   L         + PALG+ W+N +  RL + R
Sbjct:   249 FQSPVLCINQVTEATE-EQGT-APRPHGL-----RDERVSPALGMTWSNQLLMRLMVHR 300

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

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|Q08DH8 XRCC3 "DNA repair protein XRCC3" [Bos taurus (taxid:9913)]

 Score = 300 (110.7 bits), Expect = 1.1e-33, Sum P(2) = 1.1e-33
 Identities = 86/239 (35%), Positives = 122/239 (51%)

Query:    14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
             P   ++ ++GCP++D  L GG+P + ITEL   S +GKTQ  LQL L+ QLP  HGGL A
Sbjct:    76 PEQHQRLSLGCPVLDALLRGGLPLDGITELAGRSSAGKTQLALQLCLAVQLPPRHGGLGA 135

Query:    74 SSLYLHTEFPFPMRRLHQL---SHTFR---PSNDHNPCDY---IFVQSVHSVDQLLD-IM 123
              ++Y+ TE  FP RRL QL       R   P +  +   +   IF++    VD LL  + 
Sbjct:   136 GAVYVCTEDAFPSRRLQQLIAQQQRLRADVPGHVISKIRFGHQIFIEHAADVDTLLQCVR 195

Query:   124 PKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG 183
              K+   +     +R   RL+VIDS+AA FR +FD     L+ +  L   +   L+ ++  
Sbjct:   196 EKVPVLL-----ARGMARLVVIDSVAAPFRCEFDGAALALRAQRLL--ALGAELRRLSCA 248

Query:   184 FGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
             F   VL  NQV + +E  + V G            G  + PALGI WAN +  RL   R
Sbjct:   249 FRSPVLCVNQVTEAVEEQDLVAG----------PPG--MSPALGITWANQLLVRLLADR 295

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0048471 "perinuclear region of cytoplasm" evidence=ISS

GO:0005759 "mitochondrial matrix" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

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

UNIPROTKB|Q5ZM26 XRCC3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 104/294 (35%), Positives = 146/294 (49%)

Query:    18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLY 77
             +K ++GC ++D  L GGIP   ITEL  ES +GKTQ  LQL L  Q P  +GGL + ++Y
Sbjct:    80 QKLSLGCSVLDDLLKGGIPLVGITELAGESSAGKTQIGLQLCLCVQYPYRYGGLESGAVY 139

Query:    78 LHTEFPFPMRRLHQL---SHTFR---PSNDHNPCDY---IFVQSVHSVDQLLDIMPKIES 128
             + TE  FP +RL QL    H  R   P        +   IFV+    +D   + + K  S
Sbjct:   140 ICTEDAFPSKRLQQLIAQQHKLRADVPPEIIQKIRFGNSIFVEHAADLDTFHNCITKRLS 199

Query:   129 FIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAV 188
              +     +R  +RL+VIDSIAALFR +F  +   LK R    F     L  ++  F   +
Sbjct:   200 LLL----TRGMVRLVVIDSIAALFRCEFGASDSVLKARYLQTF--GAQLHGLSTRFRTPI 253

Query:   189 LVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRP-ICPALGIAWANCVNSRLFLSRNEDFV 247
             +  NQV D +  +E           C YS+    + PALGI WAN +  RL +SR     
Sbjct:   254 MCINQVTDAVSESEAAQ--------CSYSTADSRVSPALGITWANQLLMRLMVSR----- 300

Query:   248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
             V + +   G V    +       + R+L VVFAPHL  + C F +  EGV G++
Sbjct:   301 VPQPEPSPGAVSHHPA-------SMRTLRVVFAPHLPPSFCCFTVKLEGVKGMK 347

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

ZFIN|ZDB-GENE-050320-116 xrcc3 "X-ray repair complementing defective repair in Chinese hamster cells 3" [Danio rerio (taxid:7955)]

 Score = 339 (124.4 bits), Expect = 8.8e-31, P = 8.8e-31
 Identities = 89/235 (37%), Positives = 129/235 (54%)

Query:    19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
             + +  CP++D  + GG+P   ITEL  ES +GKTQFCLQL LS Q P  HGGL++ ++Y+
Sbjct:    81 RLSFACPVLDGLMRGGLPLRGITELAGESAAGKTQFCLQLCLSVQYPQEHGGLNSGAVYI 140

Query:    79 HTEFPFPMRRLHQL-SHTFRPSNDHNPCDYIFVQSVHSVDQL-LDIMPKIESFIKNSSNS 136
              TE  FP++RL QL +   R   D  P     + S+   D + ++    +E+ ++   + 
Sbjct:   141 CTEDSFPIKRLRQLITQQPRLRPDLPPA---LIHSLRFSDNIYIEHAADLEA-LQVCVSQ 196

Query:   137 RLPI-------RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVL 189
             R+P+       RL+V+DS+AALFRS+F    D+  +RS      S  L  ++  +   VL
Sbjct:   197 RVPVLLKRGLVRLLVVDSVAALFRSEFQ--ADEAVQRSRHLLAFSSTLHRLSHTYAAPVL 254

Query:   190 VTNQVVDLME-PNEGVNGLRVGNLGCLYSS-GRPICPALGIAWANCVNSRLFLSR 242
               NQV D+++ PN G          C Y   G  + PALGIAWAN V  RL L R
Sbjct:   255 CVNQVTDVVDGPNPG---------RCDYGLVGSKVLPALGIAWANQVMVRLMLRR 300

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA

MGI|MGI:1921585 Xrcc3 "X-ray repair complementing defective repair in Chinese hamster cells 3" [Mus musculus (taxid:10090)]

 Score = 319 (117.4 bits), Expect = 1.2e-28, P = 1.2e-28
 Identities = 87/244 (35%), Positives = 129/244 (52%)

Query:    14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
             P   ++ ++GCP++D+ LGGG+P   IT L   S +GKTQ  LQL L+ Q P  +GGL A
Sbjct:    76 PEQHQRLSLGCPVLDQFLGGGLPLEGITGLAGCSSAGKTQLALQLCLAVQFPRQYGGLEA 135

Query:    74 SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNP---------CDYIFVQSVHSVDQLLDIMP 124
              ++Y+ TE  FP +RL QL    R      P          ++IF++    VD LL+ + 
Sbjct:   136 GAVYICTEDAFPSKRLWQLIAQQRRLRTDAPEELIEKIRFSNHIFIEHAADVDTLLECVS 195

Query:   125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
             K    +     SR   RL+V+DSIAA FR +F      ++ +  L   +   L+ ++  F
Sbjct:   196 KKVPILL----SRGMARLVVVDSIAAPFRCEFHLQASAIRAK--LLLSLGATLRRLSSTF 249

Query:   185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR-N 243
                VL  NQV D++E  + V+     +LG   +S   + PALGI WAN +  RL + R +
Sbjct:   250 RSPVLCINQVTDMVEDQQSVSR----SLG---ASEERLSPALGITWANQLLMRLMVDRTH 302

Query:   244 EDFV 247
             ED V
Sbjct:   303 EDDV 306

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005739 "mitochondrion" evidence=ISO

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0006281 "DNA repair" evidence=ISO

GO:0006310 "DNA recombination" evidence=IEA

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

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

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

RGD|1306849 Xrcc3 "X-ray repair complementing defective repair in Chinese hamster cells 3" [Rattus norvegicus (taxid:10116)]

 Score = 309 (113.8 bits), Expect = 1.3e-27, P = 1.3e-27
 Identities = 83/244 (34%), Positives = 126/244 (51%)

Query:    14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA 73
             P   ++ ++GCP++D+ LGGG+P   IT L   S +GKTQ  LQL L+ Q P  +GGL A
Sbjct:    76 PEQHQRLSLGCPVLDQFLGGGLPLEGITGLAGRSSAGKTQLALQLCLAVQFPRQYGGLEA 135

Query:    74 SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCD---------YIFVQSVHSVDQLLDIMP 124
              ++Y+ TE  FP +RL QL    +      P +         +IF++    VD L++ + 
Sbjct:   136 GAVYICTEDAFPSKRLWQLIEQLQELRTDVPGEVTQKIRFGNHIFIEHAADVDTLMECVS 195

Query:   125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
             K    +     SR   RL+V+DSIAA FR +F      ++ +      +   L+ ++  F
Sbjct:   196 KRVPILL----SRGMARLVVVDSIAAPFRCEFHLQASAVRAKHL--HSLGAALQRLSSTF 249

Query:   185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR-N 243
                VL  NQV +++E  E   GL      CL +    + PALGI WAN +  +L + R +
Sbjct:   250 RSPVLCINQVTEMVEDQESA-GL------CLRAWEERLSPALGITWANQLLMQLMVDRIH 302

Query:   244 EDFV 247
             ED V
Sbjct:   303 EDSV 306

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

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

GO:0010033 "response to organic substance" evidence=IEP

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FKM5	XRCC3_ARATH	No assigned EC number	0.5822	0.9635	0.9572	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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	302
cd01123	235	cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B	4e-79
cd01393	226	cd01393, recA_like, RecA is a bacterial enzyme whi	1e-64
TIGR02236	310	TIGR02236, recomb_radA, DNA repair and recombinati	2e-29
PRK04301	317	PRK04301, radA, DNA repair and recombination prote	3e-29
PLN03186	342	PLN03186, PLN03186, DNA repair protein RAD51 homol	1e-27
COG0468	279	COG0468, RecA, RecA/RadA recombinase [DNA replicat	2e-26
PTZ00035	337	PTZ00035, PTZ00035, Rad51 protein; Provisional	2e-26
PLN03187	344	PLN03187, PLN03187, meiotic recombination protein	5e-24
pfam08423	261	pfam08423, Rad51, Rad51	1e-23
TIGR02239	316	TIGR02239, recomb_RAD51, DNA repair protein RAD51	8e-23
TIGR02238	313	TIGR02238, recomb_DMC1, meiotic recombinase Dmc1	2e-22
PRK09361	225	PRK09361, radB, DNA repair and recombination prote	8e-20
TIGR02237	209	TIGR02237, recomb_radB, DNA repair and recombinati	1e-16
cd01394	218	cd01394, radB, RadB	4e-16
COG0467	260	COG0467, RAD55, RecA-superfamily ATPases implicate	3e-06
pfam06745	231	pfam06745, KaiC, KaiC	2e-05
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	2e-05
cd00983	325	cd00983, recA, RecA is a bacterial enzyme which ha	4e-05
COG2874	235	COG2874, FlaH, Predicted ATPases involved in bioge	2e-04
PRK08533	230	PRK08533, PRK08533, flagellar accessory protein Fl	5e-04
TIGR03881	229	TIGR03881, KaiC_arch_4, KaiC domain protein, PAE11	0.003

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

 Score =  239 bits (613), Expect = 4e-79
 Identities = 89/277 (32%), Positives = 131/277 (47%), Gaps = 44/277 (15%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           T G   +D  LGGGI   SITE+  E GSGKTQ C QL ++ QLP   GGL   ++Y+ T
Sbjct: 2   TTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDT 61

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           E  F   RL Q++  F    +    D I+V   ++ D  L ++ ++E+ +  SS     I
Sbjct: 62  EGTFRPERLVQIAERFGLDPE-EVLDNIYVARAYNSDHQLQLLEELEAILIESSR----I 116

Query: 141 RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEP 200
           +L+++DS+ ALFR++FD    +L +R     K+   LK +A  F +AV++TNQV    + 
Sbjct: 117 KLVIVDSVTALFRAEFDG-RGELAERQQHLAKLLRTLKRLADEFNVAVVITNQVTARPD- 174

Query: 201 NEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGG 260
                       G     G P  PA G  WA+   +RL+L +                  
Sbjct: 175 ------------GAAMFGGDPKKPAGGNIWAHASTTRLYLRKG----------------- 205

Query: 261 SGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
                   R   R   +V +PHL +    F IT EG+
Sbjct: 206 --------RGEERIAKIVDSPHLPEGEAVFAITEEGI 234

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

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

 Score =  202 bits (516), Expect = 1e-64
 Identities = 87/270 (32%), Positives = 123/270 (45%), Gaps = 45/270 (16%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           + G   +D  LGGGIP   ITE+  E GSGKTQ CLQL + AQLP   GGL    +Y+ T
Sbjct: 2   STGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDT 61

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           E  F   RL QL+  F    +    D I+V   ++ +Q L+I+ ++E  +     S   +
Sbjct: 62  EGAFRPERLVQLAVRFGLDPE-EVLDNIYVARPYNGEQQLEIVEELERIM-----SSGRV 115

Query: 141 RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEP 200
            L+V+DS+AALFR +F      L +R+ L  +    L  +A  F +AV+ TNQV      
Sbjct: 116 DLVVVDSVAALFRKEFIG-RGMLAERARLLSQALRKLLRLADKFNVAVVFTNQVRA---- 170

Query: 201 NEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGG 260
                  +V  +      G P  PA G A A+   +RL L +    +             
Sbjct: 171 -------KVDVMF-----GDPETPAGGNALAHASTTRLDLRKGRGII------------- 205

Query: 261 SGSEDFVCRRTRRSLHVVFAPHLADTSCEF 290
                      RR   VV +P L +   EF
Sbjct: 206 ---------GERRIAKVVKSPALPEAEAEF 226

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

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

 Score =  113 bits (284), Expect = 2e-29
 Identities = 76/279 (27%), Positives = 123/279 (44%), Gaps = 46/279 (16%)

Query: 19  KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
           K T G   +D  LGGGI   +ITE+  E GSGKTQ C QL ++ QLP   GGL   ++Y+
Sbjct: 76  KITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYI 135

Query: 79  HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
            TE  F   R+ Q++       D      I+V   ++ +  + ++ K E  IK  +N   
Sbjct: 136 DTENTFRPERIMQMAEARGLDPD-EVLKNIYVARAYNSNHQMLLVEKAEDLIKELNN--- 191

Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM 198
           P++L+++DS+ + FR+++      L +R     K    L  +A  +  AV+VTNQV  + 
Sbjct: 192 PVKLLIVDSLTSHFRAEYVGR-GALAERQQKLNKHLHDLLRLADLYNAAVVVTNQV--MA 248

Query: 199 EPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGV 258
            P+              +  G P  P  G    +    R++L + +              
Sbjct: 249 RPD------------AFF--GDPTRPIGGHILGHAATFRVYLRKGKG------------- 281

Query: 259 GGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
                        +R   +V +PHL +    F IT +G+
Sbjct: 282 ------------DKRIARLVDSPHLPEGEAVFRITEKGI 308

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

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

 Score =  113 bits (284), Expect = 3e-29
 Identities = 84/293 (28%), Positives = 119/293 (40%), Gaps = 75/293 (25%)

Query: 19  KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
           K T G   +D  LGGGI   SITE   E GSGKTQ C QL ++ QLP   GGL   ++Y+
Sbjct: 83  KITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYI 142

Query: 79  HTEFPFPMRRLHQLSHTFRPSN--------DHNP---CDYIFVQSVHSVD-QLLDIMPKI 126
            TE             TFRP            +P    D I V   ++ D Q+L +  K 
Sbjct: 143 DTE------------GTFRPERIEQMAEALGLDPDEVLDNIHVARAYNSDHQML-LAEKA 189

Query: 127 ESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGL 186
           E  IK   N    I+L+++DS+ A FR+++     +L +R     K    L  +A  +  
Sbjct: 190 EELIKEGEN----IKLVIVDSLTAHFRAEYVG-RGNLAERQQKLNKHLHDLLRLADLYNA 244

Query: 187 AVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFL--SRNE 244
           AV+VTNQV              +      +  G P  P  G    +    R++L  S+  
Sbjct: 245 AVVVTNQV--------------MARPDAFF--GDPTQPIGGHILGHTATFRIYLRKSKGN 288

Query: 245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
             + R                           +V +PHL +    F IT EG+
Sbjct: 289 KRIAR---------------------------LVDSPHLPEGEAVFRITEEGI 314

Length = 317

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

 Score =  109 bits (273), Expect = 1e-27
 Identities = 76/277 (27%), Positives = 128/277 (46%), Gaps = 45/277 (16%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           T G   +D+ L GGI   SITE+  E  +GKTQ C  L ++ QLP   GG    ++Y+ T
Sbjct: 106 TTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDT 165

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           E  F  +RL Q++  F   N  +  + +     ++ D   +++ +  S +   + +R   
Sbjct: 166 EGTFRPQRLIQIAERFG-LNGADVLENVAYARAYNTDHQSELLLEAASMM---AETRFA- 220

Query: 141 RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEP 200
            L+++DS  AL+R++F +   +L  R     K    L+ +A  FG+AV++TNQVV  ++ 
Sbjct: 221 -LMIVDSATALYRTEF-SGRGELSARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVD- 277

Query: 201 NEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGG 260
                       G  + +G  + P  G   A+   +RL L +                 G
Sbjct: 278 ------------GSAFFAGPQLKPIGGNIMAHASTTRLALRK-----------------G 308

Query: 261 SGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
            G E+ +C+       V+ +P L +    F I+ EGV
Sbjct: 309 RG-ENRICK-------VISSPCLPEAEARFSISSEGV 337

Length = 342

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

 Score =  105 bits (263), Expect = 2e-26
 Identities = 53/182 (29%), Positives = 79/182 (43%), Gaps = 27/182 (14%)

Query: 18  EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLY 77
           E  + G   +D  LGGG+P   ITE+     SGKT   LQL  +AQ P   GG +A   +
Sbjct: 40  EAISTGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKP---GGKAA---F 93

Query: 78  LHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSR 137
           + TE      R  QL          +  D + V    + +Q L+I  K+           
Sbjct: 94  IDTEHALDPERAKQLG--------VDLLDNLLVSQPDTGEQQLEIAEKLARSGAEK---- 141

Query: 138 LPIRLIVIDSIAALFRSDF--DNTMDDLKKR-SFLFFKISGMLKAMAVGFGLAVLVTNQV 194
             I L+V+DS+AAL R++   D  +    +  S    K++ +       +  AV+ TNQV
Sbjct: 142 --IDLLVVDSVAALVRAEEIEDGHLGLRARLLSKALRKLTRLANK----YNTAVIFTNQV 195

Query: 195 VD 196
             
Sbjct: 196 RA 197

Length = 279

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

 Score =  105 bits (265), Expect = 2e-26
 Identities = 74/280 (26%), Positives = 118/280 (42%), Gaps = 47/280 (16%)

Query: 19  KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
           + T G   +D+ LGGGI   SITEL  E  +GKTQ C  L ++ QLP   GG     LY+
Sbjct: 99  RITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYI 158

Query: 79  HTEFPFPMRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSR 137
            TE  F   R+ Q++  F    D     D I     ++ +  + ++ +  + +       
Sbjct: 159 DTEGTFRPERIVQIAERF--GLDPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEE---- 212

Query: 138 LPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL 197
               L+++DS  ALFR D+ +   +L +R     K    L+ +A  F +AV++TNQV+  
Sbjct: 213 -RFALLIVDSATALFRVDY-SGRGELAERQQHLGKFLRALQKLADEFNVAVVITNQVMA- 269

Query: 198 MEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGG 257
                      V   G       P  P  G   A+   +RL L +               
Sbjct: 270 ----------DVD--GASMFVADPKKPIGGHIIAHASTTRLSLRK--------------- 302

Query: 258 VGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
             G G E  +C+       +  +P+L ++   F I+  G+
Sbjct: 303 --GRG-EQRICK-------IYDSPNLPESEAVFAISEGGI 332

Length = 337

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

 Score = 99.5 bits (248), Expect = 5e-24
 Identities = 79/281 (28%), Positives = 121/281 (43%), Gaps = 46/281 (16%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           T G   +D  LGGGI    ITE   E  SGKTQ    L ++ QLP+  GG +    Y+ T
Sbjct: 109 TTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDT 168

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           E  F   R+  ++  F    D    D I     ++ +   +++  + + +     +  P 
Sbjct: 169 EGTFRPDRIVPIAERFGMDAD-AVLDNIIYARAYTYEHQYNLLLGLAAKM-----AEEPF 222

Query: 141 RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEP 200
           RL+++DS+ ALFR DF     +L +R     ++   L  +A  F +AV +TNQV+   +P
Sbjct: 223 RLLIVDSVIALFRVDFTGR-GELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQVI--ADP 279

Query: 201 NEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGG 260
             G+           + S  P  PA G   A+    RL              M+  G G 
Sbjct: 280 GGGM-----------FIS-DPKKPAGGHVLAHAATIRL--------------MLRKGKG- 312

Query: 261 SGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
              E  VC+       V  AP+L +   EF+IT  G+   +
Sbjct: 313 ---EQRVCK-------VFDAPNLPEAEAEFQITSGGIMDAK 343

Length = 344

>gnl|CDD|117002 pfam08423, Rad51, Rad51

 Score = 97.0 bits (242), Expect = 1e-23
 Identities = 74/278 (26%), Positives = 120/278 (43%), Gaps = 47/278 (16%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           T G   +D+ LGGGI   SITE+  E  +GKTQ C  L ++ QLP   GG    +LY+ T
Sbjct: 26  TTGSKELDKLLGGGIETGSITEVFGEFRTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDT 85

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLP 139
           E  F   R+  ++  F    D     D I     ++ +  + ++ +  + +  S      
Sbjct: 86  EGTFRPERIVAIAERF--GLDPEEVLDNIAYARAYNTEHQMQLLLQAAAMMSES-----R 138

Query: 140 IRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLME 199
             L+++DS  AL+R+DF +   +L +R     K    L+ +A  FG+AV++TNQVV    
Sbjct: 139 FALLIVDSATALYRTDF-SGRGELAERQQHLAKFLRSLQRLADEFGVAVVITNQVV---- 193

Query: 200 PNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVG 259
                  +   +         P  P  G   A+   +RL+L +                 
Sbjct: 194 AQVDGAAMFAAD---------PKKPIGGHIMAHASTTRLYLRK----------------- 227

Query: 260 GSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
           G G E  VC+       +  +P L ++   F I+  G+
Sbjct: 228 GRG-EQRVCK-------IYDSPCLPESEAVFAISEGGI 257

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

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

 Score = 95.6 bits (238), Expect = 8e-23
 Identities = 58/175 (33%), Positives = 92/175 (52%), Gaps = 7/175 (4%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           T G   +D+ LGGGI   SITE+  E  +GKTQ C  L ++ QLP   GG    +LY+ T
Sbjct: 79  TTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDT 138

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           E  F   RL  ++  +  + +    D +     ++ D  L ++ +  + +   S SR   
Sbjct: 139 EGTFRPERLLAIAERYGLNPED-VLDNVAYARAYNTDHQLQLLQQAAAMM---SESRFA- 193

Query: 141 RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
            L+++DS  AL+R+DF +   +L  R     +    L+ +A  FG+AV++TNQVV
Sbjct: 194 -LLIVDSATALYRTDF-SGRGELSARQMHLARFLRSLQRLADEFGVAVVITNQVV 246

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

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

 Score = 94.5 bits (235), Expect = 2e-22
 Identities = 75/294 (25%), Positives = 120/294 (40%), Gaps = 47/294 (15%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           +T   +        K T G   +D  LGGGI   SITE+  E   GKTQ    L ++AQL
Sbjct: 63  ITAFEISQKRKKVLKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQL 122

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLDIM 123
           P   GG +    Y+ TE  F   R+  ++  F    D +   D I     ++ +  ++++
Sbjct: 123 PREMGGGNGKVAYIDTEGTFRPDRIRAIAERF--GVDPDAVLDNILYARAYTSEHQMELL 180

Query: 124 PKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG 183
             + +       S  P RL+++DSI ALFR DF     +L +R     ++   L  ++  
Sbjct: 181 DYLAAKF-----SEEPFRLLIVDSIMALFRVDFSGR-GELSERQQKLAQMLSRLNKISEE 234

Query: 184 FGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRN 243
           F +AV VTNQV    + + G     + +         P  P  G   A+   +R+ L + 
Sbjct: 235 FNVAVFVTNQV----QADPGATMTFIAD---------PKKPIGGHVLAHASTTRILLRK- 280

Query: 244 EDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
                           G G E        R   +  +P + +    F+IT  G+
Sbjct: 281 ----------------GRGEE--------RVAKLYDSPDMPEAEASFQITEGGI 310

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

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

 Score = 85.7 bits (213), Expect = 8e-20
 Identities = 50/178 (28%), Positives = 84/178 (47%), Gaps = 18/178 (10%)

Query: 17  TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSL 76
            E+   GC ++D  LGGG    +IT++    GSGKT  CLQL + A   + +G      +
Sbjct: 2   DERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEA---AKNGK---KVI 55

Query: 77  YLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNS 136
           Y+ TE      R  Q++      +       I +    S ++  + + K E   K +   
Sbjct: 56  YIDTE-GLSPERFKQIA----GEDFEELLSNIIIFEPSSFEEQSEAIRKAEKLAKEN--- 107

Query: 137 RLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
              + LIV+DS  +L+R + ++  D+ K    L  +++  L  +A    LAV++TNQV
Sbjct: 108 ---VGLIVLDSATSLYRLELEDEEDNSKLNRELGRQLT-HLLKLARKHDLAVVITNQV 161

Length = 225

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

 Score = 76.7 bits (189), Expect = 1e-16
 Identities = 48/168 (28%), Positives = 72/168 (42%), Gaps = 19/168 (11%)

Query: 27  IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM 86
           ID  LGGG+   +IT++    GSGKT  C+ L ++A   +  G       Y+ TE     
Sbjct: 1   IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNA---ARQGKKVV---YIDTE-GLSP 53

Query: 87  RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVID 146
            R  Q++                V  V   D+    + K   FI   S       L+V+D
Sbjct: 54  ERFKQIAE----DRPERALSNFIVFEVFDFDEQGVAIQKTSKFIDRDS-----ASLVVVD 104

Query: 147 SIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
           S  AL+R +     DD   R+    +   +L ++A    LAV++TNQV
Sbjct: 105 SFTALYRLELS---DDRISRNRELARQLTLLLSLARKKNLAVVITNQV 149

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

>gnl|CDD|238688 cd01394, radB, RadB

 Score = 75.2 bits (185), Expect = 4e-16
 Identities = 43/174 (24%), Positives = 73/174 (41%), Gaps = 18/174 (10%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
             GC  +D  LGGG+   ++T++    G+GKT   +QL   A   +  G   A   Y+ T
Sbjct: 2   PTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQL---AVETAGQGKKVA---YIDT 55

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           E      R  Q++              I V      ++    + + E+F          +
Sbjct: 56  EGLSS-ERFRQIAG----DRPERAASSIIVFEPMDFNEQGRAIQETETFADEK------V 104

Query: 141 RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
            L+V+DS  AL+R +  +    +K    L  ++   L  +A    +AV++TNQV
Sbjct: 105 DLVVVDSATALYRLELGDDDTTIKNYRELAKQL-TFLLWLARKHDVAVVITNQV 157

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

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

 Score = 47.5 bits (113), Expect = 3e-06
 Identities = 42/200 (21%), Positives = 68/200 (34%), Gaps = 34/200 (17%)

Query: 16  TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
             E+   G P +D  LGGG+P  S+  +    G+GKT F LQ  L               
Sbjct: 1   MMERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQF-LYEGAREGEPV----- 54

Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYI-------------FVQSVHSVDQLLDI 122
           LY+ TE       L + + +F      +   YI                 V  V      
Sbjct: 55  LYVSTE--ESPEELLENARSF----GWDLEVYIEKGKLAILDAFLSEKGLVSIVVGDPLD 108

Query: 123 MPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAV 182
           + ++   I+     +     +VIDSI  L        ++D      +   +   LK + V
Sbjct: 109 LEELLDRIREIVE-KEGADRVVIDSITELTLY-----LNDPALVRRILLLLKRFLKKLGV 162

Query: 183 GFGLAVLVTNQVVDLMEPNE 202
               ++L T   V+    + 
Sbjct: 163 T---SLLTTEAPVEERGESG 179

Length = 260

>gnl|CDD|219158 pfam06745, KaiC, KaiC

 Score = 44.9 bits (107), Expect = 2e-05
 Identities = 33/197 (16%), Positives = 60/197 (30%), Gaps = 43/197 (21%)

Query: 23  GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL------SASSL 76
           G P +D  L GGIP   +  +    G+GKT F LQ   +  L     G+          L
Sbjct: 4   GIPGLDEILKGGIPRGRVVLITGGPGTGKTIFGLQFLYNGALEYGEPGVYVTLEEPPEDL 63

Query: 77  YLHTEFPFPMRRLHQLSHTFRPSND----------HNPCDYIFVQSVHSVDQLLDIMPKI 126
                                   +           +      V+    +++L++ + + 
Sbjct: 64  R---------ENAKSFGWDLEKLEEEGKLAIIDASTSGIGIAEVKGRFDLEELIERLREA 114

Query: 127 ESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGL 186
              I          + +VIDSI  L+             R     ++  +LK +    G+
Sbjct: 115 IREIG--------AKRVVIDSITTLYLLLKPA-----MAREI-LRRLKRVLKKL----GV 156

Query: 187 AVLVTNQVVDLMEPNEG 203
             + T++         G
Sbjct: 157 TAIFTSEKPSGEGGIGG 173

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

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

 Score = 43.6 bits (103), Expect = 2e-05
 Identities = 34/159 (21%), Positives = 52/159 (32%), Gaps = 23/159 (14%)

Query: 40  ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP--MRRLHQLSHTFR 97
           +  +   +GSGKT   LQL L+     + GG     +Y+  E        RL   S    
Sbjct: 1   LILVFGPTGSGKTTLALQLALNIA---TKGG---KVVYVDIEEEIEELTERLIGESLKGA 54

Query: 98  PSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFD 157
             N       I V +         ++ K E         R    LI++D +  L R    
Sbjct: 55  LDN------LIIVFATADDPAAARLLSKAERLR-----ERGGDDLIILDELTRLVR---- 99

Query: 158 NTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD 196
              +  +       +    L   A   G+ V+ T QV  
Sbjct: 100 ALREIREGYPGELDEELRELLERARKGGVTVIFTLQVPS 138

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

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

 Score = 44.1 bits (105), Expect = 4e-05
 Identities = 37/138 (26%), Positives = 58/138 (42%), Gaps = 25/138 (18%)

Query: 27  IDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP 85
           +D  LG GG P   I E+     SGKT   L     AQ     GG  A   ++  E    
Sbjct: 43  LDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQ---KLGGTVA---FIDAE---- 92

Query: 86  MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVI 145
               H L   +      +  + +  Q     +Q L+I    +S ++  S +   + LIV+
Sbjct: 93  ----HALDPVYAKKLGVDLDNLLISQPDTG-EQALEI---ADSLVR--SGA---VDLIVV 139

Query: 146 DSIAALF-RSDFDNTMDD 162
           DS+AAL  +++ +  M D
Sbjct: 140 DSVAALVPKAEIEGEMGD 157

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

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

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 29/149 (19%), Positives = 57/149 (38%), Gaps = 22/149 (14%)

Query: 27  IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSA--SSLYLHTEFPF 84
           +D+ LGGGIP  S+  +  ++G+GK+    +         ++G L       Y+ TE   
Sbjct: 17  LDKRLGGGIPVGSLILIEGDNGTGKSVLSQRF--------AYGFLMNGYRVTYVSTELTV 68

Query: 85  P--MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIR- 141
              ++++  LS+     +D      +    V+ ++ +          +            
Sbjct: 69  REFIKQMESLSY---DVSDFLLSGRLLFFPVN-LEPVNWGRRSARKLLDLLLEFIKRWEK 124

Query: 142 -LIVIDSI-AALFRSDFDNT---MDDLKK 165
            +I+IDS+ A       D     M  L+K
Sbjct: 125 DVIIIDSLSAFATYDSEDAVLNFMTFLRK 153

Length = 235

>gnl|CDD|181459 PRK08533, PRK08533, flagellar accessory protein FlaH; Reviewed

 Score = 40.4 bits (95), Expect = 5e-04
 Identities = 39/158 (24%), Positives = 67/158 (42%), Gaps = 18/158 (11%)

Query: 27  IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM 86
           + + LGGGIP  S+  +  +  +GK+    +L     L + +     S+    TEF   M
Sbjct: 13  LHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGF-LQNGYSVSYVSTQLTTTEFIKQM 71

Query: 87  RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL--PIRLIV 144
             L    +    S        +++     V  LL    +   F+K   N+R      +I+
Sbjct: 72  MSLGYDINKKLISG-----KLLYI----PVYPLLSGNSEKRKFLKKLMNTRRFYEKDVII 122

Query: 145 IDSIAALFRSDFD-NTMDDLKKRSFLFFK-ISGMLKAM 180
           IDS+++L  +D     ++DL      FFK IS + K +
Sbjct: 123 IDSLSSLISNDASEVAVNDL----MAFFKRISSLNKVI 156

Length = 230

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

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 15/34 (44%), Positives = 19/34 (55%)

Query: 23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCL 56
          G   +D+ L GGIP      +  E G+GKT FCL
Sbjct: 5  GVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCL 38

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	302
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	100.0
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	100.0
KOG1564	351	consensus DNA repair protein RHP57 [Replication, r	100.0
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	100.0
KOG1434	335	consensus Meiotic recombination protein Dmc1 [Cell	100.0
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	100.0
PTZ00035	337	Rad51 protein; Provisional	100.0
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	100.0
PRK04301	317	radA DNA repair and recombination protein RadA; Va	100.0
TIGR02236	310	recomb_radA DNA repair and recombination protein R	100.0
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	100.0
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	100.0
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	100.0
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	100.0
cd01394	218	radB RadB. The archaeal protein radB shares simila	100.0
TIGR02237	209	recomb_radB DNA repair and recombination protein R	100.0
cd00983	325	recA RecA is a bacterial enzyme which has roles in	100.0
PRK09354	349	recA recombinase A; Provisional	100.0
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	100.0
PRK09519	790	recA DNA recombination protein RecA; Reviewed	100.0
PF00154	322	RecA: recA bacterial DNA recombination protein; In	99.97
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	99.96
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	99.96
PRK11823	446	DNA repair protein RadA; Provisional	99.96
KOG1433	326	consensus DNA repair protein RAD51/RHP55 [Replicat	99.95
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	99.95
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	99.95
PRK04328	249	hypothetical protein; Provisional	99.95
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	99.95
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	99.94
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.91
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	99.91
PRK09302	509	circadian clock protein KaiC; Reviewed	99.91
PRK06067	234	flagellar accessory protein FlaH; Validated	99.9
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	99.9
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.89
PRK09302	509	circadian clock protein KaiC; Reviewed	99.89
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	99.87
PRK08533	230	flagellar accessory protein FlaH; Reviewed	99.82
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	99.8
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	99.79
TIGR00665	434	DnaB replicative DNA helicase. This model describe	99.78
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	99.77
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	99.77
KOG2859	293	consensus DNA repair protein, member of the recA/R	99.76
PRK08760	476	replicative DNA helicase; Provisional	99.76
PRK05748	448	replicative DNA helicase; Provisional	99.76
PRK06321	472	replicative DNA helicase; Provisional	99.74
PHA02542	473	41 41 helicase; Provisional	99.74
PRK05595	444	replicative DNA helicase; Provisional	99.74
PRK05636	505	replicative DNA helicase; Provisional	99.73
PRK09165	497	replicative DNA helicase; Provisional	99.73
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	99.72
PRK07004	460	replicative DNA helicase; Provisional	99.72
PRK08006	471	replicative DNA helicase; Provisional	99.72
PRK06904	472	replicative DNA helicase; Validated	99.71
PRK08506	472	replicative DNA helicase; Provisional	99.71
PRK05973	237	replicative DNA helicase; Provisional	99.71
PRK08840	464	replicative DNA helicase; Provisional	99.71
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	99.69
PRK06749	428	replicative DNA helicase; Provisional	99.66
PRK07773	886	replicative DNA helicase; Validated	99.63
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	99.6
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	99.58
COG0305	435	DnaB Replicative DNA helicase [DNA replication, re	99.54
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.48
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	99.31
COG1127	263	Ttg2A ABC-type transport system involved in resist	99.07
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	99.0
KOG2373	514	consensus Predicted mitochondrial DNA helicase twi	99.0
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.93
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.92
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	98.91
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	98.9
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.89
COG0444	316	DppD ABC-type dipeptide/oligopeptide/nickel transp	98.89
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	98.88
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	98.86
COG3638	258	ABC-type phosphate/phosphonate transport system, A	98.82
PF13479	213	AAA_24: AAA domain	98.81
COG4619	223	ABC-type uncharacterized transport system, ATPase	98.8
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.8
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	98.8
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	98.77
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	98.77
COG0411	250	LivG ABC-type branched-chain amino acid transport	98.76
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	98.74
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.73
COG0410	237	LivF ABC-type branched-chain amino acid transport	98.72
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.7
COG4604	252	CeuD ABC-type enterochelin transport system, ATPas	98.68
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.68
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	98.67
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.67
COG3845	501	ABC-type uncharacterized transport systems, ATPase	98.66
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	98.65
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.63
smart00382	148	AAA ATPases associated with a variety of cellular	98.63
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	98.62
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	98.62
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.59
COG1129	500	MglA ABC-type sugar transport system, ATPase compo	98.59
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	98.58
COG4175	386	ProV ABC-type proline/glycine betaine transport sy	98.56
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	98.55
cd03246	173	ABCC_Protease_Secretion This family represents the	98.55
COG1123	539	ATPase components of various ABC-type transport sy	98.53
COG4586	325	ABC-type uncharacterized transport system, ATPase	98.53
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.51
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	98.51
PRK04296	190	thymidine kinase; Provisional	98.51
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.5
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	98.5
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	98.5
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.5
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	98.5
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.49
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	98.48
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.48
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	98.48
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	98.48
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.47
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	98.47
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	98.46
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.46
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.46
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	98.45
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	98.45
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	98.45
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.45
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	98.44
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	98.44
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	98.44
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	98.44
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	98.44
COG4172	534	ABC-type uncharacterized transport system, duplica	98.44
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	98.44
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	98.43
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	98.43
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	98.43
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	98.43
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	98.42
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	98.42
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	98.42
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	98.42
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	98.42
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	98.41
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	98.41
cd03215	182	ABC_Carb_Monos_II This family represents domain II	98.41
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	98.4
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.4
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.4
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	98.4
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	98.4
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	98.4
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	98.39
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	98.39
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	98.39
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	98.39
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	98.38
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	98.38
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.38
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	98.38
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	98.37
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	98.37
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	98.37
PRK13537	306	nodulation ABC transporter NodI; Provisional	98.37
PF00004	132	AAA: ATPase family associated with various cellula	98.37
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.37
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	98.37
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	98.36
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.36
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	98.36
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	98.36
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	98.36
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	98.36
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	98.36
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	98.36
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	98.35
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	98.35
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	98.35
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	98.35
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.35
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	98.35
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	98.35
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	98.34
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	98.34
COG1123	539	ATPase components of various ABC-type transport sy	98.34
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	98.34
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	98.34
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	98.33
COG4181	228	Predicted ABC-type transport system involved in ly	98.33
cd03299	235	ABC_ModC_like Archeal protein closely related to M	98.33
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	98.33
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.33
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	98.33
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.33
PRK10908	222	cell division protein FtsE; Provisional	98.32
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.32
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	98.32
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	98.32
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	98.32
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.32
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	98.32
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	98.31
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	98.31
COG4172	534	ABC-type uncharacterized transport system, duplica	98.31
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	98.31
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	98.31
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.31
PRK09984	262	phosphonate/organophosphate ester transporter subu	98.31
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	98.3
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	98.3
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.3
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	98.3
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	98.3
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.3
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	98.3
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	98.3
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.3
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.29
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.29
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.29
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	98.28
PRK13536	340	nodulation factor exporter subunit NodI; Provision	98.28
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	98.28
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	98.28
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	98.27
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	98.27
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	98.27
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.27
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.27
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	98.26
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	98.26
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	98.26
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	98.26
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.26
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	98.26
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.25
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	98.25
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.24
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	98.24
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	98.24
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	98.24
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	98.24
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	98.24
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	98.24
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	98.24
KOG0061	613	consensus Transporter, ABC superfamily (Breast can	98.23
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	98.23
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	98.23
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	98.22
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	98.22
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	98.22
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	98.22
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	98.22
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	98.21
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.21
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.21
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	98.21
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	98.21
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	98.21
PRK10938	490	putative molybdenum transport ATP-binding protein	98.21
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	98.2
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	98.2
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	98.2
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.19
COG4615	546	PvdE ABC-type siderophore export system, fused ATP	98.19
PRK09099	441	type III secretion system ATPase; Provisional	98.19
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	98.19
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	98.18
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.18
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.17
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	98.17
PRK13409	590	putative ATPase RIL; Provisional	98.16
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	98.16
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.16
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	98.16
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	98.16
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	98.16
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.15
COG2087	175	CobU Adenosyl cobinamide kinase/adenosyl cobinamid	98.15
PF13173	128	AAA_14: AAA domain	98.15
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	98.15
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.15
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	98.15
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	98.14
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.14
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	98.14
COG4559	259	ABC-type hemin transport system, ATPase component	98.14
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	98.13
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	98.13
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	98.13
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	98.12
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	98.12
PRK07594	433	type III secretion system ATPase SsaN; Validated	98.12
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	98.12
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.12
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	98.12
PRK10416	318	signal recognition particle-docking protein FtsY;	98.11
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	98.11
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	98.11
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.11
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	98.11
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.1
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	98.1
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.1
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.1
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.1
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	98.1
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	98.09
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	98.09
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	98.09
PRK13546	264	teichoic acids export protein ATP-binding subunit;	98.09
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.09
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	98.09
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	98.09
COG4152	300	ABC-type uncharacterized transport system, ATPase	98.08
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	98.08
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.08
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.08
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	98.08
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	98.08
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	98.07
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.07
CHL00059	485	atpA ATP synthase CF1 alpha subunit	98.07
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	98.07
PRK06936	439	type III secretion system ATPase; Provisional	98.07
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.06
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	98.06
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.06
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	98.06
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	98.06
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.06
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	98.05
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	98.05
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	98.04
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.04
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	98.04
PRK03695	248	vitamin B12-transporter ATPase; Provisional	98.04
PRK10867	433	signal recognition particle protein; Provisional	98.04
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	98.04
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	98.04
COG4148	352	ModC ABC-type molybdate transport system, ATPase c	98.03
COG4598	256	HisP ABC-type histidine transport system, ATPase c	98.03
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	98.03
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	98.03
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	98.02
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	98.02
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	98.02
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	98.01
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.01
PRK05922	434	type III secretion system ATPase; Validated	98.01
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	98.0
TIGR01194	555	cyc_pep_trnsptr cyclic peptide transporter. This m	98.0
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	98.0
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	98.0
PLN03232	1495	ABC transporter C family member; Provisional	98.0
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	98.0
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	98.0
PRK08181	269	transposase; Validated	97.99
PLN03130	1622	ABC transporter C family member; Provisional	97.98
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	97.98
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	97.98
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.98
COG4988	559	CydD ABC-type transport system involved in cytochr	97.98
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	97.98
KOG0057	591	consensus Mitochondrial Fe/S cluster exporter, ABC	97.97
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	97.97
PRK12377	248	putative replication protein; Provisional	97.96
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.96
KOG0065	1391	consensus Pleiotropic drug resistance proteins (PD	97.96
TIGR00955	617	3a01204 The Eye Pigment Precursor Transporter (EPP	97.96
PF02283	167	CobU: Cobinamide kinase / cobinamide phosphate gua	97.96
cd03234	226	ABCG_White The White subfamily represents ABC tran	97.96
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	97.96
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	97.95
PRK06835	329	DNA replication protein DnaC; Validated	97.95
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	97.94
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	97.94
PRK13409	590	putative ATPase RIL; Provisional	97.94
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.94
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	97.93
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.93
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	97.93
PRK08084	235	DNA replication initiation factor; Provisional	97.93
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	97.93
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	97.92
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	97.92
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	97.92
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	97.92
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	97.9
PRK08149	428	ATP synthase SpaL; Validated	97.9
PRK06921	266	hypothetical protein; Provisional	97.9
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.89
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	97.89
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	97.89
COG4987	573	CydC ABC-type transport system involved in cytochr	97.89
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	97.89
PRK14974	336	cell division protein FtsY; Provisional	97.88
PTZ00243	1560	ABC transporter; Provisional	97.88
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	97.88
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	97.87
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.87
PRK10522	547	multidrug transporter membrane component/ATP-bindi	97.86
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	97.86
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.86
PRK08116	268	hypothetical protein; Validated	97.86
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	97.86
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.85
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.85
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	97.85
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	97.85
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	97.84
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	97.84
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	97.84
PRK09376	416	rho transcription termination factor Rho; Provisio	97.84
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.84
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	97.84
PRK15064	530	ABC transporter ATP-binding protein; Provisional	97.83
TIGR00957	1522	MRP_assoc_pro multi drug resistance-associated pro	97.83
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	97.83
PRK06526	254	transposase; Provisional	97.82
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.81
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.81
cd01128	249	rho_factor Transcription termination factor rho is	97.81
PRK12608	380	transcription termination factor Rho; Provisional	97.81
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.81
TIGR01042	591	V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. Th	97.81
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.81
KOG0055	1228	consensus Multidrug/pheromone exporter, ABC superf	97.81
PRK06820	440	type III secretion system ATPase; Validated	97.81
TIGR01271	1490	CFTR_protein cystic fibrosis transmembrane conduct	97.8
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	97.8
PRK06893	229	DNA replication initiation factor; Validated	97.8
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.8
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	97.79
PLN03211	659	ABC transporter G-25; Provisional	97.79
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.79
PRK10938	490	putative molybdenum transport ATP-binding protein	97.79
PRK08727	233	hypothetical protein; Validated	97.79
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	97.79
PRK04196	460	V-type ATP synthase subunit B; Provisional	97.78
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.78
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.78
CHL00060	494	atpB ATP synthase CF1 beta subunit	97.78
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	97.77
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.77
PF05729	166	NACHT: NACHT domain	97.77
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.76
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	97.76
TIGR00954	659	3a01203 Peroxysomal Fatty Acyl CoA Transporter (FA	97.76
COG1101	263	PhnK ABC-type uncharacterized transport system, AT	97.76
PTZ00185	574	ATPase alpha subunit; Provisional	97.76
PRK07952	244	DNA replication protein DnaC; Validated	97.75
PRK05642	234	DNA replication initiation factor; Validated	97.75
COG0488	530	Uup ATPase components of ABC transporters with dup	97.75
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	97.75
TIGR00956	1394	3a01205 Pleiotropic Drug Resistance (PDR) Family p	97.75
PRK04192	586	V-type ATP synthase subunit A; Provisional	97.75
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	97.74
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.74
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	97.74
CHL00176	638	ftsH cell division protein; Validated	97.73
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	97.73
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	97.73
COG4136	213	ABC-type uncharacterized transport system, ATPase	97.73
TIGR00959	428	ffh signal recognition particle protein. This mode	97.72
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.71
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.71
PLN03140	1470	ABC transporter G family member; Provisional	97.71
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.7
TIGR01257	2272	rim_protein retinal-specific rim ABC transporter.	97.7
PLN03073	718	ABC transporter F family; Provisional	97.7
KOG0055	1228	consensus Multidrug/pheromone exporter, ABC superf	97.69
TIGR00767	415	rho transcription termination factor Rho. Members	97.69
COG4178	604	ABC-type uncharacterized transport system, permeas	97.69
COG1137	243	YhbG ABC-type (unclassified) transport system, ATP	97.68
PLN03232	1495	ABC transporter C family member; Provisional	97.68
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.67
PRK11147	635	ABC transporter ATPase component; Reviewed	97.67
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.67
PRK10535	648	macrolide transporter ATP-binding /permease protei	97.66
CHL00195	489	ycf46 Ycf46; Provisional	97.66
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.66
COG4133	209	CcmA ABC-type transport system involved in cytochr	97.66
KOG0060	659	consensus Long-chain acyl-CoA transporter, ABC sup	97.66
TIGR01187	325	potA spermidine/putrescine ABC transporter ATP-bin	97.66
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.65
KOG0056	790	consensus Heavy metal exporter HMT1, ABC superfami	97.65
COG4138	248	BtuD ABC-type cobalamin transport system, ATPase c	97.64
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	97.64
COG0488	530	Uup ATPase components of ABC transporters with dup	97.64
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	97.64
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	97.63
PLN03130	1622	ABC transporter C family member; Provisional	97.61
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.61
PF05625	363	PAXNEB: PAXNEB protein; InterPro: IPR008728 The RN	97.6
PRK00889	175	adenylylsulfate kinase; Provisional	97.6
PRK12678	672	transcription termination factor Rho; Provisional	97.6

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

Probab=100.00  E-value=1.2e-53  Score=372.32  Aligned_cols=250  Identities=40%  Similarity=0.709  Sum_probs=213.3

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ..++++.+.....|+||++.||.+|+|||+.|.+|||+|+||||||+||+++|.++++|...||.+++|+|||||++|++
T Consensus         7 a~~~~~~~~~~~~i~Tg~~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~   86 (256)
T PF08423_consen    7 AAELLEQRKRWSRISTGCKSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSP   86 (256)
T ss_dssp             HHHHHHHHHTS-EE--SSHHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-H
T ss_pred             HHHHHHHhhcCCeeCCCCHHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCH
Confidence            44678888889999999999999999999999999999999999999999999999998777888889999999999999


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHH
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKR  166 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r  166 (302)
                      +|+.+|++.+. ..+++.++|+++.++.+.+++.+++..+...+.+     .+++|||||||+++|+.++.+. +++.+|
T Consensus        87 ~Rl~~i~~~~~-~~~~~~l~~I~v~~~~~~~~l~~~L~~l~~~l~~-----~~ikLIVIDSIaalfr~e~~~~-~~~~~R  159 (256)
T PF08423_consen   87 ERLQQIAERFG-LDPEEILDNIFVIRVFDLEELLELLEQLPKLLSE-----SKIKLIVIDSIAALFRSEFSGR-GDLAER  159 (256)
T ss_dssp             HHHHHHHHHTT-S-HHHHHHTEEEEE-SSHHHHHHHHHHHHHHHHH-----SCEEEEEEETSSHHHHHHSGST-TTHHHH
T ss_pred             HHHHHHhhccc-cccchhhhceeeeecCCHHHHHHHHHHHHhhccc-----cceEEEEecchHHHHHHHHccc-hhhHHH
Confidence            99999998764 2334578999999999999999999999888875     5799999999999999887654 256789


Q ss_pred             HHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCc
Q 022155          167 SFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDF  246 (302)
Q Consensus       167 ~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~  246 (302)
                      ++.|.+++..|+++|++|+++||+|||++++++...            .+ .....+|+||.+|+|++++||+|+|.+. 
T Consensus       160 ~~~L~~~~~~L~~lA~~~~iaVvvTNqv~~~~~~~~------------~~-~~~~~~PalG~~w~h~~~~Rl~l~k~~~-  225 (256)
T PF08423_consen  160 QRMLARLARILKRLARKYNIAVVVTNQVTTKIDSNS------------LF-DGDRLKPALGHSWSHAVTTRLFLSKGRG-  225 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-EEEEEEEECSSTT----------------S-STTSEEETTHHHHHHHSSEEEEEEECST-
T ss_pred             HHHHHHHHHHHHHHHHhCCceEEeeceeeecCCccc------------cc-ccccceecCcchhhhhccEEEEEEeCCC-
Confidence            999999999999999999999999999998876431            11 1246899999999999999999998543 


Q ss_pred             hhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          247 VVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       247 ~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                              ..|.++|.|||..|..++.|.|+++||+|++
T Consensus       226 ------------------------~~R~~~i~ksp~~p~~~~~f~It~~Gi~d~~  256 (256)
T PF08423_consen  226 ------------------------SERVATIVKSPSLPEGSASFQITEDGIRDVK  256 (256)
T ss_dssp             ------------------------TEEEEEEEECSSSSSEEEEEEEETTEEEE--
T ss_pred             ------------------------CeEEEEEeECCCCCCceEEEEEeCCCccCCC
Confidence                                    4899999999999999999999999999974

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 ....

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=100.00  E-value=1.5e-48  Score=350.36  Aligned_cols=250  Identities=29%  Similarity=0.440  Sum_probs=217.5

Q ss_pred             CccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155            6 TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      +..+++..+....+++||++.||.+|+|||+.|.+|||+|+|||||||||+|++.++++|...||..++|+|||+|++|+
T Consensus        94 ta~~~~~~~~~~~~isTG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~  173 (344)
T PLN03187         94 TGSDALLKRKSVVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFR  173 (344)
T ss_pred             cHHHHHhhhccCceecCCcHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCC
Confidence            34457777778899999999999999999999999999999999999999999999988876777778999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHH
Q 022155           86 MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKK  165 (302)
Q Consensus        86 ~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~  165 (302)
                      ++|+.+++..+.. .++..++||++.++.+.+++.+++..+...+.+     .++++|||||++++|+.++.+. +++.+
T Consensus       174 peRl~~ia~~~g~-d~~~~l~~I~~~~~~~~e~~~~~l~~l~~~i~~-----~~~~LvVIDSital~r~~~~~r-g~l~~  246 (344)
T PLN03187        174 PDRIVPIAERFGM-DADAVLDNIIYARAYTYEHQYNLLLGLAAKMAE-----EPFRLLIVDSVIALFRVDFTGR-GELAE  246 (344)
T ss_pred             HHHHHHHHHHcCC-ChhhhcCeEEEecCCCHHHHHHHHHHHHHHHHh-----cCCCEEEEeCcHHhhhccccCc-cchHH
Confidence            9999999988753 345678999999999999998888888777764     5789999999999999877654 35677


Q ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          166 RSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       166 r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                      |++.+.+++..|+++++++|++||+|||++++.+.+            .++  +...+|++|..|+|++++|++|+|...
T Consensus       247 rq~~L~~~~~~L~~lA~~~~vavvvTNqv~~~~~~~------------~~~--~~~~~pagG~~~~h~~~~Rl~l~k~~~  312 (344)
T PLN03187        247 RQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGG------------MFI--SDPKKPAGGHVLAHAATIRLMLRKGKG  312 (344)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCEEEEEecEEEcCCcc------------ccc--CCCCCCCCchhhheeeeEEEEEEcCCC
Confidence            888899999999999999999999999999866431            122  245689999999999999999988533


Q ss_pred             chhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       246 ~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                               ..|.++|+|||++|..++.|.|+++||.|++
T Consensus       313 -------------------------~~R~~~v~ksp~lp~~~~~f~It~~GI~d~~  343 (344)
T PLN03187        313 -------------------------EQRVCKVFDAPNLPEAEAEFQITSGGIMDAK  343 (344)
T ss_pred             -------------------------CeEEEEEEECCCCCCceEEEEEeCCCccCCC
Confidence                                     4799999999999999999999999999975

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

Probab=100.00  E-value=5.8e-49  Score=331.62  Aligned_cols=262  Identities=50%  Similarity=0.878  Sum_probs=227.5

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      +++++||+..||..|+|||+.+.+|||+|++|+||||||+|++..+++|...||++++++||.||..|+..||.++...+
T Consensus        81 ~~~lttgc~~LD~~L~GGi~~~giTEi~GeSg~GKtQL~lQL~L~VQLp~~~GGL~~~~vYI~TE~~fP~rRL~qL~~~~  160 (351)
T KOG1564|consen   81 RSKLTTGCVALDECLRGGIPTDGITEICGESGCGKTQLLLQLSLCVQLPRSHGGLGGGAVYICTESPFPTRRLHQLSHTL  160 (351)
T ss_pred             chhcccccHHHHHHhcCCcccccHHHHhhccCCcHHHHHHHHHHHhhCchhhCCCCCceEEEEcCCCCcHHHHHHHHHhc
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999998876


Q ss_pred             CCC-CCC-------CCCCcEEEEeCCCHHHHHHHHHH-HHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHH
Q 022155           97 RPS-NDH-------NPCDYIFVQSVHSVDQLLDIMPK-IESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRS  167 (302)
Q Consensus        97 ~~~-~~~-------~~l~~i~~~~~~~~~~l~~~l~~-l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~  167 (302)
                      ... .++       +.-++|++..+.+.+.+++++.. ++-+++     +.+++||||||++++|+.+++....+++.|.
T Consensus       161 ~~rp~~~~~~~~~~Npgd~IFv~~~~d~d~l~~iv~~qlPiL~~-----r~~i~LVIiDSVAa~fR~E~d~~~Sdl~~r~  235 (351)
T KOG1564|consen  161 PQRPNPEKELNYNDNPGDHIFVENVHDVDHLLHIVNRQLPILLN-----RKKIKLVIIDSVAALFRSEFDYNPSDLKKRA  235 (351)
T ss_pred             ccCCCcchhhhhccCCCceEEEEeccchhhHHHHHhhhccceec-----cCcceEEEEehhhHHHHHHhccChhhhhhHH
Confidence            543 221       23355999999999999988874 444444     4679999999999999999886656888999


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                      ..|.++...|+.+|.+|+++|+++||+.+.....+...+++.++.-+.|..+ ...|+||.+|++++++|+++.|...  
T Consensus       236 ~~l~rla~~Lr~LA~~~~~aVV~~NQVtd~~~~~~~~~~l~~~d~r~~w~sg-w~vPsLGL~WaN~v~tRl~l~r~~k--  312 (351)
T KOG1564|consen  236 RHLFRLAGKLRQLASKFDLAVVCANQVTDRVETSDDLSGLRIGDYRYLWSSG-WVVPSLGLTWANCVSTRLLLSRSTK--  312 (351)
T ss_pred             HHHHHHHHHHHHHHHhcCccEEEeeccccccccccccCCccccchhhccccc-cccccccceeccccceeeeeeeccc--
Confidence            9999999999999999999999999999997777766777777776666554 4789999999999999999999442  


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCccccc
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGV  300 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~  300 (302)
                                    +.+.+..|...|.++|+.||+.|++.|+|.|+..||+.+
T Consensus       313 --------------~~~sa~~~~~~R~l~VvySp~~p~~~~~~~It~eGI~~~  351 (351)
T KOG1564|consen  313 --------------NCDSAVSRSAKRTLRVVYSPYLPPSSCEFMITAEGICAV  351 (351)
T ss_pred             --------------cccchhhcccceEEEEEecCCCCCcceEEEEecceEecC
Confidence                          124456678999999999999999999999999999864

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=100.00  E-value=1.7e-48  Score=348.04  Aligned_cols=250  Identities=28%  Similarity=0.427  Sum_probs=216.2

Q ss_pred             CccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155            6 TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      +..++++.+....+++||++.||.+|+||+++|.++||+||||+||||||++++.++++|...|+..++|+|||+|++|+
T Consensus        64 ta~~~~~~~~~~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~  143 (313)
T TIGR02238        64 TAFEISQKRKKVLKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFR  143 (313)
T ss_pred             cHHHHHHhhccCceeCCCCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCC
Confidence            34467788888899999999999999999999999999999999999999999999888766666667999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHH
Q 022155           86 MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKK  165 (302)
Q Consensus        86 ~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~  165 (302)
                      ++|+.+++..+.. .++..++++++.++.+.+++.+++..+...+.+     .++++|||||++++|+.++.+. +++.+
T Consensus       144 ~eRi~~~a~~~g~-d~~~~l~~i~~~~~~~~e~~~~~l~~l~~~i~~-----~~~~LvVIDSisal~r~~~~~~-g~~~~  216 (313)
T TIGR02238       144 PDRIRAIAERFGV-DPDAVLDNILYARAYTSEHQMELLDYLAAKFSE-----EPFRLLIVDSIMALFRVDFSGR-GELSE  216 (313)
T ss_pred             HHHHHHHHHHcCC-ChHHhcCcEEEecCCCHHHHHHHHHHHHHHhhc-----cCCCEEEEEcchHhhhhhccCc-cchHH
Confidence            9999999988753 345678999999999999999888888877764     5789999999999999877653 35677


Q ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          166 RSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       166 r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                      |++.+.+++..|+++|++++++||+|||++++.+...            ++. ..+.+|+||..|+|++++||+|+|...
T Consensus       217 r~~~l~~~~~~L~~la~~~~vavvitNqv~~~~~~~~------------~~~-~~~~~p~gG~~~~h~~~~Rl~l~k~~~  283 (313)
T TIGR02238       217 RQQKLAQMLSRLNKISEEFNVAVFVTNQVQADPGATM------------TFI-ADPKKPIGGHVLAHASTTRILLRKGRG  283 (313)
T ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEECceEecCCccc------------ccC-CCCccCcchhhhhhheeEEEEEEecCC
Confidence            8888999999999999999999999999998765310            121 136789999999999999999998543


Q ss_pred             chhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCccccc
Q 022155          246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGV  300 (302)
Q Consensus       246 ~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~  300 (302)
                                               ..|.++|+|||+.|..++.|.|+++||+|+
T Consensus       284 -------------------------~~R~~~~~~sp~~p~~~~~f~i~~~Gi~~~  313 (313)
T TIGR02238       284 -------------------------EERVAKLYDSPDMPEAEASFQITEGGIADA  313 (313)
T ss_pred             -------------------------CeEEEEEeeCCCCCCeEEEEEEeCCcccCC
Confidence                                     479999999999999999999999999985

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.

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

Probab=100.00  E-value=6.5e-50  Score=332.91  Aligned_cols=249  Identities=29%  Similarity=0.476  Sum_probs=228.2

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      -++++++....+|+||+..||.+|+|||+.=.++||+|.+|+||||+++++|..+++|...||..++++|||||++|.++
T Consensus        85 ~e~le~r~~v~~ItTgs~~lD~ILGGGI~~m~iTEifGefr~GKTQlshtLcVt~QlPr~~Gg~~Gk~ifIDTEgtFrpd  164 (335)
T KOG1434|consen   85 LELLEQRKTVGSITTGSSALDDILGGGIPSMSITEIFGEFRCGKTQLSHTLCVTVQLPREMGGVGGKAIFIDTEGTFRPD  164 (335)
T ss_pred             HHHHhhhhccceeecchHHHhhhhcCCccchhhHHHcCCCCcCccceeeEEEEEeecchhhCCCCceEEEEecCCccchH
Confidence            35889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHH
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRS  167 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~  167 (302)
                      |+.+|++.+. ..++..++||++.++.+.++..+++..+.+.+.+    +.+.+|||||||.++|+.+++++. ++.+|+
T Consensus       165 Ri~~IAe~~~-~d~d~~LdNI~y~Ra~~se~qmelv~~L~~~~se----~g~~rlvIVDsIma~FRvDy~grg-eLseRq  238 (335)
T KOG1434|consen  165 RIKDIAERFK-VDPDFTLDNILYFRAYNSEEQMELVYLLGDFLSE----HGKYRLVIVDSIMALFRVDYDGRG-ELSERQ  238 (335)
T ss_pred             HHHHHHHHhC-CCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhh----cCcEEEEEEeceehheeecccccc-cHHHHH
Confidence            9999998865 3455789999999999999999999999999986    568899999999999999999874 899999


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                      +.|..++.+|.+||.+||++|++|||+.+++...-            +|.+ ...+|++|++|+|+.++|++|.|...  
T Consensus       239 qkLn~ml~kl~~laeefnvAVfltNQvttdpga~~------------~f~s-~~~kp~gGh~~aHAsttRlilrkgrg--  303 (335)
T KOG1434|consen  239 QKLNQMLQKLNKLAEEFNVAVFLTNQVTTDPGAGM------------TFAS-QDLKPAGGHSWAHASTTRLILRKGRG--  303 (335)
T ss_pred             HHHHHHHHHHHHHHHhccEEEEEecceecCCcccc------------cccc-cccCccccchhhhhhheeEEEEcCCc--
Confidence            99999999999999999999999999999887531            2222 34899999999999999999998643  


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCccccc
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGV  300 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~  300 (302)
                                             .+|.+++.+||..|..++.|.|++.||.|.
T Consensus       304 -----------------------~eR~Akl~dSP~mpe~e~~y~It~~Gi~ds  333 (335)
T KOG1434|consen  304 -----------------------DERVAKLYDSPSMPEAEASYVITPGGIRDS  333 (335)
T ss_pred             -----------------------ceeeeecccCCCCCcceEEEEEcCCccccC
Confidence                                   689999999999999999999999999986

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=100.00  E-value=1.1e-46  Score=338.81  Aligned_cols=249  Identities=29%  Similarity=0.471  Sum_probs=214.9

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .++++.+....+++||++.||.+|+||+++|.+++|+|+||+|||+||++++.++++|...|+..++|+|||+|++|+++
T Consensus        93 ~~~~~~~~~~~~i~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~e  172 (342)
T PLN03186         93 SQLHAQRQEIIQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQ  172 (342)
T ss_pred             HHHhhcccCcceeCCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHH
Confidence            34677777889999999999999999999999999999999999999999999988876666666799999999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHH
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRS  167 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~  167 (302)
                      |+.+++..+.. .++..++++++.++.+.+++.+++..+...+.+     .++++|||||++++|+.++.+. +++.+|+
T Consensus       173 Rl~qia~~~~~-~~~~~l~~i~~~~~~~~e~~~~ll~~~~~~~~~-----~~~~LIVIDSI~alfr~~~~~~-g~l~~r~  245 (342)
T PLN03186        173 RLIQIAERFGL-NGADVLENVAYARAYNTDHQSELLLEAASMMAE-----TRFALMIVDSATALYRTEFSGR-GELSARQ  245 (342)
T ss_pred             HHHHHHHHcCC-ChhhhccceEEEecCCHHHHHHHHHHHHHHhhc-----cCCCEEEEeCcHHHHHHHhcCC-ccHHHHH
Confidence            99999988653 344578999999999999988888887777654     5789999999999998877654 3556788


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                      +.|.+++..|+++|++++++||+|||++++++...            ++ .++..+|+||..|+|++++||+|+|...  
T Consensus       246 ~~L~~~l~~L~~lA~~~~vaVviTNqv~~~~~~~~------------~~-~~~~~~P~gG~~~~h~~~tRl~L~k~~~--  310 (342)
T PLN03186        246 MHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSA------------FF-AGPQLKPIGGNIMAHASTTRLALRKGRG--  310 (342)
T ss_pred             HHHHHHHHHHHHHHHHcCCEEEEEcCEEEccCCcc------------cc-CCCccccchhHHHHhhccEEEEEEecCC--
Confidence            88999999999999999999999999998775320            12 1345699999999999999999998432  


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                             ..|.++|.|||+.|..++.|.|+++||+++.
T Consensus       311 -----------------------~~R~~~v~ksp~~p~~e~~F~I~~~Gi~~~~  341 (342)
T PLN03186        311 -----------------------ENRICKVISSPCLPEAEARFSISSEGVTDVK  341 (342)
T ss_pred             -----------------------CeEEEEEEECCCCCCeEEEEEEECCceecCC
Confidence                                   5799999999999999999999999999875

>PTZ00035 Rad51 protein; Provisional

Probab=100.00  E-value=1.1e-45  Score=333.50  Aligned_cols=251  Identities=27%  Similarity=0.447  Sum_probs=216.7

Q ss_pred             CccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155            6 TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      +..++++.+....+++||++.||.+|+|||++|++++|+|+||+||||||++++.++++|...|+..++|+|||+|++|+
T Consensus        86 ta~~~~~~~~~~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~  165 (337)
T PTZ00035         86 SATEYLEARKNIIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFR  165 (337)
T ss_pred             CHHHHHHhhccCccccCCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCC
Confidence            44457888888999999999999999999999999999999999999999999999887766666667999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHH
Q 022155           86 MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKK  165 (302)
Q Consensus        86 ~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~  165 (302)
                      ++|+.++++.+.. .++..++|+.+.++.+.+++.+++..+...+.+     .++++|||||++++|+.++.+. +++..
T Consensus       166 ~eri~~ia~~~g~-~~~~~l~nI~~~~~~~~e~~~~~l~~~~~~l~~-----~~~~lvVIDSital~r~~~~~~-~~~~~  238 (337)
T PTZ00035        166 PERIVQIAERFGL-DPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAE-----ERFALLIVDSATALFRVDYSGR-GELAE  238 (337)
T ss_pred             HHHHHHHHHHhCC-ChHhHhhceEEEccCCHHHHHHHHHHHHHHhhc-----cCccEEEEECcHHhhhhhccCc-ccHHH
Confidence            9999999988653 334678999999999999988888887777754     5789999999999998877654 24677


Q ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          166 RSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       166 r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                      |++.+.+++..|+++|++++++||+|||++++++...            ++ .+...+|++|..|+|++++||+|+|...
T Consensus       239 r~~~l~~~~~~L~~la~~~~vavvvtNqv~~~~~~~~------------~~-~~~~~~p~gG~~~~h~~~~Rl~l~k~~~  305 (337)
T PTZ00035        239 RQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGAS------------MF-VADPKKPIGGHIIAHASTTRLSLRKGRG  305 (337)
T ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEecceEEecCCcc------------cc-CCCCccCCchHHHHhheeEEEEEEecCC
Confidence            8888999999999999999999999999998765311            11 1246789999999999999999998543


Q ss_pred             chhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       246 ~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                               ..|.++|+|||+.|..++.|+|+++||++++
T Consensus       306 -------------------------~~R~~~i~ksp~~p~~~~~f~It~~Gi~~~~  336 (337)
T PTZ00035        306 -------------------------EQRICKIYDSPNLPESEAVFAISEGGIIDAK  336 (337)
T ss_pred             -------------------------CeeEEEEEECCCCCCeeEEEEEeCCccccCC
Confidence                                     4799999999999999999999999999986

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=100.00  E-value=9.7e-45  Score=324.81  Aligned_cols=250  Identities=28%  Similarity=0.470  Sum_probs=213.2

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .++++.+....+++||++.||.+|+||+++|++++|+|+||+|||+||++++.+++++...|+.+.+|+|||+|+.|+++
T Consensus        66 ~~l~~~~~~~~~~~tg~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~  145 (316)
T TIGR02239        66 TEFHQRRQEVIQLTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPE  145 (316)
T ss_pred             HHHHhcccccceeCCCCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHH
Confidence            34677777889999999999999999999999999999999999999999999887776667656689999999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHH
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRS  167 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~  167 (302)
                      |+.++++.+.. .++..++++++.++.+.+++.+++..+..++.+     .++++|||||++++|+.++.+. +++..|+
T Consensus       146 Rl~~ia~~~~~-~~~~~l~~i~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~LvVIDSI~al~r~~~~~~-~~~~~rq  218 (316)
T TIGR02239       146 RLLAIAERYGL-NPEDVLDNVAYARAYNTDHQLQLLQQAAAMMSE-----SRFALLIVDSATALYRTDFSGR-GELSARQ  218 (316)
T ss_pred             HHHHHHHHcCC-ChHHhhccEEEEecCChHHHHHHHHHHHHhhcc-----CCccEEEEECcHHHhhhhcCCc-chHHHHH
Confidence            99999988653 334678899999999988888888887777653     5789999999999998877654 3556777


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                      ..|.+++..|+++|++++++||+|||++++++...+           ++. +...+|+||..|+|++++||+|+|...  
T Consensus       219 ~~l~~~~~~L~~la~~~~vavv~tNqv~~~~~~~~~-----------~~~-g~~~~p~gG~~~~h~~~~ri~l~k~~~--  284 (316)
T TIGR02239       219 MHLARFLRSLQRLADEFGVAVVITNQVVAQVDGAGS-----------MFA-GDPKKPIGGNIMAHASTTRLSLRKGRG--  284 (316)
T ss_pred             HHHHHHHHHHHHHHHHhCCEEEEECceEEecCCccc-----------ccc-CCCCcCCchHHHHhhccEEEEEEecCC--
Confidence            778999999999999999999999999987754210           111 246889999999999999999998543  


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                             ..|.++++|||+.|..++.|+|+++||++++
T Consensus       285 -----------------------~~R~~~v~ksp~~p~~~~~f~i~~~Gi~~~~  315 (316)
T TIGR02239       285 -----------------------EQRICKIYDSPCLPESEAMFAIYEDGIGDPK  315 (316)
T ss_pred             -----------------------CeEEEEEEECCCCCCeEEEEEEeCCceecCC
Confidence                                   4799999999999999999999999999976

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).

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=100.00  E-value=9.4e-43  Score=314.10  Aligned_cols=247  Identities=32%  Similarity=0.474  Sum_probs=209.1

Q ss_pred             CccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155            6 TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      ++.+++..+....+++||++.||++|+||+++|.+++|+|+||+|||+||++++.+++++...|+...+|+|||+|++|+
T Consensus        70 t~~~l~~~~ks~~~~~Tg~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~  149 (317)
T PRK04301         70 TALEVLERRKNVGKITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFR  149 (317)
T ss_pred             cHHHHHHhhccCCccCCCCHHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcC
Confidence            34456666677889999999999999999999999999999999999999999999887655566677999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHH
Q 022155           86 MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKK  165 (302)
Q Consensus        86 ~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~  165 (302)
                      ++|+.+++..+.. .++..++++++.++.+.+++..++..+..++.+    ..++++|||||++++++.++.+.. +..+
T Consensus       150 ~~rl~~~~~~~g~-~~~~~l~~i~~~~~~~~~~~~~~~~~l~~~i~~----~~~~~lvVIDSisa~~~~~~~~~~-~~~~  223 (317)
T PRK04301        150 PERIEQMAEALGL-DPDEVLDNIHVARAYNSDHQMLLAEKAEELIKE----GENIKLVIVDSLTAHFRAEYVGRG-NLAE  223 (317)
T ss_pred             HHHHHHHHHHcCC-ChHhhhccEEEEeCCCHHHHHHHHHHHHHHHhc----cCceeEEEEECchHHhhhhccCCc-cHHH
Confidence            9999999987653 344567889999988888777777788777753    357899999999999988766542 4566


Q ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          166 RSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       166 r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                      |++.+.+++..|+++|++++++||+|||+.+.....+                +....|++|..|+|++++||+|.|...
T Consensus       224 r~~~l~~~~~~L~~la~~~~vavl~tnqv~~~~~~~~----------------~~~~~~~~G~~~~~~~~~rl~l~k~~~  287 (317)
T PRK04301        224 RQQKLNKHLHDLLRLADLYNAAVVVTNQVMARPDAFF----------------GDPTQPIGGHILGHTATFRIYLRKSKG  287 (317)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCEEEEeceEEecccccc----------------CccccCCcchHhHhheeEEEEEEecCC
Confidence            7777889999999999999999999999987654321                245789999999999999999998533


Q ss_pred             chhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       246 ~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                                               ..|.++|+|+|+.|..++.|+|+++||.+
T Consensus       288 -------------------------~~R~~~v~k~~~~~~~~~~f~I~~~Gi~~  316 (317)
T PRK04301        288 -------------------------NKRIARLVDSPHLPEGEAVFRITEEGIRD  316 (317)
T ss_pred             -------------------------CceEEEEEeCCCCCCceEEEEEeCCcccC
Confidence                                     47999999999999889999999999986

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=100.00  E-value=1.1e-42  Score=313.20  Aligned_cols=247  Identities=31%  Similarity=0.477  Sum_probs=208.2

Q ss_pred             CccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155            6 TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      ++.+++..+....+++||++.+|.+|+||++.|.+++|+|+||+||||||+++|.++++|...|+.+++|+|||+|++|+
T Consensus        63 t~~~~~~~~~s~~~~~Tg~~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~  142 (310)
T TIGR02236        63 TADDVLERRKTIGKITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFR  142 (310)
T ss_pred             CHHHHHHhhccCCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCC
Confidence            44456667778889999999999999999999999999999999999999999999987765666666999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCC-CeeEEEEechhhhhhhccCCChhhHH
Q 022155           86 MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL-PIRLIVIDSIAALFRSDFDNTMDDLK  164 (302)
Q Consensus        86 ~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~-~~~lvVIDsi~~~~~~~~~~~~~~~~  164 (302)
                      ++|+.+++..+... .+..++++++.++.+.++...++..+.+++.+    .. ++++|||||++++++.++.+. ++..
T Consensus       143 ~~rl~~~~~~~gl~-~~~~~~~i~i~~~~~~~~~~~lld~l~~~i~~----~~~~~~lVVIDSisa~~r~e~~~~-~~~~  216 (310)
T TIGR02236       143 PERIMQMAEARGLD-PDEVLKNIYVARAYNSNHQMLLVEKAEDLIKE----LNNPVKLLIVDSLTSHFRAEYVGR-GALA  216 (310)
T ss_pred             HHHHHHHHHHcCCC-HHHHhhceEEEecCCHHHHHHHHHHHHHHHHh----cCCCceEEEEecchHhhhHhhcCc-hhHH
Confidence            99999998875432 22356789998888877777777777777765    22 479999999999998877654 2466


Q ss_pred             HHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEec
Q 022155          165 KRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNE  244 (302)
Q Consensus       165 ~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~  244 (302)
                      +|++.+.+++..|++++++++++||+|||++++.+..+                +...+|++|..|+|++++||+|+|..
T Consensus       217 ~r~~~l~~~~~~L~~~a~~~~~~v~~tnqv~~~~~~~~----------------~~~~~~~~G~~~~h~~~~rl~l~~~~  280 (310)
T TIGR02236       217 ERQQKLNKHLHDLLRLADLYNAAVVVTNQVMARPDAFF----------------GDPTRPIGGHILGHAATFRVYLRKGK  280 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCcEEEEeceeeecCcccc----------------CccccCCcchhhhhheeEEEEEEecC
Confidence            78888899999999999999999999999998764321                23568999999999999999999843


Q ss_pred             CchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       245 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                      .                         ..|.++|.|||+.|..++.|+|+++||++
T Consensus       281 ~-------------------------~~R~~~~~k~~~~~~~~~~f~i~~~Gi~~  310 (310)
T TIGR02236       281 G-------------------------DKRIARLVDSPHLPEGEAVFRITEKGIED  310 (310)
T ss_pred             C-------------------------CeEEEEEEECCCCCCeeEEEEEeCCCccC
Confidence            2                         47999999999999999999999999975

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=100.00  E-value=5.9e-42  Score=296.91  Aligned_cols=235  Identities=36%  Similarity=0.591  Sum_probs=197.5

Q ss_pred             cccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCC
Q 022155           20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPS   99 (302)
Q Consensus        20 i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~   99 (302)
                      +|||++.||++|+||+++|++++|+|+||+|||+||++++.+++.+...++...+|+||++|++|+.+|+.++.+.+.. 
T Consensus         1 ~~tG~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~~~~-   79 (235)
T cd01123           1 LTTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAERFGL-   79 (235)
T ss_pred             CCCCchhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHHhcc-
Confidence            5899999999999999999999999999999999999999887665444444558999999999999999999877554 


Q ss_pred             CCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHH
Q 022155          100 NDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKA  179 (302)
Q Consensus       100 ~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~  179 (302)
                      .++..++++++.++.+.+++.+++..+...+.+    ..++++|||||++++++.++.+.. +...|.+.+.+++..|++
T Consensus        80 ~~~~~~~~i~~~~~~~~~~l~~~l~~l~~~l~~----~~~~~liVIDSis~~~~~~~~~~~-~~~~r~~~l~~~~~~L~~  154 (235)
T cd01123          80 DPEEVLDNIYVARAYNSDHQLQLLEELEAILIE----SSRIKLVIVDSVTALFRAEFDGRG-ELAERQQHLAKLLRTLKR  154 (235)
T ss_pred             ChHhHhcCEEEEecCCHHHHHHHHHHHHHHHhh----cCCeeEEEEeCcHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHH
Confidence            334578899999999999999899988888875    338899999999999876654432 245677789999999999


Q ss_pred             HHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCCC
Q 022155          180 MAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVG  259 (302)
Q Consensus       180 la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~  259 (302)
                      +|++++++||+|||+....+...            . ..+...+|+||..|+|++++|+++++...              
T Consensus       155 la~~~~~avl~tn~~~~~~~~~~------------~-~~~~~~~p~lG~~w~~~v~~Rl~l~~~~~--------------  207 (235)
T cd01123         155 LADEFNVAVVITNQVTARPDGAA------------M-FGGDPKKPAGGNIWAHASTTRLYLRKGRG--------------  207 (235)
T ss_pred             HHHHhCCEEEEeccEeecCCccc------------c-cCCCCeeccCccHhhCCceEEEEEEECCC--------------
Confidence            99999999999999987654321            0 01235689999999999999999998643              


Q ss_pred             CCCCCCcccccceEEEEEEECCCCCCceeeEEEecCccc
Q 022155          260 GSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVF  298 (302)
Q Consensus       260 ~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~  298 (302)
                                 ..|.++|+|+|..|...+.|+|+++||+
T Consensus       208 -----------~~r~~~i~k~~~~~~~~~~f~It~~Gi~  235 (235)
T cd01123         208 -----------EERIAKIVDSPHLPEGEAVFAITEEGIR  235 (235)
T ss_pred             -----------CceEEEEeeCCCCCCceEEEEEeCCccC
Confidence                       4699999999999988999999999985

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 .

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

Probab=100.00  E-value=2.1e-38  Score=275.88  Aligned_cols=234  Identities=31%  Similarity=0.377  Sum_probs=203.0

Q ss_pred             cCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHH
Q 022155           12 DNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQ   91 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~   91 (302)
                      ........++||+..||.+|+||+|+|.|+||+||+||||||+|+|++++++   ..|+   +|+|||+|++|+++|+.+
T Consensus        34 ~~~~~~~~i~TGs~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq---~~g~---~a~fIDtE~~l~p~r~~~  107 (279)
T COG0468          34 ERREDIEAISTGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQ---KPGG---KAAFIDTEHALDPERAKQ  107 (279)
T ss_pred             HHhhccccccccchhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhh---cCCC---eEEEEeCCCCCCHHHHHH
Confidence            3445589999999999999999999999999999999999999999999998   4566   899999999999999999


Q ss_pred             HHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHH
Q 022155           92 LSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFF  171 (302)
Q Consensus        92 i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~  171 (302)
                      ++...        ++++++.++.+.++..+++..+.....+      +++||||||++++|+.++.+. ..+..|++.|.
T Consensus       108 l~~~~--------~d~l~v~~~~~~e~q~~i~~~~~~~~~~------~i~LvVVDSvaa~~r~~~~~d-~~~~~~~r~ls  172 (279)
T COG0468         108 LGVDL--------LDNLLVSQPDTGEQQLEIAEKLARSGAE------KIDLLVVDSVAALVRAEEIED-GHLGLRARLLS  172 (279)
T ss_pred             HHHhh--------hcceeEecCCCHHHHHHHHHHHHHhccC------CCCEEEEecCcccchhhhcCc-chHHHHHHHHH
Confidence            99763        6899999999999988888877666542      689999999999999887663 35678888999


Q ss_pred             HHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccc
Q 022155          172 KISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVREN  251 (302)
Q Consensus       172 ~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~  251 (302)
                      +.++.|..++++++++||++||+..+++.+++                .+..|.+|....|..++|+.+.|....+ .+ 
T Consensus       173 ~~l~~L~~~a~~~~~~vi~~NQv~~k~~~~f~----------------~~~~~~GG~~L~~~as~rl~l~k~~~~~-~~-  234 (279)
T COG0468         173 KALRKLTRLANKYNTAVIFTNQVRAKIGVMFG----------------DPETTTGGNALKFYASVRLDLRRIESLK-ED-  234 (279)
T ss_pred             HHHHHHHHHHHHcCcEEEEECceeeecCcccC----------------CcccCCCchHHHhhhheEEEEeeccccc-cc-
Confidence            99999999999999999999999998876432                3578999999999999999999985422 00 


Q ss_pred             ccccCCCCCCCCCCcccccceEEEEEEECCCCCCc-eeeEEEecCcccccC
Q 022155          252 QMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADT-SCEFEITREGVFGVE  301 (302)
Q Consensus       252 ~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~-~~~F~I~~~Gi~~~~  301 (302)
                                       ....|.++++|+|..|+. ++.|.|+.+|+.+.+
T Consensus       235 -----------------~g~~r~~~vvk~~~~p~~~~a~f~I~~~~~~~~~  268 (279)
T COG0468         235 -----------------VGNKRRVKVVKNKVAPPFKEAEFDITYGGGIDRE  268 (279)
T ss_pred             -----------------cCCeEEEEEEeCCCCCCCceeEEEeecCcccccc
Confidence                             147999999999999765 999999999998764

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

Probab=100.00  E-value=3.5e-38  Score=271.66  Aligned_cols=226  Identities=38%  Similarity=0.520  Sum_probs=186.1

Q ss_pred             cccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCC
Q 022155           20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPS   99 (302)
Q Consensus        20 i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~   99 (302)
                      ++||++.||++|+||+++|++++|+|+||+|||+||++++.+++.+...+|...+|+||++|..++++|+.++...+...
T Consensus         1 i~tG~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~~~~~~   80 (226)
T cd01393           1 ISTGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLAVRFGLD   80 (226)
T ss_pred             CCCCcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHHHHhccc
Confidence            58999999999999999999999999999999999999999986443334444589999999999999999988775432


Q ss_pred             CCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHH
Q 022155          100 NDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKA  179 (302)
Q Consensus       100 ~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~  179 (302)
                       .+..++++++..+.+.+++...+..+.+.+.+     .++++|||||++++++.++.+.. ....|.+.+.+++..|++
T Consensus        81 -~~~~~~~i~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~lvVIDsis~l~~~~~~~~~-~~~~~~~~l~~~~~~L~~  153 (226)
T cd01393          81 -PEEVLDNIYVARPYNGEQQLEIVEELERIMSS-----GRVDLVVVDSVAALFRKEFIGRG-MLAERARLLSQALRKLLR  153 (226)
T ss_pred             -hhhhhccEEEEeCCCHHHHHHHHHHHHHHhhc-----CCeeEEEEcCcchhhhhhhcCCc-hHHHHHHHHHHHHHHHHH
Confidence             33567899999999998888888877665443     67899999999999886654331 245677778999999999


Q ss_pred             HHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCCC
Q 022155          180 MAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVG  259 (302)
Q Consensus       180 la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~  259 (302)
                      ++++++++||++||+.+.....+                +...+|++|..|+|++++||+|++.+.    .     +   
T Consensus       154 ~a~~~~~~vi~tnq~~~~~~~~~----------------~~~~~p~~G~~~~~~~~~ri~l~~~~~----~-----~---  205 (226)
T cd01393         154 LADKFNVAVVFTNQVRAKVDVMF----------------GDPETPAGGNALAHASTTRLDLRKGRG----I-----I---  205 (226)
T ss_pred             HHHHhCcEEEEEEEEeeeccccc----------------CCCccccCchhhhCcccEEEEEEecCC----c-----c---
Confidence            99999999999999988765321                134679999999999999999999765    1     1   


Q ss_pred             CCCCCCcccccceEEEEEEECCCCCCceeeE
Q 022155          260 GSGSEDFVCRRTRRSLHVVFAPHLADTSCEF  290 (302)
Q Consensus       260 ~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F  290 (302)
                                ...|.++++|+|+.|..++.|
T Consensus       206 ----------~~~r~~~~~k~~~~~~~~~~~  226 (226)
T cd01393         206 ----------GERRIAKVVKSPALPEAEAEF  226 (226)
T ss_pred             ----------CcEEEEEEEeCCCCCCccccC
Confidence                      368999999999889887765

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=100.00  E-value=2.4e-36  Score=260.07  Aligned_cols=221  Identities=27%  Similarity=0.393  Sum_probs=180.5

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhC
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFR   97 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~   97 (302)
                      ++++||++.||++|+||+++|.+++|+|+||+|||+||++++.+++   ..|+   +|+|||+| .++++|+.++...  
T Consensus         3 ~~i~tGi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~---~~~~---~v~yi~~e-~~~~~r~~~~~~~--   73 (225)
T PRK09361          3 ERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAA---KNGK---KVIYIDTE-GLSPERFKQIAGE--   73 (225)
T ss_pred             ccccCCcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHH---HCCC---eEEEEECC-CCCHHHHHHHHhh--
Confidence            5799999999999999999999999999999999999999999886   3455   89999999 8889999888764  


Q ss_pred             CCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHH
Q 022155           98 PSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGML  177 (302)
Q Consensus        98 ~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L  177 (302)
                        ..+..++++++..+.+..++.+.+..+..++.      .++++|||||++++++.++.+.. +...+.+.+.+++..|
T Consensus        74 --~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~------~~~~lvVIDsi~al~~~~~~~~~-~~~~~~~~l~~~l~~L  144 (225)
T PRK09361         74 --DFEELLSNIIIFEPSSFEEQSEAIRKAEKLAK------ENVGLIVLDSATSLYRLELEDEE-DNSKLNRELGRQLTHL  144 (225)
T ss_pred             --ChHhHhhCeEEEeCCCHHHHHHHHHHHHHHHH------hcccEEEEeCcHHHhHHHhcCCc-cHHHHHHHHHHHHHHH
Confidence              22345678889888888887777777766653      25799999999999876543322 2244555678888899


Q ss_pred             HHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCC
Q 022155          178 KAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGG  257 (302)
Q Consensus       178 ~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~  257 (302)
                      ++++++++++||+|||+......                   ....|++|..|+|.++.++.|++ ..            
T Consensus       145 ~~~a~~~~v~vi~tnq~~~~~~~-------------------~~~~~~gg~~~~~~~d~ii~l~~-~~------------  192 (225)
T PRK09361        145 LKLARKHDLAVVITNQVYSDIDS-------------------DGLRPLGGHTLEHWSKTILRLEK-FR------------  192 (225)
T ss_pred             HHHHHHhCCEEEEEccceecCCC-------------------CcccCCCcchhhhhccEEEEEEE-cc------------
Confidence            99999999999999999865432                   13568899999999999999988 22            


Q ss_pred             CCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEecCccccc
Q 022155          258 VGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEITREGVFGV  300 (302)
Q Consensus       258 ~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~~~Gi~~~  300 (302)
                                  ...|++.+.|+|..+ ...++|+|+++||++.
T Consensus       193 ------------~~~r~~~i~k~~~~~~~~~~~f~It~~Gi~~~  224 (225)
T PRK09361        193 ------------NGKRRATLEKHRSRPEGESAEFRITDRGIEII  224 (225)
T ss_pred             ------------CCeEEEEEEECCCCCCCCeEEEEEeCCcEecC
Confidence                        246888899999775 4789999999999875

>cd01394 radB RadB

Probab=100.00  E-value=9.8e-35  Score=248.91  Aligned_cols=217  Identities=24%  Similarity=0.307  Sum_probs=170.0

Q ss_pred             cccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCC
Q 022155           20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPS   99 (302)
Q Consensus        20 i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~   99 (302)
                      ++||++.||.+|+|||++|.+++|+|+||+|||+||++++.+.+   ..|+   +|+||++|..++ +|++++....   
T Consensus         1 i~TGi~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~---~~g~---~v~yi~~e~~~~-~~~~~~~~~~---   70 (218)
T cd01394           1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETA---GQGK---KVAYIDTEGLSS-ERFRQIAGDR---   70 (218)
T ss_pred             CCcchhHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHH---hcCC---eEEEEECCCCCH-HHHHHHHhHC---
Confidence            68999999999999999999999999999999999999999875   4565   899999998776 7887776542   


Q ss_pred             CCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHH
Q 022155          100 NDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKA  179 (302)
Q Consensus       100 ~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~  179 (302)
                       .+....++.+..+.+..++...+..+...+..      ++++|||||++++++.+...... ...+...+.+++..|+.
T Consensus        71 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~lvvIDsi~~l~~~~~~~~~~-~~~~~~~l~~~~~~L~~  142 (218)
T cd01394          71 -PERAASSIIVFEPMDFNEQGRAIQETETFADE------KVDLVVVDSATALYRLELGDDDT-TIKNYRELAKQLTFLLW  142 (218)
T ss_pred             -hHhhhcCEEEEeCCCHHHHHHHHHHHHHHHhc------CCcEEEEechHHhhhHHhcCccc-hHHHHHHHHHHHHHHHH
Confidence             12245688888888777777667777666543      47999999999998765443211 12344456788889999


Q ss_pred             HHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCCC
Q 022155          180 MAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVG  259 (302)
Q Consensus       180 la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~  259 (302)
                      +|++++++||+|||+.+....                   ....|.+|..|+|+++++|.|++.+.              
T Consensus       143 ~a~~~~~~vi~t~q~~~~~~~-------------------~~~~p~~g~~~~~~~d~~i~l~~~~~--------------  189 (218)
T cd01394         143 LARKHDVAVVITNQVYSDVGS-------------------GSVRPLGGHTLEHWSKVILRLEKLRV--------------  189 (218)
T ss_pred             HHHHhCCEEEEecCCEEcCCC-------------------CcccccCCcchhcceeEEEEEEEcCC--------------
Confidence            999999999999999765431                   24678999999999999999998653              


Q ss_pred             CCCCCCcccccceEEEEEEECCCCC-CceeeEEEecCccc
Q 022155          260 GSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEITREGVF  298 (302)
Q Consensus       260 ~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~~~Gi~  298 (302)
                                 ..|++.+.|++..+ ...+.|+|+++||+
T Consensus       190 -----------~~r~~~~~~~~~~~~~~~~~f~It~~Gi~  218 (218)
T cd01394         190 -----------GTRRAVLEKHRFRPEGSSVYFRITDKGIE  218 (218)
T ss_pred             -----------CeEEEEEeeCCCCCCCceEEEEEeCCccC
Confidence                       24555566777665 45699999999985

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

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=100.00  E-value=7.3e-34  Score=241.92  Aligned_cols=208  Identities=27%  Similarity=0.363  Sum_probs=170.3

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCD  106 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~  106 (302)
                      ||.+|+||+|+|.+++|+||||+|||+||++++.+.+   ..|+   +|+|||+|. ++++|+.+++..+    .+..++
T Consensus         1 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~---~~g~---~v~yi~~e~-~~~~rl~~~~~~~----~~~~~~   69 (209)
T TIGR02237         1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAA---RQGK---KVVYIDTEG-LSPERFKQIAEDR----PERALS   69 (209)
T ss_pred             ChhhhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHH---hCCC---eEEEEECCC-CCHHHHHHHHHhC----hHHHhc
Confidence            7999999999999999999999999999999999875   4455   899999997 8999999988754    223568


Q ss_pred             cEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCc
Q 022155          107 YIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGL  186 (302)
Q Consensus       107 ~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~  186 (302)
                      ++.+.++.+..++.+.+..+.+.+.+     .++++|||||++++++.+..+..   ..|.+.+.+++..|+++++++++
T Consensus        70 ~i~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~lvVIDSis~l~~~~~~~~~---~~~~~~l~~~~~~L~~~~~~~~v  141 (209)
T TIGR02237        70 NFIVFEVFDFDEQGVAIQKTSKFIDR-----DSASLVVVDSFTALYRLELSDDR---ISRNRELARQLTLLLSLARKKNL  141 (209)
T ss_pred             CEEEEECCCHHHHHHHHHHHHHHHhh-----cCccEEEEeCcHHHhHHHhCCcc---HHHHHHHHHHHHHHHHHHHHcCC
Confidence            89999998888887778887777764     46799999999999876544322   23455567788889999999999


Q ss_pred             EEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCc
Q 022155          187 AVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDF  266 (302)
Q Consensus       187 ~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~  266 (302)
                      ++|+|||+......                   ....|++|..|+|.+++++.|++. .                     
T Consensus       142 ~vl~t~~~~~~~~~-------------------~~~~~~gg~~~~~~~d~vi~l~~~-~---------------------  180 (209)
T TIGR02237       142 AVVITNQVYTDVNN-------------------GTLRPLGGHLLEHWSKVILRLEKF-R---------------------  180 (209)
T ss_pred             EEEEEcccEEecCC-------------------CCCcCCCcchhheeeeEEEEEEec-C---------------------
Confidence            99999998765432                   245789999999999999999875 2                     


Q ss_pred             ccccceEEEEEEECCCCCC-ceeeEEEecCccc
Q 022155          267 VCRRTRRSLHVVFAPHLAD-TSCEFEITREGVF  298 (302)
Q Consensus       267 ~~~~~~R~~~v~ks~~~~~-~~~~F~I~~~Gi~  298 (302)
                          ..|++.+.|+|..+. ..+.|+|+++||+
T Consensus       181 ----~~r~~~i~k~~~~~~~~~~~f~It~~Gi~  209 (209)
T TIGR02237       181 ----GRRLATLEKHRSRPEGESVYFRITDDGIE  209 (209)
T ss_pred             ----CEEEEEEEECCCCCCCCeEEEEEeCCccC
Confidence                157778889888764 6799999999985

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

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

Probab=100.00  E-value=5.2e-34  Score=253.72  Aligned_cols=231  Identities=26%  Similarity=0.327  Sum_probs=182.8

Q ss_pred             CCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQL   92 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i   92 (302)
                      .....++|||++.||.+|+ ||+|+|.+++|+|||||||||||++++.+++   ..|+   .|+|||+|+.+++++++++
T Consensus        30 ~~~~~~isTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~---~~g~---~~vyId~E~~~~~~~a~~l  103 (325)
T cd00983          30 VQDVEVIPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQ---KLGG---TVAFIDAEHALDPVYAKKL  103 (325)
T ss_pred             ccCCceecCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---CEEEECccccHHHHHHHHc
Confidence            3457899999999999999 9999999999999999999999999999986   5566   8999999999988776665


Q ss_pred             HHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhh--HHHHHHH
Q 022155           93 SHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDD--LKKRSFL  169 (302)
Q Consensus        93 ~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~--~~~r~~~  169 (302)
                      .         ..++++++..+.+.+++.+++.   .++.+     ..+++|||||++++++ .++.+..++  ...+.+.
T Consensus       104 G---------vd~~~l~v~~p~~~eq~l~i~~---~li~s-----~~~~lIVIDSvaal~~~~E~~~~~~~~~~~~qaR~  166 (325)
T cd00983         104 G---------VDLDNLLISQPDTGEQALEIAD---SLVRS-----GAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARL  166 (325)
T ss_pred             C---------CCHHHheecCCCCHHHHHHHHH---HHHhc-----cCCCEEEEcchHhhcccccccccccccchHHHHHH
Confidence            4         2357888888888777665554   44443     5789999999999985 565544322  1234455


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhc
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR  249 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~  249 (302)
                      +.+.++.|..+++++++++|+|||+++.+...+                +....|.+|..|.|..+.|+.+.|....+  
T Consensus       167 l~~~Lr~L~~~~~k~~~~vI~tNQvr~~ig~~~----------------g~~e~~~GG~~L~~~ss~rl~lrk~~~~k--  228 (325)
T cd00983         167 MSQALRKLTGSINKSNTTVIFINQLREKIGVMF----------------GNPETTTGGNALKFYSSVRLDIRRIETIK--  228 (325)
T ss_pred             HHHHHHHHHHHHHhCCCEEEEEEcccccccccc----------------CCCccCCCchHHhhhcceEEEEEeecccc--
Confidence            778889999999999999999999998876432                13567899999999999999999976533  


Q ss_pred             ccccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEe-cCcccc
Q 022155          250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEIT-REGVFG  299 (302)
Q Consensus       250 ~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~-~~Gi~~  299 (302)
                      ++.++.|              .+++++|+|++..| ...++|.|. ..||.-
T Consensus       229 ~~~~~~G--------------~~~~~~v~Knk~~~p~~~~~~~i~~~~Gi~~  266 (325)
T cd00983         229 DGDEVIG--------------NRTKVKVVKNKVAPPFKTAEFDILFGEGISR  266 (325)
T ss_pred             cCCcccc--------------cEEEEEEEecccCCCCCceEEEEEcCcccch
Confidence            2222333              57899999999884 678999998 468753

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09354 recA recombinase A; Provisional

Probab=100.00  E-value=1.2e-33  Score=253.13  Aligned_cols=229  Identities=25%  Similarity=0.346  Sum_probs=181.6

Q ss_pred             CCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSH   94 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~   94 (302)
                      ...++|||++.||.+|+ ||+|+|.+++|+||+||||||||++++.+++   ..|+   .|+|||+|+++++++++++. 
T Consensus        37 ~~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~---~~G~---~~~yId~E~s~~~~~a~~lG-  109 (349)
T PRK09354         37 DVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQ---KAGG---TAAFIDAEHALDPVYAKKLG-  109 (349)
T ss_pred             CCceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---cEEEECCccchHHHHHHHcC-
Confidence            57899999999999999 9999999999999999999999999999987   5566   99999999999887666554 


Q ss_pred             HhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhh--HHHHHHHHH
Q 022155           95 TFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDD--LKKRSFLFF  171 (302)
Q Consensus        95 ~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~--~~~r~~~l~  171 (302)
                              ..++++++..+.+.++..+++.   .++.+     ..+++|||||++++++ .++.+..++  ...+.+++.
T Consensus       110 --------vdld~lli~qp~~~Eq~l~i~~---~li~s-----~~~~lIVIDSvaaL~~~~E~eg~~gd~~~~~qar~ms  173 (349)
T PRK09354        110 --------VDIDNLLVSQPDTGEQALEIAD---TLVRS-----GAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMS  173 (349)
T ss_pred             --------CCHHHeEEecCCCHHHHHHHHH---HHhhc-----CCCCEEEEeChhhhcchhhhcCCccccchhHHHHHHH
Confidence                    2357888888888777655544   44543     5789999999999984 566654322  123334667


Q ss_pred             HHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccc
Q 022155          172 KISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVREN  251 (302)
Q Consensus       172 ~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~  251 (302)
                      +.++.|..+++++++++|+|||+++++...+                +.+..|.+|.+|.|.+..|+.|.|....+  +.
T Consensus       174 ~~Lr~L~~~l~k~~itvI~tNQvr~~ig~~~----------------g~pe~~~GG~aL~~~ss~rl~lrr~~~iK--~~  235 (349)
T PRK09354        174 QALRKLTGNISKSNTTVIFINQIREKIGVMF----------------GNPETTTGGNALKFYASVRLDIRRIGTIK--DG  235 (349)
T ss_pred             HHHHHHHHHHHHcCcEEEEEEeeeecccccc----------------CCCCcCCCchhhHhhheeeeEEecccccc--cC
Confidence            7889999999999999999999998775322                12456889999999999999999976533  23


Q ss_pred             ccccCCCCCCCCCCcccccceEEEEEEECCCC-CCceeeEEEe-cCcccc
Q 022155          252 QMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL-ADTSCEFEIT-REGVFG  299 (302)
Q Consensus       252 ~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~-~~~~~~F~I~-~~Gi~~  299 (302)
                      .+..|              .+++++++|+... |...++|.|. ..||.-
T Consensus       236 ~~~~G--------------~~~r~~vvKnk~~~p~~~a~~~i~~~~Gi~~  271 (349)
T PRK09354        236 DEVIG--------------NRTKVKVVKNKVAPPFKQAEFDIMYGEGISR  271 (349)
T ss_pred             Cceec--------------ceEEEEEEecccCCCCCceEEEEEcCCccch
Confidence            33333              5679999999988 5678999999 788864

>TIGR02012 tigrfam_recA protein RecA

Probab=100.00  E-value=5.9e-33  Score=246.85  Aligned_cols=230  Identities=25%  Similarity=0.351  Sum_probs=180.2

Q ss_pred             CCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      ...+++|||++.||.+|+ ||+|+|.+++|+|||||||||||++++.+++   ..|+   .|+|||+|+.+++.+++++.
T Consensus        31 ~~~~~i~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~---~~g~---~v~yId~E~~~~~~~a~~lG  104 (321)
T TIGR02012        31 MDVETISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQ---KAGG---TAAFIDAEHALDPVYARKLG  104 (321)
T ss_pred             ccCceecCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---cEEEEcccchhHHHHHHHcC
Confidence            357799999999999999 9999999999999999999999999999986   4566   89999999988876655543


Q ss_pred             HHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhh--HHHHHHHH
Q 022155           94 HTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDD--LKKRSFLF  170 (302)
Q Consensus        94 ~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~--~~~r~~~l  170 (302)
                               ..++++.+..+.+.++..+.+   ..++.+     ..+++|||||++++++ .++++..++  ...+.+++
T Consensus       105 ---------vd~~~l~v~~p~~~eq~l~~~---~~li~~-----~~~~lIVIDSv~al~~~~E~e~~~g~~~~~~~aR~m  167 (321)
T TIGR02012       105 ---------VDIDNLLVSQPDTGEQALEIA---ETLVRS-----GAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLM  167 (321)
T ss_pred             ---------CCHHHeEEecCCCHHHHHHHH---HHHhhc-----cCCcEEEEcchhhhccchhhcccccccchhHHHHHH
Confidence                     235688888888877765444   344543     5679999999999984 455543222  12333456


Q ss_pred             HHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcc
Q 022155          171 FKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRE  250 (302)
Q Consensus       171 ~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~  250 (302)
                      .++++.|..+++++++++|+|||+++.+...+                +....|.+|.++.|.+..|+.+.|....+  +
T Consensus       168 ~~~lr~L~~~l~~~~~tvi~tNQvr~~~g~~~----------------~~~e~~~GG~aL~~~ss~r~~lrr~~~iK--~  229 (321)
T TIGR02012       168 SQALRKLTGALSKSNTTAIFINQIREKIGVMF----------------GNPETTTGGRALKFYASVRLDIRRIGQVK--Q  229 (321)
T ss_pred             HHHHHHHHHHHHhCCCEEEEEecceeccCccc----------------CCCccCcCccHHHHHHhHhHhhhhhhccc--c
Confidence            78889999999999999999999998765432                13456889999999999999999876533  3


Q ss_pred             cccccCCCCCCCCCCcccccceEEEEEEECCCC-CCceeeEEEe-cCcccc
Q 022155          251 NQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL-ADTSCEFEIT-REGVFG  299 (302)
Q Consensus       251 ~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~-~~~~~~F~I~-~~Gi~~  299 (302)
                      +.+..|              ..++++|+|++.. |.+.++|.|. ..||.-
T Consensus       230 ~~~~~g--------------~~~~~~v~Knk~~~p~~~~~~~i~~~~Gi~~  266 (321)
T TIGR02012       230 GEEVVG--------------NRTKVKVVKNKVAPPFKEAEFDILYGEGISK  266 (321)
T ss_pred             CCceec--------------cEEEEEEEECCCCCCCCceEEEEEcCCccch
Confidence            333344              6789999999988 5678999999 788864

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

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=100.00  E-value=2.6e-31  Score=258.06  Aligned_cols=227  Identities=23%  Similarity=0.333  Sum_probs=181.4

Q ss_pred             CCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQL   92 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i   92 (302)
                      +....+++||++.||.+|+ ||+++|.+++|+||+|+||||||++++.+++   ..|+   +|+|||+|+++++++++++
T Consensus        35 ~~~v~~isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~---~~G~---~v~yId~E~t~~~~~A~~l  108 (790)
T PRK09519         35 RQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGG---VAAFIDAEHALDPDYAKKL  108 (790)
T ss_pred             ccCCceecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---cEEEECCccchhHHHHHHc
Confidence            4457899999999999998 8999999999999999999999999999886   5666   8999999999998777666


Q ss_pred             HHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh-hhccCCChh--hHHHHHHH
Q 022155           93 SHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF-RSDFDNTMD--DLKKRSFL  169 (302)
Q Consensus        93 ~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~-~~~~~~~~~--~~~~r~~~  169 (302)
                      ..         .++++++.++.+.+++...   +..++.+     ..+++|||||+++++ +.++++.++  .+..++++
T Consensus       109 Gv---------Dl~~llv~~~~~~E~~l~~---i~~lv~~-----~~~~LVVIDSI~aL~~r~E~~g~~g~~~~~~q~rl  171 (790)
T PRK09519        109 GV---------DTDSLLVSQPDTGEQALEI---ADMLIRS-----GALDIVVIDSVAALVPRAELEGEMGDSHVGLQARL  171 (790)
T ss_pred             CC---------ChhHeEEecCCCHHHHHHH---HHHHhhc-----CCCeEEEEcchhhhcchhhccCCCCcccHHHHHHH
Confidence            52         2467778888887775544   3445543     578999999999999 577765532  23344556


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhc
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR  249 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~  249 (302)
                      +.+++..|.++++++|+++|+|||+...+...              |  +.+.+|.+|+.|.|..++||.|.|....+  
T Consensus       172 ~~q~L~~L~~~l~~~nvtvi~TNQv~~~~g~~--------------f--g~p~~~~GG~~l~h~ss~Ri~lrk~~~ik--  233 (790)
T PRK09519        172 MSQALRKMTGALNNSGTTAIFINQLRDKIGVM--------------F--GSPETTTGGKALKFYASVRMDVRRVETLK--  233 (790)
T ss_pred             HHHHHHHHHHHHHhCCCEEEEEecceecCCCc--------------C--CCCCcCCCCcccceeccEEEEeeeccccc--
Confidence            67888999999999999999999999877642              2  24578999999999999999999865432  


Q ss_pred             ccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecC
Q 022155          250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITRE  295 (302)
Q Consensus       250 ~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~  295 (302)
                      ++....              ...|.++|+||+++|..++.|.|+..
T Consensus       234 ~~~~~~--------------G~~~~~kv~ks~cLpe~e~v~~i~tG  265 (790)
T PRK09519        234 DGTNAV--------------GNRTRVKVVKNKCLAEGTRIFDPVTG  265 (790)
T ss_pred             cCcccc--------------ceEEEEEEEECCCCCCceEEEEecCC
Confidence            111111              47999999999999999999999843

>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=99.97  E-value=2.3e-30  Score=229.56  Aligned_cols=230  Identities=25%  Similarity=0.339  Sum_probs=173.0

Q ss_pred             CCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQL   92 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i   92 (302)
                      ....+.+|||++.||.+|+ ||+|+|.++||+||+++|||+|+++++++++   ..|+   .|+|||.|..+++.+++++
T Consensus        28 ~~~~~~i~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q---~~g~---~~a~ID~e~~ld~~~a~~l  101 (322)
T PF00154_consen   28 SQNIEVISTGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQ---KQGG---ICAFIDAEHALDPEYAESL  101 (322)
T ss_dssp             GCSS-EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH---HTT----EEEEEESSS---HHHHHHT
T ss_pred             ccccceEecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhh---cccc---eeEEecCcccchhhHHHhc
Confidence            3457889999999999999 9999999999999999999999999999986   5566   8999999999999999888


Q ss_pred             HHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChh--hHHHHHHH
Q 022155           93 SHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMD--DLKKRSFL  169 (302)
Q Consensus        93 ~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~--~~~~r~~~  169 (302)
                      +.         .++++++.++.+.++.+++++   .++..     ..+++|||||++++.. .++++..+  .+..+.++
T Consensus       102 Gv---------dl~rllv~~P~~~E~al~~~e---~lirs-----g~~~lVVvDSv~al~p~~E~e~~~~~~~~g~~Ar~  164 (322)
T PF00154_consen  102 GV---------DLDRLLVVQPDTGEQALWIAE---QLIRS-----GAVDLVVVDSVAALVPKAELEGEIGDQQVGLQARL  164 (322)
T ss_dssp             T-----------GGGEEEEE-SSHHHHHHHHH---HHHHT-----TSESEEEEE-CTT-B-HHHHTTSTSSTSSSHHHHH
T ss_pred             Cc---------cccceEEecCCcHHHHHHHHH---HHhhc-----ccccEEEEecCcccCCHHHHhhccccccCcchHHH
Confidence            73         467999999988877665554   44543     6779999999999864 45554332  23456778


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhc
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR  249 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~  249 (302)
                      |.++++.|..+..+.|+++|++||+++++...++                .+.+..+|.+|.|+.+.||.+.|....+  
T Consensus       165 ms~~lr~lt~~l~~~~~~~i~INQ~R~~ig~~~g----------------~~~~t~GG~alkfyas~rl~i~k~~~ik--  226 (322)
T PF00154_consen  165 MSQALRKLTPLLSKSNTTLIFINQVRDKIGVMFG----------------NPETTPGGRALKFYASVRLEIRKKEQIK--  226 (322)
T ss_dssp             HHHHHHHHHHHHHTTT-EEEEEEEESSSSSSSSS----------------SSSCCTSHHHHHHHCSEEEEEEEEEEEE--
T ss_pred             HHHHHHHHHHHHHhhceEEEEeehHHHHHhhccC----------------CCcCCCCCchhhhhhhhHHhhhcccccc--
Confidence            9999999999999999999999999998875432                2344569999999999999999875533  


Q ss_pred             ccccccCCCCCCCCCCcccccceEEEEEEECCCC-CCceeeEEEe-cCccc
Q 022155          250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL-ADTSCEFEIT-REGVF  298 (302)
Q Consensus       250 ~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~-~~~~~~F~I~-~~Gi~  298 (302)
                      ++.++.|              ..-.++|+|+... |.+.++|.|. ..||.
T Consensus       227 ~~~~~iG--------------~~~~vkv~KnKva~P~k~a~~~i~y~~Gid  263 (322)
T PF00154_consen  227 EGDEVIG--------------NKIKVKVVKNKVAPPFKKAEFDIYYGRGID  263 (322)
T ss_dssp             ETTCECE--------------EEEEEEEEEESSS-TTEEEEEEEETTTEE-
T ss_pred             cCCcccc--------------cEEEEEEEEcccCCCcceeEEEEecCCeEC
Confidence            2223334              6779999999988 6778999998 56763

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 ....

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=99.96  E-value=5.5e-28  Score=211.80  Aligned_cols=228  Identities=18%  Similarity=0.229  Sum_probs=158.9

Q ss_pred             ccccCChhhHhhh--------------CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCC
Q 022155           19 KCTVGCPIIDRCL--------------GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPF   84 (302)
Q Consensus        19 ~i~tG~~~LD~~L--------------~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~   84 (302)
                      .++||+++||.+|              +||+|+|.+++|+|+||+|||+||+|++.+.+   ..|+   +|+||++|.+.
T Consensus         3 ~~~tGi~glD~~l~~~~~~~~~~~~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a---~~Ge---~vlyis~Ee~~   76 (259)
T TIGR03878         3 GVPTGVEGLDELFFKVEIEEGKIVRKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQA---SRGN---PVLFVTVESPA   76 (259)
T ss_pred             CccCCchhHHHhhccccccccccccccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCC---cEEEEEecCCc
Confidence            5799999999999              59999999999999999999999999999875   4566   99999999643


Q ss_pred             C--HHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHH----HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCC
Q 022155           85 P--MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVD----QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDN  158 (302)
Q Consensus        85 ~--~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~----~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~  158 (302)
                      .  .+++.+.+..+.. ..+...+++++....+..    ++.+++..+...+++     .++++|||||+++++...   
T Consensus        77 ~~~~~~l~~~a~~~g~-d~~~~~~~l~~id~~~~~~~~~~~~~l~~~l~~~i~~-----~~~~~vVIDSls~l~~~~---  147 (259)
T TIGR03878        77 NFVYTSLKERAKAMGV-DFDKIEENIILIDAASSTELRENVPNLLATLAYAIKE-----YKVKNTVIDSITGLYEAK---  147 (259)
T ss_pred             hHHHHHHHHHHHHcCC-CHHHHhCCEEEEECCCchhhhhhHHHHHHHHHHHHHh-----hCCCEEEEcCchHhcccc---
Confidence            2  2345444444431 112234677777655432    344555666666654     567999999999976421   


Q ss_pred             ChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEE
Q 022155          159 TMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRL  238 (302)
Q Consensus       159 ~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl  238 (302)
                         +..     .++++..|..+++++++|+++|+|.......                   ....|+.+..++|.+|..|
T Consensus       148 ---~~~-----~r~~~~~L~~~lk~~~~t~ll~~e~~~~~~~-------------------~~~~~~~~~~~~~l~D~vI  200 (259)
T TIGR03878       148 ---EMM-----AREIVRQLFNFMKKWYQTALFVSQKRSGHEE-------------------LSAEAAGGYAVSHIVDGTI  200 (259)
T ss_pred             ---hHH-----HHHHHHHHHHHHHHcCCeEEEEeccccCccc-------------------ccccccCCcceeEeeccEE
Confidence               111     2355666777778899999999997653211                   0114566667899999999


Q ss_pred             EEEEecCc-hhcccc--cccCCCCCCCCCCcccccceEEEEEEECCCC--CCceeeEEEecCcccccC
Q 022155          239 FLSRNEDF-VVRENQ--MVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL--ADTSCEFEITREGVFGVE  301 (302)
Q Consensus       239 ~l~~~~~~-~~~~~~--~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~--~~~~~~F~I~~~Gi~~~~  301 (302)
                      +|...... ....+.  +..|             ...|.++|+|.++.  ....++|.|+++||..+.
T Consensus       201 ~L~~~~~~~~~~~~~~~~~~~-------------~~~R~l~I~KmRg~~h~~~~~~~~It~~Gi~~i~  255 (259)
T TIGR03878       201 VLAKQLIMSRFDASLYKKPIG-------------EIVRLFRIDGCRMCGHDTKTHVLEIDETGLVKIG  255 (259)
T ss_pred             EEeeeeccchhhhhhcccccc-------------ceEEEEEEEEccCCCCCCceeEEEEcCCceEEec
Confidence            99865320 000000  0001             47899999999887  456799999999987763

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

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=99.96  E-value=1.1e-27  Score=218.54  Aligned_cols=209  Identities=20%  Similarity=0.312  Sum_probs=156.2

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ..++++||++.||++|+||+++|++++|.|+||+|||+|+++++.+.+   ..++   +|+||++|++.  +.+..-+..
T Consensus        60 ~~~ri~TGi~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a---~~g~---~VlYvs~EEs~--~qi~~Ra~r  131 (372)
T cd01121          60 EEERIPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA---KRGG---KVLYVSGEESP--EQIKLRADR  131 (372)
T ss_pred             ccCccccCCHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH---hcCC---eEEEEECCcCH--HHHHHHHHH
Confidence            467999999999999999999999999999999999999999998875   4454   89999998754  333322333


Q ss_pred             hCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHH
Q 022155           96 FRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISG  175 (302)
Q Consensus        96 ~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~  175 (302)
                      +.     ...+++++....+.+++.+.       +..     .++++|||||++.++..+.+..++...+    +++++.
T Consensus       132 lg-----~~~~~l~l~~e~~le~I~~~-------i~~-----~~~~lVVIDSIq~l~~~~~~~~~g~~~q----vr~~~~  190 (372)
T cd01121         132 LG-----ISTENLYLLAETNLEDILAS-------IEE-----LKPDLVIIDSIQTVYSSELTSAPGSVSQ----VRECTA  190 (372)
T ss_pred             cC-----CCcccEEEEccCcHHHHHHH-------HHh-----cCCcEEEEcchHHhhccccccCCCCHHH----HHHHHH
Confidence            32     12356666655554443332       222     3569999999999987655433323222    567788


Q ss_pred             HHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccccccc
Q 022155          176 MLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVN  255 (302)
Q Consensus       176 ~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~  255 (302)
                      .|.++++++++++|+++|++....                        .+++..+.|.+|+.|+|++...          
T Consensus       191 ~L~~lak~~~itvilvghvtk~g~------------------------~aG~~~leh~vD~Vi~le~~~~----------  236 (372)
T cd01121         191 ELMRFAKERNIPIFIVGHVTKEGS------------------------IAGPKVLEHMVDTVLYFEGDRH----------  236 (372)
T ss_pred             HHHHHHHHcCCeEEEEeeccCCCc------------------------ccCcccchhhceEEEEEEcCCC----------
Confidence            899999999999999999975311                        1234578899999999877543          


Q ss_pred             CCCCCCCCCCcccccceEEEEEEECCCCCC-ceeeEEEecCcccccC
Q 022155          256 GGVGGSGSEDFVCRRTRRSLHVVFAPHLAD-TSCEFEITREGVFGVE  301 (302)
Q Consensus       256 g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~-~~~~F~I~~~Gi~~~~  301 (302)
                                    ...|.++++|+++.+. ....|+|+++||+.+.
T Consensus       237 --------------~~~R~Lri~KnR~g~~~ei~~F~i~~~Gl~~v~  269 (372)
T cd01121         237 --------------SEYRILRSVKNRFGSTNELGVFEMRENGLREVS  269 (372)
T ss_pred             --------------CcEEEEEEEeCCCCCCCCEEEEEECCCCeEEcc
Confidence                          3589999999998864 4589999999999653

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=99.96  E-value=2.1e-27  Score=222.40  Aligned_cols=209  Identities=22%  Similarity=0.339  Sum_probs=154.7

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ...+++||++.||++|+||+++|++++|+|+||+|||||+++++.+.+   ..|+   +|+|+++|+++.  .+..-+..
T Consensus        58 ~~~ri~TGi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a---~~g~---~vlYvs~Ees~~--qi~~ra~r  129 (446)
T PRK11823         58 EEPRISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLA---AAGG---KVLYVSGEESAS--QIKLRAER  129 (446)
T ss_pred             cCCcccCCcHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHH---hcCC---eEEEEEccccHH--HHHHHHHH
Confidence            467899999999999999999999999999999999999999999875   3455   899999997653  23222333


Q ss_pred             hCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHH
Q 022155           96 FRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISG  175 (302)
Q Consensus        96 ~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~  175 (302)
                      +..     ..+++++....+.+++.+.       +++     .++++|||||++.++..++++..++..+    +++++.
T Consensus       130 lg~-----~~~~l~~~~e~~l~~i~~~-------i~~-----~~~~lVVIDSIq~l~~~~~~~~~g~~~q----vr~~~~  188 (446)
T PRK11823        130 LGL-----PSDNLYLLAETNLEAILAT-------IEE-----EKPDLVVIDSIQTMYSPELESAPGSVSQ----VRECAA  188 (446)
T ss_pred             cCC-----ChhcEEEeCCCCHHHHHHH-------HHh-----hCCCEEEEechhhhccccccCCCCCHHH----HHHHHH
Confidence            321     1345666655554443322       222     3569999999999987665433322222    457778


Q ss_pred             HHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccccccc
Q 022155          176 MLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVN  255 (302)
Q Consensus       176 ~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~  255 (302)
                      .|.++++++++++++++|+.....                        .+++..|+|.+|++++|++...          
T Consensus       189 ~L~~~ak~~~itvilv~hvtk~~~------------------------~ag~~~lehlvD~Vi~le~~~~----------  234 (446)
T PRK11823        189 ELMRLAKQRGIAVFLVGHVTKEGA------------------------IAGPRVLEHMVDTVLYFEGDRH----------  234 (446)
T ss_pred             HHHHHHHHcCCEEEEEeeccCCCC------------------------cCCcchhhhhCeEEEEEEcCCC----------
Confidence            899999999999999999865211                        1234579999999999875222          


Q ss_pred             CCCCCCCCCCcccccceEEEEEEECCCCCC-ceeeEEEecCcccccC
Q 022155          256 GGVGGSGSEDFVCRRTRRSLHVVFAPHLAD-TSCEFEITREGVFGVE  301 (302)
Q Consensus       256 g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~-~~~~F~I~~~Gi~~~~  301 (302)
                                    ...|.++++|+|+.+. ....|+|+++||+.+.
T Consensus       235 --------------~~~R~l~i~K~R~g~~~e~~~f~it~~Gi~~v~  267 (446)
T PRK11823        235 --------------SRYRILRAVKNRFGATNEIGVFEMTEQGLREVS  267 (446)
T ss_pred             --------------CceEEEEEccCCCCCCCceEEEEEcCCCceECC
Confidence                          3689999999998764 4578999999998553

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

Probab=99.95  E-value=2.3e-29  Score=222.30  Aligned_cols=238  Identities=31%  Similarity=0.516  Sum_probs=192.5

Q ss_pred             cCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHH
Q 022155           12 DNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQ   91 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~   91 (302)
                      +++.....++||+..||++|+||++.|.++||+||||+|||+||+.++..+      |+..++++|||++..|..+|+..
T Consensus        85 ~~~~~~~~l~Tg~~~lD~lL~gGi~~g~~TEi~G~p~~GKtQlc~~~~v~~------~gge~~~l~IDs~s~~~~~~~~~  158 (326)
T KOG1433|consen   85 QLRSELGFLSTGSKALDKLLGGGIETGSLTELVGPPGSGKTQLCHTLAVTC------GGGEGKVLYIDTESTFRLERLTE  158 (326)
T ss_pred             HhhccceeeccchhhhhHhhccCcccCceeEEecCCCccHHHHHHHHHHhc------cCCcceEEEEecchhcccchhhh
Confidence            677778899999999999999999999999999999999999998888765      34456999999999998888888


Q ss_pred             HHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHH
Q 022155           92 LSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFF  171 (302)
Q Consensus        92 i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~  171 (302)
                      +...+..... ...+++.+.+..+.++...........+.+     ....++++||.++.++.++.+ .++..+|...+.
T Consensus       159 ia~~~~~~~~-~~~~~l~~~~~~~~~~~l~~~~~a~~~~~~-----~~~~l~~vds~ta~~~~~~~g-~~~~~a~~~~~~  231 (326)
T KOG1433|consen  159 IAGRSGLRGR-DTLSNLMLARAYNLDHQLQLIQEAEIMINQ-----SRVKLLIVDSATALYRTTFKG-RGELSARQMLLA  231 (326)
T ss_pred             hhhhhhhhhH-HHHHHHHHHHHHhhHHHHHHHHHHHHHhhc-----cceeEEEeccccccccccccc-ccchHHHHHHHH
Confidence            8776432211 133455555555555555555555545543     467999999999999888877 456778888899


Q ss_pred             HHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccc
Q 022155          172 KISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVREN  251 (302)
Q Consensus       172 ~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~  251 (302)
                      ..++.|++++++++++||++||++.+++..            .+|.. ...+|.+|..|+|.+++|+.+.+. +      
T Consensus       232 ~~~~~l~~la~~~g~~vvitn~v~~~~d~~------------~~f~~-~~~~~~~~~~~~H~~~tr~~~~~~-~------  291 (326)
T KOG1433|consen  232 KFLRSLKKLADEFGVAVVITNQVTAQVDGA------------IMFGS-DPKKPIGGNIWAHAVTTRLGLRKG-K------  291 (326)
T ss_pred             HHHHHHHHHHHhcCceEEEecccccccccc------------cccCc-ccccccccchHHHHHHHHHHHHhc-c------
Confidence            999999999999999999999999988753            13433 578899999999999999999882 2      


Q ss_pred             ccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCccccc
Q 022155          252 QMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGV  300 (302)
Q Consensus       252 ~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~  300 (302)
                                        ..+|..++.++|..|+.+..|.|...|+.+-
T Consensus       292 ------------------g~~~~~k~~~s~~l~e~~~~~~i~~~g~~~~  322 (326)
T KOG1433|consen  292 ------------------GERRICKIADSPCLPEAEAVFAITEDGISDQ  322 (326)
T ss_pred             ------------------ccchhhhhhcCCCCCcchhHHHHHhhhhhhh
Confidence                              2477888899999999999999999999874

>TIGR00416 sms DNA repair protein RadA

Probab=99.95  E-value=5.6e-27  Score=219.57  Aligned_cols=207  Identities=23%  Similarity=0.286  Sum_probs=152.9

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      ..+++||++.||++|+||+++|++++|.|+||+|||||+++++.+.+   ..|+   +|+|+++|++..  .+..-+.++
T Consensus        73 ~~ri~TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a---~~g~---kvlYvs~EEs~~--qi~~ra~rl  144 (454)
T TIGR00416        73 VPRFSSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLA---KNQM---KVLYVSGEESLQ--QIKMRAIRL  144 (454)
T ss_pred             cCccccCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHH---hcCC---cEEEEECcCCHH--HHHHHHHHc
Confidence            67899999999999999999999999999999999999999999875   4455   899999997643  232222222


Q ss_pred             CCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHH
Q 022155           97 RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM  176 (302)
Q Consensus        97 ~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~  176 (302)
                      .     ...+++++....+.+++.       +.+.+     .++++||||||+.++..+..+.+++..+    +++++..
T Consensus       145 g-----~~~~~l~~~~e~~~~~I~-------~~i~~-----~~~~~vVIDSIq~l~~~~~~~~~g~~~q----~r~~~~~  203 (454)
T TIGR00416       145 G-----LPEPNLYVLSETNWEQIC-------ANIEE-----ENPQACVIDSIQTLYSPDISSAPGSVSQ----VRECTAE  203 (454)
T ss_pred             C-----CChHHeEEcCCCCHHHHH-------HHHHh-----cCCcEEEEecchhhcccccccCCCCHHH----HHHHHHH
Confidence            2     123567766555544333       23332     3569999999999887655433333332    3567788


Q ss_pred             HHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccC
Q 022155          177 LKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNG  256 (302)
Q Consensus       177 L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g  256 (302)
                      |.++++++++|+++++|+.....                        -+....+.|.+|+.|+|++...           
T Consensus       204 L~~~ak~~giTvllt~hvtkeg~------------------------~aG~~~le~lvD~VI~Le~~~~-----------  248 (454)
T TIGR00416       204 LMRLAKTRGIAIFIVGHVTKEGS------------------------IAGPKVLEHMVDTVLYFEGDRD-----------  248 (454)
T ss_pred             HHHHHHHhCCEEEEEeccccCCc------------------------cCCcccEeeeceEEEEEeccCC-----------
Confidence            99999999999999999875311                        1223467899999999987432           


Q ss_pred             CCCCCCCCCcccccceEEEEEEECCCCCC-ceeeEEEecCccccc
Q 022155          257 GVGGSGSEDFVCRRTRRSLHVVFAPHLAD-TSCEFEITREGVFGV  300 (302)
Q Consensus       257 ~~~~~~~~~~~~~~~~R~~~v~ks~~~~~-~~~~F~I~~~Gi~~~  300 (302)
                                   ...|.++++|.++.+. ....|+|+++||+.+
T Consensus       249 -------------~~~R~L~v~K~R~g~~~e~~~f~it~~Gl~~v  280 (454)
T TIGR00416       249 -------------SRFRILRSVKNRFGATNEIGIFEMTEQGLREV  280 (454)
T ss_pred             -------------CcEEEEEEecCCCCCCCcEEEEEEecCCceec
Confidence                         3689999999997764 458999999999754

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)).

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=99.95  E-value=7.6e-27  Score=202.33  Aligned_cols=213  Identities=22%  Similarity=0.282  Sum_probs=146.8

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhC
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFR   97 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~   97 (302)
                      ++++||++.||++|+||+|+|.++.|+|+||+|||+|++|++.+.+   ..|.   +|+||++|.+  ++.+.+-+..+.
T Consensus         1 ~ri~tGi~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~---~~ge---~~lyvs~ee~--~~~i~~~~~~~g   72 (237)
T TIGR03877         1 KRVKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGL---QMGE---PGIYVALEEH--PVQVRRNMAQFG   72 (237)
T ss_pred             CccccCcHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHH---HcCC---cEEEEEeeCC--HHHHHHHHHHhC
Confidence            3689999999999999999999999999999999999999998864   4566   8999999964  333322222322


Q ss_pred             CCCCC-CCCCcEEEEeCC----------------CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCCh
Q 022155           98 PSNDH-NPCDYIFVQSVH----------------SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTM  160 (302)
Q Consensus        98 ~~~~~-~~l~~i~~~~~~----------------~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~  160 (302)
                      ..... ..-.++.+..+.                +..++.+++..+.+.+++     .+.++|||||++.++...     
T Consensus        73 ~~~~~~~~~g~l~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~-----~~~~~vVIDSls~l~~~~-----  142 (237)
T TIGR03877        73 WDVRKYEEEGKFAIVDAFTGGIGEAAEREKYVVKDPTDVRELIDVLRQAIRD-----INAKRVVIDSVTTLYITK-----  142 (237)
T ss_pred             CCHHHHhhcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHH-----hCCCEEEEcChhHhhcCC-----
Confidence            11000 001123333221                223445566666666654     456999999999976421     


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEE
Q 022155          161 DDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFL  240 (302)
Q Consensus       161 ~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l  240 (302)
                       ....|     +++..|+.+++++|+|+++|+|+.....                        +..+....+.+|+.|.|
T Consensus       143 -~~~~r-----~~l~~l~~~lk~~~~t~llt~~~~~~~~------------------------~~~~~~~~~~~D~vI~L  192 (237)
T TIGR03877       143 -PAMAR-----SIVMQLKRVLSGLGCTSIFVSQVSVGER------------------------GFGGPGVEHAVDGIIRL  192 (237)
T ss_pred             -hHHHH-----HHHHHHHHHHHhCCCEEEEEECcccccc------------------------cccccceEEEEeEEEEE
Confidence             11122     4567777778899999999999864211                        11122346778999999


Q ss_pred             EEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCccccc
Q 022155          241 SRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGV  300 (302)
Q Consensus       241 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~  300 (302)
                      ...+.     +    |             ..+|+++|.|.++.+  ...++|+|+++||+.+
T Consensus       193 ~~~~~-----~----~-------------~~~R~l~i~K~Rg~~~~~~~~~~~It~~Gi~v~  232 (237)
T TIGR03877       193 DLDEI-----D----G-------------ELKRSLIVWKMRGTKHSMRRHPFEITDKGIIVY  232 (237)
T ss_pred             EEEee-----C----C-------------ceEEEEEEEECCCCCCCCceEEEEEcCCCEEEE
Confidence            87655     1    1             468999999998875  4578999999999864

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.

>PRK04328 hypothetical protein; Provisional

Probab=99.95  E-value=4.4e-26  Score=198.71  Aligned_cols=213  Identities=22%  Similarity=0.272  Sum_probs=148.7

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhC
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFR   97 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~   97 (302)
                      ++++||++.||++|+||+|+|.++.|+|+||+|||+||++++.+.+   ..|.   +|+||++|.+  ++.+.+.+..+.
T Consensus         3 ~rv~tGi~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~---~~ge---~~lyis~ee~--~~~i~~~~~~~g   74 (249)
T PRK04328          3 KRVKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGL---QMGE---PGVYVALEEH--PVQVRRNMRQFG   74 (249)
T ss_pred             ceecCCchhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHH---hcCC---cEEEEEeeCC--HHHHHHHHHHcC
Confidence            4689999999999999999999999999999999999999998864   4566   8999999874  445555544443


Q ss_pred             CCCCCC-CCCcEEEEeCC----------------CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCCh
Q 022155           98 PSNDHN-PCDYIFVQSVH----------------SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTM  160 (302)
Q Consensus        98 ~~~~~~-~l~~i~~~~~~----------------~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~  160 (302)
                      -...+. .-.++.+.++.                +..++.+++..+.+.+++     .++++|||||++.++..+     
T Consensus        75 ~d~~~~~~~~~l~iid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~-----~~~~~vVIDSlt~l~~~~-----  144 (249)
T PRK04328         75 WDVRKYEEEGKFAIVDAFTGGIGSAAKREKYVVKDPDDVRELIDVLRQAIKD-----IGAKRVVIDSVSTLYLTK-----  144 (249)
T ss_pred             CCHHHHhhcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHh-----hCCCEEEEeChhHhhcCC-----
Confidence            211000 01123333221                233455566666666654     466999999999986432     


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEE
Q 022155          161 DDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFL  240 (302)
Q Consensus       161 ~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l  240 (302)
                       ....     ++++..|.++++++|+|+++|+|+.....                        +..+..-.+.+|..|.|
T Consensus       145 -~~~~-----r~~~~~l~~~lk~~g~t~llt~e~~~~~~------------------------~~~~~~~~~~~D~vI~L  194 (249)
T PRK04328        145 -PAMA-----RSIVMQLKRVLSGLGCTAIFVSQVSVGER------------------------GFGGPGVEHAVDGIIRL  194 (249)
T ss_pred             -hHHH-----HHHHHHHHHHHHhCCCEEEEEECcccccc------------------------ccCCCCcEEEEEEEEEE
Confidence             1112     24556677777789999999999864210                        11122234678999999


Q ss_pred             EEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCccccc
Q 022155          241 SRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGV  300 (302)
Q Consensus       241 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~  300 (302)
                      +..+.    .     |             ..+|.+.|.|.++.+  ...++|.|+++||+.+
T Consensus       195 ~~~~~----~-----~-------------~~~R~l~I~K~Rg~~~~~~~~~~~It~~Gi~v~  234 (249)
T PRK04328        195 DLDEI----D-----G-------------ELKRSLIVWKMRGTKHSMRRHPFEITDKGIVVY  234 (249)
T ss_pred             EEEec----C-----C-------------cEEEEEEEEEccCCCCCCceEEEEEcCCCEEEE
Confidence            87654    1     1             468999999998775  5578999999999864

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

Probab=99.95  E-value=1.9e-26  Score=205.66  Aligned_cols=216  Identities=21%  Similarity=0.321  Sum_probs=172.2

Q ss_pred             cccccCCCC-CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            8 QNLLDNPLT-TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         8 ~~l~~~~~~-~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ..+.+.+.. ..+++||+..||++|+||+-+|++++|.|.||.|||||++|++..++   ..+    +|+|+++|++...
T Consensus        62 ~~l~~i~~~~~~Ri~tg~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA---~~~----~vLYVsGEES~~Q  134 (456)
T COG1066          62 LKLSDIELEEEPRISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA---KRG----KVLYVSGEESLQQ  134 (456)
T ss_pred             eeeccceeeecccccCChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHH---hcC----cEEEEeCCcCHHH
Confidence            345444444 78999999999999999999999999999999999999999999985   333    8999999987554


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHH
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKR  166 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r  166 (302)
                      -+++  ++++.     ...+++++....+.+++.+.+++            .+++++|||||+.+|..++++.++...| 
T Consensus       135 iklR--A~RL~-----~~~~~l~l~aEt~~e~I~~~l~~------------~~p~lvVIDSIQT~~s~~~~SapGsVsQ-  194 (456)
T COG1066         135 IKLR--ADRLG-----LPTNNLYLLAETNLEDIIAELEQ------------EKPDLVVIDSIQTLYSEEITSAPGSVSQ-  194 (456)
T ss_pred             HHHH--HHHhC-----CCccceEEehhcCHHHHHHHHHh------------cCCCEEEEeccceeecccccCCCCcHHH-
Confidence            4333  22222     12378888888877765544432            3569999999999999888877776665 


Q ss_pred             HHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCc
Q 022155          167 SFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDF  246 (302)
Q Consensus       167 ~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~  246 (302)
                         +++....|.++|++.|++++++.|++..-.                        -|++....|++|+.++++-+.. 
T Consensus       195 ---VRe~t~~L~~~AK~~~i~~fiVGHVTKeG~------------------------IAGPrvLEHmVDtVlyFEGd~~-  246 (456)
T COG1066         195 ---VREVAAELMRLAKTKNIAIFIVGHVTKEGA------------------------IAGPRVLEHMVDTVLYFEGDRH-  246 (456)
T ss_pred             ---HHHHHHHHHHHHHHcCCeEEEEEEEccccc------------------------ccCchheeeeeeEEEEEeccCC-
Confidence               678889999999999999999999986432                        1345667899999999988654 


Q ss_pred             hhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCce-eeEEEecCcccccC
Q 022155          247 VVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTS-CEFEITREGVFGVE  301 (302)
Q Consensus       247 ~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~-~~F~I~~~Gi~~~~  301 (302)
                                             ...|.+|-+|+++-+.++ -.|+.+++|++.|.
T Consensus       247 -----------------------~~~RiLR~vKNRFG~t~EiGvFeM~~~GL~eV~  279 (456)
T COG1066         247 -----------------------SRYRILRSVKNRFGATNELGVFEMTENGLREVS  279 (456)
T ss_pred             -----------------------CceeeeehhcccCCcccceeEEEEecCCeeEec
Confidence                                   468999999999987665 69999999998774

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

Probab=99.94  E-value=5e-26  Score=196.00  Aligned_cols=213  Identities=25%  Similarity=0.302  Sum_probs=146.9

Q ss_pred             cccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-CCCCCeEEEEeCCCCCCHHHHHHHHHHhCC
Q 022155           20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH-GGLSASSLYLHTEFPFPMRRLHQLSHTFRP   98 (302)
Q Consensus        20 i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-gg~~~~vlyid~e~~~~~~rl~~i~~~~~~   98 (302)
                      ++||++.||++|+||+|+|+++.|+|+||+|||+|++|++.+.+   .. |.   +|+||+++.+  ++.+.+-+.++..
T Consensus         1 V~TGI~~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~---~~~ge---~vlyvs~ee~--~~~l~~~~~s~g~   72 (226)
T PF06745_consen    1 VPTGIPGLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGL---KNFGE---KVLYVSFEEP--PEELIENMKSFGW   72 (226)
T ss_dssp             E--SSTTHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHH---HHHT-----EEEEESSS---HHHHHHHHHTTTS
T ss_pred             CCCCchhHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhh---hhcCC---cEEEEEecCC--HHHHHHHHHHcCC
Confidence            58999999999999999999999999999999999999998875   45 66   8999999865  3444444434321


Q ss_pred             CCCCCC--CCcEEEEeCCCH------HHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHH
Q 022155           99 SNDHNP--CDYIFVQSVHSV------DQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLF  170 (302)
Q Consensus        99 ~~~~~~--l~~i~~~~~~~~------~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l  170 (302)
                      . .+..  ..++.+.+....      .++.+++..+.+.+++     .+.++|||||++.+.. . .. +  ..     +
T Consensus        73 d-~~~~~~~g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~-----~~~~~vVIDsls~l~~-~-~~-~--~~-----~  136 (226)
T PF06745_consen   73 D-LEEYEDSGKLKIIDAFPERIGWSPNDLEELLSKIREAIEE-----LKPDRVVIDSLSALLL-Y-DD-P--EE-----L  136 (226)
T ss_dssp             --HHHHHHTTSEEEEESSGGGST-TSCCHHHHHHHHHHHHHH-----HTSSEEEEETHHHHTT-S-SS-G--GG-----H
T ss_pred             c-HHHHhhcCCEEEEecccccccccccCHHHHHHHHHHHHHh-----cCCCEEEEECHHHHhh-c-CC-H--HH-----H
Confidence            1 1111  124666554332      2344555666666654     3459999999999832 1 11 1  11     3


Q ss_pred             HHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhh-hcceEEEEEEecCchhc
Q 022155          171 FKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWAN-CVNSRLFLSRNEDFVVR  249 (302)
Q Consensus       171 ~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~-~~~~rl~l~~~~~~~~~  249 (302)
                      +.++..|....++.++++|+|.|.....                        .+.....+.+ .+|..|.|...+.    
T Consensus       137 r~~l~~l~~~l~~~~~t~llt~~~~~~~------------------------~~~~~~~i~~~l~D~vI~L~~~~~----  188 (226)
T PF06745_consen  137 RRFLRALIKFLKSRGVTTLLTSEMPSGS------------------------EDDGTFGIEHYLADGVIELRYEEE----  188 (226)
T ss_dssp             HHHHHHHHHHHHHTTEEEEEEEEESSSS------------------------SSSSSTSHHHHHSSEEEEEEEEEE----
T ss_pred             HHHHHHHHHHHHHCCCEEEEEEccccCc------------------------ccccccchhhhcccEEEEEEEEee----
Confidence            3556777777789999999999974321                        1233455667 8999999998655    


Q ss_pred             ccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCcccccCC
Q 022155          250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGVER  302 (302)
Q Consensus       250 ~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~~~  302 (302)
                      +     +             ...|.++|.|.++.+  ...++|+|++.||+.+.|
T Consensus       189 ~-----~-------------~~~R~l~I~K~Rg~~~~~~~~~f~I~~~Gi~i~~~  225 (226)
T PF06745_consen  189 G-----G-------------RIRRRLRIVKMRGSRHSTGIHPFEITPGGIEIYPP  225 (226)
T ss_dssp             T-----T-------------EEEEEEEEEEETTS----BEEEEEEETTEEEEETT
T ss_pred             C-----C-------------EEEEEEEEEEcCCCCCCCcEEEEEEECCeEEEecC
Confidence            1     1             579999999999884  568999999999998764

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 ....

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.91  E-value=5.9e-23  Score=194.99  Aligned_cols=222  Identities=18%  Similarity=0.142  Sum_probs=151.7

Q ss_pred             CCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      .....+++||++.||.+|+||+++|.++.|.||||+|||+|++|++.+.+   ..|.   +|+|+++|++.  +.+..-+
T Consensus       239 ~~~~~~~~tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~---~~ge---~~~y~s~eEs~--~~i~~~~  310 (484)
T TIGR02655       239 RSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENAC---ANKE---RAILFAYEESR--AQLLRNA  310 (484)
T ss_pred             cccccccCCChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHH---HCCC---eEEEEEeeCCH--HHHHHHH
Confidence            34577899999999999999999999999999999999999999999986   5666   89999999763  3333333


Q ss_pred             HHhCCCCCCCC-CCcEEEEeCC-CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHH
Q 022155           94 HTFRPSNDHNP-CDYIFVQSVH-SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFF  171 (302)
Q Consensus        94 ~~~~~~~~~~~-l~~i~~~~~~-~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~  171 (302)
                      .++.-....-. -.++.+.... ....+.+.+..+.+.+++     .++++|||||++.++.. ++.    .+.     +
T Consensus       311 ~~lg~~~~~~~~~g~l~~~~~~p~~~~~~~~~~~i~~~i~~-----~~~~~vvIDsi~~~~~~-~~~----~~~-----r  375 (484)
T TIGR02655       311 YSWGIDFEEMEQQGLLKIICAYPESAGLEDHLQIIKSEIAD-----FKPARIAIDSLSALARG-VSN----NAF-----R  375 (484)
T ss_pred             HHcCCChHHHhhCCcEEEEEcccccCChHHHHHHHHHHHHH-----cCCCEEEEcCHHHHHHh-cCH----HHH-----H
Confidence            33321111001 1224444321 111223445555556654     45699999999998753 321    121     3


Q ss_pred             HHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccc
Q 022155          172 KISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVREN  251 (302)
Q Consensus       172 ~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~  251 (302)
                      .++..|.+++++.++|+++|+........                    ...+.  ..-++.+|..|+|...+.    + 
T Consensus       376 ~~~~~l~~~lk~~~it~~~t~~~~~~~~~--------------------~~~~~--~~~s~l~D~ii~l~~~e~----~-  428 (484)
T TIGR02655       376 QFVIGVTGYAKQEEITGFFTNTSDQFMGS--------------------HSITD--SHISTITDTILMLQYVEI----R-  428 (484)
T ss_pred             HHHHHHHHHHhhCCCeEEEeecccccccC--------------------CccCC--CCeeEeeeEEEEEEEEec----C-
Confidence            44566667778999999999886542211                    01111  123578899999988765    1 


Q ss_pred             ccccCCCCCCCCCCcccccceEEEEEEECCCC--CCceeeEEEecCcccccCC
Q 022155          252 QMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL--ADTSCEFEITREGVFGVER  302 (302)
Q Consensus       252 ~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~--~~~~~~F~I~~~Gi~~~~~  302 (302)
                          |             ..+|.+.|+|.+..  +....+|+|+++||+..+|
T Consensus       429 ----g-------------~~~r~i~V~K~R~~~~~~~~~~~~It~~Gi~v~~~  464 (484)
T TIGR02655       429 ----G-------------EMSRAINVFKMRGSWHDKGIREFMISDKGPEIKDS  464 (484)
T ss_pred             ----C-------------EEEEEEEEEEccCCCCCCceEEEEEcCCcEEEccc
Confidence                2             57888999999877  4567999999999987654

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.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=99.91  E-value=1.2e-22  Score=175.40  Aligned_cols=209  Identities=22%  Similarity=0.304  Sum_probs=139.0

Q ss_pred             ccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCC
Q 022155           19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRP   98 (302)
Q Consensus        19 ~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~   98 (302)
                      +++||++.||++|+||+++|+++.|+|+||+|||+|+++++.+.+   ..|.   +|+|+++|.+.  +.+.+.+..+..
T Consensus         1 ri~tGi~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~---~~g~---~~~~is~e~~~--~~i~~~~~~~g~   72 (229)
T TIGR03881         1 RLSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGL---RDGD---PVIYVTTEESR--ESIIRQAAQFGM   72 (229)
T ss_pred             CcCCChhhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHH---hcCC---eEEEEEccCCH--HHHHHHHHHhCC
Confidence            479999999999999999999999999999999999999988764   3455   89999998653  333333333221


Q ss_pred             CCCCCCC--CcEEEEe-------------CCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhH
Q 022155           99 SNDHNPC--DYIFVQS-------------VHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDL  163 (302)
Q Consensus        99 ~~~~~~l--~~i~~~~-------------~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~  163 (302)
                      ... ...  .++.+..             ..+.++   +...+.+.++.   .....+++||||++.++..+    +  .
T Consensus        73 ~~~-~~~~~~~l~i~d~~~~~~~~~~~~~~~~~~~---~~~~i~~~~~~---~~~~~~~vvIDsl~~l~~~~----~--~  139 (229)
T TIGR03881        73 DFE-KAIEEGKLVIIDALMKEKEDEWSLRELSIEE---LLNKVIEAKKY---LGYGHARLVIDSMSAFWLDK----P--A  139 (229)
T ss_pred             CHH-HHhhcCCEEEEEccccccccccccccCCHHH---HHHHHHHHHHh---hccCceEEEecCchhhhccC----h--H
Confidence            100 000  1222221             123333   44444444432   01135899999999976422    1  1


Q ss_pred             HHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEe
Q 022155          164 KKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRN  243 (302)
Q Consensus       164 ~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~  243 (302)
                      .     .++++..|+++++++++|+|+++|.......                        ..+..-++.+|..|.|+..
T Consensus       140 ~-----~r~~~~~l~~~l~~~~~tvil~~~~~~~~~~------------------------~~~~~~~~l~D~vI~L~~~  190 (229)
T TIGR03881       140 M-----ARKYSYYLKRVLNRWNFTILLTSQYAITTSQ------------------------AFGFGIEHVADGIIRFRKV  190 (229)
T ss_pred             H-----HHHHHHHHHHHHHhCCCEEEEEecccccCCC------------------------CcccceEEEEeEEEEEEEe
Confidence            1     2355677888888999999999995421111                        0112235678999999876


Q ss_pred             cCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCC--CCceeeEEEec-Ccccc
Q 022155          244 EDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL--ADTSCEFEITR-EGVFG  299 (302)
Q Consensus       244 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~--~~~~~~F~I~~-~Gi~~  299 (302)
                      ..     +    |             ..+|+++|.|.++.  +....+|+|++ +||+.
T Consensus       191 ~~-----~----~-------------~~~R~i~i~K~R~~~~~~~~~~~~I~~~~Gi~v  227 (229)
T TIGR03881       191 VV-----D----G-------------ELRRYLIVEKMRQTNHDKRAWEIDIVPGKGLVL  227 (229)
T ss_pred             cc-----C----C-------------cEEEEEEEEeccCCCCCCceeEEEEcCCCceEE
Confidence            65     1    1             47899999999877  45678999995 89975

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

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.91  E-value=1.2e-22  Score=194.65  Aligned_cols=220  Identities=22%  Similarity=0.252  Sum_probs=151.4

Q ss_pred             CCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSH   94 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~   94 (302)
                      ...++++||++.||.+|+||+++|.+++|.|+||+|||+|+++++.+.+   ..|.   +|+||+++.+  ++.+.+.+.
T Consensus       250 ~~~~~~~tGi~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~---~~g~---~~~yis~e~~--~~~i~~~~~  321 (509)
T PRK09302        250 SSNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAAC---RRGE---RCLLFAFEES--RAQLIRNAR  321 (509)
T ss_pred             cccccccCCcHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCC---cEEEEEecCC--HHHHHHHHH
Confidence            4577899999999999999999999999999999999999999998875   5566   9999999875  444444444


Q ss_pred             HhCCCCCCCC-CCcEEEEeCC-CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHH
Q 022155           95 TFRPSNDHNP-CDYIFVQSVH-SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFK  172 (302)
Q Consensus        95 ~~~~~~~~~~-l~~i~~~~~~-~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~  172 (302)
                      .+.....+.. ...+.+.... ....+.+.+..+.+.+.+     .++++|||||++.++...      +...    +.+
T Consensus       322 ~~g~~~~~~~~~g~l~i~~~~~~~~~~~~~~~~i~~~i~~-----~~~~~vVIDslt~l~~~~------~~~~----~~~  386 (509)
T PRK09302        322 SWGIDLEKMEEKGLLKIICARPESYGLEDHLIIIKREIEE-----FKPSRVAIDPLSALARGG------SLNE----FRQ  386 (509)
T ss_pred             HcCCChHHHhhcCCceeecCCcccCCHHHHHHHHHHHHHH-----cCCCEEEEcCHHHHHHhC------CHHH----HHH
Confidence            4331111000 0112222111 111233444555555654     466999999999987532      1111    345


Q ss_pred             HHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccc
Q 022155          173 ISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQ  252 (302)
Q Consensus       173 l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~  252 (302)
                      ++..|.++++++|+++|+|++........                   ...+   ..+++++|+.|.|++.+.    .  
T Consensus       387 ~l~~l~~~~k~~~~t~l~t~~~~~~~g~~-------------------~~~~---~~~~~l~D~vI~L~~~~~----~--  438 (509)
T PRK09302        387 FVIRLTDYLKSEEITGLFTNLTPDFMGSH-------------------SITE---SHISSLTDTWILLQYVEI----N--  438 (509)
T ss_pred             HHHHHHHHHHhCCCeEEEEeccccccCCC-------------------CCCc---CceEEeeeEEEEEEEeec----C--
Confidence            56777788889999999999976532110                   0011   125688999999998765    1  


Q ss_pred             cccCCCCCCCCCCcccccceEEEEEEECCCC--CCceeeEEEecCcccccC
Q 022155          253 MVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL--ADTSCEFEITREGVFGVE  301 (302)
Q Consensus       253 ~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~--~~~~~~F~I~~~Gi~~~~  301 (302)
                         |             ...|+++|.|.++.  +....+|+|+++||+.-+
T Consensus       439 ---~-------------~~~R~l~I~K~Rg~~~~~~~~~f~It~~Gi~v~~  473 (509)
T PRK09302        439 ---G-------------EMNRALYVLKMRGSWHSNQIREFVITDKGIHIKD  473 (509)
T ss_pred             ---C-------------eeEEEEEEEEcCCCCCCCceEEEEEeCCcEEEcc
Confidence               1             46899999999877  466899999999997654

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=99.90  E-value=4e-22  Score=172.57  Aligned_cols=213  Identities=21%  Similarity=0.256  Sum_probs=139.3

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      .++++||++.||.+|+||+|+|+++.|+|+||+|||+|+++++...+   ..|+   +|+|+++|.+.. +.++++ ..+
T Consensus         4 ~~~~~tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~---~~g~---~~~y~~~e~~~~-~~~~~~-~~~   75 (234)
T PRK06067          4 KEIISTGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGAL---KQGK---KVYVITTENTSK-SYLKQM-ESV   75 (234)
T ss_pred             ceEEecCCHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHH---hCCC---EEEEEEcCCCHH-HHHHHH-HHC
Confidence            45799999999999999999999999999999999999999988764   4566   999999997532 222322 233


Q ss_pred             CCCCCCC-CCCcEEEEeC------CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHH
Q 022155           97 RPSNDHN-PCDYIFVQSV------HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFL  169 (302)
Q Consensus        97 ~~~~~~~-~l~~i~~~~~------~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~  169 (302)
                      .....+. ....+.+...      ........++..+.+.+.+     .+.+++||||++++....      +...    
T Consensus        76 g~~~~~~~~~g~l~i~~~~~~~~~~~~~~~~~ll~~l~~~i~~-----~~~~~iviDs~t~~~~~~------~~~~----  140 (234)
T PRK06067         76 KIDISDFFLWGYLRIFPLNTEGFEWNSTLANKLLELIIEFIKS-----KREDVIIIDSLTIFATYA------EEDD----  140 (234)
T ss_pred             CCChhHHHhCCCceEEeccccccccCcchHHHHHHHHHHHHHh-----cCCCEEEEecHHHHHhcC------CHHH----
Confidence            2111110 0112222111      1112334455566666653     456999999999864211      1111    


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhc
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR  249 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~  249 (302)
                      +..++..|+.+++ .+++++++.|.......                     .    -....+.++..+.|+..+.    
T Consensus       141 ~~~~l~~l~~l~~-~g~tvllt~~~~~~~~~---------------------~----~~~~~~l~DgvI~L~~~~~----  190 (234)
T PRK06067        141 ILNFLTEAKNLVD-LGKTILITLHPYAFSEE---------------------L----LSRIRSICDVYLKLRAEQI----  190 (234)
T ss_pred             HHHHHHHHHHHHh-CCCEEEEEecCCcCCHH---------------------H----HHHHHhheEEEEEEEeecc----
Confidence            3455666666665 58899999885321110                     0    0223567788888877543    


Q ss_pred             ccccccCCCCCCCCCCcccccceEEEEEEECCCCC--C-ceeeEEEec-Cccccc
Q 022155          250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--D-TSCEFEITR-EGVFGV  300 (302)
Q Consensus       250 ~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~-~~~~F~I~~-~Gi~~~  300 (302)
                       +    |             ..+|+++|.|.++.+  . ...+|.|++ .||+.+
T Consensus       191 -~----~-------------~~~r~l~i~K~Rg~~~~~~~~~~~~I~~~~Gi~v~  227 (234)
T PRK06067        191 -G----G-------------RYVKVLEVVKLRGARKTTGNIISFDVDPAFGIKII  227 (234)
T ss_pred             -C----C-------------EEeEEEEEEhhcCCCCCCCCEEEEEEcCCCCeEEE
Confidence             1    1             478999999988764  4 678999998 599865

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=99.90  E-value=5.2e-22  Score=170.78  Aligned_cols=213  Identities=22%  Similarity=0.302  Sum_probs=137.2

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCC
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDH  102 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~  102 (302)
                      |++.||++|+||+|+|++++|.|+||+|||+||++++.+.+   ..|+   +|+|+++|.+  ++.+.+-+..+..... 
T Consensus         1 Gi~~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~---~~g~---~~~y~s~e~~--~~~l~~~~~~~~~~~~-   71 (224)
T TIGR03880         1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGL---KNGE---KAMYISLEER--EERILGYAKSKGWDLE-   71 (224)
T ss_pred             CchhhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHH---hCCC---eEEEEECCCC--HHHHHHHHHHcCCChH-
Confidence            78999999999999999999999999999999999998875   4465   8999999974  4555444444432111 


Q ss_pred             CCCC-cEEEEeCCCHH---HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHH
Q 022155          103 NPCD-YIFVQSVHSVD---QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK  178 (302)
Q Consensus       103 ~~l~-~i~~~~~~~~~---~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~  178 (302)
                      ...+ ++.+.+....+   .+.++...+..++.+     .+++++||||++.+... ..    +...+.+.+..+++.  
T Consensus        72 ~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~i~~-----~~~~~vVIDsls~l~~~-~~----~~~~~r~~l~~l~~~--  139 (224)
T TIGR03880        72 DYIDKSLYIVRLDPSDFKTSLNRIKNELPILIKE-----LGASRVVIDPISLLETL-FD----DDAERRTELFRFYSS--  139 (224)
T ss_pred             HHHhCCeEEEecCHHHHHhhHHHHHHHHHHHHHH-----hCCCEEEEcChHHHhhh-cC----CHHHHHHHHHHHHHH--
Confidence            1112 35555433211   133444555666654     46799999999986321 11    112222223333333  


Q ss_pred             HHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCC
Q 022155          179 AMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGV  258 (302)
Q Consensus       179 ~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~  258 (302)
                       + ++.+++++++.|........                     .+ . ..-.++++..++|+....    ..   .+  
T Consensus       140 -l-k~~~~tvll~s~~~~~~~~~---------------------~~-~-~~~~~l~D~vI~L~~~~~----~~---~~--  185 (224)
T TIGR03880       140 -L-RETGVTTILTSEADKTNVFA---------------------SK-Y-GLIEYLADGVIILKYVRN----SD---LR--  185 (224)
T ss_pred             -H-HhCCCEEEEEEcccCCCCCc---------------------cC-C-CceEEEEeEEEEEeeeec----cc---Cc--
Confidence             3 46799999999975411000                     00 0 113467788888965443    00   00  


Q ss_pred             CCCCCCCcccccceEEEEEEECCCC--CCceeeEEEecCcccccC
Q 022155          259 GGSGSEDFVCRRTRRSLHVVFAPHL--ADTSCEFEITREGVFGVE  301 (302)
Q Consensus       259 ~~~~~~~~~~~~~~R~~~v~ks~~~--~~~~~~F~I~~~Gi~~~~  301 (302)
                                 ..+|.++|+|.++.  +....+|+|+++||+.+.
T Consensus       186 -----------~~~r~l~v~K~Rg~~~~~~~~~~~i~~~Gi~v~~  219 (224)
T TIGR03880       186 -----------DVRLAVEVVKMRRSKHSREIKPYEITDSGITVYS  219 (224)
T ss_pred             -----------ceEEEEEEEEccCCCCCCceEEEEEcCCcEEEec
Confidence                       35678999999877  466889999999998763

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

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.89  E-value=5.8e-22  Score=188.22  Aligned_cols=215  Identities=19%  Similarity=0.245  Sum_probs=142.4

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-CCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH-GGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      ++++||+++||++|+||||+|.++.|.|+||+|||+||+|++.+.+   .. |.   +|+||+.+.+  ++.+.+-+.++
T Consensus         1 ~r~~TGI~gLD~il~GGlp~g~~~Li~G~pGsGKT~la~qfl~~g~---~~~ge---~~lyvs~eE~--~~~l~~~~~~~   72 (484)
T TIGR02655         1 AKIRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGI---IHFDE---PGVFVTFEES--PQDIIKNARSF   72 (484)
T ss_pred             CcCCCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHH---HhCCC---CEEEEEEecC--HHHHHHHHHHc
Confidence            4689999999999999999999999999999999999999988754   33 55   8999999854  55555555554


Q ss_pred             CCCCCCC-CCCcEEEEeCCC---------HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHH
Q 022155           97 RPSNDHN-PCDYIFVQSVHS---------VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKR  166 (302)
Q Consensus        97 ~~~~~~~-~l~~i~~~~~~~---------~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r  166 (302)
                      .-...+. .-+++.+.....         ..++.+.+..+...+..     ...+.|||||+++++... +.   ....|
T Consensus        73 G~~~~~~~~~g~l~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~ls~-----g~~qRVvIDSl~aL~~~~-~~---~~~~r  143 (484)
T TIGR02655        73 GWDLQKLVDEGKLFILDASPDPEGQDVVGGFDLSALIERINYAIRK-----YKAKRVSIDSVTAVFQQY-DA---VSVVR  143 (484)
T ss_pred             CCCHHHHhhcCceEEEecCchhccccccccCCHHHHHHHHHHHHHH-----hCCcEEEEeehhHhhhhc-Cc---hHHHH
Confidence            3211100 112344433211         11344555666666654     556999999999975321 10   11222


Q ss_pred             HHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchh-hhhcceEEEEEEecC
Q 022155          167 SFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAW-ANCVNSRLFLSRNED  245 (302)
Q Consensus       167 ~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w-~~~~~~rl~l~~~~~  245 (302)
                      .    .+...++.+ ++.++|+|++.|........                        ....+ .+.+|..|.|.....
T Consensus       144 ~----~l~~Li~~L-~~~g~TvLLtsh~~~~~~~~------------------------~~~~~~e~laDgVI~L~~~~~  194 (484)
T TIGR02655       144 R----EIFRLVARL-KQIGVTTVMTTERIEEYGPI------------------------ARYGVEEFVSDNVVILRNVLE  194 (484)
T ss_pred             H----HHHHHHHHH-HHCCCEEEEEecCccccccc------------------------ccCCceeEeeeeEEEEEEEec
Confidence            2    233334333 35799999999975432110                        01122 567899999987654


Q ss_pred             chhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCccccc
Q 022155          246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGV  300 (302)
Q Consensus       246 ~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~  300 (302)
                           +    +             ..+|.++|+|.++.+  ...++|+|+++||+.+
T Consensus       195 -----~----~-------------~~~R~l~I~K~Rgs~~~~~~~~~~It~~Gi~v~  229 (484)
T TIGR02655       195 -----G----E-------------RRRRTLEILKLRGTSHMKGEYPFTITDHGINIF  229 (484)
T ss_pred             -----C----C-------------EEEEEEEEEECCCCCcCCceEEEEEcCCcEEEE
Confidence                 1    1             357999999998774  5678999999999864

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.89  E-value=9.3e-22  Score=188.46  Aligned_cols=221  Identities=19%  Similarity=0.225  Sum_probs=145.8

Q ss_pred             cCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-CCCCCeEEEEeCCCCCCHHHHH
Q 022155           12 DNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH-GGLSASSLYLHTEFPFPMRRLH   90 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-gg~~~~vlyid~e~~~~~~rl~   90 (302)
                      .-+...++++||++.||++|+||+|+|+++.|+|+||+|||+|++|++.+.+   .. |.   +|+||++|.+  ++.+.
T Consensus         5 ~~~~~~~ri~TGI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~---~~~ge---~~lyis~ee~--~~~i~   76 (509)
T PRK09302          5 SASPGIEKLPTGIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGI---KRFDE---PGVFVTFEES--PEDII   76 (509)
T ss_pred             ccCCCCccccCCchhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHH---HhcCC---CEEEEEccCC--HHHHH
Confidence            3445677999999999999999999999999999999999999999998775   33 55   8999999975  44444


Q ss_pred             HHHHHhCCCCCCCC--CCcEEEEeCCC---------HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCC
Q 022155           91 QLSHTFRPSNDHNP--CDYIFVQSVHS---------VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNT  159 (302)
Q Consensus        91 ~i~~~~~~~~~~~~--l~~i~~~~~~~---------~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~  159 (302)
                      +-+.++... ....  -.++.+.....         ..++.+++..+.+.+.+     .+.+.|||||+++++... .  
T Consensus        77 ~~~~~~g~d-~~~~~~~g~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~-----~~~~~vVIDSls~l~~~~-d--  147 (509)
T PRK09302         77 RNVASFGWD-LQKLIDEGKLFILDASPDPSEQEEAGEYDLEALFIRIEYAIDK-----IGAKRVVLDSIEALFSGF-S--  147 (509)
T ss_pred             HHHHHcCCC-HHHHhhCCeEEEEecCcccccccccccccHHHHHHHHHHHHHh-----hCCCEEEECCHHHHHhhc-c--
Confidence            444443311 1111  12333332211         11344566666666654     456999999999976421 1  


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEE
Q 022155          160 MDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLF  239 (302)
Q Consensus       160 ~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~  239 (302)
                        +...    ++..+..|.+.+++.++|+|++.|........                     .. .| .-.+.++..++
T Consensus       148 --~~~~----~r~~l~~L~~~Lk~~g~TvLlt~~~~~~~~~~---------------------~~-~~-~~~~laDgVI~  198 (509)
T PRK09302        148 --NEAV----VRRELRRLFAWLKQKGVTAVITGERGDEYGPL---------------------TR-YG-VEEFVSDCVII  198 (509)
T ss_pred             --CHHH----HHHHHHHHHHHHHhCCCEEEEEECCccCcCCc---------------------cc-cC-ceEEEeeEEEE
Confidence              1111    12333444445567899999999875421110                     00 00 01346788888


Q ss_pred             EEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCccccc
Q 022155          240 LSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGV  300 (302)
Q Consensus       240 l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~  300 (302)
                      |.....     +    +             ...|+++|.|.++.+  ...++|+|++.||+.+
T Consensus       199 L~~~~~-----~----~-------------~~~R~l~I~K~Rg~~~~~~~~~f~I~~~Gi~v~  239 (509)
T PRK09302        199 LRNRLE-----G----E-------------KRTRTLRILKYRGTTHGKNEYPFTITEDGISVL  239 (509)
T ss_pred             EeEEcc-----C----C-------------eEEEEEEEEECCCCCcCCccEEEEECCCcEEEE
Confidence            886544     1    1             357999999998875  4569999999999865

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

Probab=99.87  E-value=8.4e-21  Score=167.84  Aligned_cols=221  Identities=16%  Similarity=0.184  Sum_probs=141.0

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHHHH
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQLSH   94 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i~~   94 (302)
                      .+.+|||++.||+++ ||+++|+++.|.|+||+|||+|+.+++.+++.  ..|.   +|+||+.|.+...  .|+.+...
T Consensus        10 ~~~~~tg~~~Ld~~~-gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~--~~g~---~vl~iS~E~~~~~~~~r~~~~~~   83 (271)
T cd01122          10 NEEVWWPFPVLNKLT-KGLRKGELIILTAGTGVGKTTFLREYALDLIT--QHGV---RVGTISLEEPVVRTARRLLGQYA   83 (271)
T ss_pred             ccCCCCCcceeeeee-EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHH--hcCc---eEEEEEcccCHHHHHHHHHHHHh
Confidence            348899999999998 89999999999999999999999999998752  2255   8999999974321  22222211


Q ss_pred             HhCCCCC---------------CCC--CCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccC
Q 022155           95 TFRPSND---------------HNP--CDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFD  157 (302)
Q Consensus        95 ~~~~~~~---------------~~~--l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~  157 (302)
                      .......               +..  ..++++........+.+++..+..+..+     .++++||||+++.+......
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~~-----~~~~~vvID~l~~l~~~~~~  158 (271)
T cd01122          84 GKRLHLPDTVFIYTLEEFDAAFDEFEGTGRLFMYDSFGEYSMDSVLEKVRYMAVS-----HGIQHIIIDNLSIMVSDERA  158 (271)
T ss_pred             CCCcccCCccccccHHHHHHHHHHhcCCCcEEEEcCCCccCHHHHHHHHHHHHhc-----CCceEEEECCHHHHhccCCC
Confidence            1111100               000  1345555443322344555556555543     56799999999997643211


Q ss_pred             CChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCc-cccCCchhhhhcce
Q 022155          158 NTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPI-CPALGIAWANCVNS  236 (302)
Q Consensus       158 ~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~p~lG~~w~~~~~~  236 (302)
                      .     ..+...+.+++..|+.+|++++|+|++++|+...........+           ..... .-.+...+.+.++.
T Consensus       159 ~-----~~~~~~~~~~~~~L~~la~~~~vtvll~sq~~~~~~~~~~~~~-----------~~~~~~d~~gs~~i~~~aD~  222 (271)
T cd01122         159 S-----GDERKALDEIMTKLRGFATEHGIHITLVSHLRRPDGDKTHEEG-----------GEVSLSDFRGSAAIGQLADN  222 (271)
T ss_pred             c-----hhHHHHHHHHHHHHHHHHHHhCCEEEEEecccCccCCCccccC-----------CCceEEeccCcHhHhhhccE
Confidence            1     1223346788999999999999999999999764322100000           00001 11223457788899


Q ss_pred             EEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCC
Q 022155          237 RLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL  283 (302)
Q Consensus       237 rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~  283 (302)
                      .|.|.+...    ++  ..+             ...|.++|.|.++.
T Consensus       223 vi~l~r~~~----~e--~~~-------------~~~~~i~v~K~R~~  250 (271)
T cd01122         223 VIALERNQQ----AE--LDE-------------RNTTYLRILKNRFT  250 (271)
T ss_pred             EEEEEecCc----cc--ccc-------------CCcEEEEEEeeccC
Confidence            999998654    10  001             35789999999976

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

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=99.82  E-value=8.8e-19  Score=150.91  Aligned_cols=213  Identities=16%  Similarity=0.206  Sum_probs=135.3

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhC
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFR   97 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~   97 (302)
                      .++.++++.||..++||+++|+++.|.|+||+|||+||++++...+   ..|.   +++|++++.+. .+.++++ ..+.
T Consensus         4 ~~~~~~~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~---~~g~---~~~yi~~e~~~-~~~~~~~-~~~g   75 (230)
T PRK08533          4 AKIELSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFL---QNGY---SVSYVSTQLTT-TEFIKQM-MSLG   75 (230)
T ss_pred             EEEEEEEeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHH---hCCC---cEEEEeCCCCH-HHHHHHH-HHhC
Confidence            4678899999999999999999999999999999999999988764   4455   89999988754 2334444 2222


Q ss_pred             CCCCC-CCCCcEEEEeC----CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHH
Q 022155           98 PSNDH-NPCDYIFVQSV----HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFK  172 (302)
Q Consensus        98 ~~~~~-~~l~~i~~~~~----~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~  172 (302)
                      ..... ...+++.+...    ....+....+..+......     .+.+++|||++++.+....     +...    ...
T Consensus        76 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~il~~~~~-----~~~~~lVIDe~t~~l~~~~-----d~~~----~~~  141 (230)
T PRK08533         76 YDINKKLISGKLLYIPVYPLLSGNSEKRKFLKKLMNTRRF-----YEKDVIIIDSLSSLISNDA-----SEVA----VND  141 (230)
T ss_pred             CchHHHhhcCcEEEEEecccccChHHHHHHHHHHHHHHHh-----cCCCEEEEECccHHhcCCc-----chHH----HHH
Confidence            11100 11123333221    1222223333333333321     3469999999999763321     1111    234


Q ss_pred             HHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccc
Q 022155          173 ISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQ  252 (302)
Q Consensus       173 l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~  252 (302)
                      +.+.|+.+++. +++++++.+.......                    ..     ..-.+.+|..|.|+....    +  
T Consensus       142 l~~~l~~l~~~-g~tvi~t~~~~~~~~~--------------------~~-----~~~~~~~DgvI~L~~~~~----~--  189 (230)
T PRK08533        142 LMAFFKRISSL-NKVIILTANPKELDES--------------------VL-----TILRTAATMLIRLEVKVF----G--  189 (230)
T ss_pred             HHHHHHHHHhC-CCEEEEEecccccccc--------------------cc-----eeEEEeeeEEEEEEEeec----C--
Confidence            55666666544 7788888775421110                    00     012577899999987665    1  


Q ss_pred             cccCCCCCCCCCCcccccceEEEEEEECCCCCC---ceeeEEEecC-ccccc
Q 022155          253 MVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLAD---TSCEFEITRE-GVFGV  300 (302)
Q Consensus       253 ~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~---~~~~F~I~~~-Gi~~~  300 (302)
                         |             ..+|++.|+|-++.+.   ..++|+|.++ ||+..
T Consensus       190 ---~-------------~~~R~i~V~KmR~~~~~~~~~~~f~i~~~~g~~~~  225 (230)
T PRK08533        190 ---G-------------DLKNSAKIVKYNMAKGSFQKSIPFRVEPKIGLAVE  225 (230)
T ss_pred             ---C-------------EEEEEEEEEEecCCccccCCEEEEEEcCCccEEEE
Confidence               1             4689999999988754   4899999975 98754

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

Probab=99.80  E-value=4.8e-18  Score=149.37  Aligned_cols=215  Identities=24%  Similarity=0.281  Sum_probs=139.3

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      .+++|||++.||++|+||+|+|.++.|+|+||||||+|++|++.+.+   ..|.   +|+||+++.+  ++.+.+.+..+
T Consensus         2 ~~~~~TGI~glD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~---~~ge---~vlyvs~~e~--~~~l~~~~~~~   73 (260)
T COG0467           2 MERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGA---REGE---PVLYVSTEES--PEELLENARSF   73 (260)
T ss_pred             CccccCCCcchHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHH---hcCC---cEEEEEecCC--HHHHHHHHHHc
Confidence            46789999999999999999999999999999999999999999986   5566   8999999864  44444444433


Q ss_pred             CCCCCCCCCC--cEEEE------------eCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhh
Q 022155           97 RPSNDHNPCD--YIFVQ------------SVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDD  162 (302)
Q Consensus        97 ~~~~~~~~l~--~i~~~------------~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~  162 (302)
                      .-... ...+  .+.+.            ...+...+..+...+.+..+.     .+...+||||++.+.... ..   .
T Consensus        74 g~d~~-~~~~~g~l~i~d~~~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~-----~~~~~~ViDsi~~~~~~~-~~---~  143 (260)
T COG0467          74 GWDLE-VYIEKGKLAILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEK-----EGADRVVIDSITELTLYL-ND---P  143 (260)
T ss_pred             CCCHH-HHhhcCCEEEEEccccccccccccccCCccHHHHHHHHHHHHHH-----hCCCEEEEeCCchHhhhc-Cc---h
Confidence            21110 0000  01110            011112233455556666654     346999999999754322 11   1


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEE
Q 022155          163 LKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR  242 (302)
Q Consensus       163 ~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~  242 (302)
                      ..     .+.+...+..+.++.+++.+++.+........                  ....    .   +.++..+.|..
T Consensus       144 ~~-----~r~~~~~l~~~~~~~~~t~~~~~~~~~~~~~~------------------~~~~----~---~~vdgvI~l~~  193 (260)
T COG0467         144 AL-----VRRILLLLKRFLKKLGVTSLLTTEAPVEERGE------------------SGVE----E---YIVDGVIRLDL  193 (260)
T ss_pred             HH-----HHHHHHHHHHHHHhCCCEEEEEecccccCCCc------------------cceE----E---EEEEEEEEEee
Confidence            11     13566777788888889999998864322110                  0011    1   24677777777


Q ss_pred             ecCchhcccccccCCCCCCCCCCcccccceE-EEEEEECCCCC--CceeeEEEec-CcccccC
Q 022155          243 NEDFVVRENQMVNGGVGGSGSEDFVCRRTRR-SLHVVFAPHLA--DTSCEFEITR-EGVFGVE  301 (302)
Q Consensus       243 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R-~~~v~ks~~~~--~~~~~F~I~~-~Gi~~~~  301 (302)
                      ...    ++                  ...| ++++.|-+..+  ....+|.|++ +||..+.
T Consensus       194 ~~~----~~------------------~~~r~~~~i~k~r~~~~~~~~~~~~i~~g~gi~i~~  234 (260)
T COG0467         194 KEI----EG------------------GGDRRYLRILKMRGTPHSLKVIPFEITDGEGIVVYP  234 (260)
T ss_pred             ecc----cC------------------ceEEEEEEEEeccccccCCceeceEEecCCcEEEec
Confidence            554    11                  2344 99999988764  5689999999 7987653

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=99.79  E-value=2.5e-18  Score=149.53  Aligned_cols=215  Identities=20%  Similarity=0.204  Sum_probs=131.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH-HHhCCCCC---
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS-HTFRPSND---  101 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~-~~~~~~~~---  101 (302)
                      .||.+++ |+++|+++.|+|+||+|||+|+++++.+.+.  ..|.   +|+|++.|.+... -+.++. ........   
T Consensus         2 ~LD~~~~-Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~--~~g~---~vly~s~E~~~~~-~~~r~~~~~~~~~~~~~~   74 (242)
T cd00984           2 DLDNLTG-GLQPGDLIIIAARPSMGKTAFALNIAENIAK--KQGK---PVLFFSLEMSKEQ-LLQRLLASESGISLSKLR   74 (242)
T ss_pred             chhhhhc-CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHH--hCCC---ceEEEeCCCCHHH-HHHHHHHHhcCCCHHHHh
Confidence            6899985 9999999999999999999999999998862  1255   8999999975322 112221 11110000   


Q ss_pred             C----------------C-CCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHH
Q 022155          102 H----------------N-PCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLK  164 (302)
Q Consensus       102 ~----------------~-~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~  164 (302)
                      .                . .-.++++..... ..+.++...+..+..+     .++++||||+++.+.... ..     .
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~~~~l~~~i~~~~~~-----~~~~~vvID~l~~l~~~~-~~-----~  142 (242)
T cd00984          75 TGSLSDEDWERLAEAIGELKELPIYIDDSSS-LTVSDIRSRARRLKKE-----HGLGLIVIDYLQLMSGSK-KK-----G  142 (242)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCEEEeCCCC-CCHHHHHHHHHHHHHh-----cCCCEEEEcCchhcCCCC-CC-----C
Confidence            0                0 011344432211 1233344455555443     477999999999865322 11     1


Q ss_pred             HHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCcccc-CCchhhhhcceEEEEEEe
Q 022155          165 KRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPA-LGIAWANCVNSRLFLSRN  243 (302)
Q Consensus       165 ~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-lG~~w~~~~~~rl~l~~~  243 (302)
                      .+...+..++..|+.+|+++++++|+++|+.........              ..+..... ....+.+.++..+.|.+.
T Consensus       143 ~~~~~~~~~~~~L~~la~~~~~~ii~~~q~~r~~~~~~~--------------~~~~~~~~~gS~~i~~~aD~vi~l~~~  208 (242)
T cd00984         143 NRQQEVAEISRSLKLLAKELNVPVIALSQLSRGVESRAD--------------KRPMLSDLRESGSIEQDADVVMFLYRD  208 (242)
T ss_pred             CHHHHHHHHHHHHHHHHHHhCCeEEEecccChhhhccCC--------------CCCCHHHHhhhcccccCCCEEEEEecc
Confidence            233346889999999999999999999999764321100              00011111 123456778999999987


Q ss_pred             cCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeE
Q 022155          244 EDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEF  290 (302)
Q Consensus       244 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F  290 (302)
                      +.... +.    .            ....-.++|.|.|+-+...+.+
T Consensus       209 ~~~~~-~~----~------------~~~~~~l~v~KnR~G~~g~~~l  238 (242)
T cd00984         209 EYYNK-ES----E------------SKGIAEIIVAKNRNGPTGTVEL  238 (242)
T ss_pred             ccccc-cc----C------------CCCceEEEEECCCCCCCeeEEE
Confidence            64100 00    0            0245688899999876655544

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.

>TIGR00665 DnaB replicative DNA helicase

Probab=99.78  E-value=2.3e-17  Score=155.39  Aligned_cols=223  Identities=17%  Similarity=0.229  Sum_probs=140.1

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQLS   93 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i~   93 (302)
                      ....++||++.||+++ ||+++|+++.|.|+||+|||+|+++++.+.+.  ..|.   +|+|++.|.+...  .|+....
T Consensus       174 ~~~gi~tG~~~LD~~~-~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~--~~g~---~vl~~SlEm~~~~i~~R~~~~~  247 (434)
T TIGR00665       174 GITGVPTGFTDLDKLT-SGLQPSDLIILAARPSMGKTAFALNIAENAAI--KEGK---PVAFFSLEMSAEQLAMRMLSSE  247 (434)
T ss_pred             CCCcccCCchhhHhhc-CCCCCCeEEEEEeCCCCChHHHHHHHHHHHHH--hCCC---eEEEEeCcCCHHHHHHHHHHHh
Confidence            4567999999999998 69999999999999999999999999998752  2344   7999999965322  2222111


Q ss_pred             HHhC-----C--CCCC---------CCC--CcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhc
Q 022155           94 HTFR-----P--SNDH---------NPC--DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSD  155 (302)
Q Consensus        94 ~~~~-----~--~~~~---------~~l--~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~  155 (302)
                      ....     .  ....         ..+  .++++....+ ..+.++...+..+..+     .++++||||+++.+....
T Consensus       248 ~~v~~~~~~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~-~~~~~i~~~i~~~~~~-----~~~~~vvID~l~~i~~~~  321 (434)
T TIGR00665       248 SRVDSQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDTPG-LTITELRAKARRLKRE-----HGLGLIVIDYLQLMSGSG  321 (434)
T ss_pred             cCCCHHHhccCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHh-----cCCCEEEEcchHhcCCCC
Confidence            1100     0  0000         000  1344433221 1233344444445443     468999999999863211


Q ss_pred             cCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----Cchh
Q 022155          156 FDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----GIAW  230 (302)
Q Consensus       156 ~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G~~w  230 (302)
                      . .     ..|...+..+++.|+.+|++++|+||++.|+........                  ...|.+     ...+
T Consensus       322 ~-~-----~~r~~~i~~i~~~Lk~lA~e~~i~vi~lsqlnr~~~~r~------------------~~~p~lsdlr~Sg~i  377 (434)
T TIGR00665       322 R-S-----ENRQQEVSEISRSLKALAKELNVPVIALSQLSRSVEQRE------------------DKRPQLSDLRESGSI  377 (434)
T ss_pred             C-C-----CCHHHHHHHHHHHHHHHHHHhCCeEEEEeccCcchhccC------------------CCCCChHHHhhccch
Confidence            1 0     124455788999999999999999999999977543211                  112222     1346


Q ss_pred             hhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEE
Q 022155          231 ANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFE  291 (302)
Q Consensus       231 ~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~  291 (302)
                      .+.++..++|.|.....  ++...               ...-.+.|.|.+..+...+.|.
T Consensus       378 eq~aD~vi~l~r~~~~~--~~~~~---------------~~~~~l~v~KnR~G~~g~~~l~  421 (434)
T TIGR00665       378 EQDADIVMFLYRDEYYN--PDSED---------------KGIAEIIIAKQRNGPTGTVKLA  421 (434)
T ss_pred             hhcCCEEEEeccccccC--CCcCC---------------CCceEEEEecCCCCCCCeEEEE
Confidence            67789999998865310  00000               1346788889998766554443

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

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

Probab=99.77  E-value=1.8e-17  Score=155.44  Aligned_cols=217  Identities=18%  Similarity=0.207  Sum_probs=139.1

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHHH
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSHT   95 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~~   95 (302)
                      ...++||++.||++++ |+.+|+++.|.|+||+|||+|+++++.+++.  ..|.   +|+|++.|.+  .+++ .++...
T Consensus       174 ~~gi~tG~~~LD~~~~-G~~~g~liviag~pg~GKT~~al~ia~~~a~--~~g~---~v~~fSlEm~--~~~l~~Rl~~~  245 (421)
T TIGR03600       174 LTGLSTGLPKLDRLTN-GLVKGDLIVIGARPSMGKTTLALNIAENVAL--REGK---PVLFFSLEMS--AEQLGERLLAS  245 (421)
T ss_pred             CcceeCCChhHHHHhc-CCCCCceEEEEeCCCCCHHHHHHHHHHHHHH--hCCC---cEEEEECCCC--HHHHHHHHHHH
Confidence            5679999999999985 9999999999999999999999999988753  2344   8999999964  3333 222221


Q ss_pred             hCCCCCC-----C--------------C--CCcEEEEeC--CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           96 FRPSNDH-----N--------------P--CDYIFVQSV--HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        96 ~~~~~~~-----~--------------~--l~~i~~~~~--~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      .......     .              .  -.++++...  .+.+++.+   .+..+..+    ..++++||||+++.+.
T Consensus       246 ~~~v~~~~~~~~~l~~~~~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~---~~r~~~~~----~~~~~lvvIDyLql~~  318 (421)
T TIGR03600       246 KSGINTGNIRTGRFNDSDFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRS---IARRIKRK----KGGLDLIVVDYIQLMA  318 (421)
T ss_pred             HcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHH---HHHHHHHh----cCCCCEEEEecccccC
Confidence            1110000     0              0  014555443  33444443   33333332    2358999999999864


Q ss_pred             hhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----C
Q 022155          153 RSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----G  227 (302)
Q Consensus       153 ~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G  227 (302)
                      ..  .+     ..|...+..+++.||.||++++|+||+++|+........                  ...|.+     .
T Consensus       319 ~~--~~-----~~~~~~~~~i~~~Lk~lAke~~i~Vi~lsQlnr~~~~r~------------------~krp~lsdlr~S  373 (421)
T TIGR03600       319 PT--RG-----RDRNEELGGISRGLKALAKELDVPVVLLAQLNRGSEKRT------------------DKRPIMSDLRDS  373 (421)
T ss_pred             CC--CC-----CCHHHHHHHHHHHHHHHHHHhCCcEEEecccCcchhhcC------------------CCCCChHHHhhc
Confidence            32  11     124455789999999999999999999999977543211                  112221     1


Q ss_pred             chhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeE
Q 022155          228 IAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEF  290 (302)
Q Consensus       228 ~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F  290 (302)
                      ..+.+-+|+.++|.|..... .+            .++    ...-.+.|.|.+..|...+.+
T Consensus       374 g~Ieq~AD~v~~l~R~~~~~-~~------------~~~----~~~~el~v~K~R~G~~g~~~l  419 (421)
T TIGR03600       374 GAIEQDADVIGLIHREGYYD-AR------------EPP----AGVAELILAKNRHGPTGTVEL  419 (421)
T ss_pred             CCccccCcEEEEeccccccC-Cc------------cCC----CCceEEEEECCCCCCCceEEe
Confidence            23456678999999875411 00            000    124568888999877666554

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

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

Probab=99.77  E-value=1.4e-17  Score=146.37  Aligned_cols=221  Identities=24%  Similarity=0.331  Sum_probs=133.3

Q ss_pred             ccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHHHHHh
Q 022155           19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQLSHTF   96 (302)
Q Consensus        19 ~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i~~~~   96 (302)
                      .++||++.||+++ ||+.+|+++.|.|+||+|||+|++++|.+++.  ..+.   .|+|++.|.+-..  .|+-......
T Consensus         1 Gi~TG~~~LD~~l-gG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~--~~~~---~vly~SlEm~~~~l~~R~la~~s~v   74 (259)
T PF03796_consen    1 GIPTGFPALDRLL-GGLRPGELTVIAARPGVGKTAFALQIALNAAL--NGGY---PVLYFSLEMSEEELAARLLARLSGV   74 (259)
T ss_dssp             SB-SSTHHHHHHH-SSB-TT-EEEEEESTTSSHHHHHHHHHHHHHH--TTSS---EEEEEESSS-HHHHHHHHHHHHHTS
T ss_pred             CCCCChHHHHHHh-cCCCcCcEEEEEecccCCchHHHHHHHHHHHH--hcCC---eEEEEcCCCCHHHHHHHHHHHhhcc
Confidence            3799999999998 59999999999999999999999999999863  1233   8999999965322  2221111110


Q ss_pred             C-----CCC--CC---------CCC--CcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhcc
Q 022155           97 R-----PSN--DH---------NPC--DYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDF  156 (302)
Q Consensus        97 ~-----~~~--~~---------~~l--~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~  156 (302)
                      .     ...  .+         ..+  ..+++....  +.+++.+.+..   +..+    ..++++||||.++.+-... 
T Consensus        75 ~~~~i~~g~l~~~e~~~~~~~~~~l~~~~l~i~~~~~~~~~~i~~~i~~---~~~~----~~~~~~v~IDyl~ll~~~~-  146 (259)
T PF03796_consen   75 PYNKIRSGDLSDEEFERLQAAAEKLSDLPLYIEDTPSLTIDDIESKIRR---LKRE----GKKVDVVFIDYLQLLKSED-  146 (259)
T ss_dssp             THHHHHCCGCHHHHHHHHHHHHHHHHTSEEEEEESSS-BHHHHHHHHHH---HHHH----STTEEEEEEEEGGGSBTSC-
T ss_pred             hhhhhhccccCHHHHHHHHHHHHHHhhCcEEEECCCCCCHHHHHHHHHH---HHhh----ccCCCEEEechHHHhcCCC-
Confidence            0     000  00         000  135554432  44455444433   3222    2578999999999865432 


Q ss_pred             CCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCcccc-----CCchhh
Q 022155          157 DNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPA-----LGIAWA  231 (302)
Q Consensus       157 ~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-----lG~~w~  231 (302)
                      ...     .+...+..+++.|+.+|++++++||++.|+........                  ...|.     .+....
T Consensus       147 ~~~-----~~~~~~~~i~~~Lk~lA~~~~i~vi~~sQlnr~~~~~~------------------~~~p~l~dl~~sg~Ie  203 (259)
T PF03796_consen  147 SSD-----NRRQEIGEISRELKALAKELNIPVIALSQLNREAEDRE------------------DKRPSLSDLRESGAIE  203 (259)
T ss_dssp             SSS-----CCHHHHHHHHHHHHHHHHHHTSEEEEEEEBSGGGGGSS------------------SCS--HHHHCSTSSHH
T ss_pred             CCC-----CHHHHHHHHHHHHHHHHHHcCCeEEEccccChhhhccc------------------ccccchhhhhhhHHHH
Confidence            111     12233788999999999999999999999976543211                  11222     123456


Q ss_pred             hhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEe
Q 022155          232 NCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEIT  293 (302)
Q Consensus       232 ~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~  293 (302)
                      +.+++.++|.|.+...  ++.          ..     ...=.+.|.|.++.+...+.+...
T Consensus       204 ~~AD~vl~l~r~~~~~--~~~----------~~-----~~~~~l~v~KnR~G~~g~v~~~f~  248 (259)
T PF03796_consen  204 QDADVVLFLHRDEKYD--EDR----------DD-----KGEAELIVAKNRNGPTGTVPLRFN  248 (259)
T ss_dssp             HH-SEEEEEEEHCHCH--CCS----------SC-----TTEEEEEEEEESSS--EEEEEEEE
T ss_pred             HHHhhhhhhccchhhc--ccc----------CC-----CCeEEEEEEecCCCCCceEEEEEE
Confidence            7789999999875411  000          00     125577889999776665554443

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

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

Probab=99.76  E-value=1.4e-17  Score=136.78  Aligned_cols=201  Identities=20%  Similarity=0.170  Sum_probs=150.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCC--------------
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSN--------------  100 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~--------------  100 (302)
                      ...|.++||.||.+||||+++.|+++.+.+|...||++..|+|||++..|+..|+.++....-...              
T Consensus        35 ~daG~~vEi~Gp~~sgKt~vL~ql~a~CilPk~~GGl~~~VLfidld~~fd~lrL~~~l~hrL~q~~~~e~~~~~c~te~  114 (293)
T KOG2859|consen   35 ADAGTLVEISGPGNSGKTLVLQQLVAHCILPKKFGGLQWSVLFIDLDHKFDRLRLAKSLRHRLKQYSVGEVIAAKCPTEE  114 (293)
T ss_pred             cccCcEEEEeCCCCccHHHHHHHHHHHeecccccCCceeEEEEEeccccccHHHHHHHHHHHHHHhhhhhhhhhcCCcHh
Confidence            447999999999999999999999999999999999999999999999999999987766521100              


Q ss_pred             C-----CCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHH
Q 022155          101 D-----HNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISG  175 (302)
Q Consensus       101 ~-----~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~  175 (302)
                      .     ..++.++.+..|.+..++...+..++..+.+    ...+.++++||++++||.+.............-++.+..
T Consensus       115 ~~eEi~~~Cm~Rf~~v~C~~s~~ll~sL~~l~y~i~~----~p~~cll~~DslsaFyW~Dr~~~le~~n~~~~~lr~~~q  190 (293)
T KOG2859|consen  115 QLEEIAGECMSRFRFVNCFASDDLLTSLIDLRYAIIN----DPGICLLAMDSLSAFYWLDRPKILEKRNSMYRHLRLLQQ  190 (293)
T ss_pred             HHHHHHHHHHhhEEEEEeeccHHHHHHHHHHHHHHhc----CCceeEEeecchhhheeecccchHhhhhhHHHHHHHHHH
Confidence            0     1456789999999999998888888888775    456899999999999998755442222222334678889


Q ss_pred             HHHHHHHHcCcEEEEEecccccC----CCCCC-CCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          176 MLKAMAVGFGLAVLVTNQVVDLM----EPNEG-VNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       176 ~L~~la~~~~~~viv~n~~~~~~----~~~~~-~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                      .|++|++.+...++.|.+..-.-    +++.. ..|-+.-.+      .....|.+-..|...+.+++.+++..+
T Consensus       191 ~LeKL~~d~~lv~~aT~~ti~~e~y~~~En~P~~~gRsvCll------liky~~~~~k~~qq~v~h~l~~sks~d  259 (293)
T KOG2859|consen  191 RLEKLCKDAILVGMATVETIFLENYRFGENLPEAGGRSVCLL------LIKYHVRMQKIQQQIVLHGLPLSKSND  259 (293)
T ss_pred             HHHHHHhhheeeeeeehhHHHHhcccccccCccccccceeee------eccccHHHHHHHHHHHHccCceecccc
Confidence            99999999999999988754221    11100 000000000      024567777889999999999999876

>PRK08760 replicative DNA helicase; Provisional

Probab=99.76  E-value=3.4e-17  Score=154.77  Aligned_cols=222  Identities=19%  Similarity=0.225  Sum_probs=141.0

Q ss_pred             CCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQL   92 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i   92 (302)
                      .....++||++.||.++ ||+.+|+++.|.|+||+|||+|++++|.+++.  ..|.   +|+|++.|.+...  .|+...
T Consensus       207 ~~~~Gi~TG~~~LD~~t-~G~~~G~LivIaarPg~GKTafal~iA~~~a~--~~g~---~V~~fSlEMs~~ql~~Rl~a~  280 (476)
T PRK08760        207 GNITGLPTGYNDFDAMT-AGLQPTDLIILAARPAMGKTTFALNIAEYAAI--KSKK---GVAVFSMEMSASQLAMRLISS  280 (476)
T ss_pred             CCCCcccCCcHHHHHHh-cCCCCCceEEEEeCCCCChhHHHHHHHHHHHH--hcCC---ceEEEeccCCHHHHHHHHHHh
Confidence            34567999999999987 67999999999999999999999999998753  2343   7999999865322  222211


Q ss_pred             HHH-----hCCCC-CC----------CCC--CcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           93 SHT-----FRPSN-DH----------NPC--DYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        93 ~~~-----~~~~~-~~----------~~l--~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...     +.... ..          ..+  .++++....  +.+++.   ..+..+..+     .++++||||+++.+-
T Consensus       281 ~s~i~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~t~~~I~---~~~r~l~~~-----~~~~lVvIDyLql~~  352 (476)
T PRK08760        281 NGRINAQRLRTGALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLR---SKCRRLKRE-----HDLGLIVIDYLQLMS  352 (476)
T ss_pred             hCCCcHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHH---HHHHHHHHh-----cCCCEEEEecHHhcC
Confidence            100     00000 00          000  245554433  334443   444444332     568999999998753


Q ss_pred             hhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----C
Q 022155          153 RSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----G  227 (302)
Q Consensus       153 ~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G  227 (302)
                      ...   ..   ..|...+..+++.||.||++++|+||++.|+.......                  ....|.+     .
T Consensus       353 ~~~---~~---~~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r------------------~~krP~lsDLreS  408 (476)
T PRK08760        353 VPG---NS---ENRATEISEISRSLKGLAKELNVPVIALSQLNRSLETR------------------TDKRPVMADLRES  408 (476)
T ss_pred             CCC---CC---cccHHHHHHHHHHHHHHHHHhCCEEEEeeccCcccccc------------------CCCCCCHHHHhhc
Confidence            211   10   23555678999999999999999999999998765421                  1122322     2


Q ss_pred             chhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeE
Q 022155          228 IAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEF  290 (302)
Q Consensus       228 ~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F  290 (302)
                      -.|.+-+|..++|.|..... .++.              . ....-.+.|.|.+..|...+.+
T Consensus       409 g~IeqdAD~vl~l~R~~~y~-~~~~--------------~-~~~~~eliiaKnR~G~~g~~~l  455 (476)
T PRK08760        409 GAIEQDADMIVFIYRDDYYN-KENS--------------P-DKGLAEIIIGKHRGGPTGSCKL  455 (476)
T ss_pred             cchhcCCCEEEEEechhhcc-cccc--------------c-CCCceEEEEEccCCCCCceEEE
Confidence            45777889999998864310 0100              0 0134567888999887665443

>PRK05748 replicative DNA helicase; Provisional

Probab=99.76  E-value=6.8e-17  Score=152.49  Aligned_cols=223  Identities=16%  Similarity=0.182  Sum_probs=141.7

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ....++||++.||+++ ||+++|+++.|.|+||+|||+|+++++.+++.  ..|.   +|+||+.|.+... -+.++...
T Consensus       182 ~~~gi~TG~~~LD~~~-~G~~~G~livIaarpg~GKT~~al~ia~~~a~--~~g~---~v~~fSlEms~~~-l~~R~l~~  254 (448)
T PRK05748        182 DITGIPTGFTDLDKMT-SGLQPNDLIIVAARPSVGKTAFALNIAQNVAT--KTDK---NVAIFSLEMGAES-LVMRMLCA  254 (448)
T ss_pred             CCCCccCChHHHHHhc-CCCCCCceEEEEeCCCCCchHHHHHHHHHHHH--hCCC---eEEEEeCCCCHHH-HHHHHHHH
Confidence            4578999999999997 59999999999999999999999999998752  2354   8999999965321 12222222


Q ss_pred             hCCCCC---------C-C---------CC--CcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           96 FRPSND---------H-N---------PC--DYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        96 ~~~~~~---------~-~---------~l--~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ......         . .         .+  .++++....  +..+   +...+..+..+    ..++++||||+|+.+-
T Consensus       255 ~~~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~i~d~~~~ti~~---i~~~~r~~~~~----~~~~~~vvIDyL~li~  327 (448)
T PRK05748        255 EGNIDAQRLRTGQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTE---IRARCRRLAQE----HGGLGLILIDYLQLIQ  327 (448)
T ss_pred             hcCCCHHHhhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHH---HHHHHHHHHHh----cCCCCEEEEccchhcC
Confidence            111000         0 0         00  134554332  3334   44444444443    2268999999999863


Q ss_pred             hhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----C
Q 022155          153 RSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----G  227 (302)
Q Consensus       153 ~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G  227 (302)
                      ... .. .   ..|.+.+..+++.||.||++++|+||++.|+.......                  ....|.+     .
T Consensus       328 ~~~-~~-~---~~r~~~i~~i~~~LK~lAke~~i~vi~lsQlnr~~~~r------------------~~k~p~lsdlr~S  384 (448)
T PRK05748        328 GSG-RS-G---ENRQQEVSEISRSLKALAKELKVPVIALSQLSRGVEQR------------------QDKRPVMSDIRES  384 (448)
T ss_pred             CCC-CC-C---cCHHHHHHHHHHHHHHHHHHhCCeEEEecccChhHhhc------------------CCCCCChHHHHhh
Confidence            211 10 0   23556688999999999999999999999998754321                  1123322     2


Q ss_pred             chhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEE
Q 022155          228 IAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEI  292 (302)
Q Consensus       228 ~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I  292 (302)
                      -.+.+.+|..++|.|.+.. ..+ ...               ...=.+.|.|.+..|...+.|.-
T Consensus       385 g~Ieq~AD~v~~l~r~~~~-~~~-~~~---------------~~~~e~~v~K~R~G~~g~~~~~~  432 (448)
T PRK05748        385 GSIEQDADIVAFLYRDDYY-DEE-TEN---------------KNTIEIIIAKQRNGPVGTVELAF  432 (448)
T ss_pred             cchhcCCCEEEEEeccccc-Ccc-ccC---------------CCceEEEEeccCCCCCceEEEEE
Confidence            3456777999999986531 000 000               12346777899988766555443

>PRK06321 replicative DNA helicase; Provisional

Probab=99.74  E-value=1.3e-16  Score=150.22  Aligned_cols=221  Identities=16%  Similarity=0.169  Sum_probs=139.7

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      ...+|||++.||+++ ||+++|+++.|.|.||+|||+|+++++.+++.  ..|.   +|+||+.|.+-.. -..++....
T Consensus       206 ~~Gi~tG~~~LD~~t-~Gl~~G~LiiiaarPgmGKTafal~ia~~~a~--~~g~---~v~~fSLEMs~~q-l~~Rlla~~  278 (472)
T PRK06321        206 ISGIPTHFIDLDKMI-NGFSPSNLMILAARPAMGKTALALNIAENFCF--QNRL---PVGIFSLEMTVDQ-LIHRIICSR  278 (472)
T ss_pred             CCccccCcHHHHHHh-cCCCCCcEEEEEeCCCCChHHHHHHHHHHHHH--hcCC---eEEEEeccCCHHH-HHHHHHHhh
Confidence            468999999999998 59999999999999999999999999998753  2344   7999999864321 111221111


Q ss_pred             CCCC---------CC----------CC--CCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           97 RPSN---------DH----------NP--CDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        97 ~~~~---------~~----------~~--l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      ....         ..          ..  -.++++.+..  +..+   +...+..+..+     .++++||||+|+.+-.
T Consensus       279 s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~idd~~~~ti~~---i~~~~r~~~~~-----~~~~lvvIDyLql~~~  350 (472)
T PRK06321        279 SEVESKKISVGDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITD---LRARARRMKES-----YDIQFLIIDYLQLLSG  350 (472)
T ss_pred             cCCCHHHhhcCCCCHHHHHHHHHHHHHHHcCCEEEeCCCCCCHHH---HHHHHHHHHHh-----cCCCEEEEcchHHcCC
Confidence            0000         00          00  0134444322  3334   33444444332     5689999999987531


Q ss_pred             hccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----Cc
Q 022155          154 SDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----GI  228 (302)
Q Consensus       154 ~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G~  228 (302)
                      ... ..  ....|...+..+++.||.+|++++|+||++.|+........                  ...|.+     .-
T Consensus       351 ~~~-~~--~~~~r~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~------------------~krP~lsDLReSG  409 (472)
T PRK06321        351 SGN-LR--NSESRQTEISEISRMLKNLARELNIPILCLSQLSRKVEDRA------------------NHRPMMSDLRESG  409 (472)
T ss_pred             CCc-cC--CcchHHHHHHHHHHHHHHHHHHhCCcEEEEeecChhhhccC------------------CCCCCHHHHhhcc
Confidence            110 00  11345566889999999999999999999999987654321                  122322     23


Q ss_pred             hhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEE
Q 022155          229 AWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFE  291 (302)
Q Consensus       229 ~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~  291 (302)
                      .+..-+|..++|.|.+. +..+.                 ....-.+.|.|.+..|...+.|.
T Consensus       410 ~IEqdAD~v~~l~R~~~-y~~~~-----------------~~~~~elivaKnR~G~~G~v~l~  454 (472)
T PRK06321        410 SIEQDSDLVMFLLRREY-YDPND-----------------KPGTAELIVAKNRHGSIGSVPLV  454 (472)
T ss_pred             cccccCCEEEEEechhh-cCCcC-----------------CCCceEEEEEecCCCCCceEEEE
Confidence            46677899999998543 10000                 01245777889988776654443

>PHA02542 41 41 helicase; Provisional

Probab=99.74  E-value=2.4e-16  Score=148.32  Aligned_cols=220  Identities=11%  Similarity=0.131  Sum_probs=137.4

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQLS   93 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i~   93 (302)
                      ....+|||++.||.+++||+.+|+++.|.|+||.|||+|++++|.+++   ..|.   +|+||+.|.+...  .|+....
T Consensus       168 ~~~gi~TG~~~LD~~t~gGl~~G~LiiIaarPgmGKTtfalniA~~~a---~~g~---~Vl~fSLEM~~~ql~~Rl~a~~  241 (473)
T PHA02542        168 KANKIPFKLEILNKITKGGAERKTLNVLLAGVNVGKSLGLCSLAADYL---QQGY---NVLYISMEMAEEVIAKRIDANL  241 (473)
T ss_pred             CCCccCCCcHHHHHhccCCCCCCcEEEEEcCCCccHHHHHHHHHHHHH---hcCC---cEEEEeccCCHHHHHHHHHHHH
Confidence            367899999999999989999999999999999999999999999985   4455   8999999865322  1221110


Q ss_pred             HHhC-----CCCCC-----------CCCCcEEEEe----CCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           94 HTFR-----PSNDH-----------NPCDYIFVQS----VHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        94 ~~~~-----~~~~~-----------~~l~~i~~~~----~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      ....     ....+           ..-.++++..    ..+..++...+.++.   .+   ...++++||||+++.+-.
T Consensus       242 ~~i~~~~l~~l~~~~~~~~~~~~~~~~~~~l~I~~~d~~~lt~~~ir~~~rrlk---~~---~g~~~dlVvIDYLqL~~~  315 (473)
T PHA02542        242 LDVSLDDIDDLSKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHFRALLNELK---LK---KNFKPDVIIVDYLGICAS  315 (473)
T ss_pred             cCCCHHHHhhcCHHHHHHHHHHHHHHhCCCceeecCCCCCCCHHHHHHHHHHHH---Hh---cCCCCCEEEEechhhccC
Confidence            0000     00000           0012343332    123444444444332   21   012479999999988642


Q ss_pred             hccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhh
Q 022155          154 SDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANC  233 (302)
Q Consensus       154 ~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~  233 (302)
                      .......   ..|.+.+..+++.||.||++++|+||++.|+......... +.        +    +.++-+  -...+-
T Consensus       316 ~~~~~~~---~nr~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~d-P~--------l----sDLreS--G~IEqd  377 (473)
T PHA02542        316 SRLRVSS---ENSYTYVKAIAEELRGLAVEHDVVVWTAAQTTRSGWDSSD-VD--------M----SDTAES--AGLPAT  377 (473)
T ss_pred             CcccCCC---CChHHHHHHHHHHHHHHHHHhCCeEEEEEeeCccccccCC-Cc--------c----hhcccc--cchHhh
Confidence            2211111   2355568899999999999999999999999876543210 00        0    011111  223456


Q ss_pred             cceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCc
Q 022155          234 VNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADT  286 (302)
Q Consensus       234 ~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~  286 (302)
                      +|..++|.|.+..   ++                  .....+.|.|+++.|..
T Consensus       378 AD~vl~l~r~~~~---~~------------------~~~~eliv~KnR~G~~g  409 (473)
T PHA02542        378 ADFMLAVIETEEL---AQ------------------MGQQLVKQLKSRYGDKN  409 (473)
T ss_pred             cCEEEEEecCccc---cc------------------CCeEEEEEecCCCCCCC
Confidence            7888999885531   00                  13567888899987744

>PRK05595 replicative DNA helicase; Provisional

Probab=99.74  E-value=2e-16  Score=149.04  Aligned_cols=224  Identities=17%  Similarity=0.188  Sum_probs=140.3

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQLS   93 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i~   93 (302)
                      ....++||++.||+++ ||+.+|+++.|.|.||+|||+|+++++.+++.  ..|.   +|+|++.|.+...  .|+....
T Consensus       180 ~~~gi~tg~~~ld~~~-~G~~~g~liviaarpg~GKT~~al~ia~~~a~--~~g~---~vl~fSlEms~~~l~~R~~a~~  253 (444)
T PRK05595        180 ETTGVASGFRELDAKT-SGFQKGDMILIAARPSMGKTTFALNIAEYAAL--REGK---SVAIFSLEMSKEQLAYKLLCSE  253 (444)
T ss_pred             CCCcccCChHHHHHhc-CCCCCCcEEEEEecCCCChHHHHHHHHHHHHH--HcCC---cEEEEecCCCHHHHHHHHHHHh
Confidence            3467999999999997 79999999999999999999999999987542  3354   8999999864221  2221111


Q ss_pred             HHhC-----C-CCCC----------C--CCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhc
Q 022155           94 HTFR-----P-SNDH----------N--PCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSD  155 (302)
Q Consensus        94 ~~~~-----~-~~~~----------~--~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~  155 (302)
                      ....     . ...+          .  .-.++++....+ ..+.++...+..+..+     .++++||||.|+.+-...
T Consensus       254 ~~v~~~~~~~~~l~~~e~~~~~~~~~~l~~~~l~i~d~~~-~t~~~i~~~~r~~~~~-----~~~~~vvIDylql~~~~~  327 (444)
T PRK05595        254 ANVDMLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAG-VSVMEMRSKCRRLKIE-----HGIDMILIDYLQLMSGGK  327 (444)
T ss_pred             cCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHh-----cCCCEEEEeHHHhccCCC
Confidence            1000     0 0000          0  012455544332 1233344444444432     468999999998753111


Q ss_pred             cCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----Cchh
Q 022155          156 FDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----GIAW  230 (302)
Q Consensus       156 ~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G~~w  230 (302)
                         .   ...|...+..+++.||.||++++|+||++.|+........                  ...|.+     .-.+
T Consensus       328 ---~---~~~r~~~v~~is~~LK~lAke~~i~vi~lsQLnR~~e~r~------------------~~rP~lsdlr~Sg~I  383 (444)
T PRK05595        328 ---G---SESRQQEVSEISRSIKALAKEMECPVIALSQLSRAPEQRA------------------DHRPMLSDLRESGSI  383 (444)
T ss_pred             ---C---CccHHHHHHHHHHHHHHHHHHhCCeEEEeeccCcchhccC------------------CCCCchhhhhhhccc
Confidence               1   1235556789999999999999999999999987654210                  112222     1335


Q ss_pred             hhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEE
Q 022155          231 ANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEI  292 (302)
Q Consensus       231 ~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I  292 (302)
                      .+-+|..++|.|.... .++. ..               ...-.+.|.|.+..|...+.|.-
T Consensus       384 eq~AD~vl~l~r~~~~-~~~~-~~---------------~~~~e~iv~K~R~G~~g~~~~~~  428 (444)
T PRK05595        384 EQDADVVMFLYRDEYY-NKET-ED---------------KNVAECIIAKQRNGPTGTVKLAW  428 (444)
T ss_pred             ccCCCEEEEEeccccc-cccc-CC---------------CCceEEEEEccCCCCCceEEEEE
Confidence            5667899999986431 0110 00               12347778899888766655443

>PRK05636 replicative DNA helicase; Provisional

Probab=99.73  E-value=2.1e-16  Score=149.87  Aligned_cols=219  Identities=16%  Similarity=0.199  Sum_probs=139.2

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHHHH
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQLSH   94 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i~~   94 (302)
                      ...++||++.||+++ ||+.+|+++.|.|.||+|||+|++++|.+++.  ..|.   +|+||+.|.+-..  .|+.....
T Consensus       245 ~~Gi~TG~~~LD~~t-~Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~--~~g~---~v~~fSlEMs~~ql~~R~ls~~s  318 (505)
T PRK05636        245 ATGIPTGFKDLDDLT-NGLRGGQMIIVAARPGVGKSTLALDFMRSASI--KHNK---ASVIFSLEMSKSEIVMRLLSAEA  318 (505)
T ss_pred             CCceecChHHHhhhc-CCCCCCceEEEEeCCCCCHHHHHHHHHHHHHH--hCCC---eEEEEEeeCCHHHHHHHHHHHhc
Confidence            467999999999986 79999999999999999999999999988753  2343   7999998865321  22211110


Q ss_pred             H-----hCC--CCCC---------CCC--CcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhh
Q 022155           95 T-----FRP--SNDH---------NPC--DYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRS  154 (302)
Q Consensus        95 ~-----~~~--~~~~---------~~l--~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~  154 (302)
                      .     +..  ...+         ..+  .++++....  +..++.   ..++.+..+     .++++||||.|+.+-..
T Consensus       319 ~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~---~~~r~~~~~-----~~~~lvvIDYLql~~~~  390 (505)
T PRK05636        319 EVRLSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIR---SKARRLKQK-----HDLKLIVVDYLQLMSSG  390 (505)
T ss_pred             CCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHH---HHHHHHHHh-----cCCCEEEEcchHhcCCC
Confidence            0     000  0000         001  245554433  333433   344443332     46899999999975311


Q ss_pred             ccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----Cch
Q 022155          155 DFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----GIA  229 (302)
Q Consensus       155 ~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G~~  229 (302)
                      .   .   ...|.+.+..+++.||.||++++|+||++.|+.......                  ...+|.+     .-.
T Consensus       391 ~---~---~~~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r------------------~dkrP~lsDLreSG~  446 (505)
T PRK05636        391 K---R---VESRQQEVSEFSRQLKLLAKELDVPLIAISQLNRGPESR------------------TDKRPQLADLRESGS  446 (505)
T ss_pred             C---C---CCcHHHHHHHHHHHHHHHHHHhCCeEEEEeecCcccccc------------------CCCCCcHHHHhhccc
Confidence            1   1   123555689999999999999999999999998765421                  1122332     234


Q ss_pred             hhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeE
Q 022155          230 WANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEF  290 (302)
Q Consensus       230 w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F  290 (302)
                      +.+-+|..++|.|.+.. ..+. ..               ...-.+-|.|.+..|...+.+
T Consensus       447 IEqdAD~vl~l~R~~~y-~~~~-~~---------------~g~~elivaK~RnG~~Gtv~l  490 (505)
T PRK05636        447 LEQDADMVMLLYRPDSQ-DKDD-ER---------------AGEADIILAKHRGGPIDTVQV  490 (505)
T ss_pred             ccccCCEEEEEeccccc-CCcc-CC---------------CCceEEEEecCCCCCCceEEE
Confidence            66778999999986431 0010 00               123467778999887665443

>PRK09165 replicative DNA helicase; Provisional

Probab=99.73  E-value=1.1e-16  Score=152.17  Aligned_cols=196  Identities=18%  Similarity=0.243  Sum_probs=126.5

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCC------------cCCCCCCeEEEEeCCCC
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS------------SHGGLSASSLYLHTEFP   83 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~------------~~gg~~~~vlyid~e~~   83 (302)
                      ....++||++.||.++ ||+.+|+++.|.|+||+|||+|++++|.+++...            ..|.   +|+||+.|.+
T Consensus       196 ~~~gi~TG~~~LD~~~-gG~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~---~vl~fSlEMs  271 (497)
T PRK09165        196 HLSGISTGLRDLDSKL-GGLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGG---VVGFFSLEMS  271 (497)
T ss_pred             CCCcccCChHHHhhhc-CCCCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCC---eEEEEeCcCC
Confidence            3568999999999998 6899999999999999999999999998875210            0133   8999999965


Q ss_pred             CCH--HHHHHHHHHhCC--CCCCC--------------CC--CcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCee
Q 022155           84 FPM--RRLHQLSHTFRP--SNDHN--------------PC--DYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIR  141 (302)
Q Consensus        84 ~~~--~rl~~i~~~~~~--~~~~~--------------~l--~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~  141 (302)
                      ...  .|+.........  .....              .+  .++++....  +..++   ...+..+..+     .+++
T Consensus       272 ~~ql~~R~la~~s~v~~~~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~~ti~~i---~~~ir~l~~~-----~~~~  343 (497)
T PRK09165        272 AEQLATRILSEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQL---RARARRLKRQ-----HGLD  343 (497)
T ss_pred             HHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCCHHHH---HHHHHHHHHh-----cCCC
Confidence            322  222111111100  00000              00  134554332  33443   3444444332     5689


Q ss_pred             EEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCC
Q 022155          142 LIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRP  221 (302)
Q Consensus       142 lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  221 (302)
                      +||||+|+.+-.......    ..|.+.+..+++.||.||++++|+||++.|+........                  .
T Consensus       344 lvvIDyLqli~~~~~~~~----~~r~~ev~~is~~LK~lAkel~ipVi~lsQLnR~~e~r~------------------~  401 (497)
T PRK09165        344 LLVVDYLQLIRGSSKRSS----DNRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQRD------------------D  401 (497)
T ss_pred             EEEEcchHhccCCCCCCC----CchHHHHHHHHHHHHHHHHHhCCeEEEeecccchhhccC------------------C
Confidence            999999997642211001    235556899999999999999999999999987654211                  1


Q ss_pred             ccccC-----CchhhhhcceEEEEEEecC
Q 022155          222 ICPAL-----GIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       222 ~~p~l-----G~~w~~~~~~rl~l~~~~~  245 (302)
                      ..|.+     .-++..-+|..++|.|.+.
T Consensus       402 krP~lsDLr~Sg~IEqdAD~v~~l~R~~~  430 (497)
T PRK09165        402 KRPQLSDLRESGSIEQDADVVMFVYREEY  430 (497)
T ss_pred             CCCchhhhhhccchhccCCEEEEEeehhh
Confidence            12222     2456777899999988643

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

Probab=99.72  E-value=4.7e-18  Score=142.64  Aligned_cols=168  Identities=25%  Similarity=0.320  Sum_probs=89.6

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-C---CCCCeEEEEeCCCCCCH--HHHH
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH-G---GLSASSLYLHTEFPFPM--RRLH   90 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-g---g~~~~vlyid~e~~~~~--~rl~   90 (302)
                      ...++++.+.+|.++.|++++|+++.|+|++|+|||+++++++..++..... |   ....+|+||++|.+...  +|+.
T Consensus        11 ~~~~~~~~~~~~~li~g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~   90 (193)
T PF13481_consen   11 FEDLDTGFPPLDWLIDGLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLR   90 (193)
T ss_dssp             --HHHS------EEETTEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHH
T ss_pred             hhhccCCCCCcceeECCcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHH
Confidence            3448899999999999999999999999999999999999999998621100 0   02348999999987422  4455


Q ss_pred             HHHHHhCCCCCCCCC-----CcEEEEeCCCHHH-HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHH
Q 022155           91 QLSHTFRPSNDHNPC-----DYIFVQSVHSVDQ-LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLK  164 (302)
Q Consensus        91 ~i~~~~~~~~~~~~l-----~~i~~~~~~~~~~-l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~  164 (302)
                      .+.............     ..+.+........ ....+.++.+.+..    ..++++||||+++.+..... +   +  
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~lvviD~l~~~~~~~~-~---~--  160 (193)
T PF13481_consen   91 ALLQDYDDDANLFFVDLSNWGCIRLFEPDSGGPLLDEDLEELEAALKE----LYGPDLVVIDPLQSLHDGDE-N---S--  160 (193)
T ss_dssp             HHHTTS-HHHHHHHHHH--E-EE---TTS---TTSHHHHHHHHHHHTT--------SEEEEE-GGGG--S-T-T------
T ss_pred             HHhcccCCccceEEeeccccccceeeecccccccchHHHHHHHHHHhh----cCCCcEEEEcCHHHHhcCCC-C---C--
Confidence            444322100000000     1222222111111 22344555666543    24679999999999886521 1   1  


Q ss_pred             HHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          165 KRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       165 ~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                       ... +.+++..|+++++++|++|++++|...
T Consensus       161 -~~~-~~~~~~~l~~la~~~~~~vi~v~H~~K  190 (193)
T PF13481_consen  161 -NSA-VAQLMQELKRLAKEYGVAVILVHHTNK  190 (193)
T ss_dssp             -HHH-HHHHHHHHHHHHHHH--EEEEEEEE--
T ss_pred             -HHH-HHHHHHHHHHHHHHcCCEEEEEECCCC
Confidence             111 368899999999999999999999864

>PRK07004 replicative DNA helicase; Provisional

Probab=99.72  E-value=3.6e-16  Score=147.34  Aligned_cols=222  Identities=14%  Similarity=0.191  Sum_probs=140.3

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      ...++||++.||+++ ||+++|+++.|.|.||+|||+|+++++.++++  ..|.   +|+|++.|.+-.. -..++....
T Consensus       193 ~~gi~TG~~~LD~~t-~G~~~g~liviaarpg~GKT~~al~ia~~~a~--~~~~---~v~~fSlEM~~~q-l~~R~la~~  265 (460)
T PRK07004        193 VTGTPTGFVDLDRMT-SGMHGGELIIVAGRPSMGKTAFSMNIGEYVAV--EYGL---PVAVFSMEMPGTQ-LAMRMLGSV  265 (460)
T ss_pred             CCCccCCcHHhcccc-cCCCCCceEEEEeCCCCCccHHHHHHHHHHHH--HcCC---eEEEEeCCCCHHH-HHHHHHHhh
Confidence            468999999999997 59999999999999999999999999988753  2344   8999999865321 112222111


Q ss_pred             CC---------CCCC----------CCC--CcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhc
Q 022155           97 RP---------SNDH----------NPC--DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSD  155 (302)
Q Consensus        97 ~~---------~~~~----------~~l--~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~  155 (302)
                      ..         ...+          ..+  .++++....+. .+.++...+..+..+    ..++++||||.++.+-...
T Consensus       266 ~~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~-~~~~i~~~~r~l~~~----~~~~~lviIDYLql~~~~~  340 (460)
T PRK07004        266 GRLDQHRMRTGRLTDEDWPKLTHAVQKMSEAQLFIDETGGL-NPMELRSRARRLARQ----CGKLGLIIIDYLQLMSGSS  340 (460)
T ss_pred             cCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCC-CHHHHHHHHHHHHHh----CCCCCEEEEChhhhccCCC
Confidence            10         0000          001  23555443321 122333344444332    2357999999998864211


Q ss_pred             cCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----Cchh
Q 022155          156 FDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----GIAW  230 (302)
Q Consensus       156 ~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G~~w  230 (302)
                       ..     ..|.+.+..+++.||.||++++|+||++.|+........                  ...|.+     .-++
T Consensus       341 -~~-----~~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r~------------------~krP~lsDLreSg~I  396 (460)
T PRK07004        341 -QG-----ENRATEISEISRSLKSLAKELDVPVIALSQLNRGLEQRP------------------NKRPVMSDLRESGAI  396 (460)
T ss_pred             -CC-----CcHHHHHHHHHHHHHHHHHHhCCeEEEEeccChhhhccC------------------CCCCChHHHhcchhh
Confidence             11     235666899999999999999999999999987654321                  112222     2457


Q ss_pred             hhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEE
Q 022155          231 ANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFE  291 (302)
Q Consensus       231 ~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~  291 (302)
                      ..-+|..++|.|.+... .+ .          .+     ...-.+.|.|.+..|...+.+.
T Consensus       397 eqdAD~v~~l~R~~~y~-~~-~----------~~-----~g~~e~ivaKnR~G~~G~v~l~  440 (460)
T PRK07004        397 EQDADVILFIYRDEVYN-PD-S----------PD-----KGTAEIIIGKQRNGPIGPVRLT  440 (460)
T ss_pred             hhcCCEEEEeccccccC-CC-c----------CC-----CCceEEEEEccCCCCCceEEEE
Confidence            78889999999865310 00 0          00     1233567779988876654433

>PRK08006 replicative DNA helicase; Provisional

Probab=99.72  E-value=6.3e-16  Score=145.75  Aligned_cols=219  Identities=15%  Similarity=0.220  Sum_probs=139.7

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHHH
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSHT   95 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~~   95 (302)
                      ...++||++.||+++ ||+.+|+++.|.|.||.|||+|++++|.+++.  ..|.   +|+||+.|.+  .+.+ .++...
T Consensus       204 ~~Gi~TG~~~LD~~~-~Gl~~G~LiiIaarPgmGKTafalnia~~~a~--~~g~---~V~~fSlEM~--~~ql~~Rlla~  275 (471)
T PRK08006        204 VTGVNTGYDDLNKKT-AGLQPSDLIIVAARPSMGKTTFAMNLCENAAM--LQDK---PVLIFSLEMP--GEQIMMRMLAS  275 (471)
T ss_pred             CCcccCCCHHHHHhh-cCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHH--hcCC---eEEEEeccCC--HHHHHHHHHHH
Confidence            467999999999987 79999999999999999999999999999753  2344   7999999954  3222 222211


Q ss_pred             hCC----------CCCC----------CC--CCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhh
Q 022155           96 FRP----------SNDH----------NP--CDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAAL  151 (302)
Q Consensus        96 ~~~----------~~~~----------~~--l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~  151 (302)
                      ...          ...+          ..  -.++++.+..  +..+   +...+..+..+    ..++++||||.|+.+
T Consensus       276 ~~~v~~~~i~~~~l~~~e~~~~~~a~~~~~~~~~l~I~d~~~~t~~~---i~~~~r~~~~~----~~~~~lvvIDYLqli  348 (471)
T PRK08006        276 LSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPTE---VRSRARRIFRE----HGGLSLIMIDYLQLM  348 (471)
T ss_pred             hcCCCHHHhhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHH---HHHHHHHHHHh----cCCCCEEEEccHHHc
Confidence            110          0000          01  1245554432  3444   33444444433    236899999999975


Q ss_pred             hhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----
Q 022155          152 FRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----  226 (302)
Q Consensus       152 ~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----  226 (302)
                      -.... .     ..|...+..+++.||.||++++|+||++.|+........                  ...|.+     
T Consensus       349 ~~~~~-~-----~~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r~------------------dkrP~lsDLre  404 (471)
T PRK08006        349 RVPSL-S-----DNRTLEIAEISRSLKALAKELQVPVVALSQLNRSLEQRA------------------DKRPVNSDLRE  404 (471)
T ss_pred             cCCCC-C-----CCcHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccC------------------CCCCchhhhhh
Confidence            32211 1     234455789999999999999999999999987654311                  122322     


Q ss_pred             CchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEE
Q 022155          227 GIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFE  291 (302)
Q Consensus       227 G~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~  291 (302)
                      .-++..-+|..++|.|.+...  ++...               ...-.+.|.|.+..|...+.|.
T Consensus       405 SG~IEqdAD~v~~l~R~~~y~--~~~~~---------------~g~~elivaKnR~G~~G~v~l~  452 (471)
T PRK08006        405 SGSIEQDADLIMFIYRDEVYH--ENSDL---------------KGIAEIIIGKQRNGPIGTVRLT  452 (471)
T ss_pred             cCcccccCCEEEEEecccccc--cccCC---------------CCceEEEEecccCCCCceEEEE
Confidence            234667788999999865311  00000               1234667789988776655443

>PRK06904 replicative DNA helicase; Validated

Probab=99.71  E-value=7.9e-16  Score=145.24  Aligned_cols=221  Identities=15%  Similarity=0.243  Sum_probs=140.0

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSH   94 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~   94 (302)
                      ....++||++.||+++ ||+.+|+++.|.|.||+|||+|++++|.+++.  ..|.   +|+||+.|.+  .+.+ .++..
T Consensus       200 ~~~Gi~TG~~~LD~~t-~Gl~~G~LiiIaarPg~GKTafalnia~~~a~--~~g~---~Vl~fSlEMs--~~ql~~Rlla  271 (472)
T PRK06904        200 GVTGVTTGFTDLDKKT-AGLQPSDLIIVAARPSMGKTTFAMNLCENAAM--ASEK---PVLVFSLEMP--AEQIMMRMLA  271 (472)
T ss_pred             CCCCccCChHHHHHHH-hccCCCcEEEEEeCCCCChHHHHHHHHHHHHH--hcCC---eEEEEeccCC--HHHHHHHHHH
Confidence            4568999999999997 79999999999999999999999999998753  2344   8999999954  2222 22221


Q ss_pred             HhC--------CC-C--CC---------C---CCCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechh
Q 022155           95 TFR--------PS-N--DH---------N---PCDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIA  149 (302)
Q Consensus        95 ~~~--------~~-~--~~---------~---~l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~  149 (302)
                      ...        .. .  .+         .   ...++++....  +..++   ...+..+...    ..++++||||.|+
T Consensus       272 ~~s~v~~~~i~~g~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~t~~~i---~~~~r~~~~~----~~~~~lvvIDYLq  344 (472)
T PRK06904        272 SLSRVDQTKIRTGQNLDQQDWAKISSTVGMFKQKPNLYIDDSSGLTPTEL---RSRARRVYRE----NGGLSLIMVDYLQ  344 (472)
T ss_pred             hhCCCCHHHhccCCCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHH---HHHHHHHHHh----CCCCCEEEEecHH
Confidence            111        00 0  00         0   12246665433  33443   3344444432    2357999999998


Q ss_pred             hhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC---
Q 022155          150 ALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL---  226 (302)
Q Consensus       150 ~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l---  226 (302)
                      -+-.....      ..|...+..+++.||.||++++|+||++.|+........                  ...|.+   
T Consensus       345 li~~~~~~------~~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~------------------~krP~lsDL  400 (472)
T PRK06904        345 LMRAPGFE------DNRTLEIAEISRSLKALAKELKVPVVALSQLNRTLENRG------------------DKRPVNSDL  400 (472)
T ss_pred             hcCCCCCC------CcHHHHHHHHHHHHHHHHHHhCCeEEEEEecCchhhccC------------------CCCCchHHH
Confidence            75322111      235555789999999999999999999999987654211                  122322   


Q ss_pred             --CchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEE
Q 022155          227 --GIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFE  291 (302)
Q Consensus       227 --G~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~  291 (302)
                        .-.+..-+|..++|.|.+... .+..           .    ....-.+.|.|.+..|...+.|.
T Consensus       401 reSG~IEqdAD~v~~l~R~~~y~-~~~~-----------~----~~~~~elivaKnR~G~~G~v~l~  451 (472)
T PRK06904        401 RESGSIEQDADLIMFIYRDEVYN-ETTE-----------D----NKGVAEIIIGKQRNGPIGRVRLA  451 (472)
T ss_pred             hhcCccccCCcEEEEEecccccc-Cccc-----------c----CCCceEEEEeccCCCCCceEEEE
Confidence              123456678899998864310 0100           0    01234677789988876655443

>PRK08506 replicative DNA helicase; Provisional

Probab=99.71  E-value=2.2e-16  Score=149.30  Aligned_cols=189  Identities=20%  Similarity=0.290  Sum_probs=125.6

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHHH
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSHT   95 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~~   95 (302)
                      ...++||++.||.++ ||+.+|+++.|.|+||+|||+|+++++.+++   ..|.   +|+||+.|.+  .+.+ .++...
T Consensus       172 ~~Gi~TG~~~LD~~~-~G~~~G~LivIaarpg~GKT~fal~ia~~~~---~~g~---~V~~fSlEMs--~~ql~~Rlla~  242 (472)
T PRK08506        172 IIGLDTGFVELNKMT-KGFNKGDLIIIAARPSMGKTTLCLNMALKAL---NQDK---GVAFFSLEMP--AEQLMLRMLSA  242 (472)
T ss_pred             CCcccCChHHHHhhc-CCCCCCceEEEEcCCCCChHHHHHHHHHHHH---hcCC---cEEEEeCcCC--HHHHHHHHHHH
Confidence            567999999999997 7999999999999999999999999999975   4454   8999999954  3222 222211


Q ss_pred             hCCC----------CCC----------C-CCCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           96 FRPS----------NDH----------N-PCDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        96 ~~~~----------~~~----------~-~l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ....          ..+          . .-.++++....  +..++.+   .++.+..+    ..++++||||+++.+-
T Consensus       243 ~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~---~~r~l~~~----~~~~~lvvIDyLql~~  315 (472)
T PRK08506        243 KTSIPLQNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRA---QLRKLKSQ----HPEIGLAVIDYLQLMS  315 (472)
T ss_pred             hcCCCHHHHhcCCCCHHHHHHHHHHHHHHHcCCeEEECCCCCCHHHHHH---HHHHHHHh----CCCCCEEEEcChhhcc
Confidence            1100          000          0 01245554432  3444443   44433332    2358999999998653


Q ss_pred             hhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----C
Q 022155          153 RSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----G  227 (302)
Q Consensus       153 ~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G  227 (302)
                      ...   .   ...|...+..+++.||.||++++|+||++.|+........                  ...|.+     .
T Consensus       316 ~~~---~---~~~r~~ev~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~------------------~krP~lsDLreS  371 (472)
T PRK08506        316 GSG---N---FKDRHLQISEISRGLKLLARELDIPIIALSQLNRSLESRA------------------DKRPMLSDLRES  371 (472)
T ss_pred             CCC---C---CCCHHHHHHHHHHHHHHHHHHhCCcEEEEeecCcchhhcc------------------CCCCChHHhhcc
Confidence            211   0   1224455789999999999999999999999987653211                  112222     2


Q ss_pred             chhhhhcceEEEEEEecC
Q 022155          228 IAWANCVNSRLFLSRNED  245 (302)
Q Consensus       228 ~~w~~~~~~rl~l~~~~~  245 (302)
                      -++..-+|..++|.|.+.
T Consensus       372 g~IeqdAD~vl~l~R~~~  389 (472)
T PRK08506        372 GAIEQDADIILFVYRDDV  389 (472)
T ss_pred             hhhhhcCCEEEEEecccc
Confidence            447788899999999643

>PRK05973 replicative DNA helicase; Provisional

Probab=99.71  E-value=3.2e-16  Score=134.34  Aligned_cols=145  Identities=17%  Similarity=0.206  Sum_probs=94.0

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCD  106 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~  106 (302)
                      .|++ .||+++|.++.|.|+||+|||+|+++++.+.+   ..|.   +|+||+.|.+.  +.+.+-...+. ...+...+
T Consensus        54 ~~~l-~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a---~~Ge---~vlyfSlEes~--~~i~~R~~s~g-~d~~~~~~  123 (237)
T PRK05973         54 AEEL-FSQLKPGDLVLLGARPGHGKTLLGLELAVEAM---KSGR---TGVFFTLEYTE--QDVRDRLRALG-ADRAQFAD  123 (237)
T ss_pred             HHHh-cCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHH---hcCC---eEEEEEEeCCH--HHHHHHHHHcC-CChHHhcc
Confidence            7775 58999999999999999999999999999886   4565   89999999763  22222222222 11111222


Q ss_pred             cEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCc
Q 022155          107 YIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGL  186 (302)
Q Consensus       107 ~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~  186 (302)
                      .+.+... +......++.++   ..+     .+.++||||+|+.+.... .    + .    .+..++..|+.+++++++
T Consensus       124 ~~~~d~~-d~~~~~~ii~~l---~~~-----~~~~lVVIDsLq~l~~~~-~----~-~----el~~~~~~Lk~~Ak~~gi  184 (237)
T PRK05973        124 LFEFDTS-DAICADYIIARL---ASA-----PRGTLVVIDYLQLLDQRR-E----K-P----DLSVQVRALKSFARERGL  184 (237)
T ss_pred             ceEeecC-CCCCHHHHHHHH---HHh-----hCCCEEEEEcHHHHhhcc-c----c-h----hHHHHHHHHHHHHHhCCC
Confidence            2222221 111112223322   222     345999999999864211 1    0 1    135667889999999999


Q ss_pred             EEEEEecccccCCC
Q 022155          187 AVLVTNQVVDLMEP  200 (302)
Q Consensus       187 ~viv~n~~~~~~~~  200 (302)
                      +||+++|+....+.
T Consensus       185 tvIl~sQl~r~~e~  198 (237)
T PRK05973        185 IIVFISQIDRSFDP  198 (237)
T ss_pred             eEEEEecCcccccc
Confidence            99999999887654

>PRK08840 replicative DNA helicase; Provisional

Probab=99.71  E-value=1.8e-15  Score=142.36  Aligned_cols=223  Identities=14%  Similarity=0.218  Sum_probs=141.3

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSH   94 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~   94 (302)
                      ....++||++.||.++ +|+.+|+++.|.|.||+|||+|++++|.+++.  ..|.   .|+||+.|.+  .+.+ ..+..
T Consensus       196 ~~~gi~TG~~~LD~~~-~G~~~g~LiviaarPg~GKTafalnia~~~a~--~~~~---~v~~fSlEMs--~~ql~~Rlla  267 (464)
T PRK08840        196 GVTGVDTGFTDLNKKT-AGLQGSDLIIVAARPSMGKTTFAMNLCENAAM--DQDK---PVLIFSLEMP--AEQLMMRMLA  267 (464)
T ss_pred             CCCCcCCCcHHHHHhh-cCCCCCceEEEEeCCCCchHHHHHHHHHHHHH--hCCC---eEEEEeccCC--HHHHHHHHHH
Confidence            3567999999999997 68999999999999999999999999999853  2344   7999999954  3222 12221


Q ss_pred             HhCCC----------CCC---------C-C--CCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           95 TFRPS----------NDH---------N-P--CDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        95 ~~~~~----------~~~---------~-~--l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      .....          ..+         . .  -.++++....+. .+.++...+..+..+    ..++++||||.|+.+-
T Consensus       268 ~~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~-ti~~i~~~~r~~~~~----~~~~~lvvIDYLql~~  342 (464)
T PRK08840        268 SLSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGL-TPTEVRSRARRIARE----HGGLSMIMVDYLQLMR  342 (464)
T ss_pred             hhCCCCHHHHhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCC-CHHHHHHHHHHHHHh----cCCCCEEEEccHHhcC
Confidence            11100          000         0 1  124565543321 122334444444332    2358999999999753


Q ss_pred             hhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-----C
Q 022155          153 RSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-----G  227 (302)
Q Consensus       153 ~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-----G  227 (302)
                      ...   ..   ..|.+.+..+++.||.||++++|+||++.|+.......                  ....|.+     .
T Consensus       343 ~~~---~~---~~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r------------------~~krP~lsDLreS  398 (464)
T PRK08840        343 VPA---LS---DNRTLEIAEISRSLKALAKELNVPVVALSQLNRSLEQR------------------ADKRPVNSDLRES  398 (464)
T ss_pred             CCC---CC---CchHHHHHHHHHHHHHHHHHhCCeEEEEEecCcccccc------------------CCCCCchHhhhhc
Confidence            111   11   23555678999999999999999999999998765431                  1122322     2


Q ss_pred             chhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEE
Q 022155          228 IAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEI  292 (302)
Q Consensus       228 ~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I  292 (302)
                      -.+..-+|..++|.|.+... .+ ...               ...-.+.|.|.+..|...+.|..
T Consensus       399 G~IEqdAD~v~~l~R~~~y~-~~-~~~---------------~~~~elivaKnR~G~~G~v~l~f  446 (464)
T PRK08840        399 GSIEQDADLIMFIYRDEVYN-PD-SPL---------------KGTAEIIIGKQRNGPIGSVRLTF  446 (464)
T ss_pred             ccccccCCEEEEEecccccC-CC-cCC---------------CCceEEEEecccCCCCceEEEEE
Confidence            34667789999999865411 00 000               12345777798888766555443

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

Probab=99.69  E-value=3.6e-15  Score=123.00  Aligned_cols=211  Identities=19%  Similarity=0.260  Sum_probs=139.0

Q ss_pred             ccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCC
Q 022155           19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRP   98 (302)
Q Consensus        19 ~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~   98 (302)
                      -+++|.+.||+-|+||+|.|+++.|-|+.|+|||.|+++++....   ..|.   ++.|++||.+. .+.+.+|-..--.
T Consensus         9 ii~~gndelDkrLGGGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L---~~g~---~v~yvsTe~T~-refi~qm~sl~yd   81 (235)
T COG2874           9 IIKSGNDELDKRLGGGIPVGSLILIEGDNGTGKSVLSQRFAYGFL---MNGY---RVTYVSTELTV-REFIKQMESLSYD   81 (235)
T ss_pred             hccCCcHHHHhhccCCCccCeEEEEECCCCccHHHHHHHHHHHHH---hCCc---eEEEEEechhH-HHHHHHHHhcCCC
Confidence            489999999999999999999999999999999999999999885   5565   89999999652 2444444322101


Q ss_pred             CCCCCCCCcEEEEeC------CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHH
Q 022155           99 SNDHNPCDYIFVQSV------HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFK  172 (302)
Q Consensus        99 ~~~~~~l~~i~~~~~------~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~  172 (302)
                      ..+.-...++.+...      .+...-..+|+.+.+.++.     ..-++|||||++++...+      +..+    +..
T Consensus        82 v~~~~l~G~l~~~~~~~~~~~~~~~~~~~~L~~l~~~~k~-----~~~dViIIDSls~~~~~~------~~~~----vl~  146 (235)
T COG2874          82 VSDFLLSGRLLFFPVNLEPVNWGRRSARKLLDLLLEFIKR-----WEKDVIIIDSLSAFATYD------SEDA----VLN  146 (235)
T ss_pred             chHHHhcceeEEEEecccccccChHHHHHHHHHHHhhHHh-----hcCCEEEEecccHHhhcc------cHHH----HHH
Confidence            111112233334332      2233333444444444432     344999999999977543      1111    457


Q ss_pred             HHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccc
Q 022155          173 ISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQ  252 (302)
Q Consensus       173 l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~  252 (302)
                      ++..+++|+. .|-+||+|-|...--++                    ..     .-..+.+++-+.|+...-     + 
T Consensus       147 fm~~~r~l~d-~gKvIilTvhp~~l~e~--------------------~~-----~rirs~~d~~l~L~~~~~-----G-  194 (235)
T COG2874         147 FMTFLRKLSD-LGKVIILTVHPSALDED--------------------VL-----TRIRSACDVYLRLRLEEL-----G-  194 (235)
T ss_pred             HHHHHHHHHh-CCCEEEEEeChhhcCHH--------------------HH-----HHHHHhhheeEEEEhhhh-----C-
Confidence            8899999996 47788888775431111                    01     123455677777766543     1 


Q ss_pred             cccCCCCCCCCCCcccccceEEEEEEECCCCC---CceeeEEEecC-cccc
Q 022155          253 MVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA---DTSCEFEITRE-GVFG  299 (302)
Q Consensus       253 ~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~---~~~~~F~I~~~-Gi~~  299 (302)
                         |             ..++.+.++|-++.+   ...+.|+|.++ ||..
T Consensus       195 ---g-------------~~~~~~~i~K~~ga~~s~~~~I~F~V~P~~Glkv  229 (235)
T COG2874         195 ---G-------------DLIKVLEIVKYRGARKSFQNIISFRVEPGFGLKV  229 (235)
T ss_pred             ---C-------------eeeEEEEEeeecCchhhcCCceeEEecCCCceEE
Confidence               1             578899999988885   45799999974 7753

>PRK06749 replicative DNA helicase; Provisional

Probab=99.66  E-value=1.2e-14  Score=135.73  Aligned_cols=221  Identities=15%  Similarity=0.158  Sum_probs=138.3

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ....++||++.||+++ ||+.+|+++.|.|.||.|||+|+++++.+++   ..|.   +|+||+.|.+-.. -..++...
T Consensus       165 ~~~Gi~TG~~~LD~~t-~Gl~~G~LiiIaarPgmGKTafal~ia~~~a---~~g~---~v~~fSlEMs~~q-l~~R~ls~  236 (428)
T PRK06749        165 EITGIETGYTSLNKMT-CGLQEGDFVVLGARPSMGKTAFALNVGLHAA---KSGA---AVGLFSLEMSSKQ-LLKRMASC  236 (428)
T ss_pred             CCCCccCCcHHHHHHh-CCCCCCcEEEEEeCCCCCchHHHHHHHHHHH---hcCC---CEEEEEeeCCHHH-HHHHHHHh
Confidence            3567999999999986 6899999999999999999999999999986   3454   7999998864221 11122221


Q ss_pred             hC--------CC---CCC----------CCC--CcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCC-CeeEEEEechh
Q 022155           96 FR--------PS---NDH----------NPC--DYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRL-PIRLIVIDSIA  149 (302)
Q Consensus        96 ~~--------~~---~~~----------~~l--~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~-~~~lvVIDsi~  149 (302)
                      ..        ..   ..+          ..+  .++++.+..  +..++.   ..++.+...    .. ...+||||.++
T Consensus       237 ~~~i~~~~l~~~~~~l~~~e~~~~~~a~~~l~~~~i~i~d~~~~t~~~I~---~~~r~~~~~----~~~~~~lvvIDyLq  309 (428)
T PRK06749        237 VGEVSGGRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIW---MQTRKLKRK----HGDKKILIIVDYLQ  309 (428)
T ss_pred             ccCCCHHHHhcCcccCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHH---HHHHHHHHh----cCCCCcEEEEeChh
Confidence            10        00   000          001  135554433  233433   333333332    11 14599999998


Q ss_pred             hhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC---
Q 022155          150 ALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL---  226 (302)
Q Consensus       150 ~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l---  226 (302)
                      .+-... ...    ..|...+..+++.||.||++++|+||++.|+........                  ...|.+   
T Consensus       310 li~~~~-~~~----~~r~~ei~~isr~LK~lAkel~vpVi~lsQLnR~~e~r~------------------~krP~lsDL  366 (428)
T PRK06749        310 LITGDP-KHK----GNRFQEISEISRKLKLLARELNVCVVALSQLSRSVESRQ------------------DKRPLLSDL  366 (428)
T ss_pred             hcCCCC-CCC----CCHHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccC------------------CCCCchHhh
Confidence            753210 000    235556889999999999999999999999987654211                  122322   


Q ss_pred             --CchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEE
Q 022155          227 --GIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFE  291 (302)
Q Consensus       227 --G~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~  291 (302)
                        .-++..-+|..++|.|.+.. ..+ .          .    . ...-.+.|.|.+..|...+.+.
T Consensus       367 R~SG~IEqdAD~vl~l~R~~~y-~~~-~----------~----~-~~~~eliiaKnR~G~~G~v~~~  416 (428)
T PRK06749        367 RETGQIEQDADVIMLMYREDYY-DKE-T----------M----Q-KEMTEIHVAKHRNGPVGSFKLR  416 (428)
T ss_pred             hhcccccccCCEEEEEeecccc-ccc-c----------c----C-CCceEEEEecCCCCCCceEEEE
Confidence              13355668999999986531 000 0          0    0 1245677889998776655444

>PRK07773 replicative DNA helicase; Validated

Probab=99.63  E-value=1.9e-15  Score=153.06  Aligned_cols=165  Identities=18%  Similarity=0.224  Sum_probs=112.0

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ....++||++.||.++ ||+++|+++.|+|+||+|||+|++++|.+++.  ..+.   +|+||+.|.+-.. -+..+...
T Consensus       196 ~~~Gi~TG~~~LD~l~-~Gl~~G~livIagrPg~GKT~fal~ia~~~a~--~~~~---~V~~fSlEms~~q-l~~R~~s~  268 (886)
T PRK07773        196 LARGVPTGFTELDAMT-NGLHPGQLIIVAARPSMGKTTFGLDFARNCAI--RHRL---AVAIFSLEMSKEQ-LVMRLLSA  268 (886)
T ss_pred             CCCCccCChhHhcccc-CCCCCCcEEEEEeCCCCCcHHHHHHHHHHHHH--hcCC---eEEEEecCCCHHH-HHHHHHHH
Confidence            3568999999999997 89999999999999999999999999999863  2233   8999999865322 11122211


Q ss_pred             hCCC----------CCC---------CCC--CcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhh
Q 022155           96 FRPS----------NDH---------NPC--DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRS  154 (302)
Q Consensus        96 ~~~~----------~~~---------~~l--~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~  154 (302)
                      ....          ...         ..+  .++++....+ -.+.++...+..+..+     .++++||||+++.+-..
T Consensus       269 ~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~i~i~d~~~-~~i~~i~~~~r~~~~~-----~~~~lvvIDyLql~~~~  342 (886)
T PRK07773        269 EAKIKLSDMRSGRMSDDDWTRLARAMGEISEAPIFIDDTPN-LTVMEIRAKARRLRQE-----ANLGLIVVDYLQLMTSG  342 (886)
T ss_pred             hcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCC-CCHHHHHHHHHHHHHh-----cCCCEEEEcchhhcCCC
Confidence            0000          000         000  2345543322 1233444455555443     46899999999975321


Q ss_pred             ccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCC
Q 022155          155 DFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLME  199 (302)
Q Consensus       155 ~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~  199 (302)
                         ..   ...|.+.+.++++.||.||++++|+||+++|+.....
T Consensus       343 ---~~---~~~r~~ei~~isr~LK~lAkel~vpvi~lsQLnR~~e  381 (886)
T PRK07773        343 ---KK---YENRQQEVSEISRHLKLLAKELEVPVVALSQLSRGVE  381 (886)
T ss_pred             ---CC---CCCHHHHHHHHHHHHHHHHHHHCCcEEEecccCcchh
Confidence               11   1245666899999999999999999999999987654

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

Probab=99.60  E-value=1.1e-13  Score=115.45  Aligned_cols=178  Identities=24%  Similarity=0.322  Sum_probs=105.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCC-CCCCcEEEEeCC----
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDH-NPCDYIFVQSVH----  114 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~-~~l~~i~~~~~~----  114 (302)
                      ++.|.||||+|||+|+++++...+   ..|.   +|+|+++|.+  .+.+.+.+.++...... .....+.+....    
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~---~~g~---~v~~~s~e~~--~~~~~~~~~~~g~~~~~l~~~g~l~~~d~~~~~~   72 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL---ARGE---PGLYVTLEES--PEELIENAESLGWDLERLEDEGLLAIVDADPDEI   72 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH---HCCC---cEEEEECCCC--HHHHHHHHHHcCCChHHHHhcCCeEEEecCcccc
Confidence            478999999999999999999875   4565   8999999865  33443333333211100 011122332221    


Q ss_pred             CHHHH---HHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEE
Q 022155          115 SVDQL---LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVT  191 (302)
Q Consensus       115 ~~~~l---~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~  191 (302)
                      +..+.   .+++..+...+..     .+++++|||++++++..+      ....+    ..+.+.++.+. +.++++|++
T Consensus        73 s~~~~~~~~~~~~~i~~~~~~-----~~~~~lviD~~~~~~~~~------~~~~~----~~i~~l~~~l~-~~g~tvi~v  136 (187)
T cd01124          73 GPAESSLRLELIQRLKDAIEE-----FKAKRVVIDSVSGLLLME------QSTAR----LEIRRLLFALK-RFGVTTLLT  136 (187)
T ss_pred             chhhhhhhHHHHHHHHHHHHH-----hCCCEEEEeCcHHHhhcC------hHHHH----HHHHHHHHHHH-HCCCEEEEE
Confidence            11111   1334444444433     356999999999976421      11122    12333344433 459999999


Q ss_pred             ecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccc
Q 022155          192 NQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRT  271 (302)
Q Consensus       192 n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~  271 (302)
                      +|.......                       +.....+.+.+|..+.|.+...     +    |             ..
T Consensus       137 ~~~~~~~~~-----------------------~~~~~~~~~~aD~ii~l~~~~~-----~----~-------------~~  171 (187)
T cd01124         137 SEQSGLEGT-----------------------GFGGGDVEYLVDGVIRLRLDEE-----G----G-------------RL  171 (187)
T ss_pred             eccccCCCc-----------------------ccCcCceeEeeeEEEEEEEEcc-----C----C-------------EE
Confidence            997653211                       1223456788899999988754     1    1             46


Q ss_pred             eEEEEEEECCCCCCc
Q 022155          272 RRSLHVVFAPHLADT  286 (302)
Q Consensus       272 ~R~~~v~ks~~~~~~  286 (302)
                      +|.++|+|.++.+++
T Consensus       172 ~r~l~i~K~R~~~~~  186 (187)
T cd01124         172 RRSLSVVKMRGGPHD  186 (187)
T ss_pred             EEEEEEEEccCCCCC
Confidence            889999999987653

A related protein is found in archaea.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=99.58  E-value=1.5e-13  Score=119.36  Aligned_cols=172  Identities=23%  Similarity=0.283  Sum_probs=107.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCC------CCCeEEEEeCCCCCC--HHHHHHHHHHhCCCCCCCCCCcEE
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGG------LSASSLYLHTEFPFP--MRRLHQLSHTFRPSNDHNPCDYIF  109 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg------~~~~vlyid~e~~~~--~~rl~~i~~~~~~~~~~~~l~~i~  109 (302)
                      |.+..|+||+|+|||+|++++|.+++......|      .+++|+|+++|.+.+  .+|+..+...+....   ..++++
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~---~~~rl~   77 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDD---AGDRLF   77 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcC---cccceE
Confidence            678999999999999999999998763222111      234899999998765  477888877653211   112222


Q ss_pred             EE----------eCC---CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHH
Q 022155          110 VQ----------SVH---SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM  176 (302)
Q Consensus       110 ~~----------~~~---~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~  176 (302)
                      +.          ...   ....+.    .+.+.+..     .++++||||+++.+.... ..   +...    ...++..
T Consensus        78 ~~~g~~~~l~~~~~~~~~~~~~~~----~l~~~~~~-----~~~~lvviDpl~~~~~~~-~~---d~~~----~~~~~~~  140 (239)
T cd01125          78 IDSGRIQPISIAREGRIIVVPEFE----RIIEQLLI-----RRIDLVVIDPLVSFHGVS-EN---DNGA----MDAVIKA  140 (239)
T ss_pred             EeccCCCceecccCCcccccHHHH----HHHHHHHh-----cCCCEEEECChHHhCCCC-cC---CHHH----HHHHHHH
Confidence            21          111   112222    22222211     356999999998863211 11   1122    3467888


Q ss_pred             HHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          177 LKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       177 L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                      |++++++++++||+++|.........                .......+..+|...+++.+.|.+...
T Consensus       141 L~~~a~~~g~avl~v~H~~K~~~~~~----------------~~~~~~rGssal~~~~r~~~~l~~~~~  193 (239)
T cd01125         141 LRRIAAQTGAAILLVHHVRKGSAKDG----------------DTQEAARGASALVDGARWVRALTRMTS  193 (239)
T ss_pred             HHHHHHHhCCEEEEEeccCcccccCc----------------ccccccCcHHHHhcccceEEEEeeCCH
Confidence            99999999999999999875432110                011223345678888889999988754

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.

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

Probab=99.54  E-value=8.2e-13  Score=121.57  Aligned_cols=229  Identities=18%  Similarity=0.218  Sum_probs=146.4

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHH-HHHHH
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLH-QLSHT   95 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~-~i~~~   95 (302)
                      ...+|||.+.||.++ +|+.+|+++.+++.||.|||+||+++|.+++.  ...   .+|.+|+.|.+  .+.+. .+...
T Consensus       176 ~~Gi~tgf~~LD~~t-~G~~~~dLii~AaRP~mGKTafalnia~n~a~--~~~---~~v~iFSLEM~--~eql~~R~Ls~  247 (435)
T COG0305         176 LIGVPTGFTDLDEIT-SGFRPGDLIIVAARPGMGKTALALNIALNAAA--DGR---KPVAIFSLEMS--EEQLVMRLLSS  247 (435)
T ss_pred             CcccccCchhhHHHh-cCCccCCEEEEccCCCCChHHHHHHHHHHHHH--hcC---CCeEEEEccCC--HHHHHHHhhcc
Confidence            678999999999997 56999999999999999999999999999874  222   26899998864  22221 11111


Q ss_pred             hCCCCCC-------------------CCC--CcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhh
Q 022155           96 FRPSNDH-------------------NPC--DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRS  154 (302)
Q Consensus        96 ~~~~~~~-------------------~~l--~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~  154 (302)
                      .......                   ..+  ..+++.+..+ -.+.++..+++.+-.+     .++++++||.++-+...
T Consensus       248 ~s~v~~~kirtg~l~~~d~~~l~~a~~~l~~~~i~IdD~~~-~si~eir~~aRrlk~~-----~~l~~i~iDYLqLm~~~  321 (435)
T COG0305         248 ESGIESSKLRTGRLSDDEWERLIKAASELSEAPIFIDDTPG-LTITEIRSKARRLKLK-----HNLGLIVIDYLQLMTGG  321 (435)
T ss_pred             ccccchhccccccccHHHHHHHHHHHHHHhhCCeeecCCCc-CCHHHHHHHHHHHHHh-----cCccEEEEEEEEeeccc
Confidence            1100000                   000  1233333222 1133344445544443     56999999999986533


Q ss_pred             ccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhc
Q 022155          155 DFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCV  234 (302)
Q Consensus       155 ~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~  234 (302)
                      ..      ...|++.+..+.+.|+.||++.+++||...|+....+.....   |+     +   -+.++-++  +...-.
T Consensus       322 ~~------~~~r~qevs~iSr~LK~lAkEl~vpvialSQLsR~~E~R~dk---rP-----~---lSDLRESG--sIEQDA  382 (435)
T COG0305         322 KK------SENRKQEVSEISRSLKGLAKELGVPVIALSQLNRSVEQRTDK---RP-----M---LSDLRESG--ALEQDA  382 (435)
T ss_pred             cc------chhHHHHHHHHHHHHHHHHHhcCCcEEehhhhcccchhcccc---CC-----c---cccCccCC--chhhhC
Confidence            21      145788899999999999999999999999998876643110   00     0   01222232  233457


Q ss_pred             ceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecC
Q 022155          235 NSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITRE  295 (302)
Q Consensus       235 ~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~  295 (302)
                      +..+++.|.+... ++ .          ++     ...-.+-|-|.++.|...+.+.....
T Consensus       383 D~VmflyRde~y~-~~-~----------~~-----~g~aeiIi~K~RnGp~GtV~l~f~~~  426 (435)
T COG0305         383 DIVIFLHRDEAYL-KD-T----------PD-----RGEAEVIVAKNRNGPTGTVKLAFDPQ  426 (435)
T ss_pred             CEEEEEechhhcc-CC-C----------CC-----CceEEEEEEeccCCCCceEEEEEecc
Confidence            8889998876521 11 0          00     14557777799999888777665543

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.48  E-value=1.2e-12  Score=106.05  Aligned_cols=164  Identities=20%  Similarity=0.166  Sum_probs=97.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCC-HHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHS-VDQ  118 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~-~~~  118 (302)
                      ++.|+|+||+|||+++.+++...+   ..++   .++|++.+..+...+.. .. .+   ......+++.+..... ...
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~---~~~~---~v~~~~~e~~~~~~~~~-~~-~~---~~~~~~~~~~~~~~~~~~~~   69 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIA---TKGG---KVVYVDIEEEIEELTER-LI-GE---SLKGALDNLIIVFATADDPA   69 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHH---hcCC---EEEEEECCcchHHHHHH-Hh-hh---hhccccccEEEEEcCCCCCc
Confidence            478999999999999999999875   3455   89999999765432211 10 00   1112234444433322 111


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccC
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM  198 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~  198 (302)
                      .............     ..+++++|||+++.+........    ......+...+..|...+++.++++|+++|.....
T Consensus        70 ~~~~~~~~~~~~~-----~~~~~~lviDe~~~~~~~~~~~~----~~~~~~~~~~l~~l~~~~~~~~~~vv~~~~~~~~~  140 (165)
T cd01120          70 AARLLSKAERLRE-----RGGDDLIILDELTRLVRALREIR----EGYPGELDEELRELLERARKGGVTVIFTLQVPSGD  140 (165)
T ss_pred             HHHHHHHHHHHHh-----CCCCEEEEEEcHHHHHHHHHHHH----hcCChHHHHHHHHHHHHHhcCCceEEEEEecCCcc
Confidence            1111112222222     35679999999999875432100    00011234566777777778899999999987644


Q ss_pred             CCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEE
Q 022155          199 EPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR  242 (302)
Q Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~  242 (302)
                      ...+                   ..+.++..-.+.+++++.|.+
T Consensus       141 ~~~~-------------------~~~~~~~~~~~~~d~~~~l~~  165 (165)
T cd01120         141 KGDP-------------------RLTRGAQNLEDIADTVIVLSR  165 (165)
T ss_pred             ccCc-------------------ccccCccceeeecceEEEEeC
Confidence            3211                   113445566788888888864

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.

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

Probab=99.31  E-value=1e-11  Score=108.28  Aligned_cols=150  Identities=16%  Similarity=0.202  Sum_probs=98.0

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-C---CCCCeEEEEeCCCCCCH--HHHHHHHHHhCCCCCCCCCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH-G---GLSASSLYLHTEFPFPM--RRLHQLSHTFRPSNDHNPCD  106 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-g---g~~~~vlyid~e~~~~~--~rl~~i~~~~~~~~~~~~l~  106 (302)
                      +-+..|-...|+|++|+|||+++++++...+.-... |   -.+++|+|++.|..-+.  +|++.+...++....  ...
T Consensus        84 ~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPa--dvr  161 (402)
T COG3598          84 EFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPA--DVR  161 (402)
T ss_pred             HHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChH--hhh
Confidence            346788888999999999999999988776421111 1   01348999999975432  677777777653322  233


Q ss_pred             cEEEEeCCC---HHHH--HHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHH
Q 022155          107 YIFVQSVHS---VDQL--LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMA  181 (302)
Q Consensus       107 ~i~~~~~~~---~~~l--~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la  181 (302)
                      |+.......   ..+.  ..++.+.+..+.+     ..+++||||++.+++.++-..   +.+     +..+++.++++|
T Consensus       162 n~dltd~~Gaa~~~d~l~pkl~rRfek~~~Q-----~rp~~vViDp~v~f~~G~s~s---~vq-----v~~fi~~~rkla  228 (402)
T COG3598         162 NMDLTDVSGAADESDVLSPKLYRRFEKILEQ-----KRPDFVVIDPFVAFYEGKSIS---DVQ-----VKEFIKKTRKLA  228 (402)
T ss_pred             heeccccccCCCccccccHHHHHHHHHHHHH-----hCCCeEEEcchhhhcCCccch---hHH-----HHHHHHHHHHHH
Confidence            444422111   0011  1344555555544     345999999999988654111   112     568899999999


Q ss_pred             HHcCcEEEEEeccccc
Q 022155          182 VGFGLAVLVTNQVVDL  197 (302)
Q Consensus       182 ~~~~~~viv~n~~~~~  197 (302)
                      ..++|+||+++|....
T Consensus       229 ~~l~caIiy~hHtsks  244 (402)
T COG3598         229 RNLECAIIYIHHTSKS  244 (402)
T ss_pred             HhcCCeEEEEeccccc
Confidence            9999999999998643

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=99.07  E-value=3e-10  Score=95.74  Aligned_cols=93  Identities=16%  Similarity=0.210  Sum_probs=60.9

Q ss_pred             cccccCCCCCCccccCCh-hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CC
Q 022155            8 QNLLDNPLTTEKCTVGCP-IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PF   84 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~-~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~   84 (302)
                      +.+++.+.....+  |.. .+|.+ +--+++|+++.|.||||+|||+|+..++...  ++..|     -++|++++  .+
T Consensus         6 ~~~I~vr~v~~~f--G~~~Ild~v-~l~V~~Gei~~iiGgSGsGKStlLr~I~Gll--~P~~G-----eI~i~G~~i~~l   75 (263)
T COG1127           6 EPLIEVRGVTKSF--GDRVILDGV-DLDVPRGEILAILGGSGSGKSTLLRLILGLL--RPDKG-----EILIDGEDIPQL   75 (263)
T ss_pred             cceEEEeeeeeec--CCEEEecCc-eeeecCCcEEEEECCCCcCHHHHHHHHhccC--CCCCC-----eEEEcCcchhcc
Confidence            4455554444333  433 45655 5679999999999999999999999998774  33444     48888776  34


Q ss_pred             CHHHHHHHHHHhCC-------CCCCCCCCcEEE
Q 022155           85 PMRRLHQLSHTFRP-------SNDHNPCDYIFV  110 (302)
Q Consensus        85 ~~~rl~~i~~~~~~-------~~~~~~l~~i~~  110 (302)
                      +.+++.++.+.+.-       +..-++.+|+.+
T Consensus        76 s~~~~~~ir~r~GvlFQ~gALFssltV~eNVaf  108 (263)
T COG1127          76 SEEELYEIRKRMGVLFQQGALFSSLTVFENVAF  108 (263)
T ss_pred             CHHHHHHHHhheeEEeeccccccccchhHhhhe
Confidence            55566666655432       122356677765

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

Probab=99.00  E-value=2.2e-10  Score=103.24  Aligned_cols=60  Identities=18%  Similarity=0.168  Sum_probs=45.4

Q ss_pred             CCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.....+. +...+|++ +--|++|+++.|.|||||||||++..||....   ..+    .-++++.+.
T Consensus         9 ~~v~k~yg-~~~av~~i-sl~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~---p~~----G~I~l~G~~   68 (352)
T COG3842           9 RNVSKSFG-DFTAVDDI-SLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQ---PSS----GEILLDGED   68 (352)
T ss_pred             EeeeeecC-CeeEEecc-eeeecCCcEEEEECCCCCCHHHHHHHHhCCCC---CCC----ceEEECCEE
Confidence            33333343 56678876 67899999999999999999999999998763   333    358888764

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

Probab=99.00  E-value=1.9e-09  Score=95.05  Aligned_cols=157  Identities=20%  Similarity=0.285  Sum_probs=101.1

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHHHhCCCCCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSHTFRPSNDH  102 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~~~~~~~~~  102 (302)
                      .+.|+++| +|.++|+++.+.||.|||||||+-..+...+   .+|-   ..+|=+.|-  +..|+ .-|...+......
T Consensus       260 FpvLNk~L-kGhR~GElTvlTGpTGsGKTTFlsEYsLDL~---~QGV---nTLwgSFEi--~n~rla~~mL~Qyagyrl~  330 (514)
T KOG2373|consen  260 FPVLNKYL-KGHRPGELTVLTGPTGSGKTTFLSEYSLDLF---TQGV---NTLWGSFEI--PNKRLAHWMLVQYAGYRLL  330 (514)
T ss_pred             hhHHHHHh-ccCCCCceEEEecCCCCCceeEehHhhHHHH---hhhh---hheeeeeec--chHHHHHHHHHHHccCchH
Confidence            56899998 6899999999999999999999887777664   4554   778877663  23454 3344444332221


Q ss_pred             CCC----------Cc--EEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHH
Q 022155          103 NPC----------DY--IFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLF  170 (302)
Q Consensus       103 ~~l----------~~--i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l  170 (302)
                      +-+          ++  .++......+.+...++.+...+-     ...+.-||||+++.+.....-.     ..|...-
T Consensus       331 drl~~y~HWadrFErlplyfmtfhgqq~~~~vi~~i~ha~y-----V~di~HViIDNLQFmmg~~~~~-----~Drf~~Q  400 (514)
T KOG2373|consen  331 DRLNSYKHWADRFERLPLYFMTFHGQQFMEKVINEIAHAIY-----VEDIQHVIIDNLQFMMGQGMMA-----LDRFHLQ  400 (514)
T ss_pred             hhhhhhhHHHHHHhccchHhhhhcccchHHHHHHHHHHHHH-----HHhhhhhhhhhHHHHhccchhc-----cchhhhH
Confidence            111          11  111112233333444454443332     1357889999999987543111     2355556


Q ss_pred             HHHHHHHHHHHHHcCcEEEEEecccccCC
Q 022155          171 FKISGMLKAMAVGFGLAVLVTNQVVDLME  199 (302)
Q Consensus       171 ~~l~~~L~~la~~~~~~viv~n~~~~~~~  199 (302)
                      ..++..++++|.++||-|-++-|.+..-.
T Consensus       401 D~iig~fR~fAT~nn~HvTlVvHPRKed~  429 (514)
T KOG2373|consen  401 DRIIGYFRQFATQNNIHVTLVVHPRKEDG  429 (514)
T ss_pred             HHHHHHHHHHhhccceeEEEEecccccCC
Confidence            78899999999999999999999876433

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.93  E-value=3.5e-10  Score=96.28  Aligned_cols=38  Identities=11%  Similarity=0.203  Sum_probs=31.3

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...|+++ +--+.+|+++.|.||||||||||+.-+|...
T Consensus        16 ~~vl~~i-~L~v~~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          16 VEVLEDI-NLSVEKGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             eEEeccc-eeEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4556665 5578999999999999999999998777754

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

Probab=98.92  E-value=1.2e-08  Score=88.39  Aligned_cols=149  Identities=15%  Similarity=0.266  Sum_probs=83.7

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHH-HHHHHHhCCCCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRL-HQLSHTFRPSND  101 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl-~~i~~~~~~~~~  101 (302)
                      +.|+.+ +--+++|+++.|.||+|||||||+..++...  ++..     ..++++...  ..+...+ +.++--.+....
T Consensus        16 ~il~~l-s~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l--~p~~-----G~V~l~g~~i~~~~~kelAk~ia~vpQ~~~~   87 (258)
T COG1120          16 PILDDL-SFSIPKGEITGILGPNGSGKSTLLKCLAGLL--KPKS-----GEVLLDGKDIASLSPKELAKKLAYVPQSPSA   87 (258)
T ss_pred             eEEecc-eEEecCCcEEEEECCCCCCHHHHHHHHhccC--CCCC-----CEEEECCCchhhcCHHHHhhhEEEeccCCCC
Confidence            345554 5579999999999999999999999998764  3233     368888774  2222222 222211111111


Q ss_pred             C---CCCCcEEEE--------eCCCHHH---HHHHHHHH--HHHHHh----------------ccCCCCCeeEEEEechh
Q 022155          102 H---NPCDYIFVQ--------SVHSVDQ---LLDIMPKI--ESFIKN----------------SSNSRLPIRLIVIDSIA  149 (302)
Q Consensus       102 ~---~~l~~i~~~--------~~~~~~~---l~~~l~~l--~~~l~~----------------~~~~~~~~~lvVIDsi~  149 (302)
                      .   .+.+-+.+.        ...+.++   ..+.+..+  ..+..+                ....+ ..+++++|+.+
T Consensus        88 ~~~~tV~d~V~~GR~p~~~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArALaQ-~~~iLLLDEPT  166 (258)
T COG1120          88 PFGLTVYELVLLGRYPHLGLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARALAQ-ETPILLLDEPT  166 (258)
T ss_pred             CCCcEEeehHhhcCCcccccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHHhc-CCCEEEeCCCc
Confidence            0   111111111        1112222   22222211  111000                01112 35999999999


Q ss_pred             hhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccc
Q 022155          150 ALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV  195 (302)
Q Consensus       150 ~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~  195 (302)
                      +..         |+  +.++  ++++.+++++++++.|||++-|.-
T Consensus       167 s~L---------Di--~~Q~--evl~ll~~l~~~~~~tvv~vlHDl  199 (258)
T COG1120         167 SHL---------DI--AHQI--EVLELLRDLNREKGLTVVMVLHDL  199 (258)
T ss_pred             ccc---------CH--HHHH--HHHHHHHHHHHhcCCEEEEEecCH
Confidence            865         22  2223  788999999999999999999863

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

Probab=98.91  E-value=9.1e-09  Score=88.78  Aligned_cols=154  Identities=19%  Similarity=0.176  Sum_probs=91.3

Q ss_pred             cccCCCCCCccccC--------ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           10 LLDNPLTTEKCTVG--------CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        10 l~~~~~~~~~i~tG--------~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +++.+.....++++        +.++|.+ +--|..|++..|+|++||||||++..++...  + ..+|    .+|++..
T Consensus         4 ll~v~~l~k~f~~~~~~~~~~~v~avd~V-sf~i~~ge~~glVGESG~GKSTlgr~i~~L~--~-pt~G----~i~f~g~   75 (268)
T COG4608           4 LLEVKNLKKYFPVGKGFGKKRYVKAVDGV-SFSIKEGETLGLVGESGCGKSTLGRLILGLE--E-PTSG----EILFEGK   75 (268)
T ss_pred             eEEEeccEEEEecccccCcccceEEecce-eEEEcCCCEEEEEecCCCCHHHHHHHHHcCc--C-CCCc----eEEEcCc
Confidence            44444455555543        3567766 5679999999999999999999999888764  2 3333    5777755


Q ss_pred             CC--CCH----HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhc
Q 022155           82 FP--FPM----RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSD  155 (302)
Q Consensus        82 ~~--~~~----~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~  155 (302)
                      .-  ++.    +++.++......  +...+.+- -.. .+.-+ .+-+.-.+++.       .+++++|.|.+.+.+.  
T Consensus        76 ~i~~~~~~~~~~~v~elL~~Vgl--~~~~~~ry-Phe-lSGGQ-rQRi~IARALa-------l~P~liV~DEpvSaLD--  141 (268)
T COG4608          76 DITKLSKEERRERVLELLEKVGL--PEEFLYRY-PHE-LSGGQ-RQRIGIARALA-------LNPKLIVADEPVSALD--  141 (268)
T ss_pred             chhhcchhHHHHHHHHHHHHhCC--CHHHhhcC-Ccc-cCchh-hhhHHHHHHHh-------hCCcEEEecCchhhcc--
Confidence            31  122    334444444321  11111110 011 11111 11222222333       2459999999888652  


Q ss_pred             cCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          156 FDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       156 ~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                             ...+    .++++.|+.+.++++++.+++.|.-.
T Consensus       142 -------vSiq----aqIlnLL~dlq~~~~lt~lFIsHDL~  171 (268)
T COG4608         142 -------VSVQ----AQILNLLKDLQEELGLTYLFISHDLS  171 (268)
T ss_pred             -------hhHH----HHHHHHHHHHHHHhCCeEEEEEEEHH
Confidence                   2222    36789999999999999999999543

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

Probab=98.90  E-value=2.8e-09  Score=90.41  Aligned_cols=150  Identities=13%  Similarity=0.165  Sum_probs=81.4

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHH-----HHHHHh
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLH-----QLSHTF   96 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~-----~i~~~~   96 (302)
                      ...|+.+ +--+++|+++.|+||+|||||||+..+ ....-|  .+    ..++|+...  .++...+.     .++.-|
T Consensus        18 ~~~L~~v-~l~i~~Ge~vaI~GpSGSGKSTLLnii-g~ld~p--t~----G~v~i~g~d~~~l~~~~~~~~R~~~iGfvF   89 (226)
T COG1136          18 VEALKDV-NLEIEAGEFVAIVGPSGSGKSTLLNLL-GGLDKP--TS----GEVLINGKDLTKLSEKELAKLRRKKIGFVF   89 (226)
T ss_pred             eEecccc-eEEEcCCCEEEEECCCCCCHHHHHHHH-hcccCC--CC----ceEEECCEEcCcCCHHHHHHHHHHhEEEEC
Confidence            3456554 457899999999999999999998555 444333  33    346666532  33333322     222223


Q ss_pred             CCCCC---CCCCCcEEE----EeCCC--HHH-HHHHHHH--HHHHHH-hc----------------cCCCCCeeEEEEec
Q 022155           97 RPSND---HNPCDYIFV----QSVHS--VDQ-LLDIMPK--IESFIK-NS----------------SNSRLPIRLIVIDS  147 (302)
Q Consensus        97 ~~~~~---~~~l~~i~~----~~~~~--~~~-l~~~l~~--l~~~l~-~~----------------~~~~~~~~lvVIDs  147 (302)
                      +.++.   -++.+|+.+    .....  ... ..+++..  +..... ..                +.. .++++|+-|+
T Consensus        90 Q~~nLl~~ltv~ENv~lpl~~~~~~~~~~~~~~~~l~~~lgl~~~~~~~~p~eLSGGqqQRVAIARAL~-~~P~iilADE  168 (226)
T COG1136          90 QNFNLLPDLTVLENVELPLLIAGKSAGRRKRAAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIARALI-NNPKIILADE  168 (226)
T ss_pred             ccCCCCCCCCHHHHHHhHHHHcCCChhHHHHHHHHHHHhcCChhhhccCCchhcCHHHHHHHHHHHHHh-cCCCeEEeeC
Confidence            33321   234556553    11111  011 1111111  110100 00                011 2348888888


Q ss_pred             hhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccc
Q 022155          148 IAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV  195 (302)
Q Consensus       148 i~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~  195 (302)
                      .+.-...         ..    -..++..|++++++++.|||+++|..
T Consensus       169 PTgnLD~---------~t----~~~V~~ll~~~~~~~g~tii~VTHd~  203 (226)
T COG1136         169 PTGNLDS---------KT----AKEVLELLRELNKERGKTIIMVTHDP  203 (226)
T ss_pred             ccccCCh---------HH----HHHHHHHHHHHHHhcCCEEEEEcCCH
Confidence            8864311         11    24778889999999999999999964

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

Probab=98.89  E-value=1.1e-08  Score=85.05  Aligned_cols=145  Identities=13%  Similarity=0.203  Sum_probs=86.6

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC---HHHH-HHHHHHhCCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP---MRRL-HQLSHTFRPS   99 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~---~~rl-~~i~~~~~~~   99 (302)
                      ...|+.+ +--+.+|+++.|+||||||||||+..+.....   ..+    .-++|+.+....   ..++ ++++..|+.+
T Consensus        15 ~~VLkgi-~l~v~~Gevv~iiGpSGSGKSTlLRclN~LE~---~~~----G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~f   86 (240)
T COG1126          15 KEVLKGI-SLSVEKGEVVVIIGPSGSGKSTLLRCLNGLEE---PDS----GSITVDGEDVGDKKDILKLRRKVGMVFQQF   86 (240)
T ss_pred             eEEecCc-ceeEcCCCEEEEECCCCCCHHHHHHHHHCCcC---CCC----ceEEECCEeccchhhHHHHHHhcCeecccc
Confidence            3345554 44689999999999999999999998865432   333    469999864322   2223 2344445544


Q ss_pred             CC---CCCCCcEEEEeC----CCHHHHHHHHHHHHHHHHhc-------------------------cCCCCCeeEEEEec
Q 022155          100 ND---HNPCDYIFVQSV----HSVDQLLDIMPKIESFIKNS-------------------------SNSRLPIRLIVIDS  147 (302)
Q Consensus       100 ~~---~~~l~~i~~~~~----~~~~~l~~~l~~l~~~l~~~-------------------------~~~~~~~~lvVIDs  147 (302)
                      +.   .++++|+.....    .+.++..+   ...++++.+                         +.. .+++++..|.
T Consensus        87 nLFPHlTvleNv~lap~~v~~~~k~eA~~---~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALa-M~P~vmLFDE  162 (240)
T COG1126          87 NLFPHLTVLENVTLAPVKVKKLSKAEARE---KALELLEKVGLADKADAYPAQLSGGQQQRVAIARALA-MDPKVMLFDE  162 (240)
T ss_pred             cccccchHHHHHHhhhHHHcCCCHHHHHH---HHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHc-CCCCEEeecC
Confidence            32   256677655321    12222111   111111110                         011 2458888898


Q ss_pred             hhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          148 IAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       148 i~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      .++.+..+             +..+++..++.||++ +.|+|+++|-
T Consensus       163 PTSALDPE-------------lv~EVL~vm~~LA~e-GmTMivVTHE  195 (240)
T COG1126         163 PTSALDPE-------------LVGEVLDVMKDLAEE-GMTMIIVTHE  195 (240)
T ss_pred             CcccCCHH-------------HHHHHHHHHHHHHHc-CCeEEEEech
Confidence            88865332             256888899999976 8999999885

>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.89  E-value=4.7e-09  Score=92.50  Aligned_cols=66  Identities=17%  Similarity=0.268  Sum_probs=43.4

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHH
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQL   92 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i   92 (302)
                      +..+|.+ +-.+.+|+++.|+|+||||||++++.++...  |...+...+.-++++.++  .++.++++++
T Consensus        18 v~av~~v-s~~i~~GE~lgiVGESGsGKS~~~~aim~ll--p~~~~~i~~G~i~f~g~~l~~l~~~~~~~i   85 (316)
T COG0444          18 VKAVDGV-SFELKKGEILGIVGESGSGKSVLAKAIMGLL--PKPNARIVGGEILFDGKDLLSLSEKELRKI   85 (316)
T ss_pred             EEEEece-eEEEcCCcEEEEEcCCCCCHHHHHHHHHhcc--CCCCCeEeeeEEEECCcccccCCHHHHHhh
Confidence            4567766 5679999999999999999999999998864  311111111245666654  3444444333

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

Probab=98.88  E-value=3e-09  Score=90.45  Aligned_cols=150  Identities=13%  Similarity=0.152  Sum_probs=84.4

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC--CCHHHHH-HHHHHhCC-
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP--FPMRRLH-QLSHTFRP-   98 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~--~~~~rl~-~i~~~~~~-   98 (302)
                      +-..+|++ +--|+.|+++.|.|||||||||++..+-+..  .+..|     -++|+.+..  .+...|+ .|+-..+. 
T Consensus        13 ~~~av~~v-~l~I~~gef~vliGpSGsGKTTtLkMINrLi--ept~G-----~I~i~g~~i~~~d~~~LRr~IGYviQqi   84 (309)
T COG1125          13 NKKAVDDV-NLTIEEGEFLVLIGPSGSGKTTTLKMINRLI--EPTSG-----EILIDGEDISDLDPVELRRKIGYVIQQI   84 (309)
T ss_pred             Cceeeeee-eEEecCCeEEEEECCCCCcHHHHHHHHhccc--CCCCc-----eEEECCeecccCCHHHHHHhhhhhhhhc
Confidence            44566765 5679999999999999999999998776553  33333     589998863  3444443 34443332 


Q ss_pred             -CCC-CCCCCcEEEEe---CCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEec--hhhhhhhccCCChhhHHHHHHHH-
Q 022155           99 -SND-HNPCDYIFVQS---VHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDS--IAALFRSDFDNTMDDLKKRSFLF-  170 (302)
Q Consensus        99 -~~~-~~~l~~i~~~~---~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDs--i~~~~~~~~~~~~~~~~~r~~~l-  170 (302)
                       ..| .++.+||-+..   -++.+...+-..++.++             +=+|+  +..-|+.+++++.   ++|.-++ 
T Consensus        85 gLFPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~l-------------vgL~p~~~~~RyP~eLSGGQ---QQRVGv~R  148 (309)
T COG1125          85 GLFPHLTVAENIATVPKLLGWDKERIKKRADELLDL-------------VGLDPSEYADRYPHELSGGQ---QQRVGVAR  148 (309)
T ss_pred             ccCCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHH-------------hCCCHHHHhhcCchhcCcch---hhHHHHHH
Confidence             112 24556655432   23434333322222221             11222  2222334444332   2222111 


Q ss_pred             -----------------------HHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          171 -----------------------FKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       171 -----------------------~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                                             .++-..++++.++.+.|+|+++|..+
T Consensus       149 ALAadP~ilLMDEPFgALDpI~R~~lQ~e~~~lq~~l~kTivfVTHDid  197 (309)
T COG1125         149 ALAADPPILLMDEPFGALDPITRKQLQEEIKELQKELGKTIVFVTHDID  197 (309)
T ss_pred             HHhcCCCeEeecCCccccChhhHHHHHHHHHHHHHHhCCEEEEEecCHH
Confidence                                   23345578888899999999999654

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

Probab=98.86  E-value=6.4e-09  Score=88.04  Aligned_cols=50  Identities=28%  Similarity=0.339  Sum_probs=36.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ..++.+ .--+.+|+++.|+|++||||||++..++.... | ..|     .++++...
T Consensus        21 ~~l~~V-S~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~-p-~~G-----~I~~~G~~   70 (252)
T COG1124          21 HALNNV-SLEIERGETLGIVGESGSGKSTLARLLAGLEK-P-SSG-----SILLDGKP   70 (252)
T ss_pred             hhhcce-eEEecCCCEEEEEcCCCCCHHHHHHHHhcccC-C-CCc-----eEEECCcc
Confidence            345544 34689999999999999999999998887542 2 233     57777653

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.82  E-value=1.8e-08  Score=84.87  Aligned_cols=165  Identities=15%  Similarity=0.208  Sum_probs=98.5

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHH
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMR   87 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~   87 (302)
                      .++.+.....+|-|-..|+++ +--|++|+++.|.|++|+|||||+..+...+  ++..|     -+++...+  .....
T Consensus         3 ~i~~~nl~k~yp~~~~aL~~V-nl~I~~GE~VaiIG~SGaGKSTLLR~lngl~--d~t~G-----~i~~~g~~i~~~~~k   74 (258)
T COG3638           3 MIEVKNLSKTYPGGHQALKDV-NLEINQGEMVAIIGPSGAGKSTLLRSLNGLV--DPTSG-----EILFNGVQITKLKGK   74 (258)
T ss_pred             eEEEeeeeeecCCCceeeeeE-eEEeCCCcEEEEECCCCCcHHHHHHHHhccc--CCCcc-----eEEecccchhccchH
Confidence            345555666777888899987 6789999999999999999999999998854  32333     46666654  23333


Q ss_pred             HHHHHHHH----hCCCCC---CCCCCcEEEEe------------CCCHHHHHHHHHHHHH------HHHhc---------
Q 022155           88 RLHQLSHT----FRPSND---HNPCDYIFVQS------------VHSVDQLLDIMPKIES------FIKNS---------  133 (302)
Q Consensus        88 rl~~i~~~----~~~~~~---~~~l~~i~~~~------------~~~~~~l~~~l~~l~~------~l~~~---------  133 (302)
                      .++++...    |+..+.   ..+++|+...+            .++.++-..++..++.      .+.+.         
T Consensus        75 ~lr~~r~~iGmIfQ~~nLv~r~sv~~NVl~grl~~~s~~~slfglfsk~dk~~Al~aLervgi~~~A~qra~~LSGGQQQ  154 (258)
T COG3638          75 ELRKLRRDIGMIFQQFNLVPRLSVLENVLLGRLGYTSTWRSLFGLFSKEDKAQALDALERVGILDKAYQRASTLSGGQQQ  154 (258)
T ss_pred             HHHHHHHhceeEeccCCcccccHHHHHHHhhhcccchHHHHHhCCCCHHHHHHHHHHHHHcCcHHHHHHHhccCCcchhH
Confidence            34443333    332221   12344443321            2233322222221110      00000         


Q ss_pred             ------cCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          134 ------SNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       134 ------~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                            ... .++++|.-|+..+-+..        ..     -..++..|++++++.++|||+.-|..+
T Consensus       155 RVaIARaL~-Q~pkiILADEPvasLDp--------~~-----a~~Vm~~l~~in~~~g~Tvi~nLH~vd  209 (258)
T COG3638         155 RVAIARALV-QQPKIILADEPVASLDP--------ES-----AKKVMDILKDINQEDGITVIVNLHQVD  209 (258)
T ss_pred             HHHHHHHHh-cCCCEEecCCcccccCh--------hh-----HHHHHHHHHHHHHHcCCEEEEEechHH
Confidence                  011 24588888887663311        11     247889999999999999999999754

>PF13479 AAA_24: AAA domain

Probab=98.81  E-value=4.6e-08  Score=83.38  Aligned_cols=123  Identities=21%  Similarity=0.192  Sum_probs=77.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVD  117 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~  117 (302)
                      +-.+.|+|+||+|||+||..+      +        +++|||+|.....  +.             .+.+.-...+.+.+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~------~--------k~l~id~E~g~~~--~~-------------~~~~~~~i~i~s~~   53 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL------P--------KPLFIDTENGSDS--LK-------------FLDDGDVIPITSWE   53 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC------C--------CeEEEEeCCCccc--hh-------------hhcCCCeeCcCCHH
Confidence            446899999999999999755      1        7899999975321  10             11122334455777


Q ss_pred             HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhh---ccC----------CCh---hhHHHHHHHHHHHHHHHHHHH
Q 022155          118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRS---DFD----------NTM---DDLKKRSFLFFKISGMLKAMA  181 (302)
Q Consensus       118 ~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~---~~~----------~~~---~~~~~r~~~l~~l~~~L~~la  181 (302)
                      ++.+.+..+.+..       .+.+.|||||++.+...   ...          +.+   .....-.   ..+.+.++++.
T Consensus        54 ~~~~~~~~l~~~~-------~~y~tiVIDsis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yg~~~---~~~~~~i~~l~  123 (213)
T PF13479_consen   54 DFLEALDELEEDE-------ADYDTIVIDSISWLEDMCLEYICRQNKKKIKRSGDPDYGKGYGELQ---QEFMRFIDKLL  123 (213)
T ss_pred             HHHHHHHHHHhcc-------CCCCEEEEECHHHHHHHHHHHHhhhhcccccccCCCcccchHHHHH---HHHHHHHHHHH
Confidence            7777666554432       47899999999997432   111          010   0112212   23444455566


Q ss_pred             HHcCcEEEEEecccccCC
Q 022155          182 VGFGLAVLVTNQVVDLME  199 (302)
Q Consensus       182 ~~~~~~viv~n~~~~~~~  199 (302)
                      +..++.||+|.|......
T Consensus       124 ~~~~~~VI~tah~~~~~~  141 (213)
T PF13479_consen  124 NALGKNVIFTAHAKEEED  141 (213)
T ss_pred             HHCCCcEEEEEEEEEEEc
Confidence            678999999999876554

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.80  E-value=1.7e-07  Score=75.13  Aligned_cols=154  Identities=15%  Similarity=0.197  Sum_probs=91.8

Q ss_pred             cccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhC
Q 022155           20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFR   97 (302)
Q Consensus        20 i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~   97 (302)
                      ..++-+.||.+ .-.+.+|+.+.|.||+|||||||..++|...  ++..     ..+|+.+|.  +..++.+++-...+.
T Consensus        12 ~a~~a~il~~i-sl~v~~Ge~iaitGPSG~GKStllk~va~Li--sp~~-----G~l~f~Ge~vs~~~pea~Rq~VsY~~   83 (223)
T COG4619          12 LAGDAKILNNI-SLSVRAGEFIAITGPSGCGKSTLLKIVASLI--SPTS-----GTLLFEGEDVSTLKPEAYRQQVSYCA   83 (223)
T ss_pred             hcCCCeeecce-eeeecCCceEEEeCCCCccHHHHHHHHHhcc--CCCC-----ceEEEcCccccccChHHHHHHHHHHH
Confidence            35566677776 5678999999999999999999998887653  3233     468888775  455666544332221


Q ss_pred             ---CCCCCCCCCcEEEE-----eCCCHHHHHHHHHHH---------------------HHHHHhccCCCCCeeEEEEech
Q 022155           98 ---PSNDHNPCDYIFVQ-----SVHSVDQLLDIMPKI---------------------ESFIKNSSNSRLPIRLIVIDSI  148 (302)
Q Consensus        98 ---~~~~~~~l~~i~~~-----~~~~~~~l~~~l~~l---------------------~~~l~~~~~~~~~~~lvVIDsi  148 (302)
                         ....+.+.||+.+.     +-++.....+++.+.                     -.++..  . ...++++.+|.+
T Consensus        84 Q~paLfg~tVeDNlifP~~~r~rr~dr~aa~~llar~~l~~~~L~k~it~lSGGE~QriAliR~--L-q~~P~ILLLDE~  160 (223)
T COG4619          84 QTPALFGDTVEDNLIFPWQIRNRRPDRAAALDLLARFALPDSILTKNITELSGGEKQRIALIRN--L-QFMPKILLLDEI  160 (223)
T ss_pred             cCccccccchhhccccchHHhccCCChHHHHHHHHHcCCchhhhcchhhhccchHHHHHHHHHH--h-hcCCceEEecCc
Confidence               12234566666542     112333333333211                     011100  0 134599999999


Q ss_pred             hhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccccc
Q 022155          149 AALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL  197 (302)
Q Consensus       149 ~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~  197 (302)
                      ++.+...        ..|     .+-..+.++.++.+++|+-++|..+.
T Consensus       161 TsALD~~--------nkr-----~ie~mi~~~v~~q~vAv~WiTHd~dq  196 (223)
T COG4619         161 TSALDES--------NKR-----NIEEMIHRYVREQNVAVLWITHDKDQ  196 (223)
T ss_pred             hhhcChh--------hHH-----HHHHHHHHHhhhhceEEEEEecChHH
Confidence            9865211        222     33344555566889999999997554

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

Probab=98.80  E-value=4.4e-08  Score=84.43  Aligned_cols=37  Identities=19%  Similarity=0.336  Sum_probs=31.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+++ +--+++|+++.|.||+|+|||||+..++...
T Consensus        18 ~vl~~i-~l~v~~G~~~~iiGPNGaGKSTLlK~iLGll   54 (254)
T COG1121          18 PVLEDI-SLSVEKGEITALIGPNGAGKSTLLKAILGLL   54 (254)
T ss_pred             eeeecc-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            467766 5679999999999999999999999888754

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

Probab=98.80  E-value=1.6e-07  Score=75.76  Aligned_cols=69  Identities=17%  Similarity=0.090  Sum_probs=48.7

Q ss_pred             CccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155            6 TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++++|++.......+. +..+.+++ .--+.+|++..|+|++|||||||+..++..+  ++..|    .+.|..-.+
T Consensus         2 ~~~PLL~V~~lsk~Yg-~~~gc~~v-sF~l~PGeVLgiVGESGSGKtTLL~~is~rl--~p~~G----~v~Y~~r~~   70 (258)
T COG4107           2 MDKPLLSVSGLSKLYG-PGKGCRDV-SFDLYPGEVLGIVGESGSGKTTLLKCISGRL--TPDAG----TVTYRMRDG   70 (258)
T ss_pred             CCCcceeehhhhhhhC-CCcCcccc-ceeecCCcEEEEEecCCCcHHhHHHHHhccc--CCCCC----eEEEEcCCC
Confidence            4455776666555444 33344444 3468999999999999999999999888775  33444    788877554

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

Probab=98.77  E-value=1e-07  Score=78.11  Aligned_cols=91  Identities=18%  Similarity=0.211  Sum_probs=54.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQL  119 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l  119 (302)
                      ++.|.|++|||||+||.+++..      .++   +++|+.+...++.+--+.+.... ...+.    ......  ...++
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~------~~~---~~~y~at~~~~d~em~~rI~~H~-~~R~~----~w~t~E--~~~~l   64 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE------LGG---PVTYIATAEAFDDEMAERIARHR-KRRPA----HWRTIE--TPRDL   64 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh------cCC---CeEEEEccCcCCHHHHHHHHHHH-HhCCC----CceEee--cHHHH
Confidence            4789999999999999999765      233   79999999888765333333221 11111    111111  11222


Q ss_pred             HHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccC
Q 022155          120 LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFD  157 (302)
Q Consensus       120 ~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~  157 (302)
                      .+       .+.+    ..+.+.|+||+++.+....+.
T Consensus        65 ~~-------~l~~----~~~~~~VLIDclt~~~~n~l~   91 (169)
T cd00544          65 VS-------ALKE----LDPGDVVLIDCLTLWVTNLLF   91 (169)
T ss_pred             HH-------HHHh----cCCCCEEEEEcHhHHHHHhCC
Confidence            22       2222    113478999999998766544

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.

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

Probab=98.77  E-value=1.6e-08  Score=88.37  Aligned_cols=152  Identities=13%  Similarity=0.233  Sum_probs=91.5

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHH----HHHHh
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQ----LSHTF   96 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~----i~~~~   96 (302)
                      ....||++ .--+++|+++.|.|.||+|||||...+-..- -  +..    .-+++++.+  .++...+++    ++.-|
T Consensus        18 ~~~al~~v-sL~I~~GeI~GIIG~SGAGKSTLiR~iN~Le-~--Pts----G~v~v~G~di~~l~~~~Lr~~R~~IGMIF   89 (339)
T COG1135          18 TVTALDDV-SLEIPKGEIFGIIGYSGAGKSTLLRLINLLE-R--PTS----GSVFVDGQDLTALSEAELRQLRQKIGMIF   89 (339)
T ss_pred             ceeeeccc-eEEEcCCcEEEEEcCCCCcHHHHHHHHhccC-C--CCC----ceEEEcCEecccCChHHHHHHHhhccEEe
Confidence            35678876 5579999999999999999999998774432 2  333    247777654  344443433    33333


Q ss_pred             CCC---CCCCCCCcEEEE---eCCCHHHHHHHHHHHHHHH------Hhc----------------cCCCCCeeEEEEech
Q 022155           97 RPS---NDHNPCDYIFVQ---SVHSVDQLLDIMPKIESFI------KNS----------------SNSRLPIRLIVIDSI  148 (302)
Q Consensus        97 ~~~---~~~~~l~~i~~~---~~~~~~~l~~~l~~l~~~l------~~~----------------~~~~~~~~lvVIDsi  148 (302)
                      +.+   ...++.+|+-+.   .-.+.++..+-+.++.++.      ...                +... +++++..|..
T Consensus        90 QhFnLLssrTV~~NvA~PLeiag~~k~ei~~RV~elLelVgL~dk~~~yP~qLSGGQKQRVaIARALa~-~P~iLL~DEa  168 (339)
T COG1135          90 QHFNLLSSRTVFENVAFPLELAGVPKAEIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARALAN-NPKILLCDEA  168 (339)
T ss_pred             ccccccccchHHhhhhhhHhhcCCCHHHHHHHHHHHHHHcCChhhhccCchhcCcchhhHHHHHHHHhc-CCCEEEecCc
Confidence            332   234566676552   1122233322222221111      000                1122 3489999998


Q ss_pred             hhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          149 AALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       149 ~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      ++....+         .    -..++..|+++.+++++||++++|-.+
T Consensus       169 TSALDP~---------T----T~sIL~LL~~In~~lglTIvlITHEm~  203 (339)
T COG1135         169 TSALDPE---------T----TQSILELLKDINRELGLTIVLITHEME  203 (339)
T ss_pred             cccCChH---------H----HHHHHHHHHHHHHHcCCEEEEEechHH
Confidence            8865321         1    347889999999999999999999543

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.76  E-value=4.2e-09  Score=89.21  Aligned_cols=165  Identities=15%  Similarity=0.215  Sum_probs=96.3

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHH
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMR   87 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~   87 (302)
                      +++.+....++- |+..+|++ +--+.+|+++.|.||+|+||||+...+...+.   +.+|    .+++..+.  ..++.
T Consensus         4 lL~v~~l~k~FG-Gl~Al~~V-sl~v~~Gei~~LIGPNGAGKTTlfNlitG~~~---P~~G----~v~~~G~~it~l~p~   74 (250)
T COG0411           4 LLEVRGLSKRFG-GLTAVNDV-SLEVRPGEIVGLIGPNGAGKTTLFNLITGFYK---PSSG----TVIFRGRDITGLPPH   74 (250)
T ss_pred             eeeeccceeecC-CEEEEece-eEEEcCCeEEEEECCCCCCceeeeeeeccccc---CCCc----eEEECCcccCCCCHH
Confidence            344444444444 67778877 56789999999999999999999987777652   2333    46666553  45555


Q ss_pred             HHHHHHH--HhCCCCC---CCCCCcEEEEeC------------CCHHHHHHHHHHHHHHHHhc-----------------
Q 022155           88 RLHQLSH--TFRPSND---HNPCDYIFVQSV------------HSVDQLLDIMPKIESFIKNS-----------------  133 (302)
Q Consensus        88 rl~~i~~--~~~~~~~---~~~l~~i~~~~~------------~~~~~l~~~l~~l~~~l~~~-----------------  133 (302)
                      ++..++.  .|+...+   .++++|+.+...            ....+..+...+...+++..                 
T Consensus        75 ~iar~Gi~RTFQ~~rlF~~lTVlENv~va~~~~~~~~~~l~~~~~~~~e~~~~e~A~~~Le~vgL~~~a~~~A~~LsyG~  154 (250)
T COG0411          75 RIARLGIARTFQITRLFPGLTVLENVAVGAHARLGLSGLLGRPRARKEEREARERARELLEFVGLGELADRPAGNLSYGQ  154 (250)
T ss_pred             HHHhccceeecccccccCCCcHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHHHcCCchhhcchhhcCChhH
Confidence            5444333  2432221   245555544211            00001111222222222111                 


Q ss_pred             --------cCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccccc
Q 022155          134 --------SNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL  197 (302)
Q Consensus       134 --------~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~  197 (302)
                              ... ..++++.+|+..+=....         +    ..++...++++.++.+++|+++-|..+-
T Consensus       155 qR~LEIArALa-~~P~lLLLDEPaAGln~~---------e----~~~l~~~i~~i~~~~g~tillIEHdM~~  212 (250)
T COG0411         155 QRRLEIARALA-TQPKLLLLDEPAAGLNPE---------E----TEELAELIRELRDRGGVTILLIEHDMKL  212 (250)
T ss_pred             hHHHHHHHHHh-cCCCEEEecCccCCCCHH---------H----HHHHHHHHHHHHhcCCcEEEEEEeccHH
Confidence                    111 235999999998844321         1    3467788888888899999999997653

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

Probab=98.74  E-value=3.8e-07  Score=82.29  Aligned_cols=188  Identities=20%  Similarity=0.239  Sum_probs=111.3

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh-CCCCCCCCCC-------
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF-RPSNDHNPCD-------  106 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~-~~~~~~~~l~-------  106 (302)
                      ...|+...|-|.||+|||+|++.++....   ..+    .++||++-  .++.++.++.-.. ....+..+++       
T Consensus         7 ~~~G~TLLIKG~PGTGKTtfaLelL~~l~---~~~----~v~YISTR--Vd~d~vy~~y~~~~~~i~~~~vlDatQd~~~   77 (484)
T PF07088_consen    7 QEPGQTLLIKGEPGTGKTTFALELLNSLK---DHG----NVMYISTR--VDQDTVYEMYPWIEESIDPTNVLDATQDPFE   77 (484)
T ss_pred             CCCCcEEEEecCCCCCceeeehhhHHHHh---ccC----CeEEEEec--cCHHHHHHhhhhhccccChhhhhhhccchhh
Confidence            45799999999999999999999988763   222    68999977  4455655433110 0001101110       


Q ss_pred             ----cEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHH
Q 022155          107 ----YIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAV  182 (302)
Q Consensus       107 ----~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~  182 (302)
                          ...-......+.+.++++++....        ..-+|++||..+++..- ..   ....+.. +..+.+.|-.+|+
T Consensus        78 ~~~~~~vp~~~l~~ds~~~f~~~i~~~~--------k~~iI~~DSWdaiieyl-a~---~~~~~ed-~e~l~~dLv~lar  144 (484)
T PF07088_consen   78 LPLDKDVPFERLDIDSFRDFVDKINEAG--------KKPIIAFDSWDAIIEYL-AE---EHDEPED-IETLTNDLVELAR  144 (484)
T ss_pred             ccccccCcccccCHHHHHHHHHHhhhcc--------cCcEEEEecHHHHHHHh-hh---hhcCcHH-HHHHHHHHHHHHh
Confidence                111111234556666666554322        33899999966655311 10   0111222 3566677778899


Q ss_pred             HcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCCCCCC
Q 022155          183 GFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSG  262 (302)
Q Consensus       183 ~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~  262 (302)
                      ..++-+|++.+..+...                              ..|.++-.+-|.-...    ++    |      
T Consensus       145 d~g~~LIlVsEsa~~~~------------------------------LdYivDGVVTL~v~~d----er----G------  180 (484)
T PF07088_consen  145 DMGINLILVSESAENEP------------------------------LDYIVDGVVTLQVKND----ER----G------  180 (484)
T ss_pred             hcCceEEEEEecCCCCc------------------------------chheeeeEEEEEeccc----cC----C------
Confidence            99999999988754322                              2356777777732222    11    2      


Q ss_pred             CCCcccccceEEEEEEECCCCC--CceeeEEEecC
Q 022155          263 SEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITRE  295 (302)
Q Consensus       263 ~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~  295 (302)
                             ...|.+++.|-++..  .....|..-+.
T Consensus       181 -------R~~R~L~LeKLRGV~I~q~~Y~fTL~nG  208 (484)
T PF07088_consen  181 -------RTRRYLRLEKLRGVRIKQRLYPFTLANG  208 (484)
T ss_pred             -------ceEEEEEehhhcCcccCCccceEEeeCC
Confidence                   578999999988774  33455555443

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

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

Probab=98.73  E-value=9.8e-09  Score=92.20  Aligned_cols=146  Identities=10%  Similarity=0.169  Sum_probs=79.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCC--CC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPS--ND  101 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~--~~  101 (302)
                      .++.+ +--+..|+++.|.||+||||||++..||....   ..+    +-++|+.+.  .++++. +.++..|+..  .|
T Consensus        18 ~l~~i-~l~i~~Gef~vllGPSGcGKSTlLr~IAGLe~---~~~----G~I~i~g~~vt~l~P~~-R~iamVFQ~yALyP   88 (338)
T COG3839          18 VLKDV-NLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEE---PTS----GEILIDGRDVTDLPPEK-RGIAMVFQNYALYP   88 (338)
T ss_pred             eeecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCCC---CCC----ceEEECCEECCCCChhH-CCEEEEeCCccccC
Confidence            44443 44688999999999999999999999988642   233    358888764  333322 3344434322  12


Q ss_pred             C-CCCCcEEEE-eC--CCHHHHHHHHHH------HHHHHHhc----------------cCCCCCeeEEEEechhhhhhhc
Q 022155          102 H-NPCDYIFVQ-SV--HSVDQLLDIMPK------IESFIKNS----------------SNSRLPIRLIVIDSIAALFRSD  155 (302)
Q Consensus       102 ~-~~l~~i~~~-~~--~~~~~l~~~l~~------l~~~l~~~----------------~~~~~~~~lvVIDsi~~~~~~~  155 (302)
                      . ++.+|+-+. ..  ...+++..-+.+      |..++.+.                +.- ..++++.+|...+-.   
T Consensus        89 hmtV~~Niaf~Lk~~~~~k~ei~~rV~eva~~L~l~~lL~r~P~~LSGGQrQRVAlaRAlV-r~P~v~L~DEPlSnL---  164 (338)
T COG3839          89 HMTVYENIAFGLKLRGVPKAEIDKRVKEVAKLLGLEHLLNRKPLQLSGGQRQRVALARALV-RKPKVFLLDEPLSNL---  164 (338)
T ss_pred             CCcHHHHhhhhhhhCCCchHHHHHHHHHHHHHcCChhHHhcCcccCChhhHHHHHHHHHHh-cCCCEEEecCchhHh---
Confidence            2 444555431 11  111222111111      11222111                011 234777888765522   


Q ss_pred             cCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          156 FDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       156 ~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                              +.+.+.  .+-..|+++-++.++|+|+++|.
T Consensus       165 --------Da~lR~--~mr~ei~~lh~~l~~T~IYVTHD  193 (338)
T COG3839         165 --------DAKLRV--LMRSEIKKLHERLGTTTIYVTHD  193 (338)
T ss_pred             --------hHHHHH--HHHHHHHHHHHhcCCcEEEEcCC
Confidence                    222111  44556778888999999999983

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

Probab=98.72  E-value=4.7e-08  Score=82.23  Aligned_cols=142  Identities=13%  Similarity=0.240  Sum_probs=86.1

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCCC-----CCCCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPSN-----DHNPC  105 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~~-----~~~~l  105 (302)
                      --+++|+++.|.|++|+||||++..++...  + ...|    .+.++.++  ..++.+....+..+..+.     .-++.
T Consensus        24 l~v~~Geiv~llG~NGaGKTTlLkti~Gl~--~-~~~G----~I~~~G~dit~~p~~~r~r~Gi~~VPegR~iF~~LTVe   96 (237)
T COG0410          24 LEVERGEIVALLGRNGAGKTTLLKTIMGLV--R-PRSG----RIIFDGEDITGLPPHERARLGIAYVPEGRRIFPRLTVE   96 (237)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhCCC--C-CCCe----eEEECCeecCCCCHHHHHhCCeEeCcccccchhhCcHH
Confidence            468899999999999999999999998864  3 2232    35555553  345544444333322211     11333


Q ss_pred             CcEEEE--e-------CCCHHHHHHHHHHHHHHHHhc----------------cCCCCCeeEEEEechhhhhhhccCCCh
Q 022155          106 DYIFVQ--S-------VHSVDQLLDIMPKIESFIKNS----------------SNSRLPIRLIVIDSIAALFRSDFDNTM  160 (302)
Q Consensus       106 ~~i~~~--~-------~~~~~~l~~~l~~l~~~l~~~----------------~~~~~~~~lvVIDsi~~~~~~~~~~~~  160 (302)
                      +|+.+-  .       ..+.+++.+++..+.+...+.                +.-. .++++++|..+.=...      
T Consensus        97 ENL~~g~~~~~~~~~~~~~~e~v~~lFP~Lker~~~~aG~LSGGEQQMLAiaRALm~-~PklLLLDEPs~GLaP------  169 (237)
T COG0410          97 ENLLLGAYARRDKEAQERDLEEVYELFPRLKERRNQRAGTLSGGEQQMLAIARALMS-RPKLLLLDEPSEGLAP------  169 (237)
T ss_pred             HHHhhhhhcccccccccccHHHHHHHChhHHHHhcCcccCCChHHHHHHHHHHHHhc-CCCEEEecCCccCcCH------
Confidence            454431  0       011445555555544333221                0112 3599999998873321      


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccc
Q 022155          161 DDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV  195 (302)
Q Consensus       161 ~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~  195 (302)
                             .+..++...+++|.++.++||+++-|-.
T Consensus       170 -------~iv~~I~~~i~~l~~~~g~tIlLVEQn~  197 (237)
T COG0410         170 -------KIVEEIFEAIKELRKEGGMTILLVEQNA  197 (237)
T ss_pred             -------HHHHHHHHHHHHHHHcCCcEEEEEeccH
Confidence                   1256788889999988899999998854

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

Probab=98.70  E-value=2.6e-08  Score=81.31  Aligned_cols=50  Identities=16%  Similarity=0.109  Sum_probs=42.8

Q ss_pred             cCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           12 DNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.....++.|-+.|+++ +--|++|+++-|+||||+|||||+..+....
T Consensus         3 ~f~~V~k~Y~~g~~aL~~v-s~~i~~Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884           3 RFENVSKAYPGGREALRDV-SFHIPKGEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             eehhhhhhcCCCchhhhCc-eEeecCceEEEEECCCCCCHHHHHHHHHhhh
Confidence            3455667788887799998 5689999999999999999999999888876

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

Probab=98.68  E-value=5.5e-07  Score=74.11  Aligned_cols=49  Identities=18%  Similarity=0.318  Sum_probs=36.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .||.+ .--||+|.+|.|.||+|+|||||+-.+++.  ++...     ..+||+..+
T Consensus        16 vl~~i-sl~i~~g~iTs~IGPNGAGKSTLLS~~sRL--~~~d~-----G~i~i~g~~   64 (252)
T COG4604          16 VLDDV-SLDIPKGGITSIIGPNGAGKSTLLSMMSRL--LKKDS-----GEITIDGLE   64 (252)
T ss_pred             eeccc-eeeecCCceeEEECCCCccHHHHHHHHHHh--ccccC-----ceEEEeeee
Confidence            34554 346999999999999999999998655554  33333     468988764

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

Probab=98.68  E-value=9.1e-08  Score=85.48  Aligned_cols=38  Identities=21%  Similarity=0.165  Sum_probs=33.1

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...|+.+ +.-+++|+++.|.||+|+||||++..++...
T Consensus        18 ~~~l~~v-s~~i~~Gei~gllG~NGAGKTTllk~l~gl~   55 (293)
T COG1131          18 KTALDGV-SFEVEPGEIFGLLGPNGAGKTTLLKILAGLL   55 (293)
T ss_pred             CEEEece-eEEEcCCeEEEEECCCCCCHHHHHHHHhCCc
Confidence            4567776 6789999999999999999999998888765

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

Probab=98.67  E-value=2.7e-08  Score=85.66  Aligned_cols=52  Identities=15%  Similarity=0.100  Sum_probs=38.6

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.+.|+.+ +-.+.+|+.+.|.|++|||||||+..++...  ++..|     .++++...
T Consensus        16 ~~~~l~~v-~~~i~~Ge~~~i~G~nGsGKSTL~~~l~GLl--~p~~G-----~v~~~g~~   67 (235)
T COG1122          16 RKAALKDV-SLEIEKGERVLLIGPNGSGKSTLLKLLNGLL--KPTSG-----EVLVDGLD   67 (235)
T ss_pred             Cceeeeee-EEEECCCCEEEEECCCCCCHHHHHHHHcCcC--cCCCC-----EEEECCee
Confidence            33556555 5679999999999999999999999887764  32333     35777654

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

Probab=98.67  E-value=1.4e-07  Score=73.58  Aligned_cols=122  Identities=16%  Similarity=0.208  Sum_probs=73.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH-HHHHHHHhCCCCCCCCCCcEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR-LHQLSHTFRPSNDHNPCDYIFVQSVHS  115 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r-l~~i~~~~~~~~~~~~l~~i~~~~~~~  115 (302)
                      .+.++.|+|++|+|||+++.+++........... ...++|++....-.... ..++...+......          ..+
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~----------~~~   71 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKN-HPDVIYVNCPSSRTPRDFAQEILEALGLPLKS----------RQT   71 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCC-CEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS----------TS-
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccC-CCcEEEEEeCCCCCHHHHHHHHHHHhCccccc----------cCC
Confidence            4678999999999999999999988631000000 12789998765444444 35566655422211          233


Q ss_pred             HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          116 VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       116 ~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      ..++.   ..+.+.+.+     .+..+||||++..+.  .               ..+++.|+.+..+.++.+|++.+.
T Consensus        72 ~~~l~---~~~~~~l~~-----~~~~~lviDe~~~l~--~---------------~~~l~~l~~l~~~~~~~vvl~G~~  125 (131)
T PF13401_consen   72 SDELR---SLLIDALDR-----RRVVLLVIDEADHLF--S---------------DEFLEFLRSLLNESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHH---HHHHHHHHH-----CTEEEEEEETTHHHH--T---------------HHHHHHHHHHTCSCBEEEEEEESS
T ss_pred             HHHHH---HHHHHHHHh-----cCCeEEEEeChHhcC--C---------------HHHHHHHHHHHhCCCCeEEEEECh
Confidence            44433   444555554     444799999999854  1               144566677777899999998765

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

Probab=98.66  E-value=6.4e-08  Score=89.45  Aligned_cols=156  Identities=15%  Similarity=0.190  Sum_probs=96.3

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC-CCCH-H
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF-PFPM-R   87 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~-~~~~-~   87 (302)
                      ++..+.-.++++ |+-.+|.+ +-.+++|+|-.|.|++|+|||||+..+...++ | ..|     -+|++... .|.. .
T Consensus         4 ~l~~~~itK~f~-~~~And~V-~l~v~~GeIHaLLGENGAGKSTLm~iL~G~~~-P-~~G-----eI~v~G~~v~~~sP~   74 (501)
T COG3845           4 ALEMRGITKRFP-GVVANDDV-SLSVKKGEIHALLGENGAGKSTLMKILFGLYQ-P-DSG-----EIRVDGKEVRIKSPR   74 (501)
T ss_pred             eEEEeccEEEcC-CEEecCce-eeeecCCcEEEEeccCCCCHHHHHHHHhCccc-C-Ccc-----eEEECCEEeccCCHH
Confidence            344555566777 88889987 67899999999999999999999988877763 3 333     48888764 2322 2


Q ss_pred             HHH--HHHHHhCC---CCCCCCCCcEEEEeCC------CHHHHHHHHHH----------------------------HHH
Q 022155           88 RLH--QLSHTFRP---SNDHNPCDYIFVQSVH------SVDQLLDIMPK----------------------------IES  128 (302)
Q Consensus        88 rl~--~i~~~~~~---~~~~~~l~~i~~~~~~------~~~~l~~~l~~----------------------------l~~  128 (302)
                      ...  -|++.++.   ...-++++|+.+....      +.....+-+.+                            +..
T Consensus        75 dA~~~GIGMVhQHF~Lv~~lTV~ENiiLg~e~~~~~~~~~~~~~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKa  154 (501)
T COG3845          75 DAIRLGIGMVHQHFMLVPTLTVAENIILGLEPSKGGLIDRRQARARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKA  154 (501)
T ss_pred             HHHHcCCcEEeeccccccccchhhhhhhcCccccccccCHHHHHHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHH
Confidence            111  12222222   1122455666553321      11111111111                            111


Q ss_pred             HHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccc
Q 022155          129 FIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV  195 (302)
Q Consensus       129 ~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~  195 (302)
                      ++       .+.+++|+|..++.+...         +    ..+++..|++|++ .+.+||+++|--
T Consensus       155 Ly-------r~a~iLILDEPTaVLTP~---------E----~~~lf~~l~~l~~-~G~tIi~ITHKL  200 (501)
T COG3845         155 LY-------RGARLLILDEPTAVLTPQ---------E----ADELFEILRRLAA-EGKTIIFITHKL  200 (501)
T ss_pred             Hh-------cCCCEEEEcCCcccCCHH---------H----HHHHHHHHHHHHH-CCCEEEEEeccH
Confidence            22       356999999999976431         2    4577788888775 599999999943

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=98.65  E-value=3.5e-07  Score=75.83  Aligned_cols=137  Identities=13%  Similarity=0.199  Sum_probs=75.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHH-HH------HHHh
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLH-QL------SHTF   96 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~-~i------~~~~   96 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...  ++..|     .++++...  ..+..++. .+      ...+
T Consensus        14 ~l~~~-~~~i~~G~~~~l~G~nGsGKStLl~~i~G~~--~~~~G-----~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~   85 (180)
T cd03214          14 VLDDL-SLSIEAGEIVGILGPNGAGKSTLLKTLAGLL--KPSSG-----EILLDGKDLASLSPKELARKIAYVPQALELL   85 (180)
T ss_pred             eEeee-EEEECCCCEEEEECCCCCCHHHHHHHHhCCC--CCCCc-----EEEECCEECCcCCHHHHHHHHhHHHHHHHHc
Confidence            34443 4568899999999999999999998887753  32333     35666442  22222221 12      1111


Q ss_pred             CCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHH
Q 022155           97 RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM  176 (302)
Q Consensus        97 ~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~  176 (302)
                      ..   ...+++ .... .+.-+ ...+.-...++.       +++++++|+.++-+.         ...+    ..+.+.
T Consensus        86 gl---~~~~~~-~~~~-LS~G~-~qrl~laral~~-------~p~llllDEP~~~LD---------~~~~----~~~~~~  139 (180)
T cd03214          86 GL---AHLADR-PFNE-LSGGE-RQRVLLARALAQ-------EPPILLLDEPTSHLD---------IAHQ----IELLEL  139 (180)
T ss_pred             CC---HhHhcC-Cccc-CCHHH-HHHHHHHHHHhc-------CCCEEEEeCCccCCC---------HHHH----HHHHHH
Confidence            11   011111 0111 12111 112222233442       459999999887542         1222    355666


Q ss_pred             HHHHHHHcCcEEEEEecccc
Q 022155          177 LKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       177 L~~la~~~~~~viv~n~~~~  196 (302)
                      |++++++++.++|++.|-.+
T Consensus       140 l~~~~~~~~~tiii~sh~~~  159 (180)
T cd03214         140 LRRLARERGKTVVMVLHDLN  159 (180)
T ss_pred             HHHHHHhcCCEEEEEeCCHH
Confidence            77776666889999988754

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.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.63  E-value=1.8e-06  Score=73.54  Aligned_cols=124  Identities=16%  Similarity=0.167  Sum_probs=72.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVD  117 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~  117 (302)
                      ...+.|+|+||+|||++|.+++         +    +.+.++.+...  .++   .       .....+-+.+-.....+
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~---------~----~~~~~~~d~~~--~~l---~-------g~~~~~v~~~d~~~~~~   66 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP---------G----KTLVLSFDMSS--KVL---I-------GDENVDIADHDDMPPIQ   66 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC---------C----CCEEEeccccc--hhc---c-------CCCCCceeecCCCCCHH
Confidence            4679999999999999997662         1    46777777532  111   0       00011112222344556


Q ss_pred             HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccC-----CC-----hhhHHHHHHHHHHHHHHHHHHHHHcCcE
Q 022155          118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFD-----NT-----MDDLKKRSFLFFKISGMLKAMAVGFGLA  187 (302)
Q Consensus       118 ~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~-----~~-----~~~~~~r~~~l~~l~~~L~~la~~~~~~  187 (302)
                      ++.+.+..++...       .+.+.||||+++.+...-+.     +.     ..+....   -..+++.|+.|.. .+..
T Consensus        67 ~~~d~l~~~~~~~-------~~ydtVVIDsI~~l~~~~~~~~~r~~k~~~~~~~~yg~~---~~~fl~~l~~L~~-~g~n  135 (220)
T TIGR01618        67 AMVEFYVMQNIQA-------VKYDNIVIDNISALQNLWLENIGRAAKNGQPELQHYQKL---DLWFLDLLTVLKE-SNKN  135 (220)
T ss_pred             HHHHHHHHHHhcc-------ccCCEEEEecHHHHHHHHHHHHhhhcCCCCcccccHHHH---HHHHHHHHHHHHh-CCCc
Confidence            6666665443332       35799999999997652211     00     1122221   2245666777654 8999


Q ss_pred             EEEEeccccc
Q 022155          188 VLVTNQVVDL  197 (302)
Q Consensus       188 viv~n~~~~~  197 (302)
                      ||+|.|....
T Consensus       136 II~tAhe~~~  145 (220)
T TIGR01618       136 IYATAWELTN  145 (220)
T ss_pred             EEEEEeeccc
Confidence            9999998654

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.63  E-value=3.9e-07  Score=70.97  Aligned_cols=42  Identities=24%  Similarity=0.358  Sum_probs=33.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      +..+.|+||||+|||+++..++....   ..+   ..++|++.+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~---~~~---~~~~~~~~~~~~~   43 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELG---PPG---GGVIYIDGEDILE   43 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccC---CCC---CCEEEECCEEccc
Confidence            67899999999999999999988763   221   1589999886543

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.

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

Probab=98.62  E-value=2e-07  Score=77.19  Aligned_cols=140  Identities=17%  Similarity=0.257  Sum_probs=75.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC--CC--HHHHH-HHHHHhCCC-
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP--FP--MRRLH-QLSHTFRPS-   99 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~--~~--~~rl~-~i~~~~~~~-   99 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...  +...|     -++++....  .+  ..... .+...++.. 
T Consensus        15 ~l~~i-~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~--~~~~G-----~i~~~g~~~~~~~~~~~~~~~~i~~~~q~~~   86 (178)
T cd03229          15 VLNDV-SLNIEAGEIVALLGPSGSGKSTLLRCIAGLE--EPDSG-----SILIDGEDLTDLEDELPPLRRRIGMVFQDFA   86 (178)
T ss_pred             EEeee-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC--CCCce-----EEEECCEEccccchhHHHHhhcEEEEecCCc
Confidence            34443 4568899999999999999999999887653  32333     366654321  11  11111 111001100 


Q ss_pred             -C-CCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHH
Q 022155          100 -N-DHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGML  177 (302)
Q Consensus       100 -~-~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L  177 (302)
                       . .....+++...  .+.-+ ...+.-...++.       +++++++|+..+-+         |...+    ..+...|
T Consensus        87 ~~~~~t~~~~l~~~--lS~G~-~qr~~la~al~~-------~p~llilDEP~~~L---------D~~~~----~~l~~~l  143 (178)
T cd03229          87 LFPHLTVLENIALG--LSGGQ-QQRVALARALAM-------DPDVLLLDEPTSAL---------DPITR----REVRALL  143 (178)
T ss_pred             cCCCCCHHHheeec--CCHHH-HHHHHHHHHHHC-------CCCEEEEeCCcccC---------CHHHH----HHHHHHH
Confidence             0 00122222221  11111 111222233332       45999999988754         22222    3556777


Q ss_pred             HHHHHHcCcEEEEEecccc
Q 022155          178 KAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       178 ~~la~~~~~~viv~n~~~~  196 (302)
                      ++++++++.++|+++|-..
T Consensus       144 ~~~~~~~~~tiii~sH~~~  162 (178)
T cd03229         144 KSLQAQLGITVVLVTHDLD  162 (178)
T ss_pred             HHHHHhcCCEEEEEeCCHH
Confidence            7777766899999998654

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

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

Probab=98.62  E-value=6e-07  Score=73.66  Aligned_cols=92  Identities=17%  Similarity=0.253  Sum_probs=56.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ  118 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~  118 (302)
                      .++.|.|+||||||++|.+++...      +.   +++|+.|...++.+..+++...... .+    +.......+  .+
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~------~~---~~~~iat~~~~~~e~~~ri~~h~~~-R~----~~w~t~E~~--~~   65 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQS------GL---QVLYIATAQPFDDEMAARIAHHRQR-RP----AHWQTVEEP--LD   65 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc------CC---CcEeCcCCCCChHHHHHHHHHHHhc-CC----CCCeEeccc--cc
Confidence            578999999999999999997653      22   6899999877776554555443221 11    122222221  12


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhcc
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDF  156 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~  156 (302)
                      +..++   ....       .+.++|+||+++.+....+
T Consensus        66 l~~~i---~~~~-------~~~~~VlID~Lt~~~~n~l   93 (170)
T PRK05800         66 LAELL---RADA-------APGRCVLVDCLTTWVTNLL   93 (170)
T ss_pred             HHHHH---Hhhc-------CCCCEEEehhHHHHHHHHh
Confidence            32222   2222       1247899999999875443

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

Probab=98.59  E-value=9.9e-07  Score=71.94  Aligned_cols=127  Identities=16%  Similarity=0.216  Sum_probs=72.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC--CCHHHHHHHHHHhCCCCCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP--FPMRRLHQLSHTFRPSNDHN  103 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~--~~~~rl~~i~~~~~~~~~~~  103 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...  ++..|     .++++....  .+...   ..          
T Consensus        15 vl~~i-~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~--~~~~G-----~v~~~g~~~~~~~~~~---~~----------   73 (163)
T cd03216          15 ALDGV-SLSVRRGEVHALLGENGAGKSTLMKILSGLY--KPDSG-----EILVDGKEVSFASPRD---AR----------   73 (163)
T ss_pred             EEeee-EEEEeCCCEEEEECCCCCCHHHHHHHHhCCC--CCCCe-----EEEECCEECCcCCHHH---HH----------
Confidence            34443 4468999999999999999999999887764  32333     466665421  11110   00          


Q ss_pred             CCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHH
Q 022155          104 PCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG  183 (302)
Q Consensus       104 ~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~  183 (302)
                       ..++.+...-+.-+. ..+.-...++.       +++++++|+..+-+         |...+    ..+...|+++++ 
T Consensus        74 -~~~i~~~~qLS~G~~-qrl~laral~~-------~p~illlDEP~~~L---------D~~~~----~~l~~~l~~~~~-  130 (163)
T cd03216          74 -RAGIAMVYQLSVGER-QMVEIARALAR-------NARLLILDEPTAAL---------TPAEV----ERLFKVIRRLRA-  130 (163)
T ss_pred             -hcCeEEEEecCHHHH-HHHHHHHHHhc-------CCCEEEEECCCcCC---------CHHHH----HHHHHHHHHHHH-
Confidence             012222221222221 12222233442       45999999988744         22222    355666777654 


Q ss_pred             cCcEEEEEecccc
Q 022155          184 FGLAVLVTNQVVD  196 (302)
Q Consensus       184 ~~~~viv~n~~~~  196 (302)
                      .+.++|++.|...
T Consensus       131 ~~~tiii~sh~~~  143 (163)
T cd03216         131 QGVAVIFISHRLD  143 (163)
T ss_pred             CCCEEEEEeCCHH
Confidence            4889999988754

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.

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

Probab=98.59  E-value=1.4e-07  Score=88.55  Aligned_cols=66  Identities=15%  Similarity=0.201  Sum_probs=52.8

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ..+++.+.-.+.++ |+..||.+ +--+.+|++..|+|++|+|||||+.-++..+.   +..    .-++++.+.
T Consensus         6 ~~ll~~~~i~K~Fg-gV~AL~~v-~l~v~~GEV~aL~GeNGAGKSTLmKiLsGv~~---p~~----G~I~~~G~~   71 (500)
T COG1129           6 PPLLELRGISKSFG-GVKALDGV-SLTVRPGEVHALLGENGAGKSTLMKILSGVYP---PDS----GEILIDGKP   71 (500)
T ss_pred             cceeeeecceEEcC-Cceeeccc-eeEEeCceEEEEecCCCCCHHHHHHHHhCccc---CCC----ceEEECCEE
Confidence            34777777777777 88999987 66899999999999999999999998888753   223    358888664

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=98.58  E-value=2.2e-07  Score=75.44  Aligned_cols=43  Identities=16%  Similarity=0.275  Sum_probs=34.0

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      --++.|+++.|.||+|+|||||+.-+|... .| ..     ..++|..++
T Consensus        20 l~v~~ge~vAi~GpSGaGKSTLLnLIAGF~-~P-~~-----G~i~i~g~d   62 (231)
T COG3840          20 LTVPAGEIVAILGPSGAGKSTLLNLIAGFE-TP-AS-----GEILINGVD   62 (231)
T ss_pred             EeecCCcEEEEECCCCccHHHHHHHHHhcc-CC-CC-----ceEEEcCee
Confidence            368999999999999999999997777765 33 23     358887765

>COG4175 ProV ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.56  E-value=4.1e-07  Score=79.88  Aligned_cols=140  Identities=14%  Similarity=0.208  Sum_probs=79.6

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHH-----HHHHHHhCCCC---CCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRL-----HQLSHTFRPSN---DHN  103 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl-----~~i~~~~~~~~---~~~  103 (302)
                      -++.|+|..|.|-+|||||||..++-...  ++..|     -+++++++  ..+...|     +.+...|+.+.   -.+
T Consensus        50 ~v~~GeIfViMGLSGSGKSTLvR~~NrLi--ept~G-----~ilv~g~di~~~~~~~Lr~~Rr~~~sMVFQ~FaLlPhrt  122 (386)
T COG4175          50 DVEEGEIFVIMGLSGSGKSTLVRLLNRLI--EPTRG-----EILVDGKDIAKLSAAELRELRRKKISMVFQSFALLPHRT  122 (386)
T ss_pred             eecCCeEEEEEecCCCCHHHHHHHHhccC--CCCCc-----eEEECCcchhcCCHHHHHHHHhhhhhhhhhhhccccchh
Confidence            58899999999999999999998886653  33444     37788775  3344333     33444444322   236


Q ss_pred             CCCcEEEE-eCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHH----------
Q 022155          104 PCDYIFVQ-SVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLF----------  170 (302)
Q Consensus       104 ~l~~i~~~-~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l----------  170 (302)
                      +++|+-+- ...  ..++-   -....+.+          .+|=++.....|..++++++   +||.-+.          
T Consensus       123 Vl~Nv~fGLev~Gv~~~er---~~~a~~~l----------~~VgL~~~~~~yp~eLSGGM---qQRVGLARAla~~~~Il  186 (386)
T COG4175         123 VLENVAFGLEVQGVPKAER---EERALEAL----------ELVGLEGYADKYPNELSGGM---QQRVGLARALANDPDIL  186 (386)
T ss_pred             HhhhhhcceeecCCCHHHH---HHHHHHHH----------HHcCchhhhhcCcccccchH---HHHHHHHHHHccCCCEE
Confidence            77776552 221  11111   11122222          22333444444555554432   3332221          


Q ss_pred             --------------HHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          171 --------------FKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       171 --------------~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                                    .++-..|.+|.++++-|||+++|.-+
T Consensus       187 LMDEaFSALDPLIR~~mQdeLl~Lq~~l~KTIvFitHDLd  226 (386)
T COG4175         187 LMDEAFSALDPLIRTEMQDELLELQAKLKKTIVFITHDLD  226 (386)
T ss_pred             EecCchhhcChHHHHHHHHHHHHHHHHhCCeEEEEecCHH
Confidence                          23445577888999999999999643

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

Probab=98.55  E-value=1.6e-07  Score=85.64  Aligned_cols=50  Identities=18%  Similarity=0.322  Sum_probs=37.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ..|+.+ +--+++|+++.|.|++|||||||+..++...  ++..|     .++++.+.
T Consensus        19 ~~L~~v-sl~i~~Gei~gIiG~sGaGKSTLlr~I~gl~--~p~~G-----~I~i~G~~   68 (343)
T TIGR02314        19 QALNNV-SLHVPAGQIYGVIGASGAGKSTLIRCVNLLE--RPTSG-----SVIVDGQD   68 (343)
T ss_pred             EEEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCce-----EEEECCEE
Confidence            356665 5578999999999999999999999887754  32333     46676653

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

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=98.55  E-value=2.2e-07  Score=76.48  Aligned_cols=136  Identities=14%  Similarity=0.142  Sum_probs=72.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC--CCHHHHH-HHHHHhCCC--C
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP--FPMRRLH-QLSHTFRPS--N  100 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~--~~~~rl~-~i~~~~~~~--~  100 (302)
                      .++.+ +--+++|+++.|+||+|+|||||+..++...  ++..|     -++++.+..  .+..++. .++..++..  .
T Consensus        17 ~l~~~-~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~--~~~~G-----~i~~~g~~~~~~~~~~~~~~i~~~~q~~~~~   88 (173)
T cd03246          17 VLRNV-SFSIEPGESLAIIGPSGSGKSTLARLILGLL--RPTSG-----RVRLDGADISQWDPNELGDHVGYLPQDDELF   88 (173)
T ss_pred             ceeee-EEEECCCCEEEEECCCCCCHHHHHHHHHhcc--CCCCC-----eEEECCEEcccCCHHHHHhheEEECCCCccc
Confidence            34443 4468899999999999999999999888764  32333     355665421  2222221 111111100  0


Q ss_pred             CCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHH
Q 022155          101 DHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM  180 (302)
Q Consensus       101 ~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~l  180 (302)
                      +..+.+++     .+.-+ ...+.-...++.       +++++++|+.++-.         |...+    ..+...|+++
T Consensus        89 ~~tv~~~l-----LS~G~-~qrv~la~al~~-------~p~~lllDEPt~~L---------D~~~~----~~l~~~l~~~  142 (173)
T cd03246          89 SGSIAENI-----LSGGQ-RQRLGLARALYG-------NPRILVLDEPNSHL---------DVEGE----RALNQAIAAL  142 (173)
T ss_pred             cCcHHHHC-----cCHHH-HHHHHHHHHHhc-------CCCEEEEECCcccc---------CHHHH----HHHHHHHHHH
Confidence            00111111     11111 111222223332       45999999998854         22232    2455666666


Q ss_pred             HHHcCcEEEEEecccc
Q 022155          181 AVGFGLAVLVTNQVVD  196 (302)
Q Consensus       181 a~~~~~~viv~n~~~~  196 (302)
                      ++ .+.++|++.|-..
T Consensus       143 ~~-~~~tii~~sh~~~  157 (173)
T cd03246         143 KA-AGATRIVIAHRPE  157 (173)
T ss_pred             Hh-CCCEEEEEeCCHH
Confidence            54 4889999988643

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.53  E-value=2.6e-07  Score=87.42  Aligned_cols=38  Identities=26%  Similarity=0.241  Sum_probs=31.4

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...+|++ +--+.+|+++.|+|+|||||||++..++...
T Consensus       304 ~~Av~~V-Sf~l~~GE~lglVGeSGsGKSTlar~i~gL~  341 (539)
T COG1123         304 VKAVDDV-SFDLREGETLGLVGESGSGKSTLARILAGLL  341 (539)
T ss_pred             eeeeeee-eeEecCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3456665 4578999999999999999999999888764

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

Probab=98.53  E-value=1e-06  Score=76.00  Aligned_cols=147  Identities=19%  Similarity=0.266  Sum_probs=81.5

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH--HHHHHHHHhCCCCC-C---CCC
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR--RLHQLSHTFRPSND-H---NPC  105 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~--rl~~i~~~~~~~~~-~---~~l  105 (302)
                      +--||+|+++.+.|++|+||||++..+.... +|  .+|    .+-+.+-.+|+..  .++++...+..... .   ..+
T Consensus        44 sf~IP~G~ivgflGaNGAGKSTtLKmLTGll-~p--~~G----~v~V~G~~Pf~~~~~~~~~~~~v~gqk~ql~Wdlp~~  116 (325)
T COG4586          44 SFEIPKGEIVGFLGANGAGKSTTLKMLTGLL-LP--TSG----KVRVNGKDPFRRREEYLRSIGLVMGQKLQLWWDLPAL  116 (325)
T ss_pred             eeecCCCcEEEEEcCCCCcchhhHHHHhCcc-cc--CCC----eEEecCcCcchhHHHHHHHHHHHhhhhheeeeechhh
Confidence            3579999999999999999999998887765 44  333    4666666677642  24455443321110 0   011


Q ss_pred             CcEE----EEeCCCHHHHHHHHHHHHHH------HHhc---------------cCCCCCeeEEEEechhhhhhhccCCCh
Q 022155          106 DYIF----VQSVHSVDQLLDIMPKIESF------IKNS---------------SNSRLPIRLIVIDSIAALFRSDFDNTM  160 (302)
Q Consensus       106 ~~i~----~~~~~~~~~l~~~l~~l~~~------l~~~---------------~~~~~~~~lvVIDsi~~~~~~~~~~~~  160 (302)
                      +.+.    ++++.+ +++.+.+..+-++      +...               +.--++++++++|..+-=.        
T Consensus       117 ds~~v~~~Iy~Ipd-~~F~~r~~~l~eiLdl~~~lk~~vr~LSlGqRmraeLaaaLLh~p~VLfLDEpTvgL--------  187 (325)
T COG4586         117 DSLEVLKLIYEIPD-DEFAERLDFLTEILDLEGFLKWPVRKLSLGQRMRAELAAALLHPPKVLFLDEPTVGL--------  187 (325)
T ss_pred             hhHHHHHHHHhCCH-HHHHHHHHHHHHHhcchhhhhhhhhhccchHHHHHHHHHHhcCCCcEEEecCCccCc--------
Confidence            1110    011111 1111111110000      0000               0002356999999987522        


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCC
Q 022155          161 DDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLME  199 (302)
Q Consensus       161 ~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~  199 (302)
                       |...+    ..+.+.|+....++++||++|+|..+.+.
T Consensus       188 -DV~aq----~~ir~Flke~n~~~~aTVllTTH~~~di~  221 (325)
T COG4586         188 -DVNAQ----ANIREFLKEYNEERQATVLLTTHIFDDIA  221 (325)
T ss_pred             -chhHH----HHHHHHHHHHHHhhCceEEEEecchhhHH
Confidence             22222    25567788999999999999999876543

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

Probab=98.51  E-value=2.4e-06  Score=75.31  Aligned_cols=126  Identities=15%  Similarity=0.216  Sum_probs=81.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHHHhCCCCCCCCCCcEEEEeCCCHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSHTFRPSNDHNPCDYIFVQSVHSVD  117 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~~~~~~~~~~~l~~i~~~~~~~~~  117 (302)
                      ....|+|+++.|||+++..++...--....+.....|+++.+-...+..++ ..|+..+....          ..-.+..
T Consensus        62 p~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~----------~~~~~~~  131 (302)
T PF05621_consen   62 PNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPY----------RPRDRVA  131 (302)
T ss_pred             CceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCccc----------CCCCCHH
Confidence            358999999999999999999864211111222347999998766666666 45555433111          1112222


Q ss_pred             HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       118 ~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      .+   ..++..++..     .+++++|||++..+..+.      ..++     +++++.||.|+.+.++++|++.-
T Consensus       132 ~~---~~~~~~llr~-----~~vrmLIIDE~H~lLaGs------~~~q-----r~~Ln~LK~L~NeL~ipiV~vGt  188 (302)
T PF05621_consen  132 KL---EQQVLRLLRR-----LGVRMLIIDEFHNLLAGS------YRKQ-----REFLNALKFLGNELQIPIVGVGT  188 (302)
T ss_pred             HH---HHHHHHHHHH-----cCCcEEEeechHHHhccc------HHHH-----HHHHHHHHHHhhccCCCeEEecc
Confidence            22   2233345543     578999999998876543      1133     37889999999999999999864

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

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.51  E-value=6.7e-08  Score=86.02  Aligned_cols=50  Identities=16%  Similarity=0.248  Sum_probs=36.8

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -..|+.+ +--|.+|+++.|+|++|+|||||+..++...  ++..|     -++++..
T Consensus        19 ~~~l~~v-s~~i~~Ge~~~i~G~nGaGKSTLl~~i~Gl~--~p~~G-----~i~i~g~   68 (283)
T PRK13636         19 THALKGI-NINIKKGEVTAILGGNGAGKSTLFQNLNGIL--KPSSG-----RILFDGK   68 (283)
T ss_pred             Ceeeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCcc-----EEEECCE
Confidence            3456654 4578999999999999999999999887764  32333     3566654

>PRK04296 thymidine kinase; Provisional

Probab=98.51  E-value=9.7e-07  Score=73.87  Aligned_cols=115  Identities=17%  Similarity=0.222  Sum_probs=65.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC--CCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT--EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHS  115 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~--e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~  115 (302)
                      |.++.++||+|+||||+++.++..+.   ..|.   +|+++..  +....   ...+...+.     ..+..+   ....
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~---~~g~---~v~i~k~~~d~~~~---~~~i~~~lg-----~~~~~~---~~~~   64 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYE---ERGM---KVLVFKPAIDDRYG---EGKVVSRIG-----LSREAI---PVSS   64 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHH---HcCC---eEEEEecccccccc---CCcEecCCC-----Ccccce---EeCC
Confidence            78999999999999999999998874   3444   7888843  21110   111221111     001111   1233


Q ss_pred             HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccc
Q 022155          116 VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV  195 (302)
Q Consensus       116 ~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~  195 (302)
                      ..++...+   .+  .     ..++++||||+++.+-.          .       ++.. |.+.++..+++||++....
T Consensus        65 ~~~~~~~~---~~--~-----~~~~dvviIDEaq~l~~----------~-------~v~~-l~~~l~~~g~~vi~tgl~~  116 (190)
T PRK04296         65 DTDIFELI---EE--E-----GEKIDCVLIDEAQFLDK----------E-------QVVQ-LAEVLDDLGIPVICYGLDT  116 (190)
T ss_pred             hHHHHHHH---Hh--h-----CCCCCEEEEEccccCCH----------H-------HHHH-HHHHHHHcCCeEEEEecCc
Confidence            33433332   22  1     24679999999965210          1       1222 2333456899999998876


Q ss_pred             cc
Q 022155          196 DL  197 (302)
Q Consensus       196 ~~  197 (302)
                      +-
T Consensus       117 ~~  118 (190)
T PRK04296        117 DF  118 (190)
T ss_pred             cc
Confidence            53

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=98.50  E-value=1e-07  Score=81.46  Aligned_cols=36  Identities=22%  Similarity=0.191  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        19 il~~~-s~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          19 ALKGV-SLSIEKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEeee-EEEEcCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            45554 4578999999999999999999999888753

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=98.50  E-value=3e-07  Score=79.80  Aligned_cols=36  Identities=19%  Similarity=0.210  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        16 ~l~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          16 ALKDV-SLSINPGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45544 4568999999999999999999999888753

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=98.50  E-value=1.4e-07  Score=86.63  Aligned_cols=49  Identities=16%  Similarity=0.234  Sum_probs=36.2

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..|+.+ +--+++|+++.|.||+|||||||+..++...  ++..|     -++++.+
T Consensus        18 ~~l~~v-sl~i~~Ge~~~llG~sGsGKSTLLr~iaGl~--~p~~G-----~I~~~g~   66 (356)
T PRK11650         18 QVIKGI-DLDVADGEFIVLVGPSGCGKSTLLRMVAGLE--RITSG-----EIWIGGR   66 (356)
T ss_pred             EEEeee-eEEEcCCCEEEEECCCCCcHHHHHHHHHCCC--CCCce-----EEEECCE
Confidence            345554 4568899999999999999999999888764  22333     4666654

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.50  E-value=2.6e-07  Score=82.03  Aligned_cols=48  Identities=10%  Similarity=0.189  Sum_probs=36.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--|.+|+++.|+|++|||||||+..++...  ++..|     .++++..
T Consensus        22 ~l~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~--~p~~G-----~i~~~g~   69 (279)
T PRK13650         22 TLNDV-SFHVKQGEWLSIIGHNGSGKSTTVRLIDGLL--EAESG-----QIIIDGD   69 (279)
T ss_pred             eeeee-EEEEeCCCEEEEECCCCCCHHHHHHHHhcCC--CCCCc-----EEEECCE
Confidence            56655 5578999999999999999999999887764  32333     4666654

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

Probab=98.50  E-value=9.6e-07  Score=72.72  Aligned_cols=137  Identities=12%  Similarity=0.152  Sum_probs=72.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH-HHHHH-HHHHhCCCC--C
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM-RRLHQ-LSHTFRPSN--D  101 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~-~rl~~-i~~~~~~~~--~  101 (302)
                      .|+.+ +--+.+|+++.|+|++|+|||||+..++...  ++..|     -++++.+..... .++++ ++..++...  +
T Consensus        15 ~l~~~-~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~--~~~~G-----~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~   86 (173)
T cd03230          15 ALDDI-SLTVEKGEIYGLLGPNGAGKTTLIKIILGLL--KPDSG-----EIKVLGKDIKKEPEEVKRRIGYLPEEPSLYE   86 (173)
T ss_pred             eeeee-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC--CCCCe-----EEEECCEEcccchHhhhccEEEEecCCcccc
Confidence            34443 4468899999999999999999998887753  32333     356665421111 11110 100000000  0


Q ss_pred             -CCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHH
Q 022155          102 -HNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM  180 (302)
Q Consensus       102 -~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~l  180 (302)
                       ....+++.    -+.-+. ..+.-...++       .+++++++|+.++-.         |...+    ..+.+.|+++
T Consensus        87 ~~tv~~~~~----LS~G~~-qrv~laral~-------~~p~illlDEPt~~L---------D~~~~----~~l~~~l~~~  141 (173)
T cd03230          87 NLTVRENLK----LSGGMK-QRLALAQALL-------HDPELLILDEPTSGL---------DPESR----REFWELLREL  141 (173)
T ss_pred             CCcHHHHhh----cCHHHH-HHHHHHHHHH-------cCCCEEEEeCCccCC---------CHHHH----HHHHHHHHHH
Confidence             01111111    111111 1111222333       245999999998854         22222    3566777777


Q ss_pred             HHHcCcEEEEEecccc
Q 022155          181 AVGFGLAVLVTNQVVD  196 (302)
Q Consensus       181 a~~~~~~viv~n~~~~  196 (302)
                      +++ +.++|+++|-..
T Consensus       142 ~~~-g~tiii~th~~~  156 (173)
T cd03230         142 KKE-GKTILLSSHILE  156 (173)
T ss_pred             HHC-CCEEEEECCCHH
Confidence            765 889999988643

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

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=98.49  E-value=4.8e-07  Score=74.71  Aligned_cols=113  Identities=14%  Similarity=0.182  Sum_probs=65.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      -+++|+++.|.||+|+|||||+..++...  ++..|    . ++++...         +.  +..       +...    
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~--~p~~G----~-i~~~g~~---------i~--~~~-------q~~~----   71 (177)
T cd03222          21 VVKEGEVIGIVGPNGTGKTTAVKILAGQL--IPNGD----N-DEWDGIT---------PV--YKP-------QYID----   71 (177)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCC--CCCCc----E-EEECCEE---------EE--EEc-------ccCC----
Confidence            57899999999999999999998887764  32333    3 4554321         00  000       0000    


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      -+.-+ ...+.-...++.       +++++++|+.++-+.         ...+    ..+...|++++++.+.++|++.|
T Consensus        72 LSgGq-~qrv~laral~~-------~p~lllLDEPts~LD---------~~~~----~~l~~~l~~~~~~~~~tiiivsH  130 (177)
T cd03222          72 LSGGE-LQRVAIAAALLR-------NATFYLFDEPSAYLD---------IEQR----LNAARAIRRLSEEGKKTALVVEH  130 (177)
T ss_pred             CCHHH-HHHHHHHHHHhc-------CCCEEEEECCcccCC---------HHHH----HHHHHHHHHHHHcCCCEEEEEEC
Confidence            12121 112222233332       359999999887542         2222    24556666666655589999998


Q ss_pred             ccc
Q 022155          194 VVD  196 (302)
Q Consensus       194 ~~~  196 (302)
                      ...
T Consensus       131 ~~~  133 (177)
T cd03222         131 DLA  133 (177)
T ss_pred             CHH
Confidence            654

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=98.48  E-value=2.9e-07  Score=78.22  Aligned_cols=31  Identities=26%  Similarity=0.230  Sum_probs=27.1

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|.||+|+|||||+..++...
T Consensus        18 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~gl~   48 (211)
T cd03298          18 DLTFAQGEITAIVGPSGSGKSTLLNLIAGFE   48 (211)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3468899999999999999999998887664

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

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.48  E-value=2.2e-07  Score=82.48  Aligned_cols=37  Identities=16%  Similarity=0.130  Sum_probs=30.9

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--|.+|+++.|.|++|+|||||+..++...
T Consensus        21 ~~l~~v-sl~i~~Ge~~~i~G~nGaGKSTLl~~i~G~~   57 (279)
T PRK13635         21 YALKDV-SFSVYEGEWVAIVGHNGSGKSTLAKLLNGLL   57 (279)
T ss_pred             cceeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            356654 5578999999999999999999998887664

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=98.48  E-value=1.1e-07  Score=81.02  Aligned_cols=36  Identities=19%  Similarity=0.189  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        15 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          15 ALDDL-SLTVEPGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             eecce-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4568999999999999999999998887653

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

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=98.48  E-value=2.3e-06  Score=73.80  Aligned_cols=36  Identities=17%  Similarity=0.272  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        20 il~~~-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          20 ALKDV-SLSVPKGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             eeecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999999887764

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=98.47  E-value=2.1e-07  Score=79.71  Aligned_cols=36  Identities=22%  Similarity=0.270  Sum_probs=29.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        15 ~l~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          15 ILFGV-SLTVPEGEIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             Eeeee-eEEEcCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            44544 4578999999999999999999998877653

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.47  E-value=2.1e-07  Score=83.02  Aligned_cols=37  Identities=16%  Similarity=0.240  Sum_probs=31.7

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +.-|.+|+++.|.|++|||||||+..++...
T Consensus        21 ~~l~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~L~Gl~   57 (286)
T PRK13646         21 QAIHDV-NTEFEQGKYYAIVGQTGSGKSTLIQNINALL   57 (286)
T ss_pred             Cceeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            466666 5678999999999999999999999888754

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.46  E-value=3.8e-07  Score=81.12  Aligned_cols=36  Identities=25%  Similarity=0.308  Sum_probs=30.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|+|||||+..++...
T Consensus        22 ~l~~v-~l~i~~Ge~~~I~G~nGaGKSTLl~~l~G~~   57 (282)
T PRK13640         22 ALNDI-SFSIPRGSWTALIGHNGSGKSTISKLINGLL   57 (282)
T ss_pred             ceeeE-EEEEcCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            45554 5578999999999999999999999888764

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.46  E-value=6.5e-07  Score=75.76  Aligned_cols=36  Identities=25%  Similarity=0.302  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        15 ~l~~v-~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          15 ILDDL-SLDLYAGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             eeeee-eEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45544 4468899999999999999999998887753

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.46  E-value=1.3e-07  Score=83.98  Aligned_cols=36  Identities=17%  Similarity=0.204  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        19 ~l~~v-sl~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~   54 (277)
T PRK13652         19 ALNNI-NFIAPRNSRIAVIGPNGAGKSTLFRHFNGIL   54 (277)
T ss_pred             eeeEe-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45554 4568999999999999999999999888764

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.45  E-value=3e-07  Score=80.42  Aligned_cols=37  Identities=19%  Similarity=0.245  Sum_probs=30.5

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+|++ .--|+.|+++.+.||+||||||++..||...
T Consensus        16 ~a~~di-~l~i~~Ge~vaLlGpSGaGKsTlLRiIAGLe   52 (345)
T COG1118          16 GALDDI-SLDIKSGELVALLGPSGAGKSTLLRIIAGLE   52 (345)
T ss_pred             cccccc-eeeecCCcEEEEECCCCCcHHHHHHHHhCcC
Confidence            345544 4468999999999999999999999888764

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.45  E-value=3.2e-07  Score=79.38  Aligned_cols=36  Identities=17%  Similarity=0.229  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        15 ~l~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          15 VLKGV-DLDVRRGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4468999999999999999999998888653

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.

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

Probab=98.45  E-value=1.3e-07  Score=80.51  Aligned_cols=36  Identities=22%  Similarity=0.176  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...
T Consensus        15 ~l~~i-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          15 ALDDL-NLDIADGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             eeece-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4468899999999999999999998888764

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.45  E-value=1.2e-07  Score=83.90  Aligned_cols=37  Identities=27%  Similarity=0.316  Sum_probs=30.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--|.+|+++.|.|++|||||||+..++...
T Consensus        19 ~~l~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (274)
T PRK13647         19 KALKGL-SLSIPEGSKTALLGPNGAGKSTLLLHLNGIY   55 (274)
T ss_pred             eeeeeE-EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            355554 4568999999999999999999998887754

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=98.44  E-value=2.9e-07  Score=78.80  Aligned_cols=36  Identities=22%  Similarity=0.178  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ .--+.+|+++.|.|++|||||||+..++...
T Consensus        15 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          15 AVRGV-SFRVRRGEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             eeece-eEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44444 4568899999999999999999999887753

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=98.44  E-value=3.8e-06  Score=72.96  Aligned_cols=36  Identities=14%  Similarity=0.204  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        17 il~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        17 ALKNI-NLNINPGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             eeecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45554 4568999999999999999999998887653

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

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

Probab=98.44  E-value=1.8e-07  Score=80.50  Aligned_cols=36  Identities=25%  Similarity=0.240  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++...
T Consensus        25 ~l~~~-s~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         25 ILTGV-ELVVKRGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             EEecc-EEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45554 4568899999999999999999999888764

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=98.44  E-value=4.6e-07  Score=78.94  Aligned_cols=31  Identities=29%  Similarity=0.444  Sum_probs=27.1

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|-+.+|+++.|.||+|+|||||+..++...
T Consensus        19 ~~~i~~Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          19 GGSISESEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             cCCcCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999998887653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=98.44  E-value=1.9e-07  Score=80.01  Aligned_cols=36  Identities=25%  Similarity=0.264  Sum_probs=30.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        20 ~l~~i-sl~i~~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        20 VLKGV-SLSIGKGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             eEeee-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999999888764

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=98.44  E-value=1.8e-06  Score=78.33  Aligned_cols=136  Identities=18%  Similarity=0.247  Sum_probs=78.9

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHh----C----CCCCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTF----R----PSNDH  102 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~----~----~~~~~  102 (302)
                      --+++|+.+.|+|++|||||||.+.+....  + ..|     -++|+++.  .++...++-+-..+    +    ..+|.
T Consensus       308 l~L~~gqTlGlVGESGSGKsTlG~allrL~--~-s~G-----~I~F~G~~i~~~~~~~mrplR~~mQvVFQDPygSLsPR  379 (534)
T COG4172         308 LTLRRGQTLGLVGESGSGKSTLGLALLRLI--P-SQG-----EIRFDGQDIDGLSRKEMRPLRRRMQVVFQDPYGSLSPR  379 (534)
T ss_pred             eEecCCCeEEEEecCCCCcchHHHHHHhhc--C-cCc-----eEEECCccccccChhhhhhhhhhceEEEeCCCCCCCcc
Confidence            368899999999999999999999988764  3 334     36666553  23333333222222    1    11121


Q ss_pred             -----CCCCcEEEEeC-CCHHHH----HHHHHH-------------------------HHHHHHhccCCCCCeeEEEEec
Q 022155          103 -----NPCDYIFVQSV-HSVDQL----LDIMPK-------------------------IESFIKNSSNSRLPIRLIVIDS  147 (302)
Q Consensus       103 -----~~l~~i~~~~~-~~~~~l----~~~l~~-------------------------l~~~l~~~~~~~~~~~lvVIDs  147 (302)
                           .+-+.+.+..+ .+..+-    .+.+.+                         .+.++       .++++|++|.
T Consensus       380 mtV~qII~EGL~vh~~~ls~~eR~~rv~~aL~EVGLDp~~r~RYPhEFSGGQRQRIAIARAli-------LkP~~i~LDE  452 (534)
T COG4172         380 MTVGQIIEEGLRVHEPKLSAAERDQRVIEALEEVGLDPATRNRYPHEFSGGQRQRIAIARALI-------LKPELILLDE  452 (534)
T ss_pred             cCHHHHhhhhhhhcCCCCCHHHHHHHHHHHHHHcCCChhHhhcCCcccCcchhhHHHHHHHHh-------cCCcEEEecC
Confidence                 11122333221 111111    111111                         11222       2359999999


Q ss_pred             hhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          148 IAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       148 i~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      .++.+.         ..-    -.+++..|++|.++|+++.++++|.-.
T Consensus       453 PTSALD---------~SV----QaQvv~LLr~LQ~k~~LsYLFISHDL~  488 (534)
T COG4172         453 PTSALD---------RSV----QAQVLDLLRDLQQKHGLSYLFISHDLA  488 (534)
T ss_pred             CchHhh---------HHH----HHHHHHHHHHHHHHhCCeEEEEeccHH
Confidence            887542         111    237789999999999999999999654

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=98.44  E-value=8.7e-08  Score=82.04  Aligned_cols=36  Identities=17%  Similarity=0.204  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        19 il~~v-s~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          19 ALEDI-SLSVEEGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EEece-eEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568899999999999999999998887653

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

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=98.43  E-value=7.4e-07  Score=75.86  Aligned_cols=36  Identities=11%  Similarity=0.192  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        14 ~l~~i-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          14 VLEDV-SFEVKPGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             eeecc-eeEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45554 4578999999999999999999998887753

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

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

Probab=98.43  E-value=3.6e-06  Score=71.75  Aligned_cols=36  Identities=25%  Similarity=0.246  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        18 il~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        18 ALDNL-NFHITKGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EEEee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998888753

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.43  E-value=3.9e-07  Score=77.44  Aligned_cols=36  Identities=22%  Similarity=0.190  Sum_probs=29.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        16 il~~v-s~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          16 ALDDI-SLTIKKGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             eecce-EEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34443 4468899999999999999999998887753

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

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

Probab=98.43  E-value=2.6e-07  Score=80.11  Aligned_cols=36  Identities=28%  Similarity=0.374  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++...
T Consensus        17 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          17 ALDDV-SLDIPSGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             eeeee-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444 4568899999999999999999999888754

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=98.42  E-value=2.3e-06  Score=74.82  Aligned_cols=36  Identities=14%  Similarity=0.202  Sum_probs=29.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        19 vl~~v-s~~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         19 VLSDV-SLELKPGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             EEEeE-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34443 3468899999999999999999999887754

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=98.42  E-value=1.3e-06  Score=79.38  Aligned_cols=37  Identities=27%  Similarity=0.331  Sum_probs=31.5

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..||.+ +--|.+|+++.|+|++|||||||+..++...
T Consensus        21 ~~l~~v-sl~i~~Ge~~~lvG~sGsGKSTL~~~l~Gll   57 (326)
T PRK11022         21 RAVDRI-SYSVKQGEVVGIVGESGSGKSVSSLAIMGLI   57 (326)
T ss_pred             EEEeee-EEEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            356665 5579999999999999999999999888754

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

Probab=98.42  E-value=3.4e-07  Score=79.24  Aligned_cols=36  Identities=19%  Similarity=0.228  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|.+|+++.|.||+|||||||+..++...
T Consensus        16 ~l~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        16 ALDDV-SFTVRPGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34443 4468899999999999999999999888754

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

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

Probab=98.42  E-value=6.8e-07  Score=77.10  Aligned_cols=29  Identities=24%  Similarity=0.298  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.+|+++.|+|++|+|||||+..++...
T Consensus         7 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184         7 TIQQGEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999999998887764

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=98.42  E-value=4.1e-07  Score=83.44  Aligned_cols=31  Identities=26%  Similarity=0.385  Sum_probs=27.1

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+++|+++.|.||+|||||||+..++...
T Consensus        18 sl~i~~Ge~~~l~G~nGsGKSTLl~~iaGl~   48 (352)
T PRK11144         18 NLTLPAQGITAIFGRSGAGKTSLINAISGLT   48 (352)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3457899999999999999999999888754

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=98.41  E-value=5.1e-07  Score=80.26  Aligned_cols=49  Identities=16%  Similarity=0.262  Sum_probs=36.9

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.|+.+ +--|.+|+++.|+|++|+|||||+..++...  +...|     .++++.+
T Consensus        24 ~vl~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~--~~~~G-----~i~i~g~   72 (280)
T PRK13633         24 LALDDV-NLEVKKGEFLVILGRNGSGKSTIAKHMNALL--IPSEG-----KVYVDGL   72 (280)
T ss_pred             ceeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC--CCCCc-----eEEECCE
Confidence            356665 5678999999999999999999998888764  32333     4666654

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

Probab=98.41  E-value=1.7e-06  Score=72.68  Aligned_cols=36  Identities=19%  Similarity=0.338  Sum_probs=30.0

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+.+ +--+.+|+++.|.||+|+|||||+..++..
T Consensus        23 ~~l~~~-~~~i~~Ge~~~l~G~nGsGKStLl~~i~Gl   58 (194)
T cd03213          23 QLLKNV-SGKAKPGELTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             cceecc-eEEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            345554 456899999999999999999999888765

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

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

Probab=98.41  E-value=2e-06  Score=71.36  Aligned_cols=48  Identities=17%  Similarity=0.261  Sum_probs=35.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...  ++..|     -++++.+
T Consensus        15 ~l~~v-s~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~--~~~~G-----~i~~~g~   62 (182)
T cd03215          15 AVRDV-SFEVRAGEIVGIAGLVGNGQTELAEALFGLR--PPASG-----EITLDGK   62 (182)
T ss_pred             eecce-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC--CCCCc-----eEEECCE
Confidence            45544 4568999999999999999999998887764  32333     3666654

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

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

Probab=98.40  E-value=4.1e-07  Score=79.77  Aligned_cols=37  Identities=22%  Similarity=0.337  Sum_probs=30.3

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        26 ~il~~i-sl~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         26 TVLNQL-DLHIPAGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             ceeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345554 4568899999999999999999999888754

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.40  E-value=3.8e-07  Score=81.36  Aligned_cols=37  Identities=22%  Similarity=0.267  Sum_probs=30.9

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+.+|+++.|+|++|+|||||+..++...
T Consensus        21 ~~l~~v-s~~i~~Ge~~~i~G~nGaGKSTLl~~l~Gl~   57 (287)
T PRK13637         21 KALDNV-NIEIEDGEFVGLIGHTGSGKSTLIQHLNGLL   57 (287)
T ss_pred             ceeeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            356655 5578999999999999999999999888753

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

Probab=98.40  E-value=3e-06  Score=71.66  Aligned_cols=36  Identities=28%  Similarity=0.352  Sum_probs=29.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        13 ~l~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        13 ILDDL-NLTIEKGKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEece-EEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34443 4468899999999999999999998888754

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=98.40  E-value=2e-07  Score=81.66  Aligned_cols=36  Identities=14%  Similarity=0.167  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|++|+++.|.||+|||||||+..++...
T Consensus        16 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         16 ALEDI-NLTLESGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             eEeee-eEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34544 4568999999999999999999998888753

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

Probab=98.40  E-value=2.3e-06  Score=71.64  Aligned_cols=50  Identities=22%  Similarity=0.335  Sum_probs=35.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++.....+...|     -++++.+
T Consensus        22 ~l~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~~~G-----~i~~~g~   71 (192)
T cd03232          22 LLNNI-SGYVKPGTLTALMGESGAGKTTLLDVLAGRKTAGVITG-----EILINGR   71 (192)
T ss_pred             eEEcc-EEEEeCCcEEEEECCCCCCHHHHHHHHhCCCcCCCcce-----EEEECCE
Confidence            45544 44688999999999999999999988876432222333     3666654

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=98.40  E-value=1.4e-06  Score=72.06  Aligned_cols=48  Identities=21%  Similarity=0.252  Sum_probs=35.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...  ++..|     .++++..
T Consensus        17 ~l~~i-~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~--~~~~G-----~i~~~g~   64 (178)
T cd03247          17 VLKNL-SLELKQGEKIALLGRSGSGKSTLLQLLTGDL--KPQQG-----EITLDGV   64 (178)
T ss_pred             ceEEE-EEEEcCCCEEEEECCCCCCHHHHHHHHhccC--CCCCC-----EEEECCE
Confidence            45544 4578999999999999999999999988764  32333     3566654

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.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=98.39  E-value=5.9e-06  Score=67.55  Aligned_cols=36  Identities=17%  Similarity=0.107  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        16 ~l~~i-~l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          16 LLKDL-SFEIKPGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             eeecC-eEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34443 4568899999999999999999999887764

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

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

Probab=98.39  E-value=6.7e-07  Score=75.84  Aligned_cols=36  Identities=17%  Similarity=0.161  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++...
T Consensus        15 ~l~~~-~~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          15 VLDDI-SLHVKKGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             eEeee-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            44444 4468899999999999999999999887753

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=98.39  E-value=3e-06  Score=77.52  Aligned_cols=36  Identities=22%  Similarity=0.380  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        20 il~~v-sl~i~~Gei~~iiG~nGsGKSTLlk~L~Gl~   55 (343)
T PRK11153         20 ALNNV-SLHIPAGEIFGVIGASGAGKSTLIRCINLLE   55 (343)
T ss_pred             EEEee-EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998887654

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=98.39  E-value=2.9e-06  Score=77.02  Aligned_cols=37  Identities=24%  Similarity=0.304  Sum_probs=30.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--|.+|+++.|+|++|||||||+..++...
T Consensus        29 ~~l~~v-sl~i~~Ge~~~IvG~sGsGKSTLl~~l~gl~   65 (327)
T PRK11308         29 KALDGV-SFTLERGKTLAVVGESGCGKSTLARLLTMIE   65 (327)
T ss_pred             eEEeee-EEEECCCCEEEEECCCCCcHHHHHHHHHcCC
Confidence            456654 4568999999999999999999999887753

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=98.38  E-value=1.1e-06  Score=75.75  Aligned_cols=31  Identities=13%  Similarity=0.109  Sum_probs=27.3

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|+||+|||||||+..++...
T Consensus        19 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (232)
T PRK10771         19 DLTVERGERVAILGPSGAGKSTLLNLIAGFL   49 (232)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4468899999999999999999999887764

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

Probab=98.38  E-value=2.2e-07  Score=85.73  Aligned_cols=36  Identities=19%  Similarity=0.158  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        18 vl~~v-sl~i~~Ge~~~l~G~nGsGKSTLL~~iaGl~   53 (369)
T PRK11000         18 ISKDI-NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE   53 (369)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34444 4468899999999999999999998888754

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=98.38  E-value=1.3e-05  Score=65.77  Aligned_cols=37  Identities=27%  Similarity=0.361  Sum_probs=31.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++.+.|+||+|||+++..++..+.   ..|.   ++++++++.
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~---~~g~---~v~~i~~D~   38 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLK---KKGK---KVLLVAADT   38 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---HCCC---cEEEEEcCC
Confidence            688999999999999999998764   3454   799999874

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.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=98.38  E-value=3.4e-07  Score=78.00  Aligned_cols=31  Identities=16%  Similarity=0.193  Sum_probs=27.5

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|.||+|+|||||+..++...
T Consensus        18 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        18 DLNVADGEIVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             EEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999999999998764

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.37  E-value=3.2e-07  Score=81.96  Aligned_cols=37  Identities=22%  Similarity=0.311  Sum_probs=31.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +.-|.+|+++.|.|++|+|||||+..++...
T Consensus        21 ~~L~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (290)
T PRK13634         21 RALYDV-NVSIPSGSYVAIIGHTGSGKSTLLQHLNGLL   57 (290)
T ss_pred             cceeeE-EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            356665 5678999999999999999999999888764

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=98.37  E-value=8.5e-06  Score=71.34  Aligned_cols=36  Identities=22%  Similarity=0.265  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...
T Consensus        18 il~~v-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   53 (254)
T PRK10418         18 LVHGV-SLTLQRGRVLALVGGSGSGKSLTCAAALGIL   53 (254)
T ss_pred             eecce-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44444 4468899999999999999999998887764

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=98.37  E-value=4.4e-06  Score=72.15  Aligned_cols=37  Identities=22%  Similarity=0.233  Sum_probs=30.7

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        23 ~il~~i-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         23 DVLHNV-SFSIGEGEMMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             eeEEee-EEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            345554 4578999999999999999999999888753

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=98.37  E-value=2.1e-07  Score=83.68  Aligned_cols=38  Identities=18%  Similarity=0.098  Sum_probs=32.0

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        20 ~~~l~~v-sl~i~~Gei~gllGpNGaGKSTLl~~l~Gl~   57 (306)
T PRK13537         20 KLVVDGL-SFHVQRGECFGLLGPNGAGKTTTLRMLLGLT   57 (306)
T ss_pred             eEEEecc-eEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3466666 5678999999999999999999999888754

>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=98.37  E-value=3.4e-06  Score=65.59  Aligned_cols=114  Identities=18%  Similarity=0.159  Sum_probs=67.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLL  120 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~  120 (302)
                      +.|.||||+|||+++..++....         ..+++++...-         .            +.   ........+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~---------~~~~~i~~~~~---------~------------~~---~~~~~~~~i~   47 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG---------FPFIEIDGSEL---------I------------SS---YAGDSEQKIR   47 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT---------SEEEEEETTHH---------H------------TS---STTHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc---------ccccccccccc---------c------------cc---cccccccccc
Confidence            57999999999999999988752         16788886631         1            00   0001112222


Q ss_pred             HHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHH-cCcEEEEEecccccC
Q 022155          121 DIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG-FGLAVLVTNQVVDLM  198 (302)
Q Consensus       121 ~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~-~~~~viv~n~~~~~~  198 (302)
                      .++.+    ...    .....+++||.+..+.... .... . ......+..++..+...... .++.+|.+++..+.+
T Consensus        48 ~~~~~----~~~----~~~~~vl~iDe~d~l~~~~-~~~~-~-~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i  115 (132)
T PF00004_consen   48 DFFKK----AKK----SAKPCVLFIDEIDKLFPKS-QPSS-S-SFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKI  115 (132)
T ss_dssp             HHHHH----HHH----TSTSEEEEEETGGGTSHHC-STSS-S-HHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGS
T ss_pred             ccccc----ccc----cccceeeeeccchhccccc-cccc-c-cccccccceeeecccccccccccceeEEeeCChhhC
Confidence            23322    222    1224999999999988654 2111 1 22333456677777666654 457888887765444

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 ....

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.37  E-value=3e-06  Score=72.15  Aligned_cols=36  Identities=22%  Similarity=0.132  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        17 il~~i-s~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        17 ALHDV-SLHIRKGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             eecce-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998887653

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=98.37  E-value=5.2e-07  Score=81.06  Aligned_cols=36  Identities=19%  Similarity=0.188  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus         8 ~l~~v-s~~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188         8 AVDGV-NFKVREGEVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             EEeee-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998887753

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=98.36  E-value=2.7e-07  Score=78.57  Aligned_cols=36  Identities=22%  Similarity=0.260  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        16 ~l~~~-sl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          16 ALDGI-NISISAGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44544 4568899999999999999999998888753

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

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.36  E-value=5.9e-07  Score=79.73  Aligned_cols=36  Identities=14%  Similarity=0.147  Sum_probs=30.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+|++|+|||||+..++...
T Consensus        22 ~l~~v-~l~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   57 (277)
T PRK13642         22 QLNGV-SFSITKGEWVSIIGQNGSGKSTTARLIDGLF   57 (277)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45555 4568899999999999999999999888764

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=98.36  E-value=3.7e-06  Score=76.47  Aligned_cols=50  Identities=18%  Similarity=0.173  Sum_probs=36.2

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ..++.+ +--|.+|+++.|+|++|||||||+..++...  +...|     -++++++.
T Consensus        35 ~~l~~v-sl~i~~Ge~~~lvG~sGsGKSTLlk~i~Gl~--~p~~G-----~I~~~G~~   84 (331)
T PRK15079         35 KAVDGV-TLRLYEGETLGVVGESGCGKSTFARAIIGLV--KATDG-----EVAWLGKD   84 (331)
T ss_pred             EEEeeE-EEEEcCCCEEEEECCCCCCHHHHHHHHHCCC--CCCCc-----EEEECCEE
Confidence            345554 4468999999999999999999999888754  32333     35666553

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.36  E-value=1.1e-06  Score=76.87  Aligned_cols=36  Identities=22%  Similarity=0.218  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...
T Consensus        20 ~l~~i-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (255)
T PRK11300         20 AVNNV-NLEVREQEIVSLIGPNGAGKTTVFNCLTGFY   55 (255)
T ss_pred             EEEee-eeEEcCCeEEEEECCCCCCHHHHHHHHhCCc
Confidence            44444 4568899999999999999999999888764

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=98.36  E-value=4.2e-07  Score=83.44  Aligned_cols=49  Identities=18%  Similarity=0.210  Sum_probs=36.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...  ++. .    .-++|+.+.
T Consensus         8 ~l~~v-s~~i~~Gei~~l~G~sGsGKSTLLr~L~Gl~--~p~-~----G~I~i~G~~   56 (363)
T TIGR01186         8 GVNDA-DLAIAKGEIFVIMGLSGSGKSTTVRMLNRLI--EPT-A----GQIFIDGEN   56 (363)
T ss_pred             eEEee-EEEEcCCCEEEEECCCCChHHHHHHHHhCCC--CCC-c----eEEEECCEE
Confidence            34443 4568999999999999999999999888764  323 3    246777653

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

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

Probab=98.36  E-value=2.3e-07  Score=82.00  Aligned_cols=35  Identities=17%  Similarity=0.186  Sum_probs=29.1

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        40 l~~i-s~~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~   74 (269)
T cd03294          40 VNDV-SLDVREGEIFVIMGLSGSGKSTLLRCINRLI   74 (269)
T ss_pred             eeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4443 4468899999999999999999999887764

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=98.36  E-value=8e-07  Score=81.49  Aligned_cols=36  Identities=25%  Similarity=0.372  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        17 ~l~~i-sl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~   52 (353)
T PRK10851         17 VLNDI-SLDIPSGQMVALLGPSGSGKTTLLRIIAGLE   52 (353)
T ss_pred             EEEEe-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4468899999999999999999999888864

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

Probab=98.36  E-value=1.3e-06  Score=75.17  Aligned_cols=37  Identities=14%  Similarity=0.195  Sum_probs=30.9

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        21 ~il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         21 KILNNI-SFSLRAGEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             eeeecc-EEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            356655 5578999999999999999999999887753

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

Probab=98.35  E-value=1.1e-07  Score=87.83  Aligned_cols=36  Identities=22%  Similarity=0.192  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..|+...
T Consensus        29 ~l~~v-sl~i~~Ge~~~LlGpsGsGKSTLLr~IaGl~   64 (375)
T PRK09452         29 VISNL-DLTINNGEFLTLLGPSGCGKTTVLRLIAGFE   64 (375)
T ss_pred             EEeee-EEEEeCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            35544 4468899999999999999999999888764

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

Probab=98.35  E-value=5.7e-07  Score=77.48  Aligned_cols=36  Identities=22%  Similarity=0.272  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+|++|||||||+..++...
T Consensus        15 ~l~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        15 ILRGV-SLEVPKGEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             Eecce-eeEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998887754

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=98.35  E-value=1.2e-06  Score=80.97  Aligned_cols=43  Identities=28%  Similarity=0.310  Sum_probs=33.1

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +--+++|+++.|.|++|||||||+..++...  ++..|     -++++.+
T Consensus        44 sf~i~~Gei~~I~G~nGsGKSTLlr~L~Gl~--~p~~G-----~I~idG~   86 (382)
T TIGR03415        44 SLDIEEGEICVLMGLSGSGKSSLLRAVNGLN--PVSRG-----SVLVKDG   86 (382)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC--CCCCc-----EEEECCE
Confidence            3468899999999999999999999888764  32333     3677753

Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=98.35  E-value=4.8e-08  Score=89.36  Aligned_cols=36  Identities=25%  Similarity=0.266  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        21 ~l~~i-sl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~   56 (351)
T PRK11432         21 VIDNL-NLTIKQGTMVTLLGPSGCGKTTVLRLVAGLE   56 (351)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            45554 4568899999999999999999999888764

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=98.35  E-value=8.2e-06  Score=67.33  Aligned_cols=32  Identities=25%  Similarity=0.326  Sum_probs=26.2

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la   59 (302)
                      |+.+ +--+++|+++.|.||+|||||||+..++
T Consensus        11 l~~i-sl~i~~G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          11 LQNL-DVSIPLNVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             ecce-EEEEcCCCEEEEECCCCCCHHHHHHHHh
Confidence            4443 4468999999999999999999997663

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=98.35  E-value=1.4e-06  Score=79.18  Aligned_cols=52  Identities=25%  Similarity=0.256  Sum_probs=38.2

Q ss_pred             cccCCCCCCcccc--C-ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           10 LLDNPLTTEKCTV--G-CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        10 l~~~~~~~~~i~t--G-~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +++.+.....+.+  | ...++.+ +--|.+|+++.|+|++|||||||+..++...
T Consensus        12 ~L~i~~l~~~~~~~~~~~~~l~~v-sl~i~~Ge~~~ivG~sGsGKSTL~~~l~Gl~   66 (330)
T PRK09473         12 LLDVKDLRVTFSTPDGDVTAVNDL-NFSLRAGETLGIVGESGSGKSQTAFALMGLL   66 (330)
T ss_pred             eEEEeCeEEEEecCCCCEEEEeee-EEEEcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            5555555444433  2 3456665 5578999999999999999999999888764

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=98.35  E-value=3.5e-07  Score=79.13  Aligned_cols=36  Identities=19%  Similarity=0.234  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        15 ~l~~v-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          15 ALDDV-SFSVRPGEIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             EecCc-eEEecCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            34444 4468899999999999999999998887753

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

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

Probab=98.34  E-value=2.9e-06  Score=71.60  Aligned_cols=36  Identities=17%  Similarity=0.179  Sum_probs=29.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        15 ~l~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          15 LFSGL-SFTLAAGEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             eeccc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34443 3458899999999999999999998887753

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.34  E-value=1e-06  Score=77.86  Aligned_cols=48  Identities=19%  Similarity=0.325  Sum_probs=35.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...  ++..|     .++++..
T Consensus        24 ~l~~i-sl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~--~~~~G-----~i~~~g~   71 (269)
T PRK13648         24 TLKDV-SFNIPKGQWTSIVGHNGSGKSTIAKLMIGIE--KVKSG-----EIFYNNQ   71 (269)
T ss_pred             ceeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCce-----EEEECCE
Confidence            45554 4568999999999999999999998887764  32333     3666654

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.34  E-value=2e-06  Score=81.56  Aligned_cols=37  Identities=30%  Similarity=0.364  Sum_probs=31.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++++ +--+.+|+++.|+|++|||||++++.+....
T Consensus        23 ~~v~~v-sf~v~~GE~lgIvGESGsGKSt~a~~i~gll   59 (539)
T COG1123          23 PAVRDV-SFEVEPGEILGIVGESGSGKSTLALALMGLL   59 (539)
T ss_pred             eeeecc-eEEecCCcEEEEEcCCCCCHHHHHHHHhccC
Confidence            356665 4578999999999999999999999888764

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.34  E-value=7.9e-07  Score=75.22  Aligned_cols=36  Identities=17%  Similarity=0.208  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        16 ~l~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         16 LFSGL-SFTLNAGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             EEecc-eEEECCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444 4568999999999999999999998887763

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=98.34  E-value=1.4e-06  Score=80.92  Aligned_cols=35  Identities=23%  Similarity=0.220  Sum_probs=29.1

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        44 L~~i-sl~i~~Gei~~LvG~NGsGKSTLLr~I~Gl~   78 (400)
T PRK10070         44 VKDA-SLAIEEGEIFVIMGLSGSGKSTMVRLLNRLI   78 (400)
T ss_pred             EEeE-EEEEcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            4443 4468999999999999999999999888764

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.33  E-value=9.7e-06  Score=65.54  Aligned_cols=123  Identities=17%  Similarity=0.200  Sum_probs=70.0

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEE
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQ  111 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~  111 (302)
                      +--+++|+++.|.|++|+|||||+..++...  +...|     -++++.+...... ..+..            ..+.+.
T Consensus        19 ~~~i~~g~~~~i~G~nGsGKStll~~l~g~~--~~~~G-----~i~~~~~~~~~~~-~~~~~------------~~i~~~   78 (157)
T cd00267          19 SLTLKAGEIVALVGPNGSGKSTLLRAIAGLL--KPTSG-----EILIDGKDIAKLP-LEELR------------RRIGYV   78 (157)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC--CCCcc-----EEEECCEEcccCC-HHHHH------------hceEEE
Confidence            3458899999999999999999998887753  32333     4677765321100 00111            122221


Q ss_pred             eCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEE
Q 022155          112 SVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVT  191 (302)
Q Consensus       112 ~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~  191 (302)
                      ...+.-+. ..+.-...+..       +++++++|++..-+         |...+    ..+.+.|+.+... +.++|++
T Consensus        79 ~qlS~G~~-~r~~l~~~l~~-------~~~i~ilDEp~~~l---------D~~~~----~~l~~~l~~~~~~-~~tii~~  136 (157)
T cd00267          79 PQLSGGQR-QRVALARALLL-------NPDLLLLDEPTSGL---------DPASR----ERLLELLRELAEE-GRTVIIV  136 (157)
T ss_pred             eeCCHHHH-HHHHHHHHHhc-------CCCEEEEeCCCcCC---------CHHHH----HHHHHHHHHHHHC-CCEEEEE
Confidence            11222221 11222223332       35999999988744         22222    2455666666554 7899999


Q ss_pred             ecccc
Q 022155          192 NQVVD  196 (302)
Q Consensus       192 n~~~~  196 (302)
                      .|...
T Consensus       137 sh~~~  141 (157)
T cd00267         137 THDPE  141 (157)
T ss_pred             eCCHH
Confidence            88754

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.33  E-value=2.5e-06  Score=68.73  Aligned_cols=51  Identities=18%  Similarity=0.182  Sum_probs=34.6

Q ss_pred             cccCCCCCCccccCChhhHhhhCC---CCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGG---GIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~G---Gl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.......+..+-..+.-+ .|   -+.+|+.+.|+||+|||||||+.-+|..
T Consensus         6 ii~~~~l~ktvg~~~~~l~IL-~~V~L~v~~Ge~vaiVG~SGSGKSTLl~vlAGL   59 (228)
T COG4181           6 IIEVHHLSKTVGQGEGELSIL-KGVELVVKRGETVAIVGPSGSGKSTLLAVLAGL   59 (228)
T ss_pred             eeehhhhhhhhcCCCcceeEe-ecceEEecCCceEEEEcCCCCcHHhHHHHHhcC
Confidence            444444444445444444322 22   4789999999999999999999877764

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=98.33  E-value=2.8e-07  Score=79.78  Aligned_cols=30  Identities=13%  Similarity=0.103  Sum_probs=26.5

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      --|.+|+++.|.|++|+|||||+..++...
T Consensus        20 ~~i~~Ge~~~i~G~nG~GKStLl~~l~G~~   49 (235)
T cd03299          20 LEVERGDYFVILGPTGSGKSVLLETIAGFI   49 (235)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            357899999999999999999998887753

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=98.33  E-value=1.8e-06  Score=86.26  Aligned_cols=91  Identities=16%  Similarity=0.181  Sum_probs=53.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHH-HhCC--CC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSH-TFRP--SN  100 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~-~~~~--~~  100 (302)
                      .|+.+ +--+++|+.+.|+|++|||||||+.-++..+. | ..|     -+++|...  ..+...+++... ..+.  ..
T Consensus       468 vL~~i-sl~i~~Ge~vaIvG~sGsGKSTLlklL~gl~~-p-~~G-----~I~idg~~i~~~~~~~lr~~i~~v~Q~~~lf  539 (686)
T TIGR03797       468 ILDDV-SLQIEPGEFVAIVGPSGSGKSTLLRLLLGFET-P-ESG-----SVFYDGQDLAGLDVQAVRRQLGVVLQNGRLM  539 (686)
T ss_pred             ceeee-EEEECCCCEEEEECCCCCCHHHHHHHHhCCCC-C-CCC-----EEEECCEEcCcCCHHHHHhccEEEccCCccC
Confidence            45544 45689999999999999999999988888753 2 333     47777653  334444433221 1111  11


Q ss_pred             CCCCCCcEEEEeCCCHHHHHHHHH
Q 022155          101 DHNPCDYIFVQSVHSVDQLLDIMP  124 (302)
Q Consensus       101 ~~~~l~~i~~~~~~~~~~l~~~l~  124 (302)
                      ..+..+|+.+..+.+.+++.+.++
T Consensus       540 ~gTI~eNi~~~~~~~~e~i~~al~  563 (686)
T TIGR03797       540 SGSIFENIAGGAPLTLDEAWEAAR  563 (686)
T ss_pred             cccHHHHHhcCCCCCHHHHHHHHH
Confidence            123456666544445555554443

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

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

Probab=98.33  E-value=2.7e-06  Score=72.18  Aligned_cols=31  Identities=19%  Similarity=0.128  Sum_probs=27.2

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|.||+|||||||+..++...
T Consensus        20 ~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          20 SFSVEKGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3468899999999999999999999888753

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=98.33  E-value=9.6e-07  Score=73.79  Aligned_cols=36  Identities=17%  Similarity=0.253  Sum_probs=29.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus         7 il~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166         7 VLKGL-NFAAERGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             eecce-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444 4568999999999999999999998887653

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=98.33  E-value=9e-06  Score=64.85  Aligned_cols=31  Identities=19%  Similarity=0.163  Sum_probs=27.3

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|.|++|+|||||+..++...
T Consensus        20 ~~~~~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          20 SLTINPGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            3468899999999999999999998887764

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.

>PRK10908 cell division protein FtsE; Provisional

Probab=98.32  E-value=4.9e-07  Score=77.48  Aligned_cols=36  Identities=14%  Similarity=0.109  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++...
T Consensus        17 ~l~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         17 ALQGV-TFHMRPGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             EEeee-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999999887653

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.32  E-value=2.2e-06  Score=71.45  Aligned_cols=153  Identities=15%  Similarity=0.225  Sum_probs=85.6

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC----CCHHHH-HHHHHHhCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP----FPMRRL-HQLSHTFRP   98 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~----~~~~rl-~~i~~~~~~   98 (302)
                      ...|..+ +..|+++++|.|.||+|||||||+..+-+...+-+  +-.-..-+++++++-    .+...+ ++++..|+.
T Consensus        20 ~~aL~~i-~l~i~~~~VTAlIGPSGcGKST~LR~lNRmndl~~--~~r~~G~v~~~g~ni~~~~~d~~~lRr~vGMVFQk   96 (253)
T COG1117          20 KHALKDI-NLDIPKNKVTALIGPSGCGKSTLLRCLNRMNDLIP--GARVEGEVLLDGKNIYDPKVDVVELRRRVGMVFQK   96 (253)
T ss_pred             hhhhccC-ceeccCCceEEEECCCCcCHHHHHHHHHhhcccCc--CceEEEEEEECCeeccCCCCCHHHHHHHheeeccC
Confidence            3456655 57899999999999999999999998866543221  100012355555543    334445 457777765


Q ss_pred             CCC--CCCCCcEEEE----eCCCHHHHHHHHH----------HHHHHHHhc----------------cCCCCCeeEEEEe
Q 022155           99 SND--HNPCDYIFVQ----SVHSVDQLLDIMP----------KIESFIKNS----------------SNSRLPIRLIVID  146 (302)
Q Consensus        99 ~~~--~~~l~~i~~~----~~~~~~~l~~~l~----------~l~~~l~~~----------------~~~~~~~~lvVID  146 (302)
                      -+|  ..+.+||-+.    ...+ .++.+++.          ++.+.+.+.                ..+ -+++++..|
T Consensus        97 PnPFp~SIydNVayG~r~~g~~~-~~ldeiVe~sLk~AaLWdEVKDrL~~sa~~LSGGQQQRLcIARalA-v~PeVlLmD  174 (253)
T COG1117          97 PNPFPMSIYDNVAYGLRLHGIKD-KELDEIVESSLKKAALWDEVKDRLHKSALGLSGGQQQRLCIARALA-VKPEVLLMD  174 (253)
T ss_pred             CCCCCchHHHHHHHhHHhhccch-HHHHHHHHHHHHHhHhHHHhHHHhhCCccCCChhHHHHHHHHHHHh-cCCcEEEec
Confidence            543  3455666442    1222 33333322          222222211                112 234888999


Q ss_pred             chhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          147 SIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       147 si~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      ..++.+..-      + ..+   +.+++..|+     .+.|||+++|-..
T Consensus       175 EPtSALDPI------s-T~k---IEeLi~eLk-----~~yTIviVTHnmq  209 (253)
T COG1117         175 EPTSALDPI------S-TLK---IEELITELK-----KKYTIVIVTHNMQ  209 (253)
T ss_pred             CcccccCch------h-HHH---HHHHHHHHH-----hccEEEEEeCCHH
Confidence            888755221      0 111   455666665     4788888888543

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=98.32  E-value=1.1e-06  Score=77.48  Aligned_cols=37  Identities=22%  Similarity=0.359  Sum_probs=30.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+.+|+++.|+|++|||||||+..++...
T Consensus        25 ~il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T PRK10575         25 TLLHPL-SLTFPAGKVTGLIGHNGSGKSTLLKMLGRHQ   61 (265)
T ss_pred             EEEeee-eeEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            345554 4578999999999999999999999887754

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.32  E-value=8.1e-07  Score=77.99  Aligned_cols=36  Identities=14%  Similarity=0.280  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+|++|||||||+..++...
T Consensus        17 il~~i-s~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   52 (258)
T PRK13548         17 LLDDV-SLTLRPGEVVAILGPNGAGKSTLLRALSGEL   52 (258)
T ss_pred             eeeee-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35544 4568899999999999999999998888754

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=98.32  E-value=4.4e-07  Score=78.64  Aligned_cols=31  Identities=26%  Similarity=0.348  Sum_probs=27.3

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|+|++|+|||||+..++...
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (237)
T TIGR00968        20 NLEVPTGSLVALLGPSGSGKSTLLRIIAGLE   50 (237)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999999999988753

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.32  E-value=2e-06  Score=72.93  Aligned_cols=36  Identities=17%  Similarity=0.136  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        17 ~l~~i-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         17 LFSGL-SFTLAAGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EEece-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568899999999999999999998887754

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=98.32  E-value=8.2e-07  Score=75.83  Aligned_cols=36  Identities=22%  Similarity=0.202  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|||||||+..++...
T Consensus        20 il~~~-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          20 AVDGV-SFTVKPGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             eecce-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            45554 4568899999999999999999998887753

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=98.31  E-value=2.1e-06  Score=83.16  Aligned_cols=48  Identities=23%  Similarity=0.317  Sum_probs=35.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+.+.|+||+|||||||+.-++...  ++..|     .+++|..
T Consensus       350 vL~~i-sl~i~~G~~vaIvG~SGsGKSTLl~lL~g~~--~p~~G-----~I~i~g~  397 (529)
T TIGR02868       350 VLDGV-SLDLPPGERVAILGPSGSGKSTLLMLLTGLL--DPLQG-----EVTLDGV  397 (529)
T ss_pred             eeecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCCc-----EEEECCE
Confidence            34444 4468999999999999999999998887764  22333     4777754

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.

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=98.31  E-value=7.9e-07  Score=79.96  Aligned_cols=37  Identities=24%  Similarity=0.356  Sum_probs=31.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        21 ~~l~~v-sl~i~~Ge~v~iiG~nGsGKSTLl~~L~Gl~   57 (305)
T PRK13651         21 KALDNV-SVEINQGEFIAIIGQTGSGKTTFIEHLNALL   57 (305)
T ss_pred             cceeee-EEEEeCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            456664 5578999999999999999999999888764

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=98.31  E-value=7.4e-06  Score=74.38  Aligned_cols=55  Identities=22%  Similarity=0.119  Sum_probs=38.7

Q ss_pred             ccccccCCCCCCccccCC---hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGC---PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~---~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.+++.++..-.+.++-   ..++.+ .--+.+|+.+.|+|++|||||..++.++...
T Consensus         3 ~~~lL~v~nLsV~f~~~~~~~~aVk~i-sf~i~~GEtlAlVGESGSGKSvTa~sim~LL   60 (534)
T COG4172           3 TMPLLSIRNLSVAFHQEGGTVEAVKGI-SFDIEAGETLALVGESGSGKSVTALSILGLL   60 (534)
T ss_pred             CCcceeeeccEEEEecCCcceEeeccc-eeeecCCCEEEEEecCCCCccHHHHHHHHhc
Confidence            344666665555554432   223332 3468899999999999999999999998874

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=98.31  E-value=6.5e-07  Score=78.29  Aligned_cols=36  Identities=22%  Similarity=0.288  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|.+|+++.|+||+|+|||||+..++...
T Consensus        15 ~l~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (252)
T TIGR03005        15 VLDGL-NFSVAAGEKVALIGPSGSGKSTILRILMTLE   50 (252)
T ss_pred             EEeee-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444 4568999999999999999999999887654

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.31  E-value=2.9e-06  Score=83.26  Aligned_cols=145  Identities=18%  Similarity=0.202  Sum_probs=82.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCCC---
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPSN---  100 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~~---  100 (302)
                      .|+.+ +--+++|+.+.|+|++|||||||+..++...  | ..|     -++++...  .++.+.+++... +..++   
T Consensus       365 vL~~i-~l~i~~G~~vaIvG~SGsGKSTL~~lL~g~~--p-~~G-----~I~i~g~~i~~~~~~~lr~~i~-~v~Q~~~L  434 (588)
T PRK11174        365 LAGPL-NFTLPAGQRIALVGPSGAGKTSLLNALLGFL--P-YQG-----SLKINGIELRELDPESWRKHLS-WVGQNPQL  434 (588)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC--C-CCc-----EEEECCEecccCCHHHHHhheE-EecCCCcC
Confidence            45544 4468999999999999999999998887764  4 344     46777542  344444443221 11111   


Q ss_pred             -CCCCCCcEEEEeC-CCHHHHHHHHHH--HHHHHHhc---------------------------cCCCCCeeEEEEechh
Q 022155          101 -DHNPCDYIFVQSV-HSVDQLLDIMPK--IESFIKNS---------------------------SNSRLPIRLIVIDSIA  149 (302)
Q Consensus       101 -~~~~l~~i~~~~~-~~~~~l~~~l~~--l~~~l~~~---------------------------~~~~~~~~lvVIDsi~  149 (302)
                       ..++.+|+.+... .+.+++.+.+..  +.+.+.+-                           +. -.+.+++++|+.+
T Consensus       435 F~~TI~eNI~~g~~~~~~eei~~al~~a~l~~~i~~lp~G~dT~vge~G~~LSGGQrQRialARAl-l~~~~IliLDE~T  513 (588)
T PRK11174        435 PHGTLRDNVLLGNPDASDEQLQQALENAWVSEFLPLLPQGLDTPIGDQAAGLSVGQAQRLALARAL-LQPCQLLLLDEPT  513 (588)
T ss_pred             CCcCHHHHhhcCCCCCCHHHHHHHHHHhCHHHHHHhcccccccccccCCCCCCHHHHHHHHHHHHH-hcCCCEEEEeCCc
Confidence             2345677777543 455665555432  22222110                           00 1235899999988


Q ss_pred             hhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          150 ALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       150 ~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +....+        .+     ..+.+.|+++.  .+.|+|++.|-.+
T Consensus       514 SaLD~~--------te-----~~i~~~l~~~~--~~~TvIiItHrl~  545 (588)
T PRK11174        514 ASLDAH--------SE-----QLVMQALNAAS--RRQTTLMVTHQLE  545 (588)
T ss_pred             cCCCHH--------HH-----HHHHHHHHHHh--CCCEEEEEecChH
Confidence            755221        11     24445565554  4678888877543

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.31  E-value=5.1e-06  Score=73.25  Aligned_cols=136  Identities=15%  Similarity=0.230  Sum_probs=84.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC-CCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF-PFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~-~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |.-.+++.+-||||+|||+||..+|-...+.  ..+.-.+...|.-.. ++-..++.                       
T Consensus       174 It~NRliLlhGPPGTGKTSLCKaLaQkLSIR--~~~~y~~~~liEinshsLFSKWFs-----------------------  228 (423)
T KOG0744|consen  174 ITWNRLILLHGPPGTGKTSLCKALAQKLSIR--TNDRYYKGQLIEINSHSLFSKWFS-----------------------  228 (423)
T ss_pred             eeeeeEEEEeCCCCCChhHHHHHHHHhheee--ecCccccceEEEEehhHHHHHHHh-----------------------
Confidence            4567899999999999999999998876432  111111222222111 10011111                       


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh--hhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEE
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF--RSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVT  191 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~--~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~  191 (302)
                      .+..-+..++.+|+++++.    ....-.|.||.+-++.  +.....+. +...-.+.+..++..|.++.+..|+-++.|
T Consensus       229 ESgKlV~kmF~kI~ELv~d----~~~lVfvLIDEVESLa~aR~s~~S~~-EpsDaIRvVNalLTQlDrlK~~~NvliL~T  303 (423)
T KOG0744|consen  229 ESGKLVAKMFQKIQELVED----RGNLVFVLIDEVESLAAARTSASSRN-EPSDAIRVVNALLTQLDRLKRYPNVLILAT  303 (423)
T ss_pred             hhhhHHHHHHHHHHHHHhC----CCcEEEEEeHHHHHHHHHHHhhhcCC-CCchHHHHHHHHHHHHHHhccCCCEEEEec
Confidence            1222244566778888876    5677888899887764  22222211 122334457788899999999999999999


Q ss_pred             ecccccCCC
Q 022155          192 NQVVDLMEP  200 (302)
Q Consensus       192 n~~~~~~~~  200 (302)
                      ....+.++.
T Consensus       304 SNl~~siD~  312 (423)
T KOG0744|consen  304 SNLTDSIDV  312 (423)
T ss_pred             cchHHHHHH
Confidence            998877654

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=98.31  E-value=1.9e-06  Score=75.87  Aligned_cols=36  Identities=22%  Similarity=0.265  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        19 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   54 (262)
T PRK09984         19 ALHAV-DLNIHHGEMVALLGPSGSGKSTLLRHLSGLI   54 (262)
T ss_pred             EEecc-eEEEcCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45544 4468899999999999999999999888764

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=98.30  E-value=6.2e-06  Score=75.05  Aligned_cols=37  Identities=30%  Similarity=0.355  Sum_probs=30.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--|.+|+++.|+|++|||||||+..++...
T Consensus        21 ~~l~~v-sl~i~~Ge~~~ivG~sGsGKSTLl~~i~Gl~   57 (330)
T PRK15093         21 KAVDRV-SMTLTEGEIRGLVGESGSGKSLIAKAICGVT   57 (330)
T ss_pred             EEEeee-EEEECCCCEEEEECCCCCCHHHHHHHHHccC
Confidence            356655 4578999999999999999999999887753

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=98.30  E-value=7.2e-06  Score=72.44  Aligned_cols=36  Identities=28%  Similarity=0.338  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        22 il~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (269)
T PRK11831         22 IFDNI-SLTVPRGKITAIMGPSGIGKTTLLRLIGGQI   57 (269)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998887764

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

Probab=98.30  E-value=3.6e-06  Score=69.17  Aligned_cols=48  Identities=19%  Similarity=0.225  Sum_probs=35.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...  +...|    . ++++.+
T Consensus        17 ~l~~i-~~~i~~G~~~~l~G~nGsGKstLl~~i~G~~--~~~~G----~-i~~~g~   64 (171)
T cd03228          17 VLKDV-SLTIKPGEKVAIVGPSGSGKSTLLKLLLRLY--DPTSG----E-ILIDGV   64 (171)
T ss_pred             cccce-EEEEcCCCEEEEECCCCCCHHHHHHHHHcCC--CCCCC----E-EEECCE
Confidence            45554 4468999999999999999999998888764  32333    3 566654

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=98.30  E-value=9.9e-06  Score=69.82  Aligned_cols=29  Identities=34%  Similarity=0.482  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.+|+++.|.||+|+|||||+..++...
T Consensus         8 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   36 (230)
T TIGR02770         8 SLKRGEVLALVGESGSGKSLTCLAILGLL   36 (230)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999999999888764

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=98.30  E-value=1.1e-06  Score=76.33  Aligned_cols=36  Identities=22%  Similarity=0.194  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++...
T Consensus        16 ~l~~i-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295          16 AVNNL-NLEIAKGEFLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             Eeeee-EEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34544 4578999999999999999999998887753

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

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.30  E-value=3.8e-06  Score=82.34  Aligned_cols=147  Identities=16%  Similarity=0.191  Sum_probs=80.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHH-HHHHhCC--CC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQ-LSHTFRP--SN  100 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~-i~~~~~~--~~  100 (302)
                      .|+.+ +--+++|+.+.|+|++|||||||+..++...  ++..|     .++++...  .++.+.+++ ++-..+.  ..
T Consensus       358 il~~i-~l~i~~G~~~aIvG~sGsGKSTLl~ll~gl~--~p~~G-----~I~i~g~~i~~~~~~~~~~~i~~v~Q~~~lf  429 (582)
T PRK11176        358 ALRNI-NFKIPAGKTVALVGRSGSGKSTIANLLTRFY--DIDEG-----EILLDGHDLRDYTLASLRNQVALVSQNVHLF  429 (582)
T ss_pred             cccCc-eEEeCCCCEEEEECCCCCCHHHHHHHHHhcc--CCCCc-----eEEECCEEhhhcCHHHHHhhceEEccCceee
Confidence            45544 4568999999999999999999999888875  32333     46777542  233333322 2211111  01


Q ss_pred             CCCCCCcEEEEeC--CCHHHHHHHHHH--HHHHHHhc---------------------------cCCCCCeeEEEEechh
Q 022155          101 DHNPCDYIFVQSV--HSVDQLLDIMPK--IESFIKNS---------------------------SNSRLPIRLIVIDSIA  149 (302)
Q Consensus       101 ~~~~l~~i~~~~~--~~~~~l~~~l~~--l~~~l~~~---------------------------~~~~~~~~lvVIDsi~  149 (302)
                      ..++.+|+.+...  .+.+++.+.+..  +.+++++-                           .. -.+.+++++|+.+
T Consensus       430 ~~Ti~~Ni~~~~~~~~~~~~i~~al~~~~l~~~i~~lp~Gldt~ig~~g~~LSGGqrQRi~LARal-l~~~~ililDEpt  508 (582)
T PRK11176        430 NDTIANNIAYARTEQYSREQIEEAARMAYAMDFINKMDNGLDTVIGENGVLLSGGQRQRIAIARAL-LRDSPILILDEAT  508 (582)
T ss_pred             cchHHHHHhcCCCCCCCHHHHHHHHHHhCcHHHHHhcccccCceeCCCCCcCCHHHHHHHHHHHHH-HhCCCEEEEECcc
Confidence            2234566665322  344555444432  12221110                           00 1234889999988


Q ss_pred             hhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          150 ALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       150 ~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +....+        .+     ..+.+.|+++.  .++|+|++.|-..
T Consensus       509 saLD~~--------t~-----~~i~~~l~~~~--~~~tvI~VtHr~~  540 (582)
T PRK11176        509 SALDTE--------SE-----RAIQAALDELQ--KNRTSLVIAHRLS  540 (582)
T ss_pred             ccCCHH--------HH-----HHHHHHHHHHh--CCCEEEEEecchH
Confidence            855221        11     24556666553  3789888888643

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=98.30  E-value=2.5e-06  Score=71.97  Aligned_cols=35  Identities=20%  Similarity=0.285  Sum_probs=29.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++..
T Consensus        15 ~l~~i-s~~i~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          15 ILKGV-NLTIKKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             eeecc-ceEECCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            44444 456889999999999999999999888775

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=98.30  E-value=1.1e-06  Score=75.83  Aligned_cols=36  Identities=17%  Similarity=0.250  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        15 ~l~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          15 VVNGV-SLSVKQGEIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             eeccc-eeEecCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4468899999999999999999998887753

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.30  E-value=9.7e-06  Score=68.33  Aligned_cols=48  Identities=15%  Similarity=0.311  Sum_probs=35.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...  ++..|     -++++.+
T Consensus        16 il~~~-s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~--~~~~G-----~v~~~g~   63 (200)
T PRK13540         16 LLQQI-SFHLPAGGLLHLKGSNGAGKTTLLKLIAGLL--NPEKG-----EILFERQ   63 (200)
T ss_pred             EEeee-eEEECCCCEEEEECCCCCCHHHHHHHHhcCC--CCCCe-----eEEECCC
Confidence            44444 4468899999999999999999998887753  32333     4667755

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=98.29  E-value=2.3e-06  Score=72.77  Aligned_cols=36  Identities=17%  Similarity=0.277  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        15 ~l~~~-s~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          15 VLKGI-DLTVKKGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             eecCc-eEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34443 4468899999999999999999999888764

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.29  E-value=1.2e-06  Score=77.50  Aligned_cols=37  Identities=19%  Similarity=0.170  Sum_probs=31.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        23 ~il~~i-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (271)
T PRK13632         23 NALKNV-SFEINEGEYVAILGHNGSGKSTISKILTGLL   59 (271)
T ss_pred             cceeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456665 5678999999999999999999998887764

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.29  E-value=1.7e-05  Score=66.67  Aligned_cols=90  Identities=19%  Similarity=0.303  Sum_probs=54.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEEeCCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQSVHS  115 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~~~~~  115 (302)
                      .++.++||+|+||||.+-.+|.....   .+.   +|.+|+++ +++.   +.|+..++.+          ++-+.....
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~---~~~---~v~lis~D-~~R~ga~eQL~~~a~~l----------~vp~~~~~~   64 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKL---KGK---KVALISAD-TYRIGAVEQLKTYAEIL----------GVPFYVART   64 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHH---TT-----EEEEEES-TSSTHHHHHHHHHHHHH----------TEEEEESST
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhh---ccc---cceeecCC-CCCccHHHHHHHHHHHh----------ccccchhhc
Confidence            47899999999999999999998863   343   78888876 4444   5555555443          344444332


Q ss_pred             HHHHHHHHH-HHHHHHHhccCCCCCeeEEEEechhhh
Q 022155          116 VDQLLDIMP-KIESFIKNSSNSRLPIRLIVIDSIAAL  151 (302)
Q Consensus       116 ~~~l~~~l~-~l~~~l~~~~~~~~~~~lvVIDsi~~~  151 (302)
                      ..+-.+++. .++..-.      .+.++|+||.....
T Consensus        65 ~~~~~~~~~~~l~~~~~------~~~D~vlIDT~Gr~   95 (196)
T PF00448_consen   65 ESDPAEIAREALEKFRK------KGYDLVLIDTAGRS   95 (196)
T ss_dssp             TSCHHHHHHHHHHHHHH------TTSSEEEEEE-SSS
T ss_pred             chhhHHHHHHHHHHHhh------cCCCEEEEecCCcc
Confidence            221222222 2222222      35699999997653

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 ....

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=98.28  E-value=1e-06  Score=75.14  Aligned_cols=28  Identities=18%  Similarity=0.256  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.+ +++.|.||+|+|||||+..++...
T Consensus        20 ~i~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          20 DLNE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             EEcc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            5789 999999999999999998887754

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

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=98.28  E-value=6.8e-07  Score=81.52  Aligned_cols=36  Identities=11%  Similarity=0.190  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        56 ~l~~i-s~~i~~Gei~gLlGpNGaGKSTLl~~L~Gl~   91 (340)
T PRK13536         56 VVNGL-SFTVASGECFGLLGPNGAGKSTIARMILGMT   91 (340)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45554 3468999999999999999999999888754

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=98.28  E-value=2.9e-07  Score=85.05  Aligned_cols=36  Identities=25%  Similarity=0.217  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        34 ~l~~v-sl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~   69 (377)
T PRK11607         34 AVDDV-SLTIYKGEIFALLGASGCGKSTLLRMLAGFE   69 (377)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45543 4468899999999999999999998888764

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.28  E-value=2e-06  Score=72.24  Aligned_cols=32  Identities=19%  Similarity=0.155  Sum_probs=27.8

Q ss_pred             hCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           31 LGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        31 L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++--+++|+++.|.|++|+|||||+..++...
T Consensus        19 vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         19 LSITFLPSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            35568899999999999999999998887753

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

Probab=98.27  E-value=2.4e-07  Score=84.93  Aligned_cols=36  Identities=17%  Similarity=0.151  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..|+...
T Consensus        19 ~l~~v-s~~i~~Ge~~~l~GpsGsGKSTLLr~iaGl~   54 (353)
T TIGR03265        19 ALKDI-SLSVKKGEFVCLLGPSGCGKTTLLRIIAGLE   54 (353)
T ss_pred             EEEee-EEEEcCCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            34544 4468899999999999999999999988864

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.27  E-value=5.3e-07  Score=80.53  Aligned_cols=36  Identities=17%  Similarity=0.179  Sum_probs=30.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        26 il~~i-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         26 ALNNT-SLTFKKNKVTCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             eeeee-EEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45554 4578999999999999999999999888764

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=98.27  E-value=4.5e-06  Score=73.06  Aligned_cols=129  Identities=15%  Similarity=0.225  Sum_probs=78.1

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      +.+++++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+++...+..   ..+   ..|+|.-....  .
T Consensus        40 ~p~~~~R~~i~e~L~TGI~~ID~l~--pigrGQr~~Ifg~~g~GKt~L~l~~i~~~~---~~~---v~~V~~~iGer--~  109 (274)
T cd01132          40 APGIIPRKSVNEPLQTGIKAIDAMI--PIGRGQRELIIGDRQTGKTAIAIDTIINQK---GKK---VYCIYVAIGQK--A  109 (274)
T ss_pred             CCChhhcCCcccccccCCEEeeccC--CcccCCEEEeeCCCCCCccHHHHHHHHHhc---CCC---eEEEEEecccc--h
Confidence            3457788888999999999999886  578999999999999999999766544432   222   25678765433  2


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHH-----HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDI-----MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~-----l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      +...++.+.+..   ...+++..+ ....+..-....     -..+.+++..    ...--||++|+++.+.
T Consensus       110 ~ev~e~~~~~~~---~~~~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~----~G~~Vlvl~DslTr~A  174 (274)
T cd01132         110 STVAQVVKTLEE---HGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMD----NGKHALIIYDDLSKQA  174 (274)
T ss_pred             HHHHHHHHHHHh---cCccceeEEEEeCCCCchhHHHHHHHHHHHHHHHHHH----CCCCEEEEEcChHHHH
Confidence            333333333221   134455333 332221111111     1233344443    2344899999999974

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.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.27  E-value=1.2e-05  Score=67.80  Aligned_cols=28  Identities=14%  Similarity=0.183  Sum_probs=24.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..|+++.|.||+|+|||||+.+++...
T Consensus        22 l~~g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          22 MEKKNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            4557999999999999999999998765

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>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=98.27  E-value=1.3e-05  Score=62.88  Aligned_cols=41  Identities=22%  Similarity=0.199  Sum_probs=32.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      .+..+.|.||+|+|||+++..++....   ..+.   .++|++....
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~---~v~~~~~~~~   58 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF---RPGA---PFLYLNASDL   58 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh---cCCC---CeEEEehhhh
Confidence            577899999999999999999988763   2233   7888886643

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.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.26  E-value=3.6e-06  Score=70.97  Aligned_cols=46  Identities=13%  Similarity=0.259  Sum_probs=35.4

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +--+.+|++..|.||+|||||||++.++.+-......|     -+.++.++
T Consensus        24 nL~v~~GEvhaiMGPNGsGKSTLa~~i~G~p~Y~Vt~G-----~I~~~Ged   69 (251)
T COG0396          24 NLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEG-----EILFDGED   69 (251)
T ss_pred             ceeEcCCcEEEEECCCCCCHHHHHHHHhCCCCceEecc-----eEEECCcc
Confidence            34688999999999999999999999988743322333     46777775

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

Probab=98.26  E-value=1.2e-06  Score=78.75  Aligned_cols=36  Identities=17%  Similarity=0.182  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        19 ~l~~v-sl~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   54 (303)
T TIGR01288        19 VVNDL-SFTIARGECFGLLGPNGAGKSTIARMLLGMI   54 (303)
T ss_pred             EEcce-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998887754

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

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=98.26  E-value=4.1e-06  Score=82.92  Aligned_cols=150  Identities=15%  Similarity=0.211  Sum_probs=85.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHH-HhCCC--C
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSH-TFRPS--N  100 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~-~~~~~--~  100 (302)
                      .|+++ +--|++|+.+.|+|++|||||||+.-++.... | ..|     -+++|.-+  .++...+++-.. ..+..  .
T Consensus       488 vL~~i-sL~I~~Ge~vaIvG~SGsGKSTL~KLL~gly~-p-~~G-----~I~~dg~dl~~i~~~~lR~~ig~V~Q~~~Lf  559 (709)
T COG2274         488 VLEDL-SLEIPPGEKVAIVGRSGSGKSTLLKLLLGLYK-P-QQG-----RILLDGVDLNDIDLASLRRQVGYVLQDPFLF  559 (709)
T ss_pred             hhhce-eEEeCCCCEEEEECCCCCCHHHHHHHHhcCCC-C-CCc-----eEEECCEeHHhcCHHHHHhheeEEcccchhh
Confidence            45554 45799999999999999999999988877652 2 333     57887553  344444433221 11111  1


Q ss_pred             CCCCCCcEEEEeCCC-HHHHHHHHH--HHHHHHHhc--------------------------cCCCCCeeEEEEechhhh
Q 022155          101 DHNPCDYIFVQSVHS-VDQLLDIMP--KIESFIKNS--------------------------SNSRLPIRLIVIDSIAAL  151 (302)
Q Consensus       101 ~~~~l~~i~~~~~~~-~~~l~~~l~--~l~~~l~~~--------------------------~~~~~~~~lvVIDsi~~~  151 (302)
                      .....+|+....+.. .+++.+...  .+.+.+.+.                          ..--.+++++++|+.++.
T Consensus       560 ~gSI~eNi~l~~p~~~~e~i~~A~~~ag~~~fI~~lP~gy~t~v~E~G~~LSGGQrQrlalARaLl~~P~ILlLDEaTSa  639 (709)
T COG2274         560 SGSIRENIALGNPEATDEEIIEAAQLAGAHEFIENLPMGYDTPVGEGGANLSGGQRQRLALARALLSKPKILLLDEATSA  639 (709)
T ss_pred             cCcHHHHHhcCCCCCCHHHHHHHHHHhCcHHHHHhcccccccccccCCCCCCHHHHHHHHHHHHhccCCCEEEEeCcccc
Confidence            123446666655433 345443332  112222110                          001234599999998886


Q ss_pred             hhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccC
Q 022155          152 FRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM  198 (302)
Q Consensus       152 ~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~  198 (302)
                      ...+        .+     ..+...|.++.  .++|+|++.|=...+
T Consensus       640 LD~~--------sE-----~~I~~~L~~~~--~~~T~I~IaHRl~ti  671 (709)
T COG2274         640 LDPE--------TE-----AIILQNLLQIL--QGRTVIIIAHRLSTI  671 (709)
T ss_pred             cCHh--------HH-----HHHHHHHHHHh--cCCeEEEEEccchHh
Confidence            5221        22     25566677665  468999998854443

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.26  E-value=3.3e-06  Score=73.31  Aligned_cols=36  Identities=19%  Similarity=0.249  Sum_probs=29.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        18 ~l~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         18 ILKDI-SVKFEGGAIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             eeeee-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34443 4468899999999999999999999888754

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.26  E-value=4.8e-06  Score=82.15  Aligned_cols=56  Identities=18%  Similarity=0.131  Sum_probs=40.3

Q ss_pred             CccccccCCCCCCcccc---CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            6 TPQNLLDNPLTTEKCTV---GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~t---G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..++++.+.....+..   +.+.|+.+ +--+.+|+++.|+|++|||||||+..++...
T Consensus         8 ~~~~~l~v~~l~~~y~~~~~~~~~l~~i-s~~v~~Ge~~~lvG~nGsGKSTLl~~l~Gll   66 (623)
T PRK10261          8 DARDVLAVENLNIAFMQEQQKIAAVRNL-SFSLQRGETLAIVGESGSGKSVTALALMRLL   66 (623)
T ss_pred             CCCceEEEeceEEEecCCCCceeEEEee-EEEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            33445555555544432   23466665 5578999999999999999999999998764

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=98.26  E-value=3.3e-06  Score=84.42  Aligned_cols=48  Identities=23%  Similarity=0.233  Sum_probs=35.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+.+.|+|++|||||||+..++..+.  +..|     .+++|..
T Consensus       480 vL~~i-~l~i~~G~~iaIvG~sGsGKSTLlklL~gl~~--p~~G-----~I~idg~  527 (694)
T TIGR03375       480 ALDNV-SLTIRPGEKVAIIGRIGSGKSTLLKLLLGLYQ--PTEG-----SVLLDGV  527 (694)
T ss_pred             ceeee-eEEECCCCEEEEECCCCCCHHHHHHHHhcCCC--CCCc-----eEEECCE
Confidence            34443 44689999999999999999999988887653  2333     4777754

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.

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.25  E-value=1.1e-05  Score=75.01  Aligned_cols=36  Identities=22%  Similarity=0.326  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        18 vL~~v-s~~i~~Geiv~liGpNGaGKSTLLk~LaGll   53 (402)
T PRK09536         18 VLDGV-DLSVREGSLVGLVGPNGAGKTTLLRAINGTL   53 (402)
T ss_pred             EEEee-EEEECCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45554 4578999999999999999999999888754

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.25  E-value=1.2e-06  Score=79.20  Aligned_cols=37  Identities=19%  Similarity=0.213  Sum_probs=31.3

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--|++|+++.|+|++|||||||+..++...
T Consensus        40 ~~L~~v-sl~i~~Ge~~~I~G~nGsGKSTLl~~L~Gl~   76 (320)
T PRK13631         40 VALNNI-SYTFEKNKIYFIIGNSGSGKSTLVTHFNGLI   76 (320)
T ss_pred             cceeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456665 5578999999999999999999999888754

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.24  E-value=2.3e-06  Score=75.86  Aligned_cols=36  Identities=19%  Similarity=0.268  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|.+|+++.|.|++|+|||||+..++...
T Consensus        17 ~l~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (274)
T PRK13644         17 ALENI-NLVIKKGEYIGIIGKNGSGKSTLALHLNGLL   52 (274)
T ss_pred             eeeee-EEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45554 4568999999999999999999999888753

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=98.24  E-value=6.9e-06  Score=72.02  Aligned_cols=132  Identities=17%  Similarity=0.186  Sum_probs=81.3

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.+...  ....   .|+|.-....  .
T Consensus        40 ~p~~~~R~~~~e~L~TGIr~ID~l~--pig~GQr~~If~~~G~GKTtLa~~i~~~i~~--~~~~---~~V~~~iGer--~  110 (274)
T cd01133          40 APEFVEQSTKTEILETGIKVIDLLA--PYAKGGKIGLFGGAGVGKTVLIMELINNIAK--AHGG---YSVFAGVGER--T  110 (274)
T ss_pred             CCCchhhcCcCcccccCceeeeccC--CcccCCEEEEecCCCCChhHHHHHHHHHHHh--cCCC---EEEEEEeccC--c
Confidence            3457788888899999999999887  5789999999999999999999999988742  1122   5677654322  2


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCH---HHHHH--HHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSV---DQLLD--IMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~---~~l~~--~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +...++...+..   ...+++..+ ....+.   .....  .-..+.+++.+   ....--|+++||++.+..
T Consensus       111 ~Ev~e~~~~~~~---~~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~---~~g~~Vl~~~Dsltr~a~  177 (274)
T cd01133         111 REGNDLYHEMKE---SGVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRD---EEGQDVLLFIDNIFRFTQ  177 (274)
T ss_pred             HHHHHHHHHHHh---cCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH---hcCCeEEEEEeChhHHHH
Confidence            233333333211   134555433 332221   11111  11233444543   113447899999998753

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.

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=98.24  E-value=1.5e-05  Score=68.44  Aligned_cols=28  Identities=18%  Similarity=0.192  Sum_probs=25.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.+|+++.|.|++|||||||+..++...
T Consensus         3 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   30 (223)
T TIGR03771         3 ADKGELLGLLGPNGAGKTTLLRAILGLI   30 (223)
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            6789999999999999999998888764

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.24  E-value=4.4e-06  Score=82.04  Aligned_cols=48  Identities=21%  Similarity=0.325  Sum_probs=36.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+.+.|+|++|||||||+..++....   +..|    .+++|..
T Consensus       356 il~~i-~l~i~~Ge~iaIvG~SGsGKSTLl~lL~gl~~---p~~G----~I~idg~  403 (592)
T PRK10790        356 VLQNI-NLSVPSRGFVALVGHTGSGKSTLASLLMGYYP---LTEG----EIRLDGR  403 (592)
T ss_pred             eeece-eEEEcCCCEEEEECCCCCCHHHHHHHHhcccC---CCCc----eEEECCE
Confidence            45544 45789999999999999999999998887652   2232    4677754

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=98.24  E-value=1.8e-06  Score=74.93  Aligned_cols=36  Identities=17%  Similarity=0.256  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...
T Consensus        16 il~~~-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (240)
T PRK09493         16 VLHNI-DLNIDQGEVVVIIGPSGSGKSTLLRCINKLE   51 (240)
T ss_pred             Eeeee-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568899999999999999999999888764

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.24  E-value=1.1e-06  Score=78.06  Aligned_cols=36  Identities=22%  Similarity=0.173  Sum_probs=30.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|++|+++.|.||+|||||||+..++...
T Consensus        22 ~l~~i-s~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   57 (280)
T PRK13649         22 ALFDV-NLTIEDGSYTAFIGHTGSGKSTIMQLLNGLH   57 (280)
T ss_pred             eeeee-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45654 5578999999999999999999998887754

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=98.24  E-value=6e-06  Score=72.86  Aligned_cols=37  Identities=16%  Similarity=0.182  Sum_probs=31.0

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|+||+|+|||||+..++...
T Consensus        27 ~~l~~v-sl~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~   63 (267)
T PRK15112         27 EAVKPL-SFTLREGQTLAIIGENGSGKSTLAKMLAGMI   63 (267)
T ss_pred             ceeeee-eEEecCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            356655 5578999999999999999999998887764

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

Probab=98.24  E-value=3.9e-06  Score=74.00  Aligned_cols=36  Identities=19%  Similarity=0.319  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        22 ~l~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   57 (265)
T PRK10253         22 VAENL-TVEIPDGHFTAIIGPNGCGKSTLLRTLSRLM   57 (265)
T ss_pred             Eeeec-ceEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45554 4578899999999999999999999887764

>KOG0061 consensus Transporter, ABC superfamily (Breast cancer resistance protein) [Secondary metabolites biosynthesis, transport and catabolism]

Probab=98.23  E-value=2.8e-06  Score=83.27  Aligned_cols=35  Identities=23%  Similarity=0.283  Sum_probs=30.1

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+ .|-..+|+++.|.||+|||||||+..+|...
T Consensus        46 L~~v-sg~~~~Gel~AimG~SGsGKtTLL~~Lagr~   80 (613)
T KOG0061|consen   46 LKGV-SGTAKPGELLAIMGPSGSGKTTLLNALAGRL   80 (613)
T ss_pred             eeCc-EEEEecCeEEEEECCCCCCHHHHHHHHhccc
Confidence            4444 4678999999999999999999999988875

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=98.23  E-value=2.6e-06  Score=74.68  Aligned_cols=36  Identities=31%  Similarity=0.380  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...
T Consensus        16 il~~i-s~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   51 (256)
T TIGR03873        16 IVDGV-DVTAPPGSLTGLLGPNGSGKSTLLRLLAGAL   51 (256)
T ss_pred             EEeee-eEEEcCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            34444 4568899999999999999999999887753

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=98.23  E-value=1.6e-05  Score=68.06  Aligned_cols=36  Identities=25%  Similarity=0.156  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        20 il~~v-s~~i~~G~~~~I~G~nGsGKStLl~~l~G~~   55 (220)
T TIGR02982        20 VLFDI-NLEINPGEIVILTGPSGSGKTTLLTLIGGLR   55 (220)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35544 4468899999999999999999999888653

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=98.22  E-value=1.9e-06  Score=79.19  Aligned_cols=30  Identities=27%  Similarity=0.340  Sum_probs=26.7

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      --+.+|+++.|.||+|||||||+..++...
T Consensus        18 l~i~~Gei~~l~G~nGsGKSTLl~~iaGl~   47 (354)
T TIGR02142        18 FTLPGQGVTAIFGRSGSGKTTLIRLIAGLT   47 (354)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            357899999999999999999998888764

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.22  E-value=9.1e-06  Score=71.91  Aligned_cols=36  Identities=22%  Similarity=0.281  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|.+|+++.|+||+|+|||||+..++...
T Consensus        16 il~~v-sl~i~~Ge~~~l~G~nGsGKSTLl~~laG~~   51 (272)
T PRK13547         16 ILRDL-SLRIEPGRVTALLGRNGAGKSTLLKALAGDL   51 (272)
T ss_pred             EEecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4468899999999999999999999887764

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=98.22  E-value=4.9e-05  Score=71.33  Aligned_cols=129  Identities=18%  Similarity=0.188  Sum_probs=75.3

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+........+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+..++....   . ..   .++.+..+..-..
T Consensus       129 ~p~p~~R~~i~~~l~tg~~vid~l~--~i~~Gq~i~I~G~sG~GKStLl~~I~~~~~---~-~~---gvI~~~Gerg~ev  199 (438)
T PRK07721        129 PPNPLKRPPIREPMEVGVRAIDSLL--TVGKGQRVGIFAGSGVGKSTLMGMIARNTS---A-DL---NVIALIGERGREV  199 (438)
T ss_pred             CCChhhccCcccccccchhhhheee--eecCCcEEEEECCCCCCHHHHHHHHhcccC---C-Ce---EEEEEEecCCccH
Confidence            3445666666778999999999985  689999999999999999999977776542   1 11   4566665544322


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHH---HHHH--HHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVD---QLLD--IMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~---~l~~--~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      ..   +....  .........+.+....+..   .+..  ....+.+++.+    .+.--|+++||++.+..
T Consensus       200 ~e---~~~~~--l~~~~l~r~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~----~g~~Vll~~Dsltr~A~  262 (438)
T PRK07721        200 RE---FIERD--LGPEGLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRD----QGLNVMLMMDSVTRVAM  262 (438)
T ss_pred             HH---HHHhh--cChhhhcCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----CCCcEEEEEeChHHHHH
Confidence            22   11110  0011112234444322211   1111  11233444543    24448899999998754

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=98.22  E-value=5e-06  Score=83.37  Aligned_cols=48  Identities=21%  Similarity=0.212  Sum_probs=36.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+.+.|+|++|||||||+.-++....  +..|     .+++|..
T Consensus       494 vL~~i-sl~i~~Ge~vaIvG~sGsGKSTLlklL~gl~~--p~~G-----~I~idg~  541 (710)
T TIGR03796       494 LIENF-SLTLQPGQRVALVGGSGSGKSTIAKLVAGLYQ--PWSG-----EILFDGI  541 (710)
T ss_pred             cccce-eEEEcCCCEEEEECCCCCCHHHHHHHHhcCCC--CCCc-----EEEECCE
Confidence            45554 45789999999999999999999988888753  2333     5777754

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=98.22  E-value=9.3e-07  Score=75.61  Aligned_cols=36  Identities=25%  Similarity=0.208  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        17 il~~i-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          17 AVDDL-SLNVYKGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             eecce-EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998888754

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=98.21  E-value=1.3e-05  Score=70.37  Aligned_cols=36  Identities=25%  Similarity=0.197  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        21 il~~i-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   56 (258)
T PRK11701         21 GCRDV-SFDLYPGEVLGIVGESGSGKTTLLNALSARL   56 (258)
T ss_pred             eeeee-eEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44443 4468899999999999999999999888764

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.21  E-value=2.2e-05  Score=71.64  Aligned_cols=93  Identities=15%  Similarity=0.230  Sum_probs=61.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEE
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQ  111 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~  111 (302)
                      +.++.++.|+||+|+||||++..+|..+.   ..|.   +|.+|+++ ++..   +++...+..          .++.+.
T Consensus       203 ~~~~~ii~lvGptGvGKTTt~akLA~~l~---~~g~---~V~lItaD-tyR~gAveQLk~yae~----------lgvpv~  265 (407)
T PRK12726        203 LSNHRIISLIGQTGVGKTTTLVKLGWQLL---KQNR---TVGFITTD-TFRSGAVEQFQGYADK----------LDVELI  265 (407)
T ss_pred             ecCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEEeCC-ccCccHHHHHHHHhhc----------CCCCEE
Confidence            56799999999999999999999998763   3444   78999987 3432   444444432          122333


Q ss_pred             eCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          112 SVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       112 ~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...+..++.+.+..+..        ....++|+||......
T Consensus       266 ~~~dp~dL~~al~~l~~--------~~~~D~VLIDTAGr~~  298 (407)
T PRK12726        266 VATSPAELEEAVQYMTY--------VNCVDHILIDTVGRNY  298 (407)
T ss_pred             ecCCHHHHHHHHHHHHh--------cCCCCEEEEECCCCCc
Confidence            34566666555543321        1246999999987643

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.21  E-value=4.2e-06  Score=72.47  Aligned_cols=36  Identities=22%  Similarity=0.253  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ .--+.+|+++.|+||+|+|||||+..++...
T Consensus        20 ~l~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (237)
T PRK11614         20 ALHEV-SLHINQGEIVTLIGANGAGKTTLLGTLCGDP   55 (237)
T ss_pred             eeeee-EEEEcCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            45554 4578999999999999999999998887653

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=98.21  E-value=4.6e-06  Score=83.62  Aligned_cols=48  Identities=31%  Similarity=0.295  Sum_probs=36.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+.+.|+|++|||||||+..++..+. | ..|     .+++|..
T Consensus       489 iL~~i-sl~i~~G~~vaIvG~SGsGKSTLlklL~gl~~-p-~~G-----~I~idg~  536 (708)
T TIGR01193       489 ILSDI-SLTIKMNSKTTIVGMSGSGKSTLAKLLVGFFQ-A-RSG-----EILLNGF  536 (708)
T ss_pred             ceece-eEEECCCCEEEEECCCCCCHHHHHHHHhccCC-C-CCc-----EEEECCE
Confidence            45544 45689999999999999999999988887653 2 333     4777754

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

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

Probab=98.21  E-value=4.1e-07  Score=83.56  Aligned_cols=36  Identities=22%  Similarity=0.321  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        20 ~l~~v-sl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   55 (362)
T TIGR03258        20 VLDDL-SLEIEAGELLALIGKSGCGKTTLLRAIAGFV   55 (362)
T ss_pred             EEeee-EEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4468899999999999999999999888754

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=98.21  E-value=2.4e-05  Score=68.52  Aligned_cols=36  Identities=19%  Similarity=0.062  Sum_probs=30.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ . -+.+|+++.|.||+|+|||||+..++...
T Consensus        15 ~~l~~i-~-~i~~Ge~~~IvG~nGsGKSTLlk~l~Gl~   50 (255)
T cd03236          15 FKLHRL-P-VPREGQVLGLVGPNGIGKSTALKILAGKL   50 (255)
T ss_pred             hhhhcC-C-CCCCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            467776 3 37899999999999999999998887764

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.21  E-value=1.4e-05  Score=76.72  Aligned_cols=37  Identities=16%  Similarity=0.147  Sum_probs=30.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        17 ~il~~v-sl~i~~Ge~~~liG~nGsGKSTLl~~l~G~~   53 (490)
T PRK10938         17 KTLQLP-SLTLNAGDSWAFVGANGSGKSALARALAGEL   53 (490)
T ss_pred             eecccc-eEEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            356655 4568999999999999999999998888753

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=98.20  E-value=1.4e-05  Score=69.96  Aligned_cols=36  Identities=22%  Similarity=0.117  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|||||||+..++...
T Consensus        18 ~l~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        18 GCRDV-SFDLYPGEVLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             Eeecc-eEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444 4568999999999999999999998887764

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.20  E-value=1.6e-06  Score=77.47  Aligned_cols=48  Identities=19%  Similarity=0.196  Sum_probs=36.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--|++|+++.|.|++|+|||||+..++...  ++..|     .++++..
T Consensus        21 ~l~~v-sl~i~~Ge~v~i~G~nGsGKSTLl~~l~Gl~--~p~~G-----~i~~~g~   68 (288)
T PRK13643         21 ALFDI-DLEVKKGSYTALIGHTGSGKSTLLQHLNGLL--QPTEG-----KVTVGDI   68 (288)
T ss_pred             ceeee-EEEEcCCCEEEEECCCCChHHHHHHHHhcCC--CCCCc-----EEEECCE
Confidence            56654 5678999999999999999999999888764  32333     4566654

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=98.20  E-value=1.5e-05  Score=73.44  Aligned_cols=140  Identities=18%  Similarity=0.268  Sum_probs=78.7

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCC-CCCeE----EEEeCCCCCCHHHH-HHHHHH-hCCC-CCCC
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGG-LSASS----LYLHTEFPFPMRRL-HQLSHT-FRPS-NDHN  103 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg-~~~~v----lyid~e~~~~~~rl-~~i~~~-~~~~-~~~~  103 (302)
                      .|.|..|+++.+.||+|.|||||+..+|... -| ..|+ ...++    =||..+..-+.+.+ .....+ +... ...+
T Consensus       361 ~G~i~~gEvigilGpNgiGKTTFvk~LAG~i-kP-deg~~~~~~vSyKPQyI~~~~~gtV~~~l~~~~~~~~~~s~~~~e  438 (591)
T COG1245         361 EGEIYDGEVIGILGPNGIGKTTFVKLLAGVI-KP-DEGSEEDLKVSYKPQYISPDYDGTVEDLLRSAIRSAFGSSYFKTE  438 (591)
T ss_pred             CCeeecceEEEEECCCCcchHHHHHHHhccc-cC-CCCCCccceEeecceeecCCCCCcHHHHHHHhhhhhcccchhHHh
Confidence            3779999999999999999999999888764 33 3332 11122    35666544333332 222222 1100 0001


Q ss_pred             CC-----CcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHH
Q 022155          104 PC-----DYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM  176 (302)
Q Consensus       104 ~l-----~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~  176 (302)
                      +.     ++++-..+.  +--++..+  .+...+.      ...++-+||..++++         +..+|.    .+.+.
T Consensus       439 i~~pl~l~~i~e~~v~~LSGGELQRv--aIaa~L~------reADlYllDEPSA~L---------DvEqR~----~vakv  497 (591)
T COG1245         439 IVKPLNLEDLLERPVDELSGGELQRV--AIAAALS------READLYLLDEPSAYL---------DVEQRI----IVAKV  497 (591)
T ss_pred             hcCccchHHHHhcccccCCchhHHHH--HHHHHhc------cccCEEEecCchhhc---------cHHHHH----HHHHH
Confidence            11     111111111  11111111  1122232      356999999999976         334552    45678


Q ss_pred             HHHHHHHcCcEEEEEecc
Q 022155          177 LKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       177 L~~la~~~~~~viv~n~~  194 (302)
                      +++++...+.+.+++.|.
T Consensus       498 IRR~~e~~~kta~vVdHD  515 (591)
T COG1245         498 IRRFIENNEKTALVVDHD  515 (591)
T ss_pred             HHHHHhhcCceEEEEecc
Confidence            889999999999999995

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.19  E-value=4.4e-06  Score=72.48  Aligned_cols=36  Identities=17%  Similarity=0.261  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|+|||||+..++...
T Consensus        18 ~l~~~-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         18 VVEDV-SLTVNSGEIVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             EEeee-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44444 4568999999999999999999998888764

>COG4615 PvdE ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]

Probab=98.19  E-value=8e-06  Score=73.94  Aligned_cols=137  Identities=17%  Similarity=0.192  Sum_probs=78.5

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHh-CCC-------CCC-
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTF-RPS-------NDH-  102 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~-~~~-------~~~-  102 (302)
                      -|.+|+++-|.|.+||||||||+-+....+ | ..|     -+++|.+-  ....++.+++..+. ...       .++ 
T Consensus       345 ~ikrGelvFliG~NGsGKST~~~LLtGL~~-P-qsG-----~I~ldg~pV~~e~ledYR~LfSavFsDyhLF~~ll~~e~  417 (546)
T COG4615         345 TIKRGELVFLIGGNGSGKSTLAMLLTGLYQ-P-QSG-----EILLDGKPVSAEQLEDYRKLFSAVFSDYHLFDQLLGPEG  417 (546)
T ss_pred             EEecCcEEEEECCCCCcHHHHHHHHhcccC-C-CCC-----ceeECCccCCCCCHHHHHHHHHHHhhhHhhhHhhhCCcc
Confidence            578999999999999999999998888764 3 334     37777662  22334544444331 110       000 


Q ss_pred             --------------------CCCCcEEE-EeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChh
Q 022155          103 --------------------NPCDYIFV-QSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMD  161 (302)
Q Consensus       103 --------------------~~l~~i~~-~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~  161 (302)
                                          .+.++-+. ....+  ....-+..+-+++++      . +++|+|+-++=         .
T Consensus       418 ~as~q~i~~~LqrLel~~ktsl~d~~fs~~kLSt--GQkKRlAll~AllEe------R-~Ilv~DEWAAD---------Q  479 (546)
T COG4615         418 KASPQLIEKWLQRLELAHKTSLNDGRFSNLKLST--GQKKRLALLLALLEE------R-DILVLDEWAAD---------Q  479 (546)
T ss_pred             CCChHHHHHHHHHHHHhhhhcccCCccccccccc--chHHHHHHHHHHHhh------C-CeEEeehhhcc---------C
Confidence                                00111111 11111  112223334455654      2 78999998871         1


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCC
Q 022155          162 DLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLME  199 (302)
Q Consensus       162 ~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~  199 (302)
                      |..-|.    .+...+-.+.++.|.||++++|....+.
T Consensus       480 DPaFRR----~FY~~lLp~LK~qGKTI~aIsHDd~YF~  513 (546)
T COG4615         480 DPAFRR----EFYQVLLPLLKEQGKTIFAISHDDHYFI  513 (546)
T ss_pred             ChHHHH----HHHHHHhHHHHHhCCeEEEEecCchhhh
Confidence            334453    3345555556688999999999765544

>PRK09099 type III secretion system ATPase; Provisional

Probab=98.19  E-value=1.4e-05  Score=74.71  Aligned_cols=128  Identities=15%  Similarity=0.186  Sum_probs=77.4

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+.+....+.+.||+..+|.++  -+.+|+.+.|.|++|+|||+|+.+++....   . ..   .++.+..|.....
T Consensus       134 ~p~p~~R~~i~e~l~TGi~~ID~l~--~i~~Gq~~~I~G~sG~GKTtLl~~ia~~~~---~-d~---~vi~~iGer~~ev  204 (441)
T PRK09099        134 PPDPMSRRMVEAPLPTGVRIVDGLM--TLGEGQRMGIFAPAGVGKSTLMGMFARGTQ---C-DV---NVIALIGERGREV  204 (441)
T ss_pred             CCChhhcCCcccccCCCceecccee--eecCCCEEEEECCCCCCHHHHHHHHhCCCC---C-Ce---EEEEEEccChHHH
Confidence            3346666677889999999999996  578999999999999999999998887652   1 11   3444455544333


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcE-EEEeCCCH---HHHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYI-FVQSVHSV---DQLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i-~~~~~~~~---~~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      .++   ...+..   ...+++. .+....+.   ......  -..+.+++.+    .+.--|+++||++.+..
T Consensus       205 ~ef---~~~~~~---~~~l~rtvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd----~G~~VLl~~DslTr~A~  267 (441)
T PRK09099        205 REF---IELILG---EDGMARSVVVCATSDRSSIERAKAAYVATAIAEYFRD----RGLRVLLMMDSLTRFAR  267 (441)
T ss_pred             HHH---HHHHhh---cCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEeccchhHHHH
Confidence            333   222111   1233443 33333321   111111  1123344443    34458999999999764

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=98.19  E-value=8.7e-06  Score=79.56  Aligned_cols=47  Identities=21%  Similarity=0.236  Sum_probs=35.3

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |+.+ +--+++|+.+.|+|++|+|||||+..++....   +..    +.++++..
T Consensus       348 l~~i-nl~i~~G~~v~IvG~sGsGKSTLl~lL~gl~~---~~~----G~I~i~g~  394 (571)
T TIGR02203       348 LDSI-SLVIEPGETVALVGRSGSGKSTLVNLIPRFYE---PDS----GQILLDGH  394 (571)
T ss_pred             ccCe-eEEecCCCEEEEECCCCCCHHHHHHHHHhccC---CCC----CeEEECCE
Confidence            4443 44688999999999999999999999988753   222    25777754

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.18  E-value=1.4e-05  Score=77.37  Aligned_cols=59  Identities=22%  Similarity=0.258  Sum_probs=42.0

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHH
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLH   90 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~   90 (302)
                      .+.|+++ .--|++|+++.|+||+|+||||++.-+...+.   +.+|    .+.+|...  .++...++
T Consensus       481 ~~Vlk~l-sfti~pGe~vALVGPSGsGKSTiasLL~rfY~---PtsG----~IllDG~~i~~~~~~~lr  541 (716)
T KOG0058|consen  481 VPVLKNL-SFTIRPGEVVALVGPSGSGKSTIASLLLRFYD---PTSG----RILLDGVPISDINHKYLR  541 (716)
T ss_pred             chhhcCc-eeeeCCCCEEEEECCCCCCHHHHHHHHHHhcC---CCCC----eEEECCeehhhcCHHHHH
Confidence            3355554 45899999999999999999999977766653   3343    57788663  34455554

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.18  E-value=2.4e-06  Score=75.59  Aligned_cols=36  Identities=19%  Similarity=0.328  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        16 il~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (271)
T PRK13638         16 VLKGL-NLDFSLSPVTGLVGANGCGKSTLFMNLSGLL   51 (271)
T ss_pred             cccce-EEEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45554 4578999999999999999999998887653

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.17  E-value=1.4e-06  Score=77.65  Aligned_cols=48  Identities=21%  Similarity=0.259  Sum_probs=35.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++...  ++..|     .++++.+
T Consensus        22 ~l~~v-sl~i~~Ge~~~iiG~NGaGKSTLl~~l~Gl~--~p~~G-----~i~~~g~   69 (287)
T PRK13641         22 GLDNI-SFELEEGSFVALVGHTGSGKSTLMQHFNALL--KPSSG-----TITIAGY   69 (287)
T ss_pred             ceeee-EEEEeCCCEEEEECCCCCCHHHHHHHHhcCC--CCCCc-----EEEECCE
Confidence            46655 4578999999999999999999999887753  33333     3566654

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=98.17  E-value=1.6e-05  Score=69.65  Aligned_cols=134  Identities=10%  Similarity=0.138  Sum_probs=82.4

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|-++  -+-+|+-+.|+|.+|+|||+|+.+++.+..+.  +.+....|+|.-.-+.-  
T Consensus        40 ap~~~~R~~i~e~l~TGIkaID~l~--pig~GQR~gIfgg~GvGKt~L~~~i~~~~~~~--~~~~~~v~V~~~IGeR~--  113 (276)
T cd01135          40 PINPVARIYPEEMIQTGISAIDGMN--TLVRGQKIPIFSGSGLPHNELAAQIARQAGVV--GEEENFAVVFAAMGITM--  113 (276)
T ss_pred             CcCchhcCCcccccccCcEeeeccc--ccccCCEEEeecCCCCChhHHHHHHHHhhhcc--ccCCCCEEEEEEecccc--
Confidence            4457788888999999999999987  57799999999999999999999988775311  11112268887754322  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEE-eCCCHHHHHHHH-----HHHHHHHHhccCCC-CCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQ-SVHSVDQLLDIM-----PKIESFIKNSSNSR-LPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~-~~~~~~~l~~~l-----~~l~~~l~~~~~~~-~~~~lvVIDsi~~~~~  153 (302)
                      ....++.+.+.   ....+++..+. ...+..-....+     ..+.+++.+    + +.--|+++|+++.+..
T Consensus       114 rev~e~~~~~~---~~~~l~~tv~v~~t~~~~~~~r~~a~~~a~aiAEyfrd----~~g~~VLl~~D~ltr~A~  180 (276)
T cd01135         114 EDARFFKDDFE---ETGALERVVLFLNLANDPTIERIITPRMALTTAEYLAY----EKGKHVLVILTDMTNYAE  180 (276)
T ss_pred             HHHHHHHHHhh---hcCCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHHHh----ccCCeEEEEEcChhHHHH
Confidence            22223333221   12345554433 322211111111     123445543    2 3448899999998653

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.

>PRK13409 putative ATPase RIL; Provisional

Probab=98.16  E-value=3.3e-06  Score=82.52  Aligned_cols=31  Identities=32%  Similarity=0.416  Sum_probs=27.7

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++-+.+|+++.|.||+|+|||||+..++...
T Consensus       359 s~~i~~Geiv~l~G~NGsGKSTLlk~L~Gl~  389 (590)
T PRK13409        359 GGEIYEGEVIGIVGPNGIGKTTFAKLLAGVL  389 (590)
T ss_pred             ceEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            5568999999999999999999999888764

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=98.16  E-value=1.3e-05  Score=74.92  Aligned_cols=54  Identities=19%  Similarity=0.194  Sum_probs=47.2

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+++++....+.+.||+..+|.++  .+..|+.+.|.|++|+|||+|+..++...
T Consensus       116 ~~~~~~R~~i~~~l~tG~~~id~l~--~i~~Gq~~~I~G~sG~GKStLl~~I~~~~  169 (422)
T TIGR02546       116 PPPPMSRQPIDQPLPTGVRAIDGLL--TCGEGQRIGIFAGAGVGKSTLLGMIARGA  169 (422)
T ss_pred             CcCHHHccCcccccCCCceeehhhc--cccCCCEEEEECCCCCChHHHHHHHhCCC
Confidence            4567788888889999999999996  68899999999999999999988787654

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.16  E-value=2.7e-06  Score=72.89  Aligned_cols=31  Identities=26%  Similarity=0.326  Sum_probs=27.0

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|.|++|+|||||+..++...
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (223)
T TIGR03740        20 SLTVPKNSVYGLLGPNGAGKSTLLKMITGIL   50 (223)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458899999999999999999998887753

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=98.16  E-value=1.3e-05  Score=67.79  Aligned_cols=36  Identities=17%  Similarity=0.268  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        23 ~l~~i-sl~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          23 VLKNV-SFKVKAGEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             cccCc-eEEECCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45554 4468999999999999999999999888764

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=98.16  E-value=1.2e-05  Score=77.88  Aligned_cols=48  Identities=21%  Similarity=0.223  Sum_probs=36.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+.+.|+||+|||||||+..++...  ++..|     -++++..
T Consensus       337 il~~i-~l~i~~G~~~~ivG~sGsGKSTL~~ll~g~~--~~~~G-----~I~~~g~  384 (529)
T TIGR02857       337 ALRPV-SFTVPPGERVALVGPSGAGKSTLLNLLLGFV--DPTEG-----SIAVNGV  384 (529)
T ss_pred             cccce-eEEECCCCEEEEECCCCCCHHHHHHHHhcCC--CCCCc-----EEEECCE
Confidence            45554 4578999999999999999999998888765  22333     4677765

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.16  E-value=3.9e-05  Score=62.61  Aligned_cols=30  Identities=20%  Similarity=0.221  Sum_probs=26.7

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -.+..|+.+.|.|.+|||||||+..++.-.
T Consensus        34 FtL~~~QTlaiIG~NGSGKSTLakMlaGmi   63 (267)
T COG4167          34 FTLREGQTLAIIGENGSGKSTLAKMLAGMI   63 (267)
T ss_pred             EEecCCcEEEEEccCCCcHhHHHHHHhccc
Confidence            367899999999999999999999888764

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.15  E-value=1.2e-05  Score=68.53  Aligned_cols=36  Identities=14%  Similarity=0.113  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +-.+.+|+++.|.|++|+|||||+..++...
T Consensus        26 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         26 VFGPL-DFHVDAGEALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             eeecc-eEEECCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            45544 4578999999999999999999999888764

>COG2087 CobU Adenosyl cobinamide kinase/adenosyl cobinamide phosphate guanylyltransferase [Coenzyme metabolism]

Probab=98.15  E-value=2.9e-05  Score=62.16  Aligned_cols=132  Identities=19%  Similarity=0.217  Sum_probs=76.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQL  119 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l  119 (302)
                      ++.|.|++-||||.+|-.++...      ++   .++||-|...|+.+.-..|..... ..+.. +  ..+..+.+... 
T Consensus         2 ~ilvtGgaRSGKS~~AE~la~~~------~~---~v~YvAT~~a~D~Em~~RI~~Hr~-rRp~~-W--~tvE~~~~l~~-   67 (175)
T COG2087           2 MILVTGGARSGKSSFAEALAGES------GG---QVLYVATGRAFDDEMQERIAHHRA-RRPEH-W--RTVEAPLDLAT-   67 (175)
T ss_pred             eEEEecCccCCchHHHHHHHHhh------CC---ceEEEEecCCCCHHHHHHHHHHHh-cCCCc-c--eEEeccccHHH-
Confidence            68899999999999999998763      33   799999999998766666665532 22211 1  11122233222 


Q ss_pred             HHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHH-HHHHHHHcCcEEEEEecccccC
Q 022155          120 LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM-LKAMAVGFGLAVLVTNQVVDLM  198 (302)
Q Consensus       120 ~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~-L~~la~~~~~~viv~n~~~~~~  198 (302)
                        ++.   ...       .+-++|.+|+++..+...+..+..+... .+.+...+.. +..+....+-.|+++|++-..+
T Consensus        68 --~L~---~~~-------~~~~~VLvDcLt~wvtNll~~~e~~~~~-~~~~~~~~~~L~~al~~~~~~~ilVsNEvG~Gi  134 (175)
T COG2087          68 --LLE---ALI-------EPGDVVLVDCLTLWVTNLLFAGEKDWSA-EAAIEAEIEALLAALSRAPGTVVLVSNEVGLGI  134 (175)
T ss_pred             --HHH---hcc-------cCCCEEEEEcHHHHHHHHHhccccccch-hhhHHHHHHHHHHHHhcCCccEEEEecCccCCc
Confidence              222   222       1338999999999876554432111111 1112222233 3333333346888999986543

>PF13173 AAA_14: AAA domain

Probab=98.15  E-value=1.3e-05  Score=62.48  Aligned_cols=38  Identities=29%  Similarity=0.361  Sum_probs=31.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.++.|.||.|+||||++.+++.... +   .   ..++|++.+.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~---~---~~~~yi~~~~   39 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-P---P---ENILYINFDD   39 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-c---c---ccceeeccCC
Confidence            57899999999999999999998762 1   1   2789999875

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

Probab=98.15  E-value=5.3e-06  Score=72.39  Aligned_cols=36  Identities=19%  Similarity=0.302  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+|++|||||||+..++...
T Consensus        18 ~l~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         18 VLHGI-DLEVKPGEVVAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             eeccc-eEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45554 4578999999999999999999999887753

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.15  E-value=3e-05  Score=65.49  Aligned_cols=36  Identities=17%  Similarity=0.268  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+|++|+|||||+..++...
T Consensus        22 il~~~-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          22 ILKDF-SGVVKPGEMVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             eeeeE-EEEECCCcEEEEECCCCCCHHHHHHHhcccC
Confidence            34443 4468999999999999999999998887764

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=98.15  E-value=1.1e-05  Score=69.83  Aligned_cols=36  Identities=25%  Similarity=0.295  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        17 ~l~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          17 ILDNI-SLRIKPGEVVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             ceece-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            44443 4468899999999999999999999888764

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.14  E-value=4.3e-05  Score=70.09  Aligned_cols=93  Identities=14%  Similarity=0.191  Sum_probs=58.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVD  117 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~  117 (302)
                      ..++.|+||+|+||||++..+|..+.   ..|.   +|.+++++ ++....+.++.....       ..++.+....+..
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~---~~Gk---kVglI~aD-t~RiaAvEQLk~yae-------~lgipv~v~~d~~  306 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFH---GKKK---TVGFITTD-HSRIGTVQQLQDYVK-------TIGFEVIAVRDEA  306 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHH---HcCC---cEEEEecC-CcchHHHHHHHHHhh-------hcCCcEEecCCHH
Confidence            46899999999999999999998764   3444   78888877 444333333332111       1233444445666


Q ss_pred             HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       118 ~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ++.+.+..+..        ..+.++|+||......
T Consensus       307 ~L~~aL~~lk~--------~~~~DvVLIDTaGRs~  333 (436)
T PRK11889        307 AMTRALTYFKE--------EARVDYILIDTAGKNY  333 (436)
T ss_pred             HHHHHHHHHHh--------ccCCCEEEEeCccccC
Confidence            66554443321        1246999999877643

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

Probab=98.14  E-value=7.7e-06  Score=76.04  Aligned_cols=30  Identities=23%  Similarity=0.198  Sum_probs=26.7

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -|++++.-+.|+||||+|||+++..+|...
T Consensus       174 ~Gl~~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        174 IGIDPPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             cCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            378888889999999999999999988764

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=98.14  E-value=3.5e-05  Score=66.14  Aligned_cols=36  Identities=17%  Similarity=0.212  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        37 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   72 (224)
T cd03220          37 ALKDV-SFEVPRGERIGLIGRNGAGKSTLLRLLAGIY   72 (224)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34443 3468999999999999999999998888754

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.14  E-value=4.1e-05  Score=63.94  Aligned_cols=47  Identities=13%  Similarity=0.221  Sum_probs=35.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      -||.+ .--+++|++..|.||+|+|||||+..++....   ..+|   +|.|..
T Consensus        16 ll~~v-sl~~~pGev~ailGPNGAGKSTlLk~LsGel~---p~~G---~v~~~g   62 (259)
T COG4559          16 LLDGV-SLDLRPGEVLAILGPNGAGKSTLLKALSGELS---PDSG---EVTLNG   62 (259)
T ss_pred             eccCc-ceeccCCcEEEEECCCCccHHHHHHHhhCccC---CCCC---eEeeCC
Confidence            34444 44689999999999999999999999998863   2343   666654

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=98.13  E-value=1.1e-05  Score=79.14  Aligned_cols=47  Identities=13%  Similarity=0.210  Sum_probs=35.2

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |+.+ +--+++|+.+.|+|++|||||||+..++....  +..|     .++++..
T Consensus       351 L~~i-nl~i~~G~~v~IvG~sGsGKSTLl~lL~gl~~--p~~G-----~I~i~g~  397 (588)
T PRK13657        351 VEDV-SFEAKPGQTVAIVGPTGAGKSTLINLLQRVFD--PQSG-----RILIDGT  397 (588)
T ss_pred             ecce-eEEECCCCEEEEECCCCCCHHHHHHHHhcCcC--CCCC-----EEEECCE
Confidence            4443 44688999999999999999999988877653  2333     5777754

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=98.13  E-value=3e-05  Score=68.61  Aligned_cols=36  Identities=28%  Similarity=0.317  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|+|||||+..++...
T Consensus        22 il~~v-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   57 (272)
T PRK15056         22 ALRDA-SFTVPGGSIAALVGVNGSGKSTLFKALMGFV   57 (272)
T ss_pred             EEEee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568899999999999999999999887753

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=98.13  E-value=1.2e-05  Score=68.74  Aligned_cols=36  Identities=22%  Similarity=0.279  Sum_probs=30.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|+|||||+..++...
T Consensus        19 ~l~~i-~~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   54 (221)
T cd03244          19 VLKNI-SFSIKPGEKVGIVGRTGSGKSSLLLALFRLV   54 (221)
T ss_pred             cccce-EEEECCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            55554 4578999999999999999999999888764

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=98.12  E-value=8.4e-06  Score=70.45  Aligned_cols=36  Identities=25%  Similarity=0.275  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        16 ~l~~i-~~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          16 VLKDV-SFTIPAGKKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34443 4468899999999999999999999888764

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=98.12  E-value=9.1e-06  Score=70.35  Aligned_cols=36  Identities=19%  Similarity=0.142  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        36 il~~v-s~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~   71 (236)
T cd03267          36 ALKGI-SFTIEKGEIVGFIGPNGAGKTTTLKILSGLL   71 (236)
T ss_pred             eeece-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34444 4568899999999999999999999888754

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=98.12  E-value=1.1e-05  Score=75.21  Aligned_cols=127  Identities=13%  Similarity=0.127  Sum_probs=76.5

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+......+.+.||+..+|.++  -+.+|+.+.|.|++|+|||+|+.+++...    ..+.   .++.+..+.....
T Consensus       126 ~p~~~~r~~v~~~l~tGi~aID~ll--~i~~GqrigI~G~sG~GKSTLL~~I~~~~----~~d~---~vi~~iGeRgrEv  196 (433)
T PRK07594        126 PPPAMVRQPITQPLMTGIRAIDSVA--TCGEGQRVGIFSAPGVGKSTLLAMLCNAP----DADS---NVLVLIGERGREV  196 (433)
T ss_pred             CCCceeccCHhheeCCCceeeeeee--ecCCCCEEEEECCCCCCccHHHHHhcCCC----CCCE---EEEEEECCCchHH
Confidence            3346677777888999999999985  68999999999999999999997776543    1221   3444555644332


Q ss_pred             -HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 -RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 -~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                       +.+.+...       ...+++..+ ....+..   .+...  -..+.+++.+    .+.--|+++||++.+..
T Consensus       197 ~efl~~~~~-------~~~~~rtv~vv~tsd~p~~~r~~a~~~a~tiAEyfrd----~G~~VLl~~Dsltr~A~  259 (433)
T PRK07594        197 REFIDFTLS-------EETRKRCVIVVATSDRPALERVRALFVATTIAEFFRD----NGKRVVLLADSLTRYAR  259 (433)
T ss_pred             HHHHHHhhc-------cCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----CCCcEEEEEeCHHHHHH
Confidence             22222211       123445433 2222211   11111  1123444544    34448999999998653

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=98.12  E-value=3.8e-05  Score=66.25  Aligned_cols=31  Identities=23%  Similarity=0.171  Sum_probs=27.4

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+.+|+++.|+|++|+|||||+..++...
T Consensus        20 ~~~i~~Ge~~~i~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          20 SLDIKEGEFFTLLGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3458899999999999999999999888764

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.12  E-value=2e-05  Score=66.29  Aligned_cols=36  Identities=14%  Similarity=0.130  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|+|||||+..++...
T Consensus        15 ~l~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        15 LFEGL-SFTLNAGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             EEeee-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444 4468899999999999999999999887754

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=98.12  E-value=7.7e-06  Score=69.63  Aligned_cols=41  Identities=12%  Similarity=0.142  Sum_probs=31.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHG   69 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~g   69 (302)
                      .|+++ +--+..|+.+.|+|++|||||||+.-++...  ++..|
T Consensus        42 aL~di-sf~i~~Ge~vGiiG~NGaGKSTLlkliaGi~--~Pt~G   82 (249)
T COG1134          42 ALKDI-SFEIYKGERVGIIGHNGAGKSTLLKLIAGIY--KPTSG   82 (249)
T ss_pred             EecCc-eEEEeCCCEEEEECCCCCcHHHHHHHHhCcc--CCCCc
Confidence            45554 4568999999999999999999997776653  43444

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.11  E-value=3.9e-05  Score=69.28  Aligned_cols=43  Identities=21%  Similarity=0.217  Sum_probs=35.1

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      ..+.++.|+||+|+||||++..+|....   ..|+   +|+.++++ .+.
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~---~~g~---~V~Li~~D-~~r  154 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYK---AQGK---KVLLAAGD-TFR  154 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH---hcCC---eEEEEecC-ccc
Confidence            3689999999999999999999998864   4455   78888865 444

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=98.11  E-value=3.1e-05  Score=68.27  Aligned_cols=36  Identities=19%  Similarity=0.225  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        26 il~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T TIGR02769        26 VLTNV-SLSIEEGETVGLLGRSGCGKSTLARLLLGLE   61 (265)
T ss_pred             EeeCc-eeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998887754

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=98.11  E-value=2.6e-05  Score=68.40  Aligned_cols=36  Identities=17%  Similarity=0.333  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+|++|+|||||+..++...
T Consensus        20 ~l~~i-s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   55 (257)
T PRK10619         20 VLKGV-SLQANAGDVISIIGSSGSGKSTFLRCINFLE   55 (257)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998888764

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.11  E-value=1.1e-05  Score=77.88  Aligned_cols=36  Identities=11%  Similarity=0.219  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        26 il~~v-sl~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~   61 (510)
T PRK15439         26 VLKGI-DFTLHAGEVHALLGGNGAGKSTLMKIIAGIV   61 (510)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998887653

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.11  E-value=1.2e-05  Score=78.75  Aligned_cols=48  Identities=19%  Similarity=0.312  Sum_probs=36.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+.+.|+||+|||||||+..++....  +..|     .++++..
T Consensus       355 il~~i-~~~i~~G~~~aivG~sGsGKSTL~~ll~g~~~--p~~G-----~I~i~g~  402 (574)
T PRK11160        355 VLKGL-SLQIKAGEKVALLGRTGCGKSTLLQLLTRAWD--PQQG-----EILLNGQ  402 (574)
T ss_pred             ceecc-eEEECCCCEEEEECCCCCCHHHHHHHHhcCCC--CCCc-----eEEECCE
Confidence            45554 45789999999999999999999988887752  2333     4777754

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

Probab=98.10  E-value=2.4e-05  Score=70.01  Aligned_cols=121  Identities=14%  Similarity=0.181  Sum_probs=71.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      ||.+-+=+.++||||+|||.||...|...           .+-||-.-++   +-.++..    .             . 
T Consensus       181 GI~PPKGVLLYGPPGTGKTLLAkAVA~~T-----------~AtFIrvvgS---ElVqKYi----G-------------E-  228 (406)
T COG1222         181 GIDPPKGVLLYGPPGTGKTLLAKAVANQT-----------DATFIRVVGS---ELVQKYI----G-------------E-  228 (406)
T ss_pred             CCCCCCceEeeCCCCCcHHHHHHHHHhcc-----------CceEEEeccH---HHHHHHh----c-------------c-
Confidence            78777779999999999999998877654           3455553332   1111111    0             0 


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                       .    ..++.++-.+-.+     +.+.+|+||.|.++-..-++.+.+.-.+-++.|.++++.|.-+-..-|+-||+-+.
T Consensus       229 -G----aRlVRelF~lAre-----kaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATN  298 (406)
T COG1222         229 -G----ARLVRELFELARE-----KAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATN  298 (406)
T ss_pred             -c----hHHHHHHHHHHhh-----cCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecC
Confidence             1    1123333333333     45699999999998643333221111233445667777777776777888887655


Q ss_pred             ccc
Q 022155          194 VVD  196 (302)
Q Consensus       194 ~~~  196 (302)
                      =.+
T Consensus       299 R~D  301 (406)
T COG1222         299 RPD  301 (406)
T ss_pred             Ccc
Confidence            433

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=98.10  E-value=2.2e-05  Score=76.91  Aligned_cols=48  Identities=21%  Similarity=0.225  Sum_probs=35.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+.+.|+|++|||||||+..++....  +..|     .++++..
T Consensus       355 iL~~i-nl~i~~Ge~i~IvG~sGsGKSTLlklL~gl~~--p~~G-----~I~i~g~  402 (576)
T TIGR02204       355 ALDGL-NLTVRPGETVALVGPSGAGKSTLFQLLLRFYD--PQSG-----RILLDGV  402 (576)
T ss_pred             cccce-eEEecCCCEEEEECCCCCCHHHHHHHHHhccC--CCCC-----EEEECCE
Confidence            34443 44689999999999999999999999988753  2333     4666643

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.10  E-value=3.4e-05  Score=65.45  Aligned_cols=35  Identities=20%  Similarity=0.234  Sum_probs=28.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+| ++.|.||+|||||||+..++...
T Consensus        15 ~l~~v-s~~i~~g-~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          15 ALDGV-SLTLGPG-MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             EEcce-eEEEcCC-cEEEECCCCCCHHHHHHHHhCCC
Confidence            45544 4467889 99999999999999998887753

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.10  E-value=2.2e-05  Score=77.54  Aligned_cols=36  Identities=25%  Similarity=0.208  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+|++|||||||+..++...
T Consensus       339 ~l~~v-s~~i~~Ge~~~lvG~nGsGKSTLlk~i~Gl~  374 (623)
T PRK10261        339 AVEKV-SFDLWPGETLSLVGESGSGKSTTGRALLRLV  374 (623)
T ss_pred             EEeee-EeEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45554 4578899999999999999999998888653

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.10  E-value=8.4e-06  Score=78.62  Aligned_cols=36  Identities=19%  Similarity=0.226  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        20 il~~v-s~~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~   55 (510)
T PRK09700         20 ALKSV-NLTVYPGEIHALLGENGAGKSTLMKVLSGIH   55 (510)
T ss_pred             Eeeee-eEEEcCCcEEEEECCCCCCHHHHHHHHcCCc
Confidence            45554 5578999999999999999999998887654

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=98.10  E-value=0.00011  Score=62.04  Aligned_cols=36  Identities=19%  Similarity=0.268  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        20 il~~~-s~~i~~G~~~~i~G~nG~GKSTLl~~i~G~~   55 (204)
T cd03250          20 TLKDI-NLEVPKGELVAIVGPVGSGKSSLLSALLGEL   55 (204)
T ss_pred             eeeee-eEEECCCCEEEEECCCCCCHHHHHHHHhCcC
Confidence            45544 4568999999999999999999999888764

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

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

Probab=98.09  E-value=3.1e-05  Score=64.18  Aligned_cols=58  Identities=17%  Similarity=0.184  Sum_probs=43.2

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.++++-..+++++ .--...|+++.|.||+|+||||++..++... .| ..     .+++||.-+
T Consensus         8 ~K~y~~~v~AvrdV-SF~ae~Gei~GlLG~NGAGKTT~LRmiatlL-~P-~~-----G~v~idg~d   65 (245)
T COG4555           8 TKSYGSKVQAVRDV-SFEAEEGEITGLLGENGAGKTTLLRMIATLL-IP-DS-----GKVTIDGVD   65 (245)
T ss_pred             hhhccCHHhhhhhe-eEEeccceEEEEEcCCCCCchhHHHHHHHhc-cC-CC-----ceEEEeecc
Confidence            44555545567776 4467899999999999999999998887765 44 33     368888654

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=98.09  E-value=1.4e-05  Score=80.02  Aligned_cols=48  Identities=23%  Similarity=0.329  Sum_probs=36.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+.+.|+|++|||||||+..++.... | ..|     .+++|..
T Consensus       472 il~~i-~l~i~~G~~vaivG~sGsGKSTL~~ll~g~~~-p-~~G-----~I~idg~  519 (694)
T TIGR01846       472 VLSNL-NLDIKPGEFIGIVGPSGSGKSTLTKLLQRLYT-P-QHG-----QVLVDGV  519 (694)
T ss_pred             ccccc-eEEECCCCEEEEECCCCCCHHHHHHHHhcCCC-C-CCc-----eEEECCE
Confidence            45554 45689999999999999999999988888752 2 333     4777765

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.

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.09  E-value=1.8e-05  Score=77.30  Aligned_cols=36  Identities=11%  Similarity=0.173  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+.+.|+||+|||||||+..++...
T Consensus       330 ~l~~i-~~~i~~G~~~~ivG~sGsGKSTLl~ll~g~~  365 (569)
T PRK10789        330 ALENV-NFTLKPGQMLGICGPTGSGKSTLLSLIQRHF  365 (569)
T ss_pred             cccCe-eEEECCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45444 4468999999999999999999998888765

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.09  E-value=3.5e-05  Score=67.92  Aligned_cols=36  Identities=22%  Similarity=0.165  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|++|+++.|.||+|+|||||+..++...
T Consensus        39 il~~i-s~~i~~Ge~~~liG~NGsGKSTLlk~L~Gl~   74 (264)
T PRK13546         39 ALDDI-SLKAYEGDVIGLVGINGSGKSTLSNIIGGSL   74 (264)
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            44443 4468899999999999999999999888753

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.09  E-value=3.6e-06  Score=80.98  Aligned_cols=37  Identities=22%  Similarity=0.219  Sum_probs=30.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        18 ~~l~~i-s~~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~   54 (501)
T PRK10762         18 KALSGA-ALNVYPGRVMALVGENGAGKSTMMKVLTGIY   54 (501)
T ss_pred             EEeeee-eEEEcCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            345554 4568899999999999999999998887764

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=98.09  E-value=4.3e-05  Score=67.48  Aligned_cols=36  Identities=17%  Similarity=0.281  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|.+|+++.|+||+|+|||||+..++...
T Consensus        27 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   62 (268)
T PRK10419         27 VLNNV-SLSLKSGETVALLGRSGCGKSTLARLLVGLE   62 (268)
T ss_pred             eEece-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44444 4568999999999999999999999887653

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=98.09  E-value=1.7e-05  Score=74.30  Aligned_cols=52  Identities=25%  Similarity=0.202  Sum_probs=45.0

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .+.+......+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+.+++..
T Consensus       140 ~~p~~R~~i~~~l~TGi~aID~l~--~I~~GqrigI~G~sG~GKSTLl~~I~g~  191 (451)
T PRK05688        140 INPLNRHPISEPLDVGIRSINGLL--TVGRGQRLGLFAGTGVGKSVLLGMMTRF  191 (451)
T ss_pred             CCHHHcccccCCcccceeeecceE--EecCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            345666667889999999999996  6899999999999999999999877664

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

Probab=98.08  E-value=3e-06  Score=72.06  Aligned_cols=34  Identities=24%  Similarity=0.257  Sum_probs=28.3

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +|++ +--+++|++..+.|++|+||||....++..
T Consensus        18 v~~i-sf~v~~G~i~GllG~NGAGKTTtfRmILgl   51 (300)
T COG4152          18 VDNI-SFEVPPGEIFGLLGPNGAGKTTTFRMILGL   51 (300)
T ss_pred             ecce-eeeecCCeEEEeecCCCCCccchHHHHhcc
Confidence            4444 446899999999999999999999877765

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.08  E-value=9.6e-06  Score=71.89  Aligned_cols=36  Identities=14%  Similarity=0.194  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--|.+|+++.|+|++|+|||||+..++...
T Consensus        17 ~l~~v-sl~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   52 (275)
T PRK13639         17 ALKGI-NFKAEKGEMVALLGPNGAGKSTLFLHFNGIL   52 (275)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999999887653

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.08  E-value=7.5e-05  Score=66.00  Aligned_cols=43  Identities=23%  Similarity=0.279  Sum_probs=34.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      +..++.++|++|+||||++..+|..+.   ..|.   +|..++++ .+..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~---~~g~---~V~li~~D-~~r~  113 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLK---KQGK---SVLLAAGD-TFRA  113 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH---hcCC---EEEEEeCC-CCCH
Confidence            468999999999999999999998764   4454   89999977 3443

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.08  E-value=1.6e-05  Score=70.74  Aligned_cols=43  Identities=26%  Similarity=0.338  Sum_probs=33.9

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.+.++.|+||+|+||||++..++..+..  ..|+  .+|.+|+++.
T Consensus       192 ~~~~vi~~vGptGvGKTTt~~kLa~~~~~--~~g~--~~V~li~~D~  234 (282)
T TIGR03499       192 EQGGVIALVGPTGVGKTTTLAKLAARFVL--EHGN--KKVALITTDT  234 (282)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHH--HcCC--CeEEEEECCc
Confidence            46789999999999999999999988742  1131  2899999873

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=98.08  E-value=2.4e-05  Score=69.34  Aligned_cols=47  Identities=15%  Similarity=0.237  Sum_probs=35.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--|.+|+++.|+|++|+|||||+..++...  + ..|     -++|+..
T Consensus        19 ~l~~i-sl~I~~Ge~~~IvG~nGsGKSTLl~~L~gl~--~-~~G-----~I~i~g~   65 (275)
T cd03289          19 VLENI-SFSISPGQRVGLLGRTGSGKSTLLSAFLRLL--N-TEG-----DIQIDGV   65 (275)
T ss_pred             ceece-EEEEcCCCEEEEECCCCCCHHHHHHHHhhhc--C-CCc-----EEEECCE
Confidence            45544 4468999999999999999999999988775  2 222     4677765

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=98.08  E-value=2.4e-05  Score=73.83  Aligned_cols=128  Identities=16%  Similarity=0.197  Sum_probs=79.6

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+++.+....+.+.||+..+|-++  -+-+|+=..|.|++|+|||++++....+..   ..+   ..|+|.-.-...  
T Consensus       114 ap~~~~R~~v~epL~TGIkaID~l~--pigrGQR~~Ifg~~gtGKT~lal~~I~~q~---~~d---v~~V~~~IGer~--  183 (507)
T PRK07165        114 AHGLMTVKTLNEQLYTGIIAIDLLI--PIGKGQRELIIGDRQTGKTHIALNTIINQK---NTN---VKCIYVAIGQKR--  183 (507)
T ss_pred             CCCchhhCCCCceeecCchhhhhcC--CcccCCEEEeecCCCCCccHHHHHHHHHhc---CCC---eEEEEEEccCCh--
Confidence            4457788888999999999999987  577999999999999999999765544432   222   267888754332  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHH-----HHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIM-----PKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l-----~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      +...++...+..   ...+++..+....+.......+     ..+.+++..    . .--|||+|+++.+.
T Consensus       184 ~ev~~~~~~l~~---~gal~~tvvV~atsd~~~~r~~ap~~a~tiAEyfrd----~-~dVLlv~DdLTr~A  246 (507)
T PRK07165        184 ENLSRIYETLKE---HDALKNTIIIDAPSTSPYEQYLAPYVAMAHAENISY----N-DDVLIVFDDLTKHA  246 (507)
T ss_pred             HHHHHHHHHhhh---cCceeeeEEEEeCCCCHHHHHHHHHHHHHHHHHHHh----c-CceEEEEcChHHHH
Confidence            223333333221   2345554443322211111111     123344444    2 34899999999864

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=98.07  E-value=5.2e-05  Score=65.58  Aligned_cols=36  Identities=28%  Similarity=0.275  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|||||||+..++...
T Consensus        18 ~l~~i-~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   53 (238)
T cd03249          18 ILKGL-SLTIPPGKTVALVGSSGCGKSTVVSLLERFY   53 (238)
T ss_pred             ceece-EEEecCCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            45554 4468899999999999999999999888764

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.07  E-value=5.8e-05  Score=71.76  Aligned_cols=95  Identities=20%  Similarity=0.226  Sum_probs=56.1

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      -+..|+++.|+||+|+||||++..|+..+... ..+.   +|.+++++. +......++... .     .. -++.+...
T Consensus       346 ~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~-~~gk---kVaLIdtDt-yRigA~EQLk~y-a-----~i-Lgv~v~~a  413 (559)
T PRK12727        346 PLERGGVIALVGPTGAGKTTTIAKLAQRFAAQ-HAPR---DVALVTTDT-QRVGGREQLHSY-G-----RQ-LGIAVHEA  413 (559)
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHHHh-cCCC---ceEEEeccc-ccccHHHHHHHh-h-----cc-cCceeEec
Confidence            35679999999999999999999999876421 1122   688888763 322112222211 0     01 12333344


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhh
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAAL  151 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~  151 (302)
                      .+..++...+..+           ...++|+||.....
T Consensus       414 ~d~~~L~~aL~~l-----------~~~DLVLIDTaG~s  440 (559)
T PRK12727        414 DSAESLLDLLERL-----------RDYKLVLIDTAGMG  440 (559)
T ss_pred             CcHHHHHHHHHHh-----------ccCCEEEecCCCcc
Confidence            4444554444322           23599999987753

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=98.07  E-value=2e-05  Score=74.13  Aligned_cols=129  Identities=15%  Similarity=0.227  Sum_probs=80.7

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+||+.+..+..   ..+   ..|+|.-.-..  .
T Consensus       112 ap~~~~R~~v~epl~TGI~aID~l~--pigrGQR~~I~g~~g~GKt~Lal~~I~~q~---~~d---v~cV~~~IGer--~  181 (485)
T CHL00059        112 APGIISRRSVYEPLQTGLIAIDSMI--PIGRGQRELIIGDRQTGKTAVATDTILNQK---GQN---VICVYVAIGQK--A  181 (485)
T ss_pred             CCCchhccCCCcccccCceeecccc--ccccCCEEEeecCCCCCHHHHHHHHHHhcc---cCC---eEEEEEEecCC--c
Confidence            3457788888999999999999987  577999999999999999999887666542   222   26788775432  2


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHHH-----HHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDIM-----PKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~l-----~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ....++.+.+..   ...+++..+ ....+.......+     ..+.+++..    .+.--|+|+|+++.+.
T Consensus       182 rev~e~~~~l~~---~~~l~~tvvV~atad~~~~~r~~ap~~a~aiAEyfr~----~G~~VLlv~DdlTr~A  246 (485)
T CHL00059        182 SSVAQVVTTLQE---RGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMY----RGRHTLIIYDDLSKQA  246 (485)
T ss_pred             hHHHHHHHHhhc---ccchhceEEEEeCCCCCHHHHHHHHHHHhhHHHHHHH----cCCCEEEEEcChhHHH
Confidence            233333333221   234555443 3322221111111     123444444    3444889999999865

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=98.07  E-value=3.9e-05  Score=65.94  Aligned_cols=36  Identities=19%  Similarity=0.197  Sum_probs=30.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        18 ~l~~i-sl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          18 VLKDI-NFSIKPGETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             cccce-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            45554 4578999999999999999999999888764

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06936 type III secretion system ATPase; Provisional

Probab=98.07  E-value=1.2e-05  Score=74.98  Aligned_cols=127  Identities=13%  Similarity=0.156  Sum_probs=76.9

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|.++  -+..|+.+.|.|++|+|||||+..++.+..    .+    -++|.-....  .
T Consensus       133 ~p~p~~R~~i~~~l~TGi~vid~l~--~i~~Gq~~~I~G~sG~GKStLl~~Ia~~~~----~d----v~V~~liGER--g  200 (439)
T PRK06936        133 APAPMSRRLIETPLSLGVRVIDGLL--TCGEGQRMGIFAAAGGGKSTLLASLIRSAE----VD----VTVLALIGER--G  200 (439)
T ss_pred             CCChHHccccCCCCcCCcceeeeeE--EecCCCEEEEECCCCCChHHHHHHHhcCCC----CC----EEEEEEEccC--c
Confidence            3456677778999999999999985  689999999999999999999988877652    11    4666643322  1


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHH-----HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDI-----MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~-----l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      +...++.+...  . ...+++..+ ....+..-....     -..+.+++.+    .++--++++||++.+.
T Consensus       201 rEv~ef~~~~l--~-~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfrd----~G~~Vll~~DslTR~A  265 (439)
T PRK06936        201 REVREFIESDL--G-EEGLRKAVLVVATSDRPSMERAKAGFVATSIAEYFRD----QGKRVLLLMDSVTRFA  265 (439)
T ss_pred             HHHHHHHHHHh--c-ccccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEeccchhHHH
Confidence            22333322211  0 122444333 333222111111     1134445544    2444888999999865

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.06  E-value=3.6e-05  Score=73.38  Aligned_cols=30  Identities=20%  Similarity=0.127  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      |+++..-+.|+||||+|||+++..++....
T Consensus       212 gl~~p~GILLyGPPGTGKT~LAKAlA~eL~  241 (512)
T TIGR03689       212 DLKPPKGVLLYGPPGCGKTLIAKAVANSLA  241 (512)
T ss_pred             cCCCCcceEEECCCCCcHHHHHHHHHHhhc
Confidence            677767799999999999999999988763

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.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=98.06  E-value=3.5e-05  Score=71.87  Aligned_cols=125  Identities=16%  Similarity=0.196  Sum_probs=76.2

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      +.++.....+.+.||+..+|.++  .+.+|+.+.|+|++|+|||+|+..++.+..    .+.   .++.+..+......+
T Consensus       129 ~~~~r~~i~~~l~TGiraID~ll--~I~~Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~---gvI~~iGerg~ev~e  199 (432)
T PRK06793        129 HAFEREEITDVFETGIKSIDSML--TIGIGQKIGIFAGSGVGKSTLLGMIAKNAK----ADI---NVISLVGERGREVKD  199 (432)
T ss_pred             CchheechhhccCCCCEEEeccc--eecCCcEEEEECCCCCChHHHHHHHhccCC----CCe---EEEEeCCCCcccHHH
Confidence            45555666678899999999976  688999999999999999999988887752    121   455555555444433


Q ss_pred             H-HHHHHHhCCCCCCCCCCc-EEEEeCCCHHHHHH-----HHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           89 L-HQLSHTFRPSNDHNPCDY-IFVQSVHSVDQLLD-----IMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        89 l-~~i~~~~~~~~~~~~l~~-i~~~~~~~~~~l~~-----~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      + ++....       ..+++ +.+....+......     +...+.+++.+    .++..++++|+++.+..
T Consensus       200 ~~~~~l~~-------~gl~~tvvv~~tsd~s~~~r~ra~~~a~~iAEyfr~----~G~~VLlilDslTr~a~  260 (432)
T PRK06793        200 FIRKELGE-------EGMRKSVVVVATSDESHLMQLRAAKLATSIAEYFRD----QGNNVLLMMDSVTRFAD  260 (432)
T ss_pred             HHHHHhhh-------cccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCcEEEEecchHHHHH
Confidence            3 323221       11233 33333322211111     11223344443    34559999999998653

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.06  E-value=6e-05  Score=72.91  Aligned_cols=36  Identities=17%  Similarity=0.209  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        15 ~l~~i-s~~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   50 (520)
T TIGR03269        15 VLKNI-SFTIEEGEVLGILGRSGAGKSVLMHVLRGMD   50 (520)
T ss_pred             eeece-eEEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            45544 4578999999999999999999999888863

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=98.06  E-value=7.8e-05  Score=63.86  Aligned_cols=36  Identities=17%  Similarity=0.244  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|+|||||+..++...
T Consensus        23 il~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        23 VLKNV-SLTVNAGECVALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             EEecc-eEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568899999999999999999998887754

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=98.06  E-value=2.3e-05  Score=76.23  Aligned_cols=36  Identities=14%  Similarity=0.146  Sum_probs=30.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+.+.|+||+|||||||+..++...
T Consensus       333 ~l~~~-~~~i~~G~~~~ivG~sGsGKSTL~~ll~g~~  368 (544)
T TIGR01842       333 TLRGI-SFRLQAGEALAIIGPSGSGKSTLARLIVGIW  368 (544)
T ss_pred             ccccc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998888765

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.

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.06  E-value=4.7e-05  Score=66.07  Aligned_cols=36  Identities=14%  Similarity=0.174  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ .--+.+|+++.|.|++|+|||||+..++...
T Consensus        17 ~l~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        17 ALNDL-SLYVDPGELRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             Eeeee-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568899999999999999999999888764

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=98.05  E-value=1.8e-05  Score=75.24  Aligned_cols=128  Identities=15%  Similarity=0.259  Sum_probs=80.2

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .+.+++....+.+.||+..+|-++  -+.+|+-..|.|++|+|||+|++.+..+..   ..+   ..|+|.-.-..  .+
T Consensus       133 p~~~~R~~i~~pl~TGi~aID~l~--pigrGQr~~I~g~~g~GKt~Lal~~i~~~~---~~d---v~~V~~~IGer--~r  202 (501)
T TIGR00962       133 PGVMERKSVHEPLQTGIKAIDAMI--PIGRGQRELIIGDRQTGKTAVAIDTIINQK---DSD---VYCVYVAIGQK--AS  202 (501)
T ss_pred             CChhhcCCcCceeccCCceeeccC--CcccCCEEEeecCCCCCccHHHHHHHHhhc---CCC---eEEEEEEccCC--hH
Confidence            357788888999999999999987  577999999999999999999876655542   222   25788875432  22


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHHH-----HHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDIM-----PKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~l-----~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...++.+.+..   ...+++..+ ....+.......+     ..+.+++.+    .+.--|+++|+++.+.
T Consensus       203 ev~e~~~~~~~---~~~l~~tvvV~atsd~p~~~r~~a~~~a~aiAEyfrd----~G~~VLlv~Ddltr~A  266 (501)
T TIGR00962       203 TVAQVVRKLEE---HGAMDYTIVVAATASDSASLQYLAPYTGCTMAEYFRD----NGKHALIIYDDLSKHA  266 (501)
T ss_pred             HHHHHHHHHHh---cCccceeEEEEecCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEEecchHHHH
Confidence            33333333221   134555444 3222211111111     233445544    3344899999999875

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=98.05  E-value=1.9e-05  Score=67.45  Aligned_cols=36  Identities=22%  Similarity=0.356  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        16 il~~v-s~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   51 (218)
T cd03290          16 TLSNI-NIRIPTGQLTMIVGQVGCGKSSLLLAILGEM   51 (218)
T ss_pred             ceeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45543 4468899999999999999999999888764

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=98.04  E-value=2.3e-05  Score=68.20  Aligned_cols=35  Identities=17%  Similarity=0.268  Sum_probs=29.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|+.+ +.-+.+|+++.|+|++|+|||||+..++..
T Consensus        16 ~l~~i-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         16 ILRGL-NLEVRPGEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             eeecc-eeEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            45544 457899999999999999999999888775

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.04  E-value=1.3e-05  Score=77.32  Aligned_cols=36  Identities=17%  Similarity=0.077  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus       278 ~l~~i-sl~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~  313 (510)
T PRK09700        278 KVRDI-SFSVCRGEILGFAGLVGSGRTELMNCLFGVD  313 (510)
T ss_pred             cccce-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35544 4468999999999999999999999888754

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=98.04  E-value=6.6e-05  Score=65.14  Aligned_cols=36  Identities=22%  Similarity=0.206  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus        17 il~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         17 ALFDI-TLDCPQGETLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             eEeee-eeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34443 4468899999999999999999999888754

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=98.04  E-value=1.2e-05  Score=70.07  Aligned_cols=34  Identities=18%  Similarity=0.315  Sum_probs=28.2

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      |+.+ +--+.+|+++.|.|++|||||||+..++..
T Consensus        12 l~~v-sl~i~~Gei~~l~G~nGsGKSTLl~~l~Gl   45 (248)
T PRK03695         12 LGPL-SAEVRAGEILHLVGPNGAGKSTLLARMAGL   45 (248)
T ss_pred             ecce-EEEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            4443 346889999999999999999999888765

>PRK10867 signal recognition particle protein; Provisional

Probab=98.04  E-value=6.6e-05  Score=70.33  Aligned_cols=43  Identities=16%  Similarity=0.210  Sum_probs=34.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-CCCCCeEEEEeCCCCCCHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSH-GGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-gg~~~~vlyid~e~~~~~~   87 (302)
                      ..++.++|++|+||||++..+|..+.   .. |.   +|++++++ ++.+.
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~---~~~G~---kV~lV~~D-~~R~a  143 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLK---KKKKK---KVLLVAAD-VYRPA  143 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH---HhcCC---cEEEEEcc-ccchH
Confidence            47999999999999999999998764   34 54   89999987 45443

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=98.04  E-value=8.9e-06  Score=71.23  Aligned_cols=36  Identities=22%  Similarity=0.368  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|.|++|||||||+..++...
T Consensus        17 il~~i-s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (255)
T PRK11231         17 ILNDL-SLSLPTGKITALIGPNGCGKSTLLKCFARLL   52 (255)
T ss_pred             EEeee-eeEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            44444 4568899999999999999999998887753

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=98.04  E-value=2.5e-05  Score=76.38  Aligned_cols=91  Identities=12%  Similarity=0.137  Sum_probs=54.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHH-HHHHhCCC--C
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQ-LSHTFRPS--N  100 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~-i~~~~~~~--~  100 (302)
                      .|+++ +-.+++|+.+.|+||+||||||++.-+++...  +..|     .++||..+  ..+...+++ ++-..+..  .
T Consensus       344 vl~~i-s~~i~~Ge~vaiVG~sGsGKSTl~~LL~r~~~--~~~G-----~I~idg~dI~~i~~~~lr~~I~~V~Qd~~LF  415 (567)
T COG1132         344 VLKDI-SFSIEPGEKVAIVGPSGSGKSTLIKLLLRLYD--PTSG-----EILIDGIDIRDISLDSLRKRIGIVSQDPLLF  415 (567)
T ss_pred             cccCc-eEEEcCCCEEEEECCCCCCHHHHHHHHhccCC--CCCC-----eEEECCEehhhcCHHHHHHhccEEcccceee
Confidence            45554 45799999999999999999999988887753  1233     46666432  344444433 22111110  1


Q ss_pred             CCCCCCcEEEEeC-CCHHHHHHHHH
Q 022155          101 DHNPCDYIFVQSV-HSVDQLLDIMP  124 (302)
Q Consensus       101 ~~~~l~~i~~~~~-~~~~~l~~~l~  124 (302)
                      ..++.+|+.+... .+.+++.+.+.
T Consensus       416 ~~TI~~NI~~g~~~at~eei~~a~k  440 (567)
T COG1132         416 SGTIRENIALGRPDATDEEIEEALK  440 (567)
T ss_pred             cccHHHHHhcCCCCCCHHHHHHHHH
Confidence            1345567777654 35555555443

>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.03  E-value=6.6e-06  Score=71.31  Aligned_cols=157  Identities=20%  Similarity=0.245  Sum_probs=84.9

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCC-CCeEEEEeCCCC-CCHHHHHHHHHHhCCCC
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL-SASSLYLHTEFP-FPMRRLHQLSHTFRPSN  100 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~-~~~vlyid~e~~-~~~~rl~~i~~~~~~~~  100 (302)
                      |...||--+  .+|.-.+|.|+|++|||||++...++... -| ..|.. -..-+++|++.. +-+..-+.++..|+.-.
T Consensus        11 G~~~l~a~~--~~p~~GvTAlFG~SGsGKTslin~IaGL~-rP-deG~I~lngr~L~Ds~k~i~lp~~~RriGYVFQDAR   86 (352)
T COG4148          11 GNFALDANF--TLPARGITALFGPSGSGKTSLINMIAGLT-RP-DEGRIELNGRVLVDAEKGIFLPPEKRRIGYVFQDAR   86 (352)
T ss_pred             CceEEEEec--cCCCCceEEEecCCCCChhhHHHHHhccC-Cc-cccEEEECCEEeecccCCcccChhhheeeeEeeccc
Confidence            444555433  56666899999999999999998887764 22 33310 002356777653 22222334444443211


Q ss_pred             --CC-CCCCcEEEEeCC-CHHHHHHHHH--HHHHHHHhc----------------cCCCCCeeEEEEechhhhhhhccCC
Q 022155          101 --DH-NPCDYIFVQSVH-SVDQLLDIMP--KIESFIKNS----------------SNSRLPIRLIVIDSIAALFRSDFDN  158 (302)
Q Consensus       101 --~~-~~l~~i~~~~~~-~~~~l~~~l~--~l~~~l~~~----------------~~~~~~~~lvVIDsi~~~~~~~~~~  158 (302)
                        +. .+-.|+.+-... +..++..++.  .|..++.+.                +.- ..++|+..|+.-+-.      
T Consensus        87 LFpH~tVrgNL~YG~~~~~~~~fd~iv~lLGI~hLL~R~P~~LSGGEkQRVAIGRALL-t~P~LLLmDEPLaSL------  159 (352)
T COG4148          87 LFPHYTVRGNLRYGMWKSMRAQFDQLVALLGIEHLLDRYPGTLSGGEKQRVAIGRALL-TAPELLLMDEPLASL------  159 (352)
T ss_pred             cccceEEecchhhhhcccchHhHHHHHHHhCcHHHHhhCCCccCcchhhHHHHHHHHh-cCCCeeeecCchhhc------
Confidence              11 233444442222 2223322221  223333221                001 134888888865532      


Q ss_pred             ChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccccc
Q 022155          159 TMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL  197 (302)
Q Consensus       159 ~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~  197 (302)
                         |.. |   -.+++-.|.+|.++.+++|++++|..+.
T Consensus       160 ---D~~-R---K~EilpylERL~~e~~IPIlYVSHS~~E  191 (352)
T COG4148         160 ---DLP-R---KREILPYLERLRDEINIPILYVSHSLDE  191 (352)
T ss_pred             ---ccc-h---hhHHHHHHHHHHHhcCCCEEEEecCHHH
Confidence               112 2   1367788899999999999999996543

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.03  E-value=3.9e-05  Score=62.46  Aligned_cols=27  Identities=22%  Similarity=0.438  Sum_probs=23.3

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -..|+++.|.|.+|||||||+..+-..
T Consensus        29 A~~GdVisIIGsSGSGKSTfLRCiN~L   55 (256)
T COG4598          29 ANAGDVISIIGSSGSGKSTFLRCINFL   55 (256)
T ss_pred             cCCCCEEEEecCCCCchhHHHHHHHhh
Confidence            457999999999999999999877543

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=98.03  E-value=1.1e-05  Score=75.57  Aligned_cols=116  Identities=20%  Similarity=0.237  Sum_probs=66.1

Q ss_pred             hCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEE
Q 022155           31 LGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFV  110 (302)
Q Consensus        31 L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~  110 (302)
                      |+|.+|+|  ++|+||||+|||.||..+|..+           .|-|+.+.++.    +                |.+++
T Consensus       332 LGGKLPKG--VLLvGPPGTGKTlLARAvAGEA-----------~VPFF~~sGSE----F----------------dEm~V  378 (752)
T KOG0734|consen  332 LGGKLPKG--VLLVGPPGTGKTLLARAVAGEA-----------GVPFFYASGSE----F----------------DEMFV  378 (752)
T ss_pred             ccCcCCCc--eEEeCCCCCchhHHHHHhhccc-----------CCCeEeccccc----h----------------hhhhh
Confidence            47889999  8999999999999999888775           45566555431    1                22222


Q ss_pred             EeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEE
Q 022155          111 QSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLV  190 (302)
Q Consensus       111 ~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv  190 (302)
                      -.  ....+.+++....         ...+.+|+||.|.++-..-.+.   +...-.+.+.+++..|.-+.+.-++.||.
T Consensus       379 Gv--GArRVRdLF~aAk---------~~APcIIFIDEiDavG~kR~~~---~~~y~kqTlNQLLvEmDGF~qNeGiIvig  444 (752)
T KOG0734|consen  379 GV--GARRVRDLFAAAK---------ARAPCIIFIDEIDAVGGKRNPS---DQHYAKQTLNQLLVEMDGFKQNEGIIVIG  444 (752)
T ss_pred             cc--cHHHHHHHHHHHH---------hcCCeEEEEechhhhcccCCcc---HHHHHHHHHHHHHHHhcCcCcCCceEEEe
Confidence            11  1111222222211         1345999999999964221111   11122334566777777666554555554


Q ss_pred             Eec
Q 022155          191 TNQ  193 (302)
Q Consensus       191 ~n~  193 (302)
                      -+.
T Consensus       445 ATN  447 (752)
T KOG0734|consen  445 ATN  447 (752)
T ss_pred             ccC
Confidence            433

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=98.03  E-value=2.6e-05  Score=70.09  Aligned_cols=36  Identities=17%  Similarity=0.146  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|+|||||+..++...
T Consensus        17 ~l~~i-s~~i~~Gei~~l~G~NGaGKTTLl~~l~Gl~   52 (301)
T TIGR03522        17 ALDEV-SFEAQKGRIVGFLGPNGAGKSTTMKIITGYL   52 (301)
T ss_pred             EEEEe-EEEEeCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998887653

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=98.02  E-value=2.2e-05  Score=77.05  Aligned_cols=48  Identities=15%  Similarity=0.128  Sum_probs=35.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+.+.|+||+|||||||+..++...  ++..|     .++++..
T Consensus       350 ~l~~i-~~~i~~G~~~~ivG~sGsGKSTL~~ll~g~~--~~~~G-----~i~~~g~  397 (585)
T TIGR01192       350 GVFDV-SFEAKAGQTVAIVGPTGAGKTTLINLLQRVY--DPTVG-----QILIDGI  397 (585)
T ss_pred             cccce-eEEEcCCCEEEEECCCCCCHHHHHHHHccCC--CCCCC-----EEEECCE
Confidence            34443 4468999999999999999999998887764  32333     4666654

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=98.02  E-value=2.1e-05  Score=73.27  Aligned_cols=53  Identities=28%  Similarity=0.244  Sum_probs=45.7

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.+++....+.+.||+..+|.++  -+.+|+.+.|+|++|+|||||+..++...
T Consensus       134 ~~p~~R~~i~e~l~TGi~aID~ll--~i~~GqrigI~G~sG~GKSTLL~~I~~~~  186 (444)
T PRK08972        134 INPLSRRPITEPLDVGVRAINAML--TVGKGQRMGLFAGSGVGKSVLLGMMTRGT  186 (444)
T ss_pred             CChhhcCCCCCcccccceeecceE--EEcCCCEEEEECCCCCChhHHHHHhccCC
Confidence            345667777889999999999986  68899999999999999999998887643

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=98.02  E-value=2.4e-05  Score=73.60  Aligned_cols=131  Identities=21%  Similarity=0.254  Sum_probs=81.0

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|-++  -+.+|+-+.|+|++|+|||+|+..++.+....  ...   .++|.-....  .
T Consensus       114 ~p~~~~R~~~~e~l~TGir~ID~l~--pigkGQR~gIfa~~G~GKt~Ll~~~~~~~~~~--~~d---v~V~~liGER--~  184 (461)
T PRK12597        114 IPPLAEQDTSTEILETGIKVIDLLC--PIAKGGKTGLFGGAGVGKTVLMMELIFNISKQ--HSG---SSVFAGVGER--S  184 (461)
T ss_pred             CcChhhcCCcCcceecCCeeecccC--ccccCCEEEeecCCCCChhHHHHHHHHHHHhh--CCC---EEEEEcCCcc--h
Confidence            4567888888999999999999987  57799999999999999999999999887421  122   5667653322  2


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCHH---HHHH--HHHHHHHHHHhccCCC-CCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSVD---QLLD--IMPKIESFIKNSSNSR-LPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~---~l~~--~l~~l~~~l~~~~~~~-~~~~lvVIDsi~~~~~  153 (302)
                      +...++...+..   ...+++..+ ....+..   .+..  .-..+.+++.+    . +.--|+++||++.+..
T Consensus       185 rEv~ef~~~~~~---~~~l~rsvvv~atsd~~~~~R~~a~~~a~tiAEyfrd----~~G~~VLl~~DslTR~A~  251 (461)
T PRK12597        185 REGHELYHEMKE---SGVLDKTVMVYGQMNEPPGARMRVVLTGLTIAEYLRD----EEKEDVLLFIDNIFRFVQ  251 (461)
T ss_pred             HHHHHHHHHHHh---cCCcceeEEEecCCCCCHHHHHHHHHHHHHHHHHHHH----hcCCceEEEeccchHHHH
Confidence            223333333211   134455433 3322211   1111  11233445543    2 3447899999998653

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=98.01  E-value=3.2e-05  Score=73.08  Aligned_cols=128  Identities=18%  Similarity=0.231  Sum_probs=78.7

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      +.+++....+.+.||+..+|-++  -+-+|+=..|+|++|+|||+|++.+..+..   ..+   ..|+|.-.-..-  ..
T Consensus       135 ~~~~R~~v~epl~TGI~aID~l~--pigrGQR~~Ifg~~g~GKT~Lal~~I~~q~---~~d---v~~V~~~IGeR~--re  204 (497)
T TIGR03324       135 PIMDRAPVTVPLQTGLKVIDALI--PIGRGQRELILGDRQTGKTAIAIDTILNQK---GRN---VLCIYCAIGQRA--SA  204 (497)
T ss_pred             CccccCCCCchhhcCCEEEeccC--CcccCCEEEeecCCCCCHHHHHHHHHHHhc---CCC---cEEEEEEeccCc--HH
Confidence            46778888999999999999987  577999999999999999999875444432   222   247887754321  22


Q ss_pred             HHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHHH-----HHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           89 LHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDIM-----PKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        89 l~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~l-----~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      ..++.+.+..   ...+++..+ ....+.......+     ..+.+++.+    .+.--|+++|+++.+..
T Consensus       205 v~e~i~~l~~---~~~l~~tvvV~atsd~p~~~r~~ap~~a~aiAEyfrd----~G~~VLlv~DdlTr~A~  268 (497)
T TIGR03324       205 VAKVVANLRE---HGAMDYTIVVVTEGNDPPGLQYIAPYAATSIGEHFME----QGRDVLIVYDDLTQHAR  268 (497)
T ss_pred             HHHHHHHhhh---cCCcceeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHh----CCCCEEEEEcChhHHHH
Confidence            3333333221   234555443 3322211111111     123444543    34458999999998653

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

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

Probab=98.01  E-value=1.7e-05  Score=65.64  Aligned_cols=41  Identities=24%  Similarity=0.344  Sum_probs=31.0

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +..+.-+.|+|++|+|||.||..++..+.   ..|.   .|+|++..
T Consensus        44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~---~~g~---~v~f~~~~   84 (178)
T PF01695_consen   44 IENGENLILYGPPGTGKTHLAVAIANEAI---RKGY---SVLFITAS   84 (178)
T ss_dssp             -SC--EEEEEESTTSSHHHHHHHHHHHHH---HTT-----EEEEEHH
T ss_pred             cccCeEEEEEhhHhHHHHHHHHHHHHHhc---cCCc---ceeEeecC
Confidence            55788899999999999999999988875   4555   89999854

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.

>PRK05922 type III secretion system ATPase; Validated

Probab=98.01  E-value=4.8e-05  Score=70.97  Aligned_cols=54  Identities=20%  Similarity=0.281  Sum_probs=46.1

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.+++....+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+.+++...
T Consensus       128 ~~~~~~R~~i~e~l~TGIr~ID~ll--~I~~GqrigI~G~nG~GKSTLL~~Ia~~~  181 (434)
T PRK05922        128 PPSPMSRQPIQEIFPTGIKAIDAFL--TLGKGQRIGVFSEPGSGKSSLLSTIAKGS  181 (434)
T ss_pred             CCChhhcCCcceecCCCceeecceE--EEcCCcEEEEECCCCCChHHHHHHHhccC
Confidence            3345677777889999999999986  68899999999999999999998887664

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=98.00  E-value=3.7e-05  Score=71.74  Aligned_cols=43  Identities=23%  Similarity=0.283  Sum_probs=34.6

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +--+.+|+.+.|.||+|||||||+..++..+ .| ..|     .+.+|.-
T Consensus       356 sF~l~~G~~lgIIGPSgSGKSTLaR~lvG~w-~p-~~G-----~VRLDga  398 (580)
T COG4618         356 SFALQAGEALGIIGPSGSGKSTLARLLVGIW-PP-TSG-----SVRLDGA  398 (580)
T ss_pred             eeEecCCceEEEECCCCccHHHHHHHHHccc-cc-CCC-----cEEecch
Confidence            3468899999999999999999999998886 33 333     5778765

>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter

Probab=98.00  E-value=4.9e-05  Score=74.13  Aligned_cols=47  Identities=19%  Similarity=0.224  Sum_probs=34.9

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |+.+ +--+++|+++.|+||+|||||||+.-++....  +..|     .++++..
T Consensus       358 l~~v-s~~i~~G~~~aivG~sGsGKSTl~~ll~g~~~--p~~G-----~i~~~g~  404 (555)
T TIGR01194       358 LGPI-DLRIAQGDIVFIVGENGCGKSTLAKLFCGLYI--PQEG-----EILLDGA  404 (555)
T ss_pred             eccc-eEEEcCCcEEEEECCCCCCHHHHHHHHhCCCC--CCCc-----EEEECCE
Confidence            4443 44689999999999999999999988877652  2333     4666654

This model describes cyclic peptide transporter in bacteria. Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. Syringomycin is an amphipathic, cylclic lipodepsipeptide when inserted into host causes formation of channels, permeable to variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=98.00  E-value=3e-05  Score=73.48  Aligned_cols=128  Identities=16%  Similarity=0.268  Sum_probs=79.7

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .+.+++....+.+.||+..+|-++  -+.+|+-..|.|++|+|||+|++....+..   ..+   ..|+|.-.-..  .+
T Consensus       134 p~~~~R~~v~epl~TGIkaID~l~--pigrGQR~~I~g~~g~GKt~Lal~~i~~~~---~~d---v~~V~~~IGer--~r  203 (502)
T PRK13343        134 PAIIERDFVTEPLQTGIKVVDALI--PIGRGQRELIIGDRQTGKTAIAIDAIINQK---DSD---VICVYVAIGQK--AS  203 (502)
T ss_pred             cChhhcCCCCcccccCCceecccc--ccccCCEEEeeCCCCCCccHHHHHHHHhhc---CCC---EEEEEEEeccC--hH
Confidence            346777788999999999999987  577999999999999999999876665542   222   25688775433  22


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHHH-----HHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDIM-----PKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~l-----~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...++.+.+..   ...+++..+ ....+.......+     ..+.+++.+    ++.--|+++|+++.+.
T Consensus       204 ev~e~~~~l~~---~~~l~~tvvV~atsd~~~~~r~~ap~~a~aiAEyfrd----~G~~VLlv~DdlTr~A  267 (502)
T PRK13343        204 AVARVIETLRE---HGALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRD----QGQDALIVYDDLSKHA  267 (502)
T ss_pred             HHHHHHHHHHh---cCccceeEEEEecccccHHHHHHHHHHHHHHHHHHHh----CCCCEEEEecchHHHH
Confidence            33344433221   134555433 3222221111111     123344433    3445899999999874

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=98.00  E-value=3.2e-05  Score=73.56  Aligned_cols=129  Identities=16%  Similarity=0.241  Sum_probs=80.9

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+||+....+..   ..+   ..|+|.-.-..  .
T Consensus       133 ~p~~~~R~~~~~~l~TGi~~ID~l~--pigrGQr~~Ifg~~g~GKt~lal~~i~~~~---~~d---v~~V~~~IGer--~  202 (502)
T PRK09281        133 APGVIDRKSVHEPLQTGIKAIDAMI--PIGRGQRELIIGDRQTGKTAIAIDTIINQK---GKD---VICIYVAIGQK--A  202 (502)
T ss_pred             CcCccccCCccceeecCCeeeeccc--ccccCcEEEeecCCCCCchHHHHHHHHHhc---CCC---eEEEEEEecCC--h
Confidence            3457788888999999999999987  577999999999999999999877665532   222   25788875432  2


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEE-eCCCHHHHHHHH-----HHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQ-SVHSVDQLLDIM-----PKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~-~~~~~~~l~~~l-----~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      +...++.+.+..   ...+++..+. ...+..-....+     ..+.+++..    .+.--|||+|+++.+.
T Consensus       203 ~ev~e~~~~~~~---~~~l~~tvvv~atsd~p~~~r~~a~~~a~tiAEyfrd----~G~~VLli~DdlTr~A  267 (502)
T PRK09281        203 STVAQVVRKLEE---HGAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMD----NGKDALIVYDDLSKQA  267 (502)
T ss_pred             HHHHHHHHHHhh---cCCccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEEecCchHHH
Confidence            233333333221   2345554443 222211111111     123444544    3444899999999875

>PLN03232 ABC transporter C family member; Provisional

Probab=98.00  E-value=2.2e-05  Score=84.49  Aligned_cols=49  Identities=10%  Similarity=0.080  Sum_probs=36.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+++ +--+++|+.+.|+|++|||||||+..+.+...   ...    +.++||..+
T Consensus      1251 vL~~i-sl~I~~GekvaIVG~SGSGKSTL~~lL~rl~~---p~~----G~I~IdG~d 1299 (1495)
T PLN03232       1251 VLHGL-SFFVSPSEKVGVVGRTGAGKSSMLNALFRIVE---LEK----GRIMIDDCD 1299 (1495)
T ss_pred             ccccc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCCc---CCC----ceEEECCEE
Confidence            44444 44789999999999999999999988887652   222    357888653

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=98.00  E-value=1.6e-05  Score=79.70  Aligned_cols=48  Identities=23%  Similarity=0.253  Sum_probs=36.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+.+.|+||+||||||++..++....   ...    +.+++|..
T Consensus       496 vL~~i-sl~i~~Ge~vaIvG~SGsGKSTLl~lL~gl~~---p~~----G~I~idg~  543 (711)
T TIGR00958       496 VLKGL-TFTLHPGEVVALVGPSGSGKSTVAALLQNLYQ---PTG----GQVLLDGV  543 (711)
T ss_pred             cccCc-eEEEcCCCEEEEECCCCCCHHHHHHHHHhccC---CCC----CEEEECCE
Confidence            45554 45789999999999999999999998888753   233    25777754

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=98.00  E-value=3.1e-05  Score=82.96  Aligned_cols=38  Identities=26%  Similarity=0.259  Sum_probs=32.0

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      +.|+.+ +--+++|+.+.|+||+||||||++..+++.+.
T Consensus      1182 ~vL~~l-sl~i~~G~~vAIVG~SGsGKSTl~~LL~r~yd 1219 (1466)
T PTZ00265       1182 PIYKDL-TFSCDSKKTTAIVGETGSGKSTVMSLLMRFYD 1219 (1466)
T ss_pred             ccccCe-eEEEcCCCEEEEECCCCCCHHHHHHHHHHhCC
Confidence            346554 45799999999999999999999998888764

>PRK08181 transposase; Validated

Probab=97.99  E-value=3.7e-05  Score=67.65  Aligned_cols=41  Identities=20%  Similarity=0.305  Sum_probs=33.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +..+.-+.|+||+|+|||.|+..++..++   ..|.   +|+|++..
T Consensus       103 ~~~~~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~---~v~f~~~~  143 (269)
T PRK08181        103 LAKGANLLLFGPPGGGKSHLAAAIGLALI---ENGW---RVLFTRTT  143 (269)
T ss_pred             HhcCceEEEEecCCCcHHHHHHHHHHHHH---HcCC---ceeeeeHH
Confidence            45678899999999999999999988764   4454   78999853

>PLN03130 ABC transporter C family member; Provisional

Probab=97.98  E-value=2.3e-05  Score=84.77  Aligned_cols=148  Identities=11%  Similarity=0.138  Sum_probs=81.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCCCC--
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPSND--  101 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~~~--  101 (302)
                      .|+++ +--|++|+.+.|+|++|||||||+..+.+.+.  +..     +.++||...  ..+...+++... +-.+++  
T Consensus      1254 VL~~i-s~~I~~GekVaIVGrSGSGKSTLl~lL~rl~~--p~~-----G~I~IDG~dI~~i~l~~LR~~Is-iVpQdp~L 1324 (1622)
T PLN03130       1254 VLHGL-SFEISPSEKVGIVGRTGAGKSSMLNALFRIVE--LER-----GRILIDGCDISKFGLMDLRKVLG-IIPQAPVL 1324 (1622)
T ss_pred             eecce-eEEEcCCCEEEEECCCCCCHHHHHHHHhCcCC--CCC-----ceEEECCEecccCCHHHHHhccE-EECCCCcc
Confidence            45554 45789999999999999999999988887652  233     358888653  334444433211 111111  


Q ss_pred             --CCCCCcEEEEeCCCHHHHHHHHHH--HHHHHHhc---------------------------cCCCCCeeEEEEechhh
Q 022155          102 --HNPCDYIFVQSVHSVDQLLDIMPK--IESFIKNS---------------------------SNSRLPIRLIVIDSIAA  150 (302)
Q Consensus       102 --~~~l~~i~~~~~~~~~~l~~~l~~--l~~~l~~~---------------------------~~~~~~~~lvVIDsi~~  150 (302)
                        ..+.+|+......+.+++.+.++.  +.+.+.+.                           +. -.+.+++|+|+.++
T Consensus      1325 F~GTIreNLd~~~~~tdeei~~Al~~a~l~~~I~~lp~GLdt~Vge~G~nLSgGQrQrlaLARAL-Lr~p~ILILDEATS 1403 (1622)
T PLN03130       1325 FSGTVRFNLDPFNEHNDADLWESLERAHLKDVIRRNSLGLDAEVSEAGENFSVGQRQLLSLARAL-LRRSKILVLDEATA 1403 (1622)
T ss_pred             ccccHHHHhCcCCCCCHHHHHHHHHHcCcHHHHHhCccccCccccCCCCCCCHHHHHHHHHHHHH-HcCCCEEEEECCCC
Confidence              123344443333444555444432  11221110                           00 01348999999888


Q ss_pred             hhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccC
Q 022155          151 LFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM  198 (302)
Q Consensus       151 ~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~  198 (302)
                      -...+        .+     ..+.+.|++..  .++|+|++.|-.+.+
T Consensus      1404 aLD~~--------Te-----~~Iq~~I~~~~--~~~TvI~IAHRL~tI 1436 (1622)
T PLN03130       1404 AVDVR--------TD-----ALIQKTIREEF--KSCTMLIIAHRLNTI 1436 (1622)
T ss_pred             CCCHH--------HH-----HHHHHHHHHHC--CCCEEEEEeCChHHH
Confidence            55211        11     13344555443  479999999954433

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=97.98  E-value=4.9e-05  Score=71.07  Aligned_cols=54  Identities=17%  Similarity=0.185  Sum_probs=46.2

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.++.....+.+.||+..+|.++  .+.+|+.+.|+|++|+|||||+..++...
T Consensus       136 ~p~~~~r~~v~~~l~TGi~aID~L~--~I~~Gqri~I~G~SGsGKTTLL~~Ia~l~  189 (450)
T PRK06002        136 APPAMTRARVETGLRTGVRVIDIFT--PLCAGQRIGIFAGSGVGKSTLLAMLARAD  189 (450)
T ss_pred             CCCCeEeecceEEcCCCcEEeeeec--eecCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4457777788889999999999885  69999999999999999999997776543

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=97.98  E-value=0.00011  Score=71.06  Aligned_cols=36  Identities=22%  Similarity=0.254  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus       299 il~~i-s~~i~~Ge~~~l~G~NGsGKSTLl~~l~Gl~  334 (520)
T TIGR03269       299 AVDNV-SLEVKEGEIFGIVGTSGAGKTTLSKIIAGVL  334 (520)
T ss_pred             EEeeE-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998887753

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=97.98  E-value=8.2e-05  Score=62.78  Aligned_cols=26  Identities=12%  Similarity=0.250  Sum_probs=23.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+++.|+||+|+|||||+..++...
T Consensus        28 ~~~~~~l~G~Ng~GKStll~~i~~~~   53 (202)
T cd03243          28 SGRLLLITGPNMGGKSTYLRSIGLAV   53 (202)
T ss_pred             CCeEEEEECCCCCccHHHHHHHHHHH
Confidence            46999999999999999999998554

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

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=5.4e-05  Score=71.85  Aligned_cols=152  Identities=18%  Similarity=0.217  Sum_probs=81.8

Q ss_pred             ccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHH-HHHHHHhC
Q 022155           21 TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRL-HQLSHTFR   97 (302)
Q Consensus        21 ~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl-~~i~~~~~   97 (302)
                      +.|-+.+..+ +--+++|+.+.|+|++||||||++.-++...  +...|     .+.++...  .++.+-+ +++..--+
T Consensus       331 ~~g~~~l~~l-~~t~~~g~~talvG~SGaGKSTLl~lL~G~~--~~~~G-----~I~vng~~l~~l~~~~~~k~i~~v~Q  402 (559)
T COG4988         331 PDGKPALSDL-NLTIKAGQLTALVGASGAGKSTLLNLLLGFL--APTQG-----EIRVNGIDLRDLSPEAWRKQISWVSQ  402 (559)
T ss_pred             CCCCcccCCc-eeEecCCcEEEEECCCCCCHHHHHHHHhCcC--CCCCc-----eEEECCccccccCHHHHHhHeeeeCC
Confidence            3343444443 3468999999999999999999998777664  32333     35554332  2333322 22221111


Q ss_pred             CC--CCCCCCCcEEEEeC-CCHHHHHHHHHH--HHHHHHh----------c---------------cCCCCCeeEEEEec
Q 022155           98 PS--NDHNPCDYIFVQSV-HSVDQLLDIMPK--IESFIKN----------S---------------SNSRLPIRLIVIDS  147 (302)
Q Consensus        98 ~~--~~~~~l~~i~~~~~-~~~~~l~~~l~~--l~~~l~~----------~---------------~~~~~~~~lvVIDs  147 (302)
                      ..  .+...-+|+.+.++ .+.+++.+.+++  +.+++..          .               ..--.+..++++|+
T Consensus       403 ~p~lf~gTireNi~l~~~~~s~e~i~~al~~a~l~~~v~~p~GLdt~ige~G~~LSgGQ~QRlaLARAll~~~~l~llDE  482 (559)
T COG4988         403 NPYLFAGTIRENILLARPDASDEEIIAALDQAGLLEFVPKPDGLDTVIGEGGAGLSGGQAQRLALARALLSPASLLLLDE  482 (559)
T ss_pred             CCccccccHHHHhhccCCcCCHHHHHHHHHHhcHHHhhcCCCcccchhccCCCCCCHHHHHHHHHHHHhcCCCCEEEecC
Confidence            10  11234466666555 344555544432  1222211          0               00012358999999


Q ss_pred             hhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeccc
Q 022155          148 IAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV  195 (302)
Q Consensus       148 i~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~  195 (302)
                      .++....+        .+     ..+.+.|.++++  +.|||+++|--
T Consensus       483 pTA~LD~e--------tE-----~~i~~~l~~l~~--~ktvl~itHrl  515 (559)
T COG4988         483 PTAHLDAE--------TE-----QIILQALQELAK--QKTVLVITHRL  515 (559)
T ss_pred             CccCCCHh--------HH-----HHHHHHHHHHHh--CCeEEEEEcCh
Confidence            99865322        11     245667777775  47777777753

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=97.98  E-value=2.4e-05  Score=73.01  Aligned_cols=54  Identities=20%  Similarity=0.199  Sum_probs=48.1

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.++.....+.+.||+..+|-++  -+.+|+.+.|+|++|+|||+|+.+++...
T Consensus       129 ~p~~~~R~~~~~~l~TGir~ID~l~--~i~~Gqri~I~G~sG~GKTtLL~~I~~~~  182 (442)
T PRK08927        129 PPPAHSRARVGEPLDLGVRALNTFL--TCCRGQRMGIFAGSGVGKSVLLSMLARNA  182 (442)
T ss_pred             CcChHHcCCcccccccceEEEeeee--EEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            4567788888999999999999987  58899999999999999999998888765

>KOG0057 consensus Mitochondrial Fe/S cluster exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.97  E-value=3.2e-05  Score=72.72  Aligned_cols=47  Identities=21%  Similarity=0.232  Sum_probs=37.5

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      |+.+ ..-||+|+-+.|+|++||||||++..+.....   ..|     -++||+.+
T Consensus       368 L~gv-sf~I~kGekVaIvG~nGsGKSTilr~LlrF~d---~sG-----~I~IdG~d  414 (591)
T KOG0057|consen  368 LKGV-SFTIPKGEKVAIVGSNGSGKSTILRLLLRFFD---YSG-----SILIDGQD  414 (591)
T ss_pred             ecce-eEEecCCCEEEEECCCCCCHHHHHHHHHHHhc---cCC-----cEEECCee
Confidence            4443 45799999999999999999999998888753   334     48999764

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=97.97  E-value=0.00015  Score=65.48  Aligned_cols=125  Identities=11%  Similarity=0.105  Sum_probs=76.6

Q ss_pred             cCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHH
Q 022155           12 DNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQ   91 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~   91 (302)
                      ++....+.+.||+..+|-++  -+.+|+-..|.|++|+|||+++.+++.+..    .+    -|+|+-..+.  .....+
T Consensus       133 ~r~~~~~pL~TGirvID~l~--Pi~kGqr~~I~G~~G~GKT~L~~~Iak~~~----~d----vvVyv~iGER--g~Ev~e  200 (369)
T cd01134         133 EKLPPNEPLLTGQRVLDTLF--PVVKGGTAAIPGPFGCGKTVIQQSLSKYSN----SD----IVIYVGCGER--GNEMTE  200 (369)
T ss_pred             ccCCCCCchhccchhhhccc--cccCCCEEEEECCCCCChHHHHHHHHhCCC----CC----EEEEEEeCCC--hHHHHH
Confidence            66677889999999999987  578999999999999999999999887642    22    6888876432  223333


Q ss_pred             HHHHhCC----CCCCCCCCcEEE-EeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           92 LSHTFRP----SNDHNPCDYIFV-QSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        92 i~~~~~~----~~~~~~l~~i~~-~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      +...|..    ......+++..+ ....+..   .....  -..+.+++.+    ...--++++||++...
T Consensus       201 ~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~~~R~~s~yta~tiAEYfrd----~G~dVll~~Ds~tR~A  267 (369)
T cd01134         201 VLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASIYTGITIAEYFRD----MGYNVALMADSTSRWA  267 (369)
T ss_pred             HHHHHHhhccccccCCccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEEEcChhHHH
Confidence            3333321    111234555433 3222211   11111  1123444443    2333788899998754

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.

>PRK12377 putative replication protein; Provisional

Probab=97.96  E-value=4.8e-05  Score=66.18  Aligned_cols=37  Identities=14%  Similarity=0.230  Sum_probs=30.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .-+.|+|+||+|||+|+..++..+.   ..|.   .|+|++..
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~---~~g~---~v~~i~~~  138 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLL---AKGR---SVIVVTVP  138 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH---HcCC---CeEEEEHH
Confidence            5689999999999999999988874   4454   78998865

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.96  E-value=3.9e-05  Score=72.03  Aligned_cols=89  Identities=18%  Similarity=0.213  Sum_probs=54.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEEe
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQS  112 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~~  112 (302)
                      ..|.++.|+||+|+||||++..+|..+.+. ..|.   +|.+|+++. +..   +.+...+..          .++-+..
T Consensus       219 ~~~~~i~~vGptGvGKTTt~~kLA~~~~~~-~~g~---~V~li~~D~-~r~~a~eqL~~~a~~----------~~vp~~~  283 (424)
T PRK05703        219 KQGGVVALVGPTGVGKTTTLAKLAARYALL-YGKK---KVALITLDT-YRIGAVEQLKTYAKI----------MGIPVEV  283 (424)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHh-cCCC---eEEEEECCc-cHHHHHHHHHHHHHH----------hCCceEc
Confidence            457899999999999999999999876410 2233   899999873 322   222222221          1223333


Q ss_pred             CCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155          113 VHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus       113 ~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      ..+..++...+..+           .+.++|+||....
T Consensus       284 ~~~~~~l~~~l~~~-----------~~~DlVlIDt~G~  310 (424)
T PRK05703        284 VYDPKELAKALEQL-----------RDCDVILIDTAGR  310 (424)
T ss_pred             cCCHHhHHHHHHHh-----------CCCCEEEEeCCCC
Confidence            44444544433321           2459999998765

>KOG0065 consensus Pleiotropic drug resistance proteins (PDR1-15), ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]

Probab=97.96  E-value=1.9e-05  Score=81.14  Aligned_cols=36  Identities=28%  Similarity=0.409  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -|+.+ .|-+.||.+|.|.|++|+|||||+.-+|...
T Consensus       806 LL~~V-~G~~kPG~LTALMG~SGAGKTTLLdvLA~R~  841 (1391)
T KOG0065|consen  806 LLNNV-SGAFKPGVLTALMGESGAGKTTLLDVLAGRK  841 (1391)
T ss_pred             hhhcC-ceEecCCceeehhcCCCCchHHHHHHHhcCc
Confidence            45555 5779999999999999999999998887653

>TIGR00955 3a01204 The Eye Pigment Precursor Transporter (EPP) Family protein

Probab=97.96  E-value=4.3e-05  Score=75.39  Aligned_cols=37  Identities=19%  Similarity=0.346  Sum_probs=31.9

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ ++-+++|+++.|.||+|+|||||+..++...
T Consensus        39 ~iL~~v-s~~i~~Ge~~aI~G~sGsGKSTLL~~L~g~~   75 (617)
T TIGR00955        39 HLLKNV-SGVAKPGELLAVMGSSGAGKTTLMNALAFRS   75 (617)
T ss_pred             ccccCC-EEEEeCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            356666 6789999999999999999999998887754

>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity

Probab=97.96  E-value=2.4e-05  Score=63.91  Aligned_cols=127  Identities=20%  Similarity=0.257  Sum_probs=67.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEe-CCCHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQS-VHSVDQL  119 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~-~~~~~~l  119 (302)
                      |.|.|...||||.+|.+++..      .++   +++||.|-..++.+-.++|...... .+    ++..... +.+   +
T Consensus         1 ilv~GG~rSGKS~~Ae~la~~------~~~---~~~YiAT~~~~D~em~~RI~~H~~~-R~----~~w~tiE~~~~---l   63 (167)
T PF02283_consen    1 ILVTGGARSGKSSFAERLALS------FGG---PVTYIATARPFDEEMRERIARHRQR-RP----KGWITIEEPRD---L   63 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS--------S---CEEEEESSHHHHHHHHHHHHHHHHH-SS----TCEEEEE-SS----G
T ss_pred             CEEeCCCCcchHHHHHHHHHh------cCC---CcEEEeCCCCCCHHHHHHHHHHHHh-CC----CCcEEEecchh---H
Confidence            578999999999999999843      223   7999999876655433444433211 11    2333333 232   2


Q ss_pred             HHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccC
Q 022155          120 LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM  198 (302)
Q Consensus       120 ~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~  198 (302)
                      .+.+...           .+-+.|+||+++......+.....+   .......+...+..+.+...-.|||+|.+...+
T Consensus        64 ~~~~~~~-----------~~~~~vLlDclt~wl~n~l~~~~~~---~~~~~~~i~~~l~~l~~~~~~lViVsnEVG~Gi  128 (167)
T PF02283_consen   64 AEALEEL-----------SPGDVVLLDCLTLWLANLLFAEEDD---EEDILEEIERLLEALRERNADLVIVSNEVGWGI  128 (167)
T ss_dssp             GGTS-TT-----------S-T-EEEEE-HHHHHHHHHHHHHTT---HHHHHHHHHHHHHHHHH--SEEEEEEE---SS-
T ss_pred             HHHHHHh-----------ccCCeEEEeCHHHHHHHHHHhccCc---HHHHHHHHHHHHHHHHccCCCEEEEEcCCCCCC
Confidence            2222111           1138999999999876544321101   123344555556666555667788888886543

The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=97.96  E-value=4e-05  Score=65.84  Aligned_cols=37  Identities=19%  Similarity=0.298  Sum_probs=30.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        21 ~~l~~v-sl~i~~Ge~~~l~G~nGsGKSTLlk~l~G~~   57 (226)
T cd03234          21 RILNDV-SLHVESGQVMAILGSSGSGKTTLLDAISGRV   57 (226)
T ss_pred             ccccCc-eEEEcCCeEEEEECCCCCCHHHHHHHHhCcc
Confidence            345554 4578999999999999999999998887764

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=97.96  E-value=9e-05  Score=71.84  Aligned_cols=37  Identities=27%  Similarity=0.332  Sum_probs=31.3

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        23 ~~l~~i-sl~i~~Ge~~~iiG~nGsGKSTLl~~i~G~~   59 (529)
T PRK15134         23 TVVNDV-SLQIEAGETLALVGESGSGKSVTALSILRLL   59 (529)
T ss_pred             eeeece-EEEEeCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            456665 5578999999999999999999999888764

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=97.95  E-value=9.5e-05  Score=69.10  Aligned_cols=54  Identities=24%  Similarity=0.253  Sum_probs=46.6

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.+++....+.+.||+..+|.++  -+..|+.+.|+|++|+|||+|+..++.+.
T Consensus       128 ~~~~~~R~~i~~~l~tgi~aid~l~--~i~~Gq~~~i~G~sG~GKStLl~~i~~~~  181 (434)
T PRK08472        128 PIAAMKRGLIDEVFSVGVKSIDGLL--TCGKGQKLGIFAGSGVGKSTLMGMIVKGC  181 (434)
T ss_pred             CCCHHHcCCcceeccchhHHhhhcc--eecCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            3456777777888999999999985  68899999999999999999998888765

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.95  E-value=8.9e-06  Score=73.65  Aligned_cols=38  Identities=21%  Similarity=0.294  Sum_probs=31.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.-+.|+|++|+|||+|+..+|..+.   ..|.   .|+|++..
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~---~~g~---~V~y~t~~  220 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELL---DRGK---SVIYRTAD  220 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHH---HCCC---eEEEEEHH
Confidence            46799999999999999999988874   4454   89999965

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=97.94  E-value=4.5e-05  Score=68.76  Aligned_cols=54  Identities=24%  Similarity=0.249  Sum_probs=45.4

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+..++....+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+..++...
T Consensus        40 ~~~~~~R~~~~~~l~tGi~aiD~l~--~i~~Gqri~I~G~sG~GKTtLl~~Ia~~~   93 (326)
T cd01136          40 PPNPLKRRPIDEVLPTGVRAIDGLL--TVGKGQRLGIFAGSGVGKSTLLGMIARGT   93 (326)
T ss_pred             CcCHHHhccceeEcCCCcEEEeeee--EEcCCcEEEEECCCCCChHHHHHHHhCCC
Confidence            3456667777788999999999985  68899999999999999999988777654

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.

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.94  E-value=7.6e-05  Score=71.22  Aligned_cols=36  Identities=17%  Similarity=0.279  Sum_probs=30.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ .--+.+|+++.|.||+|+|||||+..++...
T Consensus        39 IL~nV-SfsI~~GEivgIiGpNGSGKSTLLkiLaGLl   74 (549)
T PRK13545         39 ALNNI-SFEVPEGEIVGIIGLNGSGKSTLSNLIAGVT   74 (549)
T ss_pred             EEeee-EEEEeCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999999888764

>PRK13409 putative ATPase RIL; Provisional

Probab=97.94  E-value=7.8e-05  Score=73.00  Aligned_cols=35  Identities=17%  Similarity=0.048  Sum_probs=29.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ . -+.+|+++.|+||+|+|||||+..++...
T Consensus        89 ~L~~l-~-~i~~Gev~gLvG~NGaGKSTLlkiL~G~l  123 (590)
T PRK13409         89 KLYGL-P-IPKEGKVTGILGPNGIGKTTAVKILSGEL  123 (590)
T ss_pred             eEecC-C-cCCCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            46665 3 58899999999999999999998887753

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

Probab=97.94  E-value=5.1e-05  Score=71.26  Aligned_cols=123  Identities=15%  Similarity=0.195  Sum_probs=66.3

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |+.++.-+.|+||||+|||+++..++....      .   ..+.+....         +...+             +.  
T Consensus       213 gi~~p~gVLL~GPPGTGKT~LAraIA~el~------~---~fi~V~~se---------L~~k~-------------~G--  259 (438)
T PTZ00361        213 GIKPPKGVILYGPPGTGKTLLAKAVANETS------A---TFLRVVGSE---------LIQKY-------------LG--  259 (438)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHhhC------C---CEEEEecch---------hhhhh-------------cc--
Confidence            677888899999999999999999987642      1   234443221         11000             00  


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      .....+.+++    .....     ....+|+||.+.+++........+....-+..+..++..|..+....++.||++++
T Consensus       260 e~~~~vr~lF----~~A~~-----~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATN  330 (438)
T PTZ00361        260 DGPKLVRELF----RVAEE-----NAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATN  330 (438)
T ss_pred             hHHHHHHHHH----HHHHh-----CCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecC
Confidence            0111111122    22221     23489999999998743221111110111223445666666655566888888776


Q ss_pred             ccccC
Q 022155          194 VVDLM  198 (302)
Q Consensus       194 ~~~~~  198 (302)
                      -.+.+
T Consensus       331 r~d~L  335 (438)
T PTZ00361        331 RIESL  335 (438)
T ss_pred             ChHHh
Confidence            44433

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=97.93  E-value=4.9e-05  Score=71.14  Aligned_cols=132  Identities=16%  Similarity=0.184  Sum_probs=81.7

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|-++  -+.+|+-+.|+|++|+|||+|+.+++.+..-  ....   .++|.-....  .
T Consensus       109 ap~~~~R~~i~e~L~TGIr~ID~l~--pigkGQr~~Ifg~~G~GKt~l~~~~~~~~~~--~~~~---v~V~~~iGeR--~  179 (449)
T TIGR03305       109 PPTLTRRSSKSEVFETGIKAIDVLV--PLERGGKAGLFGGAGVGKTVLLTEMIHNMVG--QHQG---VSIFCGIGER--C  179 (449)
T ss_pred             CCCchhcccCCcccccCceeecccc--ccccCCEEEeecCCCCChhHHHHHHHHHHHh--cCCC---EEEEEEeccC--c
Confidence            4467888888999999999999887  5789999999999999999999999998631  1122   6777654322  2


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCH---HHHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSV---DQLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~---~~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +...++...+..   ...+++..+ ....+.   ......  -..+.+++..   ..+.--|+++||++.+..
T Consensus       180 rEv~e~~~~~~~---~~~l~rtvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd---~~G~~VLl~~DslTR~A~  246 (449)
T TIGR03305       180 REGEELYREMKE---AGVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYFRD---DEKQDVLLLIDNIFRFIQ  246 (449)
T ss_pred             HHHHHHHHHHhh---ccccceEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHH---hcCCceEEEecChHHHHH
Confidence            333333333221   134555443 332221   111111  1123344432   023337899999998753

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.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.93  E-value=1.8e-05  Score=66.72  Aligned_cols=28  Identities=21%  Similarity=0.201  Sum_probs=23.2

Q ss_pred             CCCC-cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCN-SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G-~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..| +++.|.||+|+|||||+..++...
T Consensus        24 i~~~~~~~~ltG~Ng~GKStll~~i~~~~   52 (200)
T cd03280          24 LGENKRVLVITGPNAGGKTVTLKTLGLLT   52 (200)
T ss_pred             ECCCceEEEEECCCCCChHHHHHHHHHHH
Confidence            4456 599999999999999999988433

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=97.93  E-value=7.5e-05  Score=72.40  Aligned_cols=36  Identities=28%  Similarity=0.249  Sum_probs=30.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ..|+.+ +--+++|+++.|.||+|||||||+..++..
T Consensus       300 ~il~~i-sl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl  335 (529)
T PRK15134        300 VVVKNI-SFTLRPGETLGLVGESGSGKSTTGLALLRL  335 (529)
T ss_pred             eeeecc-eeEEcCCCEEEEECCCCCCHHHHHHHHhCc
Confidence            346655 567899999999999999999999888865

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.93  E-value=0.00012  Score=63.32  Aligned_cols=39  Identities=13%  Similarity=0.220  Sum_probs=31.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+..+.|+||+|+|||+|+..++..+.   ..|.   ++.|++.+
T Consensus        44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~---~v~y~~~~   82 (235)
T PRK08084         44 HSGYIYLWSREGAGRSHLLHAACAELS---QRGR---AVGYVPLD   82 (235)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH---hCCC---eEEEEEHH
Confidence            456889999999999999998887664   3343   78999865

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=97.93  E-value=4.7e-05  Score=73.30  Aligned_cols=36  Identities=19%  Similarity=0.265  Sum_probs=30.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        19 il~~i-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   54 (501)
T PRK11288         19 ALDDI-SFDCRAGQVHALMGENGAGKSTLLKILSGNY   54 (501)
T ss_pred             EEeee-eEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45655 5578999999999999999999998887753

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=97.92  E-value=0.00018  Score=61.59  Aligned_cols=123  Identities=10%  Similarity=0.123  Sum_probs=67.5

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      .+..|+++.|.||+|+|||+++.+++....++  +.|     .|+-.+. ...                ...++|+..-.
T Consensus        27 ~~~~g~~~~itG~N~~GKStll~~i~~~~~la--~~G-----~~v~a~~-~~~----------------~~~~~i~~~~~   82 (222)
T cd03287          27 SAEGGYCQIITGPNMGGKSSYIRQVALITIMA--QIG-----SFVPASS-ATL----------------SIFDSVLTRMG   82 (222)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHHHHHHHH--hCC-----CEEEcCc-eEE----------------eccceEEEEec
Confidence            35679999999999999999999998866443  232     2333221 100                12334433211


Q ss_pred             --C----CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcE
Q 022155          114 --H----SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLA  187 (302)
Q Consensus       114 --~----~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~  187 (302)
                        .    +...+..-+.++..++..    ..+..++++|++..-..         ......+...   .++.+.+..+++
T Consensus        83 ~~d~~~~~~StF~~e~~~~~~il~~----~~~~sLvllDE~~~gT~---------~~d~~~i~~~---il~~l~~~~~~~  146 (222)
T cd03287          83 ASDSIQHGMSTFMVELSETSHILSN----CTSRSLVILDELGRGTS---------THDGIAIAYA---TLHYLLEEKKCL  146 (222)
T ss_pred             CccccccccchHHHHHHHHHHHHHh----CCCCeEEEEccCCCCCC---------hhhHHHHHHH---HHHHHHhccCCe
Confidence              1    111222233444555543    22459999999865211         1122222223   344444445899


Q ss_pred             EEEEecccc
Q 022155          188 VLVTNQVVD  196 (302)
Q Consensus       188 viv~n~~~~  196 (302)
                      +|+++|..+
T Consensus       147 ~i~~TH~~~  155 (222)
T cd03287         147 VLFVTHYPS  155 (222)
T ss_pred             EEEEcccHH
Confidence            999999754

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

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=97.92  E-value=1e-05  Score=77.96  Aligned_cols=37  Identities=22%  Similarity=0.292  Sum_probs=30.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        19 ~il~~i-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (506)
T PRK13549         19 KALDNV-SLKVRAGEIVSLCGENGAGKSTLMKVLSGVY   55 (506)
T ss_pred             Eeecce-eEEEeCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            356655 4578999999999999999999998888753

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=97.92  E-value=5.2e-05  Score=67.30  Aligned_cols=122  Identities=14%  Similarity=0.214  Sum_probs=70.7

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH-HHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR-RLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~-rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      ....++.|+|++|+|||+||.+++.........+    .++|++.....+.. -+.++...+.......       ....
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~----~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~   85 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFD----GVIWVSLSKNPSLEQLLEQILRQLGEPDSSI-------SDPK   85 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCT----EEEEEEEES-SCCHHHHHHHHHHHTCC-STS-------SCCS
T ss_pred             CCeEEEEEEcCCcCCcceeeeecccccccccccc----ccccccccccccccccccccccccccccccc-------cccc
Confidence            7889999999999999999999987632222222    68999877655443 3466666654332211       1223


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      +.++   ....+.+.+..     . --|+|+|++.....                +..+...+..  ...++.||+|+..
T Consensus        86 ~~~~---~~~~l~~~L~~-----~-~~LlVlDdv~~~~~----------------~~~l~~~~~~--~~~~~kilvTTR~  138 (287)
T PF00931_consen   86 DIEE---LQDQLRELLKD-----K-RCLLVLDDVWDEED----------------LEELREPLPS--FSSGSKILVTTRD  138 (287)
T ss_dssp             SHHH---HHHHHHHHHCC-----T-SEEEEEEEE-SHHH----------------H-------HC--HHSS-EEEEEESC
T ss_pred             cccc---ccccchhhhcc-----c-cceeeeeeeccccc----------------cccccccccc--ccccccccccccc
Confidence            3333   44555566654     3 49999998765320                2222233322  3468999999865


Q ss_pred             c
Q 022155          195 V  195 (302)
Q Consensus       195 ~  195 (302)
                      .
T Consensus       139 ~  139 (287)
T PF00931_consen  139 R  139 (287)
T ss_dssp             G
T ss_pred             c
Confidence            4

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.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=97.92  E-value=3.5e-05  Score=71.83  Aligned_cols=54  Identities=22%  Similarity=0.278  Sum_probs=46.2

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.++.....+.+.||+..+|..+  -+.+|+.+.|+|++|+|||+|+..++...
T Consensus       111 ~p~~~~R~~i~~~l~tGi~aiD~~~--~i~~Gq~i~I~G~sG~GKTtLl~~I~~~~  164 (418)
T TIGR03498       111 PPPAMSRARVGEPLDTGVRVIDTFL--PLCRGQRLGIFAGSGVGKSTLLSMLARNT  164 (418)
T ss_pred             CCChhhccCcccccCCccEEEeeec--cccCCcEEEEECCCCCChHHHHHHHhCCC
Confidence            4467778888899999999999765  68999999999999999999997776654

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.

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=97.90  E-value=4.1e-05  Score=71.35  Aligned_cols=54  Identities=28%  Similarity=0.324  Sum_probs=45.5

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.+++....+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+..++...
T Consensus       108 ~p~~~~R~~~~~~~~tGi~~iD~l~--~i~~Gqri~I~G~sG~GKTtLl~~i~~~~  161 (413)
T TIGR03497       108 PPNPLKRPRIRDPLETGIKAIDGLL--TIGKGQRVGIFAGSGVGKSTLLGMIARNA  161 (413)
T ss_pred             CcChHHccchhhhccccceeeeeEE--EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3456677777789999999999985  68899999999999999999987776654

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.

>PRK08149 ATP synthase SpaL; Validated

Probab=97.90  E-value=3.5e-05  Score=71.85  Aligned_cols=53  Identities=21%  Similarity=0.202  Sum_probs=45.1

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+..++....+.+.||+..+|.++  -+.+|+.+.|+|++|+|||||+..++...
T Consensus       123 ~~~~~R~~i~e~l~tGi~aid~ll--~i~~Gq~i~I~G~sG~GKTTLl~~i~~~~  175 (428)
T PRK08149        123 PSYAERRPIREPLITGVRAIDGLL--TCGVGQRMGIFASAGCGKTSLMNMLIEHS  175 (428)
T ss_pred             CcchhccCccccccCCcEEEeeee--eEecCCEEEEECCCCCChhHHHHHHhcCC
Confidence            346666677889999999999985  68899999999999999999988776643

>PRK06921 hypothetical protein; Provisional

Probab=97.90  E-value=7.9e-05  Score=65.64  Aligned_cols=39  Identities=23%  Similarity=0.283  Sum_probs=31.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-CCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSH-GGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-gg~~~~vlyid~e   81 (302)
                      .+.-+.|+|++|+|||+|+..++..+.   .. |.   .|+|++..
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~---~~~g~---~v~y~~~~  155 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELM---RKKGV---PVLYFPFV  155 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh---hhcCc---eEEEEEHH
Confidence            367799999999999999999988764   33 44   89999953

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.89  E-value=0.00019  Score=67.02  Aligned_cols=47  Identities=26%  Similarity=0.376  Sum_probs=35.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQ   91 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~   91 (302)
                      ..++.++|++|+||||++..+|..+.   ..|.   +|+.++++ ++.+....+
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~---~~G~---kV~lV~~D-~~R~aA~eQ  146 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQ---RKGF---KPCLVCAD-TFRAGAFDQ  146 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HCCC---CEEEEcCc-ccchhHHHH
Confidence            46999999999999999999998764   4454   88888877 554433333

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.

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=97.89  E-value=2.5e-05  Score=75.01  Aligned_cols=36  Identities=25%  Similarity=0.253  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        13 il~~v-s~~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~   48 (491)
T PRK10982         13 ALDNV-NLKVRPHSIHALMGENGAGKSTLLKCLFGIY   48 (491)
T ss_pred             eeeee-eEEEcCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            45554 4578999999999999999999998887653

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=97.89  E-value=5.4e-05  Score=72.91  Aligned_cols=35  Identities=14%  Similarity=0.175  Sum_probs=29.0

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.+ +--+++|+++.|.||+|||||||+..++...
T Consensus       269 l~~i-sl~i~~Ge~~~iiG~NGsGKSTLlk~l~G~~  303 (501)
T PRK11288        269 REPI-SFSVRAGEIVGLFGLVGAGRSELMKLLYGAT  303 (501)
T ss_pred             ccce-eEEEeCCcEEEEEcCCCCCHHHHHHHHcCCC
Confidence            3443 3468999999999999999999999888764

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=97.89  E-value=0.00015  Score=68.31  Aligned_cols=166  Identities=13%  Similarity=0.111  Sum_probs=89.0

Q ss_pred             ccCCCCCCccccCC-hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC-CCCHHH
Q 022155           11 LDNPLTTEKCTVGC-PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF-PFPMRR   88 (302)
Q Consensus        11 ~~~~~~~~~i~tG~-~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~-~~~~~r   88 (302)
                      ++.+...-.++.-- +.|+.+ +--+.+|+-+.|.|++||||||++..++.++.  ..+|    .+.+=..+- ..+.+-
T Consensus       337 l~~~~vsF~y~~~~~~~L~~~-~l~l~~GEkvAIlG~SGsGKSTllqLl~~~~~--~~~G----~i~~~g~~~~~l~~~~  409 (573)
T COG4987         337 LELRNVSFTYPGQQTKALKNF-NLTLAQGEKVAILGRSGSGKSTLLQLLAGAWD--PQQG----SITLNGVEIASLDEQA  409 (573)
T ss_pred             eeeccceeecCCCccchhhcc-ceeecCCCeEEEECCCCCCHHHHHHHHHhccC--CCCC----eeeECCcChhhCChhh
Confidence            33333333334332 367765 56789999999999999999999988888863  2444    333333231 233332


Q ss_pred             HHHHH-HHhCC--CCCCCCCCcEEEEeC-CCHHHHHHHHHH--HHHHHHhcc-------------C-------------C
Q 022155           89 LHQLS-HTFRP--SNDHNPCDYIFVQSV-HSVDQLLDIMPK--IESFIKNSS-------------N-------------S  136 (302)
Q Consensus        89 l~~i~-~~~~~--~~~~~~l~~i~~~~~-~~~~~l~~~l~~--l~~~l~~~~-------------~-------------~  136 (302)
                      +++.. .-.+.  .......+|+....+ .+.+++.+++.+  +++++.+.+             .             -
T Consensus       410 ~~e~i~vl~Qr~hlF~~Tlr~NL~lA~~~AsDEel~~aL~qvgL~~l~~~~p~gl~t~lge~G~~LSGGE~rRLAlAR~L  489 (573)
T COG4987         410 LRETISVLTQRVHLFSGTLRDNLRLANPDASDEELWAALQQVGLEKLLESAPDGLNTWLGEGGRRLSGGERRRLALARAL  489 (573)
T ss_pred             HHHHHhhhccchHHHHHHHHHHHhhcCCCCCHHHHHHHHHHcCHHHHHHhChhhhhchhccCCCcCCchHHHHHHHHHHH
Confidence            33222 11111  111234567766544 356677766654  344443210             0             0


Q ss_pred             CCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccC
Q 022155          137 RLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM  198 (302)
Q Consensus       137 ~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~  198 (302)
                      -....++++|+.+.-...        ..+|     +++..|..-+  .+.|+|+++|--...
T Consensus       490 L~dapl~lLDEPTegLD~--------~TE~-----~vL~ll~~~~--~~kTll~vTHrL~~l  536 (573)
T COG4987         490 LHDAPLWLLDEPTEGLDP--------ITER-----QVLALLFEHA--EGKTLLMVTHRLRGL  536 (573)
T ss_pred             HcCCCeEEecCCcccCCh--------hhHH-----HHHHHHHHHh--cCCeEEEEecccccH
Confidence            013467778877753311        1222     4455554433  378888888865433

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=97.89  E-value=6.9e-05  Score=80.39  Aligned_cols=36  Identities=19%  Similarity=0.147  Sum_probs=31.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus       400 vL~~i-sl~i~~Ge~vaIvG~SGsGKSTLl~lL~gl~  435 (1466)
T PTZ00265        400 IYKDL-NFTLTEGKTYAFVGESGCGKSTILKLIERLY  435 (1466)
T ss_pred             eeccc-eEEEcCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            56654 4578999999999999999999999888875

>PRK14974 cell division protein FtsY; Provisional

Probab=97.88  E-value=0.00016  Score=65.68  Aligned_cols=50  Identities=20%  Similarity=0.280  Sum_probs=36.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSH   94 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~   94 (302)
                      ..++.++|++|+||||++..+|..+.   ..|.   +|++++++ +++.   +++...+.
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~---~~g~---~V~li~~D-t~R~~a~eqL~~~a~  192 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLK---KNGF---SVVIAAGD-TFRAGAIEQLEEHAE  192 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHH---HcCC---eEEEecCC-cCcHHHHHHHHHHHH
Confidence            57999999999999999999997653   3444   78888766 4444   34444443

>PTZ00243 ABC transporter; Provisional

Probab=97.88  E-value=5.6e-05  Score=81.63  Aligned_cols=49  Identities=16%  Similarity=0.238  Sum_probs=36.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+++ +--|++|+.+.|+|++|||||||+..+.+.+.   ...    +.++||..+
T Consensus      1325 vL~~v-sf~I~~GekVaIVGrTGSGKSTLl~lLlrl~~---p~~----G~I~IDG~d 1373 (1560)
T PTZ00243       1325 VLRGV-SFRIAPREKVGIVGRTGSGKSTLLLTFMRMVE---VCG----GEIRVNGRE 1373 (1560)
T ss_pred             eeecc-eEEECCCCEEEEECCCCCCHHHHHHHHhCCCC---CCC----cEEEECCEE
Confidence            45544 44688999999999999999999998887653   223    357888653

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=97.88  E-value=5.8e-05  Score=70.52  Aligned_cols=54  Identities=24%  Similarity=0.195  Sum_probs=46.6

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.+++....+.+.||+..+|.++  -+.+|+.+.|.|++|+||||++..++...
T Consensus       126 ~~~p~~R~~~~~~l~TGi~aID~ll--~I~~GQ~igI~G~sGaGKSTLl~~I~g~~  179 (434)
T PRK07196        126 QIHPLQRRAVDTPLDVGVNAINGLL--TIGKGQRVGLMAGSGVGKSVLLGMITRYT  179 (434)
T ss_pred             CCChHHhcccccccccceeeccceE--eEecceEEEEECCCCCCccHHHHHHhccc
Confidence            4455677777899999999999996  68999999999999999999998777654

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=97.87  E-value=0.00019  Score=60.75  Aligned_cols=31  Identities=19%  Similarity=0.219  Sum_probs=26.3

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQL   64 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l   64 (302)
                      ....|+++.|.||+|+|||+++..++..+.+
T Consensus        25 ~~~~~~~~~l~G~n~~GKstll~~i~~~~~l   55 (204)
T cd03282          25 TRGSSRFHIITGPNMSGKSTYLKQIALLAIM   55 (204)
T ss_pred             eeCCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4567899999999999999999988776543

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

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.87  E-value=5.3e-05  Score=69.53  Aligned_cols=57  Identities=18%  Similarity=0.274  Sum_probs=40.3

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC---HHHHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP---MRRLHQLSHT   95 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~---~~rl~~i~~~   95 (302)
                      -+..|.++.|+||+|+||||++..|+..+..  ..|.  .+|.+|+++. +.   .+.+...+..
T Consensus       133 ~~~~g~ii~lvGptGvGKTTtiakLA~~~~~--~~G~--~~V~lit~D~-~R~ga~EqL~~~a~~  192 (374)
T PRK14722        133 LMERGGVFALMGPTGVGKTTTTAKLAARCVM--RFGA--SKVALLTTDS-YRIGGHEQLRIFGKI  192 (374)
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHHHHHH--hcCC--CeEEEEeccc-ccccHHHHHHHHHHH
Confidence            3678999999999999999999999987642  2231  2688888663 32   3555555543

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=97.86  E-value=0.00017  Score=70.23  Aligned_cols=36  Identities=22%  Similarity=0.215  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+.+.|+||+|||||||+..++...
T Consensus       338 ~l~~i-~~~i~~G~~~aivG~sGsGKSTL~~ll~g~~  373 (547)
T PRK10522        338 SVGPI-NLTIKRGELLFLIGGNGSGKSTLAMLLTGLY  373 (547)
T ss_pred             EEecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34444 4468999999999999999999998888764

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=97.86  E-value=8.5e-05  Score=69.76  Aligned_cols=132  Identities=18%  Similarity=0.167  Sum_probs=79.8

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|-++  -+-.|+-+.|+|++|+|||+|+.+++.+....  ...   .++|.-....  .
T Consensus       115 ~~~~~~R~~~~~~l~TGiraID~l~--pigkGQR~gIfa~~GvGKt~Ll~~i~~~~~~~--~~~---v~V~~liGER--~  185 (463)
T PRK09280        115 APSFEELSTKTEILETGIKVIDLLA--PYAKGGKIGLFGGAGVGKTVLIQELINNIAKE--HGG---YSVFAGVGER--T  185 (463)
T ss_pred             CCChHHhCCccceeccCCeeecccC--CcccCCEEEeecCCCCChhHHHHHHHHHHHhc--CCC---EEEEEEeccC--c
Confidence            3457777788899999999999987  57799999999999999999999999887421  122   5677654322  2


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +...++...+..   ...+++..+ ....+..   .+...  -..+.+++.+   +.+.--|+++||++.+..
T Consensus       186 rEv~efi~~~~~---~~~l~rsvvV~atsd~p~~~r~~a~~~a~tiAEyfrd---~~G~~VLll~DslTR~A~  252 (463)
T PRK09280        186 REGNDLYHEMKE---SGVLDKTALVFGQMNEPPGARLRVALTGLTMAEYFRD---VEGQDVLLFIDNIFRFTQ  252 (463)
T ss_pred             HHHHHHHHHHHh---cCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH---hcCCceEEEecchHHHHH
Confidence            233333333211   134444333 3322211   11111  1123334421   023347899999998653

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.86  E-value=0.00046  Score=60.80  Aligned_cols=94  Identities=14%  Similarity=0.180  Sum_probs=59.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSV  116 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~  116 (302)
                      +|..+.|+|++|+|||+++..++....   ..+.   ++.+++++ .+......++.....      . .++-+....+.
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~---~~~~---~v~~i~~D-~~ri~~~~ql~~~~~------~-~~~~~~~~~~~  139 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFH---GKKK---TVGFITTD-HSRIGTVQQLQDYVK------T-IGFEVIAVRDE  139 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHH---HcCC---eEEEEecC-CCCHHHHHHHHHHhh------h-cCceEEecCCH
Confidence            568999999999999999999988763   3343   78888877 343433444433211      1 12333444565


Q ss_pred             HHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          117 DQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       117 ~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      .++.+.+..+.+        ..+.++|+||......
T Consensus       140 ~~l~~~l~~l~~--------~~~~D~ViIDt~Gr~~  167 (270)
T PRK06731        140 AAMTRALTYFKE--------EARVDYILIDTAGKNY  167 (270)
T ss_pred             HHHHHHHHHHHh--------cCCCCEEEEECCCCCc
Confidence            555554443321        1356999999987754

>PRK08116 hypothetical protein; Validated

Probab=97.86  E-value=0.00013  Score=64.42  Aligned_cols=38  Identities=18%  Similarity=0.196  Sum_probs=30.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.-+.|+|++|+|||.|+..++..+.   ..+.   .|+|++..
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~---~~~~---~v~~~~~~  151 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELI---EKGV---PVIFVNFP  151 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEEEHH
Confidence            44589999999999999999988864   3344   78999843

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=97.86  E-value=7.6e-05  Score=69.52  Aligned_cols=128  Identities=17%  Similarity=0.167  Sum_probs=76.6

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|.++  -+.+|+.+.|.|++|+|||+|+..++....    ..   ..++....+..   
T Consensus       108 ~~~~~~R~~~~~~~~tGi~~id~l~--~i~~Gq~~~I~G~sG~GKTtLl~~I~~~~~----~~---~~vi~~iGer~---  175 (411)
T TIGR03496       108 PINPLKRAPIDEPLDVGVRAINGLL--TVGRGQRMGIFAGSGVGKSTLLGMMARYTE----AD---VVVVGLIGERG---  175 (411)
T ss_pred             CCCHHhccCcceEeeeeEEeecceE--EEecCcEEEEECCCCCCHHHHHHHHhcCCC----CC---EEEEEEEecCh---
Confidence            4457777778889999999999986  689999999999999999999877765431    11   13333343432   


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEE-EeCCCH---HHHHH--HHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFV-QSVHSV---DQLLD--IMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~---~~l~~--~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +.+.++...+..   ...+++..+ ....+.   .....  ....+.+++.+    .+.--|+++||++.+..
T Consensus       176 ~ev~e~~~~~~~---~~~~~~tvvv~~tsd~~~~~r~~a~~~a~tiAEyfr~----~G~~Vll~~Dsltr~A~  241 (411)
T TIGR03496       176 REVKEFIEDILG---EEGLARSVVVAATADESPLMRLRAAFYATAIAEYFRD----QGKDVLLLMDSLTRFAM  241 (411)
T ss_pred             HHHHHHHHHHhh---CCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----CCCCEEEEEeChHHHHH
Confidence            233333333211   134555433 332221   11111  11233344443    23448999999998753

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.

>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=97.85  E-value=4.8e-05  Score=64.93  Aligned_cols=137  Identities=13%  Similarity=0.140  Sum_probs=67.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHH----------HhCCCCCCCCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSH----------TFRPSNDHNPCD  106 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~----------~~~~~~~~~~l~  106 (302)
                      ....+.|+||.|+|||+|+.+++....   ..+.   .++|++.........+..+..          .+....+.....
T Consensus        19 ~~~~~~l~G~rg~GKTsLl~~~~~~~~---~~~~---~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   92 (234)
T PF01637_consen   19 PSQHILLYGPRGSGKTSLLKEFINELK---EKGY---KVVYIDFLEESNESSLRSFIEETSLADELSEALGISIPSITLE   92 (234)
T ss_dssp             -SSEEEEEESTTSSHHHHHHHHHHHCT-----EE---CCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHHHCCTSTTE
T ss_pred             cCcEEEEEcCCcCCHHHHHHHHHHHhh---hcCC---cEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhhhcccccch
Confidence            468999999999999999999988752   2221   467777654433333333210          010001111111


Q ss_pred             cEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCc
Q 022155          107 YIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGL  186 (302)
Q Consensus       107 ~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~  186 (302)
                      .  +.. .........+..+.+.+..    ...--+||||.+..+. .....       ...++..+...+..+....++
T Consensus        93 ~--~~~-~~~~~~~~~l~~~~~~l~~----~~~~~iiviDe~~~~~-~~~~~-------~~~~~~~l~~~~~~~~~~~~~  157 (234)
T PF01637_consen   93 K--ISK-DLSEDSFSALERLLEKLKK----KGKKVIIVIDEFQYLA-IASEE-------DKDFLKSLRSLLDSLLSQQNV  157 (234)
T ss_dssp             E--EEC-TS-GG-G--HHHHHHHHHH----CHCCEEEEEETGGGGG-BCTTT-------THHHHHHHHHHHHH----TTE
T ss_pred             h--hhh-cchhhHHHHHHHHHHHHHh----cCCcEEEEEecHHHHh-hcccc-------hHHHHHHHHHHHhhccccCCc
Confidence            1  111 2222222233333334433    1222899999999977 11111       112345666666666667788


Q ss_pred             EEEEEecc
Q 022155          187 AVLVTNQV  194 (302)
Q Consensus       187 ~viv~n~~  194 (302)
                      .+|++...
T Consensus       158 ~~v~~~S~  165 (234)
T PF01637_consen  158 SIVITGSS  165 (234)
T ss_dssp             EEEEEESS
T ss_pred             eEEEECCc
Confidence            87777543

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

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.85  E-value=0.00013  Score=67.66  Aligned_cols=43  Identities=26%  Similarity=0.205  Sum_probs=33.7

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ..++.++.|+||+|+||||++.++|.....  ..|.   +|.+++++.
T Consensus       220 ~~~~~vi~lvGptGvGKTTtaaKLA~~~~~--~~G~---~V~Lit~Dt  262 (432)
T PRK12724        220 KNQRKVVFFVGPTGSGKTTSIAKLAAKYFL--HMGK---SVSLYTTDN  262 (432)
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHHHH--hcCC---eEEEecccc
Confidence            346789999999999999999999986521  3344   788888773

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=97.85  E-value=3.9e-05  Score=73.91  Aligned_cols=37  Identities=16%  Similarity=0.159  Sum_probs=30.9

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+++|+++.|+|++|||||||+..++...
T Consensus       276 ~vl~~v-sl~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~  312 (506)
T PRK13549        276 KRVDDV-SFSLRRGEILGIAGLVGAGRTELVQCLFGAY  312 (506)
T ss_pred             ccccce-eeEEcCCcEEEEeCCCCCCHHHHHHHHhCCC
Confidence            456654 5578999999999999999999999887653

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=97.85  E-value=3.1e-05  Score=72.39  Aligned_cols=54  Identities=22%  Similarity=0.201  Sum_probs=46.1

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.+++....+.+.||+..+|-++  -+..|+.+.|.|++|+|||+|+..++...
T Consensus       146 ~~~p~~R~~i~e~l~TGiraID~ll--~I~~Gqri~I~G~sG~GKTTLL~~Ia~~~  199 (455)
T PRK07960        146 PFNPLQRTPIEHVLDTGVRAINALL--TVGRGQRMGLFAGSGVGKSVLLGMMARYT  199 (455)
T ss_pred             CcChHHhcccccchhccceeeeecc--cccCCcEEEEECCCCCCccHHHHHHhCCC
Confidence            3456677777889999999999987  58899999999999999999998777653

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=97.84  E-value=7.6e-05  Score=70.14  Aligned_cols=54  Identities=24%  Similarity=0.252  Sum_probs=45.9

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+..++....+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+.+++...
T Consensus       134 ~~~p~~R~~~~e~l~TGi~~iD~l~--~i~~Gq~~~I~G~sG~GKStLl~~I~~~~  187 (440)
T TIGR01026       134 PINPLKRAPIREILSTGVRSIDGLL--TVGKGQRIGIFAGSGVGKSTLLGMIARNT  187 (440)
T ss_pred             CCChHHccCccccccceeeeeeecc--ccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4456667777788999999999985  68999999999999999999998777654

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.84  E-value=0.0003  Score=61.83  Aligned_cols=36  Identities=25%  Similarity=0.348  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.|++|+|||||+..++...
T Consensus        22 il~~i-s~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   57 (261)
T PRK14258         22 ILEGV-SMEIYQSKVTAIIGPSGCGKSTFLKCLNRMN   57 (261)
T ss_pred             Eeece-EEEEcCCcEEEEECCCCCCHHHHHHHHhccc
Confidence            45554 4568999999999999999999999888764

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=97.84  E-value=7.1e-05  Score=70.09  Aligned_cols=132  Identities=17%  Similarity=0.193  Sum_probs=79.7

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |.+.+++....+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+...  ....   .++|.-.-..  .
T Consensus       114 ~p~~~~R~~~~e~l~TGiraID~l~--pig~GQr~~If~~~G~GKt~L~~~~~~~~~~--~~~~---v~V~alIGER--~  184 (461)
T TIGR01039       114 APSFEEQSTKVEILETGIKVIDLLA--PYAKGGKIGLFGGAGVGKTVLIQELINNIAK--EHGG---YSVFAGVGER--T  184 (461)
T ss_pred             CCChhHcCCcccccccCceeecccC--CcccCCEEEeecCCCCChHHHHHHHHHHHHh--cCCC---eEEEEEecCC--c
Confidence            3457778888999999999999987  5779999999999999999999999988642  1122   5666654222  1


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcE-EEEeCCCH---HHHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYI-FVQSVHSV---DQLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i-~~~~~~~~---~~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +...++...+..   ...+++. .+....+.   ..+...  -..+.+++..   ..+.--|+++||++.+..
T Consensus       185 rEv~ef~~~~~~---~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfrd---~~G~~VLll~DslTR~A~  251 (461)
T TIGR01039       185 REGNDLYHEMKE---SGVIDKTALVYGQMNEPPGARMRVALTGLTMAEYFRD---EQGQDVLLFIDNIFRFTQ  251 (461)
T ss_pred             hHHHHHHHHHHh---cCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH---hcCCeeEEEecchhHHHH
Confidence            223333332211   1344443 33333221   112111  1123344432   013347899999998653

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.84  E-value=0.00027  Score=64.91  Aligned_cols=43  Identities=23%  Similarity=0.145  Sum_probs=38.1

Q ss_pred             ccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        19 ~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      ..++|...+|-++  -|-.|+=..|+||+|+|||||+.+++....
T Consensus       152 ~~~~~~rvID~l~--PIGkGQR~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        152 PEDLSTRIIDLIA--PIGKGQRGLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             Ccccceeeeeeec--ccccCceEEEeCCCCCChhHHHHHHHHHHH
Confidence            4889999999887  467999999999999999999999888764

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.84  E-value=6.5e-05  Score=71.51  Aligned_cols=116  Identities=16%  Similarity=0.219  Sum_probs=68.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |+.+-.=+.|-||||||||.||..+|....           |-|+.-..+       ++.            ..+   .-
T Consensus       219 Gv~PprGvLlHGPPGCGKT~lA~AiAgel~-----------vPf~~isAp-------eiv------------SGv---SG  265 (802)
T KOG0733|consen  219 GVRPPRGVLLHGPPGCGKTSLANAIAGELG-----------VPFLSISAP-------EIV------------SGV---SG  265 (802)
T ss_pred             CCCCCCceeeeCCCCccHHHHHHHHhhhcC-----------CceEeecch-------hhh------------ccc---Cc
Confidence            777766789999999999999999998863           344443221       111            110   11


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHH--cCcEEEEE
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG--FGLAVLVT  191 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~--~~~~viv~  191 (302)
                      .+.+.+.+++.+..         +..+.+|+||.|.++-..- .....++..  +++.+++..+..+..+  .+-.|+++
T Consensus       266 ESEkkiRelF~~A~---------~~aPcivFiDeIDAI~pkR-e~aqreMEr--RiVaQLlt~mD~l~~~~~~g~~VlVI  333 (802)
T KOG0733|consen  266 ESEKKIRELFDQAK---------SNAPCIVFIDEIDAITPKR-EEAQREMER--RIVAQLLTSMDELSNEKTKGDPVLVI  333 (802)
T ss_pred             ccHHHHHHHHHHHh---------ccCCeEEEeecccccccch-hhHHHHHHH--HHHHHHHHhhhcccccccCCCCeEEE
Confidence            23333444443322         1345999999999976422 111113333  3566777777777654  35677777


Q ss_pred             ecc
Q 022155          192 NQV  194 (302)
Q Consensus       192 n~~  194 (302)
                      .-.
T Consensus       334 gAT  336 (802)
T KOG0733|consen  334 GAT  336 (802)
T ss_pred             ecC
Confidence            654

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=97.84  E-value=4.8e-05  Score=73.41  Aligned_cols=34  Identities=18%  Similarity=0.183  Sum_probs=28.6

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      |+.+ +--+++|+++.|.||+|||||||+..++..
T Consensus       279 l~~i-sl~i~~Ge~~~l~G~NGsGKSTLl~~i~Gl  312 (510)
T PRK15439        279 FRNI-SLEVRAGEILGLAGVVGAGRTELAETLYGL  312 (510)
T ss_pred             ccce-eEEEcCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            4443 446889999999999999999999888765

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=97.83  E-value=0.00019  Score=69.63  Aligned_cols=37  Identities=19%  Similarity=0.266  Sum_probs=30.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--|.+|+++.|+||+|||||||+..++...
T Consensus        15 ~il~~v-sl~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~   51 (530)
T PRK15064         15 PLFENI-SVKFGGGNRYGLIGANGCGKSTFMKILGGDL   51 (530)
T ss_pred             EeEeCC-EEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345554 4578999999999999999999998888753

>TIGR00957 MRP_assoc_pro multi drug resistance-associated protein (MRP)

Probab=97.83  E-value=8.5e-05  Score=80.26  Aligned_cols=49  Identities=16%  Similarity=0.211  Sum_probs=36.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+.+ +--+++|+.+.|+|++|||||||+..+.+.+.   ...    +.++||..+
T Consensus      1301 vL~~i-s~~I~~GekiaIVGrTGsGKSTL~~lL~rl~~---~~~----G~I~IdG~d 1349 (1522)
T TIGR00957      1301 VLRHI-NVTIHGGEKVGIVGRTGAGKSSLTLGLFRINE---SAE----GEIIIDGLN 1349 (1522)
T ss_pred             cccce-eEEEcCCCEEEEECCCCCCHHHHHHHHhcCcc---CCC----CeEEECCEE
Confidence            34443 34689999999999999999999998887653   222    358888653

This model describes multi drug resistance-associated protein (MRP) in eukaryotes. The multidrug resistance-associated protein is an integral membrane protein that causes multidrug resistance when overexpressed in mammalian cells. It belongs to ABC transporter superfamily. The protein topology and function was experimentally demonstrated by epitope tagging and immunofluorescence. Insertion of tags in the critical regions associated with drug efflux, abrogated its function. The C-terminal domain seem to highly conserved.

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=97.83  E-value=6e-05  Score=72.55  Aligned_cols=37  Identities=16%  Similarity=0.170  Sum_probs=30.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus       274 ~~l~~i-s~~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~  310 (500)
T TIGR02633       274 KRVDDV-SFSLRRGEILGVAGLVGAGRTELVQALFGAY  310 (500)
T ss_pred             cccccc-eeEEeCCcEEEEeCCCCCCHHHHHHHHhCCC
Confidence            345554 4568999999999999999999998887653

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK06526 transposase; Provisional

Probab=97.82  E-value=7.2e-05  Score=65.41  Aligned_cols=40  Identities=20%  Similarity=0.374  Sum_probs=31.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      +..+.-+.|+||||+|||+++..++..++   ..|.   +|+|++.
T Consensus        95 i~~~~nlll~Gp~GtGKThLa~al~~~a~---~~g~---~v~f~t~  134 (254)
T PRK06526         95 VTGKENVVFLGPPGTGKTHLAIGLGIRAC---QAGH---RVLFATA  134 (254)
T ss_pred             hhcCceEEEEeCCCCchHHHHHHHHHHHH---HCCC---chhhhhH
Confidence            45677899999999999999999988775   4454   6777653

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=0.00016  Score=61.91  Aligned_cols=124  Identities=15%  Similarity=0.223  Sum_probs=73.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      ||.+-.=+.++||||+|||.|+...|.+.           ..-||-.-++   +..++..   . .              
T Consensus       185 gidpprgvllygppg~gktml~kava~~t-----------~a~firvvgs---efvqkyl---g-e--------------  232 (408)
T KOG0727|consen  185 GIDPPRGVLLYGPPGTGKTMLAKAVANHT-----------TAAFIRVVGS---EFVQKYL---G-E--------------  232 (408)
T ss_pred             CCCCCcceEEeCCCCCcHHHHHHHHhhcc-----------chheeeeccH---HHHHHHh---c-c--------------
Confidence            77776679999999999999998877664           2344443332   1221111   0 0              


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                       ......+.+    .+-.+     ..+.+|+||.+.++...-++..-+.-.+-+++|.++++.+.-+-...|+-||+.+.
T Consensus       233 -gprmvrdvf----rlake-----napsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatn  302 (408)
T KOG0727|consen  233 -GPRMVRDVF----RLAKE-----NAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATN  302 (408)
T ss_pred             -CcHHHHHHH----HHHhc-----cCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecC
Confidence             111112222    22222     34599999999998765555432222333556667777777777778888887766


Q ss_pred             ccccCC
Q 022155          194 VVDLME  199 (302)
Q Consensus       194 ~~~~~~  199 (302)
                      -.+..+
T Consensus       303 radtld  308 (408)
T KOG0727|consen  303 RADTLD  308 (408)
T ss_pred             cccccC
Confidence            555444

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.81  E-value=0.00021  Score=66.14  Aligned_cols=93  Identities=17%  Similarity=0.175  Sum_probs=55.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCC-cCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPS-SHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHS  115 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~-~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~  115 (302)
                      .+.++.++||+|+||||.+..+|..+.+.. ..|.   +|.+++++ ++...-..++.....      .+ ++-+....+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~---~V~lit~D-t~R~aa~eQL~~~a~------~l-gvpv~~~~~  241 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSL---NIKIITID-NYRIGAKKQIQTYGD------IM-GIPVKAIES  241 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCC---eEEEEecc-CccHHHHHHHHHHhh------cC-CcceEeeCc
Confidence            357999999999999999999998764321 1233   78888877 444433333221111      11 222333344


Q ss_pred             HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhh
Q 022155          116 VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAAL  151 (302)
Q Consensus       116 ~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~  151 (302)
                      ..++...+..   +        ...++|+||.....
T Consensus       242 ~~~l~~~L~~---~--------~~~DlVLIDTaGr~  266 (388)
T PRK12723        242 FKDLKEEITQ---S--------KDFDLVLVDTIGKS  266 (388)
T ss_pred             HHHHHHHHHH---h--------CCCCEEEEcCCCCC
Confidence            4444433322   1        24699999998764

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

Probab=97.81  E-value=0.0004  Score=60.50  Aligned_cols=36  Identities=19%  Similarity=0.175  Sum_probs=30.2

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+|-++  -+..|+.+.|+||+|+|||||+..++...
T Consensus         5 ~~id~~~--~i~~Gqr~~I~G~~G~GKTTLlr~I~n~l   40 (249)
T cd01128           5 RVVDLFA--PIGKGQRGLIVAPPKAGKTTLLQSIANAI   40 (249)
T ss_pred             hheeeec--ccCCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3566665  46799999999999999999999888765

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.81  E-value=0.00023  Score=65.07  Aligned_cols=40  Identities=20%  Similarity=0.207  Sum_probs=34.4

Q ss_pred             ccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           21 TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        21 ~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++...+|-++.  +-.|+=..|+||+|+|||+++..++...
T Consensus       118 ~~~~RvID~l~P--iGkGQR~LIvG~pGtGKTTLl~~la~~i  157 (380)
T PRK12608        118 DLSMRVVDLVAP--IGKGQRGLIVAPPRAGKTVLLQQIAAAV  157 (380)
T ss_pred             chhHhhhhheee--cCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            677788888763  5588999999999999999999998876

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

Probab=97.81  E-value=0.00022  Score=65.56  Aligned_cols=105  Identities=16%  Similarity=0.219  Sum_probs=66.8

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH-HHHHHHHHHhCCCCCCCCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM-RRLHQLSHTFRPSNDHNPC  105 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~-~rl~~i~~~~~~~~~~~~l  105 (302)
                      |..++.|+.|..  +.|+|++|+|||+.+..++....-+ ..+.   .++||++...-.+ .-+.++...+.        
T Consensus        33 l~~~~~~~~p~n--~~iyG~~GTGKT~~~~~v~~~l~~~-~~~~---~~~yINc~~~~t~~~i~~~i~~~~~--------   98 (366)
T COG1474          33 LAPALRGERPSN--IIIYGPTGTGKTATVKFVMEELEES-SANV---EVVYINCLELRTPYQVLSKILNKLG--------   98 (366)
T ss_pred             HHHHhcCCCCcc--EEEECCCCCCHhHHHHHHHHHHHhh-hccC---ceEEEeeeeCCCHHHHHHHHHHHcC--------
Confidence            555667887776  8899999999999999998887422 1111   3899999864443 44566665543        


Q ss_pred             CcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhh
Q 022155          106 DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRS  154 (302)
Q Consensus       106 ~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~  154 (302)
                       ++-.... .   ..+.+..+.+.+..    ....-+||+|.+..+...
T Consensus        99 -~~p~~g~-~---~~~~~~~l~~~~~~----~~~~~IvvLDEid~L~~~  138 (366)
T COG1474          99 -KVPLTGD-S---SLEILKRLYDNLSK----KGKTVIVILDEVDALVDK  138 (366)
T ss_pred             -CCCCCCC-c---hHHHHHHHHHHHHh----cCCeEEEEEcchhhhccc
Confidence             1111111 2   22333444444443    356789999999998743

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=97.81  E-value=0.00015  Score=69.36  Aligned_cols=130  Identities=11%  Similarity=0.118  Sum_probs=81.1

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |-+.+++.....++.||...+|.++  -+-.|+-..|.|++|+|||+++.+++...    ..+    -++|+-+-+.  -
T Consensus       197 p~p~~~R~~~~~PL~TG~RvID~lf--Pi~kGqr~~I~gg~G~GKT~l~~~lak~s----~aD----viVyvg~GER--G  264 (591)
T TIGR01042       197 PRPVTEKLPANTPLLTGQRVLDALF--PCVQGGTTAIPGAFGCGKTVISQSLSKYS----NSD----AIVYVGCGER--G  264 (591)
T ss_pred             CCChhhccCCCCccccchhhhhhcc--chhcCCeEEEEcCCCcCHHHHHHHHHhcc----CcC----EEEEEEEeec--h
Confidence            5567888888999999999999998  57799999999999999999999987654    222    5788876532  1


Q ss_pred             HHHHHHHHHhCCC------CCCCCCCcEEE-EeCCCHH---HHHHHH--HHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           87 RRLHQLSHTFRPS------NDHNPCDYIFV-QSVHSVD---QLLDIM--PKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        87 ~rl~~i~~~~~~~------~~~~~l~~i~~-~~~~~~~---~l~~~l--~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..+.++...|...      .....+++..+ ....+..   ......  ..+.+++.+    .+.--++++||++...
T Consensus       265 ~Em~evle~fp~l~dp~~g~~~~~m~rtvlVa~tsd~p~~~R~~s~ytg~tiAEYfRD----~G~~Vll~~DS~tR~A  338 (591)
T TIGR01042       265 NEMAEVLMDFPELTMEVDGREESIMKRTTLVANTSNMPVAAREASIYTGITLAEYFRD----MGYNVSMMADSTSRWA  338 (591)
T ss_pred             HHHHHHHHHhHhhcccccccccccccceEEEEEcCCCCHHHHHHHHHHHHHHHHHHHh----cCCCEEEEecChHHHH
Confidence            2233444443111      11134455333 3322211   111111  134455544    2333788999999854

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>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=97.81  E-value=0.00033  Score=59.93  Aligned_cols=39  Identities=31%  Similarity=0.343  Sum_probs=28.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+-|+|++|+|||.|+..++..+.- ...+   .+|+|++.+
T Consensus        35 ~~l~l~G~~G~GKTHLL~Ai~~~~~~-~~~~---~~v~y~~~~   73 (219)
T PF00308_consen   35 NPLFLYGPSGLGKTHLLQAIANEAQK-QHPG---KRVVYLSAE   73 (219)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH-HCTT---S-EEEEEHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHHh-cccc---ccceeecHH
Confidence            45789999999999999888876531 1123   389999966

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.

>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]

Probab=97.81  E-value=0.00014  Score=74.78  Aligned_cols=51  Identities=25%  Similarity=0.378  Sum_probs=40.0

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQ   91 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~   91 (302)
                      -+|+|+.+.|+|++||||||+..-+.+.+. | ..     .-++||.++  .++.++++.
T Consensus       375 ~i~~G~~valVG~SGsGKST~i~LL~Rfyd-P-~~-----G~V~idG~di~~~~~~~lr~  427 (1228)
T KOG0055|consen  375 KIPSGQTVALVGPSGSGKSTLIQLLARFYD-P-TS-----GEVLIDGEDIRNLNLKWLRS  427 (1228)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHHHhcC-C-CC-----ceEEEcCccchhcchHHHHh
Confidence            689999999999999999999987777763 2 33     369999885  455566654

>PRK06820 type III secretion system ATPase; Validated

Probab=97.81  E-value=0.00013  Score=68.23  Aligned_cols=54  Identities=22%  Similarity=0.228  Sum_probs=45.9

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.+.+.+....+.+.||+..+|.++  -+.+|+.+.|+|++|+|||+|+..++...
T Consensus       134 ~p~p~~R~~~~~~l~TGi~aID~l~--~i~~Gqri~I~G~sG~GKStLl~~I~~~~  187 (440)
T PRK06820        134 PPSPLTRQPIEQMLTTGIRAIDGIL--SCGEGQRIGIFAAAGVGKSTLLGMLCADS  187 (440)
T ss_pred             CCChhhcCCchhhccCCCceecceE--EecCCCEEEEECCCCCChHHHHHHHhccC
Confidence            3346667777899999999999996  68899999999999999999998776543

>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR)

Probab=97.80  E-value=0.00011  Score=79.24  Aligned_cols=48  Identities=13%  Similarity=0.167  Sum_probs=36.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+.+ +--|++|+.+.|+|++|||||||+..+++..  + ..     +.++||...
T Consensus      1234 vL~~i-s~~I~~GekvaIvGrSGsGKSTLl~lL~rl~--~-~~-----G~I~IdG~d 1281 (1490)
T TIGR01271      1234 VLQDL-SFSVEGGQRVGLLGRTGSGKSTLLSALLRLL--S-TE-----GEIQIDGVS 1281 (1490)
T ss_pred             eeecc-EEEEcCCCEEEEECCCCCCHHHHHHHHhhhc--C-CC-----cEEEECCEE
Confidence            34443 3468999999999999999999999998875  2 22     357888653

The model describes the cystis fibrosis transmembrane conductor regulator (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=97.80  E-value=6.6e-05  Score=72.27  Aligned_cols=35  Identities=14%  Similarity=0.136  Sum_probs=28.7

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus       268 l~~v-sl~i~~Ge~~~liG~NGsGKSTLl~~l~G~~  302 (501)
T PRK10762        268 VNDV-SFTLRKGEILGVSGLMGAGRTELMKVLYGAL  302 (501)
T ss_pred             cccc-eEEEcCCcEEEEecCCCCCHHHHHHHHhCCC
Confidence            4443 3468899999999999999999998887653

>PRK06893 DNA replication initiation factor; Validated

Probab=97.80  E-value=0.00017  Score=62.21  Aligned_cols=38  Identities=11%  Similarity=0.157  Sum_probs=30.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ...+.|+||||+|||+|+..++..+.   ..+.   ++.|++.+
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~---~~~y~~~~   76 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYL---LNQR---TAIYIPLS   76 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---HcCC---CeEEeeHH
Confidence            34689999999999999999988764   3343   78898864

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.80  E-value=0.00019  Score=68.97  Aligned_cols=116  Identities=16%  Similarity=0.134  Sum_probs=62.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ  118 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~  118 (302)
                      .-+.|+||||+|||+++..+|.....         ..++++...      +....   .               -.....
T Consensus        89 ~giLL~GppGtGKT~la~alA~~~~~---------~~~~i~~~~------~~~~~---~---------------g~~~~~  135 (495)
T TIGR01241        89 KGVLLVGPPGTGKTLLAKAVAGEAGV---------PFFSISGSD------FVEMF---V---------------GVGASR  135 (495)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCC---------CeeeccHHH------HHHHH---h---------------cccHHH
Confidence            34899999999999999999876421         344444321      11110   0               001122


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +.+++....    .     ..+.+|+||++..+....-.+..+....+.+.+..++..+..+....++.||.+++-.+
T Consensus       136 l~~~f~~a~----~-----~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~  204 (495)
T TIGR01241       136 VRDLFEQAK----K-----NAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPD  204 (495)
T ss_pred             HHHHHHHHH----h-----cCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChh
Confidence            222332221    1     23489999999998743211100111233344566666666655556677776655433

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.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=97.79  E-value=0.00012  Score=68.91  Aligned_cols=132  Identities=10%  Similarity=0.130  Sum_probs=80.3

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .+.+++....+.+.||+..+|-++  -+-+|+=+.|+|.+|+|||+|+.+++.+....  .+..+..|+|.-.-..-  .
T Consensus       113 ~~~~~R~~~~~~l~TGi~~ID~l~--pig~GQR~gIfgg~G~GKs~L~~~ia~~~~ad--~~~~~~v~V~~~iGERg--r  186 (458)
T TIGR01041       113 INPYAREYPEEFIQTGISAIDGMN--TLVRGQKLPIFSGSGLPHNELAAQIARQATVR--GEESEFAVVFAAMGITY--E  186 (458)
T ss_pred             CChhhcCCCCCcCCCCeEEEEccC--ccccCCEEEeeCCCCCCHHHHHHHHHHhhccc--CCCCceEEEEEEccccc--h
Confidence            346677788999999999999987  57799999999999999999999998876311  11112257777654321  2


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHHH-----HHHHHHHH-hccCCCCCeeEEEEechhhhh
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDIM-----PKIESFIK-NSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~l-----~~l~~~l~-~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...++.+.+.   ....+++..+ ....+..-+...+     ..+.+++. +    ...--|+++||++.+.
T Consensus       187 Ev~efi~~~~---~~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr~d----~G~~VLli~DslTR~A  251 (458)
T TIGR01041       187 EANFFMKDFE---ETGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAFE----KDMHVLVILTDMTNYC  251 (458)
T ss_pred             HHHHHHHHHH---hcCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHc----cCCcEEEEEcChhHHH
Confidence            2223333221   1134555433 3322221111111     12444554 2    2444789999999865

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PLN03211 ABC transporter G-25; Provisional

Probab=97.79  E-value=7.3e-05  Score=74.13  Aligned_cols=36  Identities=25%  Similarity=0.300  Sum_probs=30.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ ++-+++|+++.|.||+|+|||||+..++...
T Consensus        83 iL~~v-s~~i~~Ge~~aI~GpnGaGKSTLL~iLaG~~  118 (659)
T PLN03211         83 ILNGV-TGMASPGEILAVLGPSGSGKSTLLNALAGRI  118 (659)
T ss_pred             eeeCC-EEEEECCEEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 5679999999999999999999998887754

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.79  E-value=0.00018  Score=62.99  Aligned_cols=41  Identities=20%  Similarity=0.276  Sum_probs=34.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++.+.-+.|+|+||+|||.|+..++..+.   ..|-   .|+|+++.
T Consensus       102 ~~~~~nl~l~G~~G~GKThLa~Ai~~~l~---~~g~---sv~f~~~~  142 (254)
T COG1484         102 FERGENLVLLGPPGVGKTHLAIAIGNELL---KAGI---SVLFITAP  142 (254)
T ss_pred             hccCCcEEEECCCCCcHHHHHHHHHHHHH---HcCC---eEEEEEHH
Confidence            45788999999999999999999988875   4454   89999855

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=97.79  E-value=0.00015  Score=69.53  Aligned_cols=34  Identities=15%  Similarity=0.173  Sum_probs=28.7

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      |+.+ +--+++|+++.|.||+|||||||+..++..
T Consensus       276 l~~v-sl~i~~Ge~~~i~G~NGsGKSTLl~~l~G~  309 (490)
T PRK10938        276 LHNL-SWQVNPGEHWQIVGPNGAGKSTLLSLITGD  309 (490)
T ss_pred             Eeec-eEEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            4443 456889999999999999999999988874

>PRK08727 hypothetical protein; Validated

Probab=97.79  E-value=0.00026  Score=61.18  Aligned_cols=38  Identities=34%  Similarity=0.478  Sum_probs=30.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ...+.|+|++|+|||+|+..++..+.   ..|.   +++|++.+
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~---~~~y~~~~   78 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAAE---QAGR---SSAYLPLQ   78 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---HcCC---cEEEEeHH
Confidence            45699999999999999998887764   3443   78998844

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=97.79  E-value=2e-05  Score=75.85  Aligned_cols=36  Identities=19%  Similarity=0.190  Sum_probs=30.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        16 il~~i-sl~i~~Ge~~~liG~nGsGKSTLl~~i~G~~   51 (500)
T TIGR02633        16 ALDGI-DLEVRPGECVGLCGENGAGKSTLMKILSGVY   51 (500)
T ss_pred             eecce-EEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999998887653

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=97.78  E-value=0.0001  Score=69.48  Aligned_cols=132  Identities=11%  Similarity=0.129  Sum_probs=81.1

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .+.+++....+.+.||+..+|-++  -+-+|+-+.|+|.+|+|||+|+.+++.+...  ..+..+..|+|.-.-..-  .
T Consensus       115 p~~l~R~~i~epl~TGi~~ID~l~--pig~GQR~gIfgg~G~GKs~L~~~ia~~~~~--d~~~~~~v~V~~~iGeRg--r  188 (460)
T PRK04196        115 INPVAREYPEEFIQTGISAIDGLN--TLVRGQKLPIFSGSGLPHNELAAQIARQAKV--LGEEENFAVVFAAMGITF--E  188 (460)
T ss_pred             CChhhcCCCCccccCCeEEEeccC--cccCCCEEEeeCCCCCCccHHHHHHHHhhhh--ccCCCceEEEEEEecccc--H
Confidence            456778888999999999999987  5779999999999999999999998887631  111112257787754322  2


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEEE-eCCCHHHHHHHH-----HHHHHHHH-hccCCCCCeeEEEEechhhhh
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFVQ-SVHSVDQLLDIM-----PKIESFIK-NSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~~-~~~~~~~l~~~l-----~~l~~~l~-~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...++.+.+..   ...+++..+. ...+..-....+     ..+.+++. +    .+.--|+++||++.+.
T Consensus       189 Ev~e~~~~~~~---~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfr~d----~G~~VLli~DslTR~A  253 (460)
T PRK04196        189 EANFFMEDFEE---TGALERSVVFLNLADDPAIERILTPRMALTAAEYLAFE----KGMHVLVILTDMTNYC  253 (460)
T ss_pred             HHHHHHHHHHh---cCCcceEEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHh----cCCcEEEEEcChHHHH
Confidence            22233332211   1345554443 332211111111     13444554 2    2344889999999865

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.78  E-value=0.00033  Score=65.87  Aligned_cols=51  Identities=24%  Similarity=0.236  Sum_probs=37.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSH   94 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~   94 (302)
                      ...++.++|++|+||||++..+|..+.   ..|.   +|.+++++ .+.+   +.+..++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~---~~g~---kV~lV~~D-~~R~aa~eQL~~la~  147 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK---KKGL---KVGLVAAD-TYRPAAYDQLKQLAE  147 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH---HcCC---eEEEecCC-CCCHHHHHHHHHHHH
Confidence            357999999999999999999998764   4454   88888877 3443   33444443

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.78  E-value=0.00032  Score=61.81  Aligned_cols=36  Identities=14%  Similarity=0.094  Sum_probs=26.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.++..|  ....+.|+||+|+|||||+..++...
T Consensus       100 ~~l~~l~~~~--~~~~~~i~g~~g~GKttl~~~l~~~~  135 (270)
T TIGR02858       100 KLLPYLVRNN--RVLNTLIISPPQCGKTTLLRDLARIL  135 (270)
T ss_pred             HHHHHHHhCC--CeeEEEEEcCCCCCHHHHHHHHhCcc
Confidence            3456665321  12578999999999999999998775

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.

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=97.78  E-value=0.00029  Score=66.57  Aligned_cols=68  Identities=18%  Similarity=0.227  Sum_probs=54.3

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |.+.++.....+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+..++.+...  ....   .++|.-.-
T Consensus       132 ~p~~~~R~~i~e~L~TGIraID~l~--pigkGQR~gIfgg~GvGKs~L~~~~~~~~~~--~~~d---v~V~~lIG  199 (494)
T CHL00060        132 APAFIQLDTKLSIFETGIKVVDLLA--PYRRGGKIGLFGGAGVGKTVLIMELINNIAK--AHGG---VSVFGGVG  199 (494)
T ss_pred             CcCchhcccccceeecCceeeeccC--CcccCCEEeeecCCCCChhHHHHHHHHHHHH--hcCC---eEEEEEec
Confidence            4557777778899999999999987  5779999999999999999999999988421  1122   57776543

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=97.77  E-value=0.0004  Score=58.38  Aligned_cols=27  Identities=26%  Similarity=0.422  Sum_probs=23.3

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.+| ++.|+||+|+|||||+..++..
T Consensus        19 ~~~~g-~~~i~G~nGsGKStll~al~~l   45 (197)
T cd03278          19 PFPPG-LTAIVGPNGSGKSNIIDAIRWV   45 (197)
T ss_pred             ecCCC-cEEEECCCCCCHHHHHHHHHHH
Confidence            36678 9999999999999999888654

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.77  E-value=0.00012  Score=68.03  Aligned_cols=29  Identities=24%  Similarity=0.260  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+-.-+.|+||||+|||++|..++...
T Consensus       161 g~~~p~gvLL~GppGtGKT~lAkaia~~~  189 (389)
T PRK03992        161 GIEPPKGVLLYGPPGTGKTLLAKAVAHET  189 (389)
T ss_pred             CCCCCCceEEECCCCCChHHHHHHHHHHh
Confidence            56666679999999999999999998764

>PF05729 NACHT: NACHT domain

Probab=97.77  E-value=0.00041  Score=55.85  Aligned_cols=25  Identities=24%  Similarity=0.339  Sum_probs=22.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      .++.|.|++|+|||+++..++..+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~   25 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLA   25 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHH
Confidence            3688999999999999999998875

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.76  E-value=0.00019  Score=65.28  Aligned_cols=30  Identities=20%  Similarity=0.202  Sum_probs=27.2

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+++-.++.|+||||+|||.+|..+|..+
T Consensus       143 ~~ik~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        143 PNIKVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             cCCCCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            478888999999999999999999998875

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=97.76  E-value=0.00023  Score=69.44  Aligned_cols=38  Identities=11%  Similarity=0.061  Sum_probs=31.3

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -..|+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus        20 ~~il~~v-s~~i~~Ge~~~iiG~NGsGKSTLlk~i~G~~   57 (556)
T PRK11819         20 KQILKDI-SLSFFPGAKIGVLGLNGAGKSTLLRIMAGVD   57 (556)
T ss_pred             CeeeeCc-eEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3456655 4578999999999999999999998888764

>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei

Probab=97.76  E-value=0.00023  Score=70.83  Aligned_cols=37  Identities=16%  Similarity=0.178  Sum_probs=30.3

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus       466 ~il~~i-sl~i~~Ge~~~IvG~nGsGKSTLl~lL~Gl~  502 (659)
T TIGR00954       466 VLIESL-SFEVPSGNHLLICGPNGCGKSSLFRILGELW  502 (659)
T ss_pred             eeeecc-eEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345554 4468999999999999999999998887754

>COG1101 PhnK ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.76  E-value=0.00058  Score=57.33  Aligned_cols=70  Identities=19%  Similarity=0.374  Sum_probs=48.0

Q ss_pred             ccCChhhHhhhCC---CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCH-HHHHHHHH
Q 022155           21 TVGCPIIDRCLGG---GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPM-RRLHQLSH   94 (302)
Q Consensus        21 ~tG~~~LD~~L~G---Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~-~rl~~i~~   94 (302)
                      -.|.+.=+.+|.|   -|+.|+++-|.|.+|+|||||+..++.... + . +    .-++||..+  ..+. .|...++.
T Consensus        12 ~~g~~~ek~~l~~~sL~I~~g~FvtViGsNGAGKSTlln~iaG~l~-~-t-~----G~I~Idg~dVtk~~~~~RA~~lar   84 (263)
T COG1101          12 FKGTPLEKRALNGLSLEIAEGDFVTVIGSNGAGKSTLLNAIAGDLK-P-T-S----GQILIDGVDVTKKSVAKRANLLAR   84 (263)
T ss_pred             cCCChhHHHHHhcCceeecCCceEEEEcCCCccHHHHHHHhhCccc-c-C-C----ceEEECceecccCCHHHHhhHHHH
Confidence            3344444455543   689999999999999999999999988763 2 2 3    358888764  2333 55555555


Q ss_pred             HhC
Q 022155           95 TFR   97 (302)
Q Consensus        95 ~~~   97 (302)
                      .|+
T Consensus        85 VfQ   87 (263)
T COG1101          85 VFQ   87 (263)
T ss_pred             Hhc
Confidence            554

>PTZ00185 ATPase alpha subunit; Provisional

Probab=97.76  E-value=0.00015  Score=68.58  Aligned_cols=136  Identities=14%  Similarity=0.165  Sum_probs=79.8

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc-CCCcCC-CCCCeEEEEeCCCCC
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ-LPSSHG-GLSASSLYLHTEFPF   84 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~-l~~~~g-g~~~~vlyid~e~~~   84 (302)
                      |.++.++....+.+.||+..+|-++  -|-+|+=..|.|++|+|||++|+....+.. .....+ +....|+|.-.-..-
T Consensus       160 ap~~~~R~~v~epL~TGIkaID~Li--PIGRGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~  237 (574)
T PTZ00185        160 APNIVSRSPVNYNLLTGFKAVDTMI--PIGRGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRC  237 (574)
T ss_pred             CcChhhcCCCCCcCcCCceeeeccc--cccCCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccch
Confidence            3457788888999999999999987  577999999999999999999865544432 100000 111378888754332


Q ss_pred             CHHHHHHHHHHhCCCCCCCCCCcEEE-EeCCCHHHHHHHH-----HHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           85 PMRRLHQLSHTFRPSNDHNPCDYIFV-QSVHSVDQLLDIM-----PKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        85 ~~~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~~~l~~~l-----~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                        +...++...+...   ..+++..+ ....+..-....+     ..+.+++.+    ...--|||+|+++.+..
T Consensus       238 --rEV~ei~~~L~e~---GaL~~TvVV~AtAdep~~~r~~Apy~a~tiAEYFrd----~GkdVLiv~DDLTr~A~  303 (574)
T PTZ00185        238 --SNVARIHRLLRSY---GALRYTTVMAATAAEPAGLQYLAPYSGVTMGEYFMN----RGRHCLCVYDDLSKQAV  303 (574)
T ss_pred             --HHHHHHHHHHHhc---CCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEEEcCchHHHH
Confidence              2233333332211   23455433 3222211111111     123344433    34448999999998653

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.75  E-value=2.5e-05  Score=67.78  Aligned_cols=36  Identities=17%  Similarity=0.242  Sum_probs=29.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      ..+.|+|++|+|||+|+..++..+.   ..|.   .|+|++.
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~---~~g~---~v~~it~  135 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELL---LRGK---SVLIITV  135 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---hcCC---eEEEEEH
Confidence            4689999999999999999998874   3454   8999974

>PRK05642 DNA replication initiation factor; Validated

Probab=97.75  E-value=0.00026  Score=61.20  Aligned_cols=37  Identities=22%  Similarity=0.383  Sum_probs=29.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+.|+|++|+|||.|+..++..+.   ..|.   +|+|++.+
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~---~~~~---~v~y~~~~   82 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFE---QRGE---PAVYLPLA   82 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH---hCCC---cEEEeeHH
Confidence            5678999999999999988876653   3343   89999965

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.75  E-value=9e-05  Score=71.20  Aligned_cols=49  Identities=20%  Similarity=0.226  Sum_probs=35.9

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCC----CCCCeEEEEeCCC
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHG----GLSASSLYLHTEF   82 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~g----g~~~~vlyid~e~   82 (302)
                      .-.+.+|+-+.|+||+|+|||||+..++.... | ..|    +...++-|++-+.
T Consensus       342 s~~i~~g~riaiiG~NG~GKSTLlk~l~g~~~-~-~~G~v~~g~~v~igyf~Q~~  394 (530)
T COG0488         342 SFRIDRGDRIAIVGPNGAGKSTLLKLLAGELG-P-LSGTVKVGETVKIGYFDQHR  394 (530)
T ss_pred             eEEecCCCEEEEECCCCCCHHHHHHHHhhhcc-c-CCceEEeCCceEEEEEEehh
Confidence            45789999999999999999999988876642 2 223    1123567887554

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=97.75  E-value=0.00046  Score=66.29  Aligned_cols=130  Identities=14%  Similarity=0.120  Sum_probs=81.9

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |-+.+++....+.+.||+..+|.++  -+-+|+-..|.|++|+|||++..+++...    ..+    -|+|+-+-..  -
T Consensus       193 p~p~~~R~~~~~pL~TGiRvID~l~--Pi~kGqr~~I~gg~G~GKT~l~~~lak~~----~ad----ivVyvg~GER--G  260 (578)
T TIGR01043       193 PRPYKEKLPPEVPLITGQRILDTFF--PIAKGGTAAIPGPFGSGKTVTQHQLAKWS----DAD----IVVYIGCGER--G  260 (578)
T ss_pred             CCCchhcCCCCcchhccchhhhccc--cccCCCEEEEecCCCCCHHHHHHHHHhcC----CCC----EEEEEEeccC--h
Confidence            4457788888999999999999998  57799999999999999999999888764    222    6889876432  2


Q ss_pred             HHHHHHHHHhCCC----CCCCCCCcEE-EEeCCCHH---HHHHHH--HHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           87 RRLHQLSHTFRPS----NDHNPCDYIF-VQSVHSVD---QLLDIM--PKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        87 ~rl~~i~~~~~~~----~~~~~l~~i~-~~~~~~~~---~l~~~l--~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..+.++...+...    .-...+++.. +....+..   ......  ..+.+++.+    .+.--+++.||++...
T Consensus       261 ~E~~e~le~f~~l~dp~~g~~~m~RTvlVanTSn~p~~aR~~s~ytg~TiAEYfRD----~G~~Vllm~DS~sR~A  332 (578)
T TIGR01043       261 NEMTDVLEEFPELKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRD----MGYDVALMADSTSRWA  332 (578)
T ss_pred             HHHHHHHHHhHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----CCCCEEEEecChhHHH
Confidence            2334444443211    1123445543 33332211   111111  134455554    2333788999998864

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>TIGR00956 3a01205 Pleiotropic Drug Resistance (PDR) Family protein

Probab=97.75  E-value=3e-05  Score=82.85  Aligned_cols=36  Identities=28%  Similarity=0.414  Sum_probs=30.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ .+-+++|+++.|.||+|+|||||+..++...
T Consensus       778 iL~~v-s~~i~~Ge~~aI~G~sGaGKSTLL~~Lag~~  813 (1394)
T TIGR00956       778 ILNNV-DGWVKPGTLTALMGASGAGKTTLLNVLAERV  813 (1394)
T ss_pred             eeeCC-EEEEECCEEEEEECCCCCCHHHHHHHHhCCC
Confidence            45555 5679999999999999999999998887753

>PRK04192 V-type ATP synthase subunit A; Provisional

Probab=97.75  E-value=0.00051  Score=66.07  Aligned_cols=127  Identities=15%  Similarity=0.119  Sum_probs=79.1

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      ..++....+.+.||+..+|.++  -+.+|+-..|.|++|+|||+++.+++..+.    .+    -++|+-+-..-  ...
T Consensus       201 ~~~R~~~~~pL~TGirvID~l~--Pi~kGq~~~Ipg~~G~GKTvl~~~iak~a~----ad----ivVyvg~GERg--~E~  268 (586)
T PRK04192        201 YKEKLPPVEPLITGQRVIDTFF--PVAKGGTAAIPGPFGSGKTVTQHQLAKWAD----AD----IVIYVGCGERG--NEM  268 (586)
T ss_pred             ccccCCCCCccccCchhhhccc--ccccCCeEEEecCCCCCHHHHHHHHHhcCC----CC----EEEEEEcCcCh--HHH
Confidence            3677777999999999999987  578999999999999999999999988752    22    68888865432  223


Q ss_pred             HHHHHHhCC----CCCCCCCCcEEE-EeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           90 HQLSHTFRP----SNDHNPCDYIFV-QSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        90 ~~i~~~~~~----~~~~~~l~~i~~-~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      .++...|..    ..-...+++..+ ....+..   .....  -..+.+++.+    .+.--+++.||++...
T Consensus       269 ~e~l~ef~~l~dp~~g~~~m~RTvlVanTSn~Pv~aR~~s~ytgiTiAEYfRd----~G~~Vllm~DStSR~A  337 (586)
T PRK04192        269 TEVLEEFPELIDPKTGRPLMERTVLIANTSNMPVAAREASIYTGITIAEYYRD----MGYDVLLMADSTSRWA  337 (586)
T ss_pred             HHHHHHHHhhcccccccccceeEEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----CCCCEEEEecChHHHH
Confidence            333333221    111234555433 3322211   11111  1134455544    2333677899998864

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=97.74  E-value=0.00027  Score=60.10  Aligned_cols=112  Identities=14%  Similarity=0.177  Sum_probs=68.0

Q ss_pred             cCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCC
Q 022155           22 VGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSND  101 (302)
Q Consensus        22 tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~  101 (302)
                      ||+..+|-++  -+-+|+-+.|.|++|+|||+|+.+++.+..    ..    .++|+-....  .+.+.++...+..   
T Consensus         1 TGir~ID~l~--Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~----~d----~~V~~~iGer--~~Ev~~~~~~~~~---   65 (215)
T PF00006_consen    1 TGIRAIDLLF--PIGRGQRIGIFGGAGVGKTVLLQEIANNQD----AD----VVVYALIGER--GREVTEFIEELKG---   65 (215)
T ss_dssp             -SHHHHHHHS--CEETTSEEEEEESTTSSHHHHHHHHHHHCT----TT----EEEEEEESEC--HHHHHHHHHHHHH---
T ss_pred             CCCceecccc--ccccCCEEEEEcCcccccchhhHHHHhccc----cc----ceeeeecccc--chhHHHHHHHHhh---
Confidence            7999999886  577999999999999999999999999873    22    4577664432  3444444443311   


Q ss_pred             CCCCCcEE-EE-eCCCHH--HHHH--HHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          102 HNPCDYIF-VQ-SVHSVD--QLLD--IMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       102 ~~~l~~i~-~~-~~~~~~--~l~~--~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...+++.. +. ..+...  ....  .-..+.+++.+    ..+--++++|+++.+.
T Consensus        66 ~~~~~~t~vv~~t~~~~~~~r~~~~~~a~t~AEyfrd----~G~dVlli~Dsltr~a  118 (215)
T PF00006_consen   66 EGALERTVVVAATSDEPPAARYRAPYTALTIAEYFRD----QGKDVLLIIDSLTRWA  118 (215)
T ss_dssp             TTGGGGEEEEEEETTS-HHHHHHHHHHHHHHHHHHHH----TTSEEEEEEETHHHHH
T ss_pred             cccccccccccccchhhHHHHhhhhccchhhhHHHhh----cCCceeehhhhhHHHH
Confidence            13455533 33 333222  1111  11123334443    3455889999999865

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 ....

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.74  E-value=0.0006  Score=63.51  Aligned_cols=95  Identities=16%  Similarity=0.248  Sum_probs=56.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH-HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM-RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVD  117 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~-~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~  117 (302)
                      ..+.|+||||+|||+++..++....   ..+ ....++|+++...... .-+.++...+......        ....+.+
T Consensus        56 ~~~lI~G~~GtGKT~l~~~v~~~l~---~~~-~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~--------~~~~~~~  123 (394)
T PRK00411         56 LNVLIYGPPGTGKTTTVKKVFEELE---EIA-VKVVYVYINCQIDRTRYAIFSEIARQLFGHPPP--------SSGLSFD  123 (394)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH---Hhc-CCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCC--------CCCCCHH
Confidence            4578999999999999999988753   111 1136899987654333 3345555544321000        0112233


Q ss_pred             HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       118 ~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      +   ++..+.+.+..    ....-+||||.+..+.
T Consensus       124 ~---~~~~~~~~l~~----~~~~~viviDE~d~l~  151 (394)
T PRK00411        124 E---LFDKIAEYLDE----RDRVLIVALDDINYLF  151 (394)
T ss_pred             H---HHHHHHHHHHh----cCCEEEEEECCHhHhh
Confidence            3   33444445543    2345789999999876

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=97.74  E-value=0.00033  Score=67.28  Aligned_cols=36  Identities=14%  Similarity=0.038  Sum_probs=29.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+|++|||||||+..++...
T Consensus       263 ~l~~v-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~  298 (491)
T PRK10982        263 SIRDV-SFDLHKGEILGIAGLVGAKRTDIVETLFGIR  298 (491)
T ss_pred             cccee-eEEEeCCcEEEEecCCCCCHHHHHHHHcCCC
Confidence            34443 3468999999999999999999998887653

>CHL00176 ftsH cell division protein; Validated

Probab=97.73  E-value=0.0001  Score=72.50  Aligned_cols=114  Identities=15%  Similarity=0.130  Sum_probs=62.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ  118 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~  118 (302)
                      .-+.|+||||+|||+++..+|.....         ..+++++..      +.....            .      .....
T Consensus       217 ~gVLL~GPpGTGKT~LAralA~e~~~---------p~i~is~s~------f~~~~~------------g------~~~~~  263 (638)
T CHL00176        217 KGVLLVGPPGTGKTLLAKAIAGEAEV---------PFFSISGSE------FVEMFV------------G------VGAAR  263 (638)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCC---------CeeeccHHH------HHHHhh------------h------hhHHH
Confidence            34899999999999999999876421         455555331      111100            0      01112


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      +.+++....         ...+.+|+||.+..+....-.+..+....+.+.+..++..+..+....++.||.+.+-
T Consensus       264 vr~lF~~A~---------~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~  330 (638)
T CHL00176        264 VRDLFKKAK---------ENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNR  330 (638)
T ss_pred             HHHHHHHHh---------cCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCc
Confidence            222222211         1344899999999976432111111123444556666666655555567777766654

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=97.73  E-value=5.5e-05  Score=69.05  Aligned_cols=140  Identities=18%  Similarity=0.271  Sum_probs=76.6

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCC----CCeEEE---------EeCCC--CCCH-HHHHHHHHHh
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL----SASSLY---------LHTEF--PFPM-RRLHQLSHTF   96 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~----~~~vly---------id~e~--~~~~-~rl~~i~~~~   96 (302)
                      --+.+|+++.|+|+||+||||++..++...-   ..++.    ....+-         +-.+.  .|.. .-++++....
T Consensus       404 L~ikpGdvvaVvGqSGaGKttllRmi~G~~~---~~~ee~y~p~sg~v~vp~nt~~a~iPge~Ep~f~~~tilehl~s~t  480 (593)
T COG2401         404 LEIKPGDVVAVVGQSGAGKTTLLRMILGAQK---GRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEVTILEHLRSKT  480 (593)
T ss_pred             eEecCCCeEEEEecCCCCcchHHHHHHHHhh---cccccccCCCCCceeccccchhhccCcccccccCchhHHHHHhhcc
Confidence            3578999999999999999999998888753   11110    001111         22211  1221 1122222221


Q ss_pred             CCCCCC-------CCCCcEEEEeCCCHHHH---HHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHH
Q 022155           97 RPSNDH-------NPCDYIFVQSVHSVDQL---LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKR  166 (302)
Q Consensus        97 ~~~~~~-------~~l~~i~~~~~~~~~~l---~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r  166 (302)
                      +..+..       -..|.+++.+..+  ++   ..--.+|.+++.+      ..+++++|.+.+++.        .+.  
T Consensus       481 GD~~~AveILnraGlsDAvlyRr~f~--ELStGQKeR~KLAkllae------rpn~~~iDEF~AhLD--------~~T--  542 (593)
T COG2401         481 GDLNAAVEILNRAGLSDAVLYRRKFS--ELSTGQKERAKLAKLLAE------RPNVLLIDEFAAHLD--------ELT--  542 (593)
T ss_pred             CchhHHHHHHHhhccchhhhhhccHh--hcCcchHHHHHHHHHHhc------CCCcEEhhhhhhhcC--------HHH--
Confidence            111100       0112222221111  11   0011245556654      459999999999762        112  


Q ss_pred             HHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          167 SFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       167 ~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                         ...+++.|.++|++.++|++++.|--+
T Consensus       543 ---A~rVArkiselaRe~giTlivvThrpE  569 (593)
T COG2401         543 ---AVRVARKISELAREAGITLIVVTHRPE  569 (593)
T ss_pred             ---HHHHHHHHHHHHHHhCCeEEEEecCHH
Confidence               347889999999999999999988543

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=97.73  E-value=0.00042  Score=56.31  Aligned_cols=27  Identities=26%  Similarity=0.321  Sum_probs=23.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      .+.++.|+||+|+|||+++..++..+.
T Consensus        20 ~~~~~~i~G~NgsGKS~~l~~i~~~~~   46 (162)
T cd03227          20 EGSLTIITGPNGSGKSTILDAIGLALG   46 (162)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            347999999999999999999877764

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.73  E-value=0.0012  Score=52.45  Aligned_cols=32  Identities=22%  Similarity=0.201  Sum_probs=27.4

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      +-.|.+|+|+-|.||+|||||||.-.++...+
T Consensus        22 n~Tia~GeivtlMGPSGcGKSTLls~~~G~La   53 (213)
T COG4136          22 NFTIAKGEIVTLMGPSGCGKSTLLSWMIGALA   53 (213)
T ss_pred             eEEecCCcEEEEECCCCccHHHHHHHHHhhcc
Confidence            34688999999999999999999987777653

>TIGR00959 ffh signal recognition particle protein

Probab=97.72  E-value=0.00041  Score=65.03  Aligned_cols=43  Identities=23%  Similarity=0.353  Sum_probs=33.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      -.++.++|++|+||||++..+|..+..  ..|.   +|++++++ .+.+
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~--~~g~---kV~lV~~D-~~R~  141 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKK--KQGK---KVLLVACD-LYRP  141 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHH--hCCC---eEEEEecc-ccch
Confidence            369999999999999999999988521  2344   89999988 4444

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.71  E-value=0.00027  Score=65.26  Aligned_cols=29  Identities=24%  Similarity=0.260  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+..-+.|+||||+|||+++..++...
T Consensus       152 g~~~p~gvLL~GppGtGKT~lakaia~~l  180 (364)
T TIGR01242       152 GIEPPKGVLLYGPPGTGKTLLAKAVAHET  180 (364)
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHhC
Confidence            56666669999999999999999998764

Many proteins may score above the trusted cutoff because an internal

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.71  E-value=7.1e-05  Score=73.58  Aligned_cols=118  Identities=20%  Similarity=0.244  Sum_probs=71.2

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEE
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQ  111 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~  111 (302)
                      +--+|+|  +.|+||||+|||.||..+|..+           .|=|++..++.    +.++...               .
T Consensus       340 GAKiPkG--vLL~GPPGTGKTLLAKAiAGEA-----------gVPF~svSGSE----FvE~~~g---------------~  387 (774)
T KOG0731|consen  340 GAKIPKG--VLLVGPPGTGKTLLAKAIAGEA-----------GVPFFSVSGSE----FVEMFVG---------------V  387 (774)
T ss_pred             CCcCcCc--eEEECCCCCcHHHHHHHHhccc-----------CCceeeechHH----HHHHhcc---------------c
Confidence            4568888  8899999999999999998876           46677766531    1111110               0


Q ss_pred             eCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccC-CChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEE
Q 022155          112 SVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFD-NTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLV  190 (302)
Q Consensus       112 ~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~-~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv  190 (302)
                      ......++   +.    .-.     ...+.+|.||+|.++-+..-. ...+.-++|.+.+.+++-.+..+....++.|+.
T Consensus       388 ~asrvr~l---f~----~ar-----~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a  455 (774)
T KOG0731|consen  388 GASRVRDL---FP----LAR-----KNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLA  455 (774)
T ss_pred             chHHHHHH---HH----Hhh-----ccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEe
Confidence            11111122   22    111     134599999999997643311 011122567777888888888887665555555


Q ss_pred             Eec
Q 022155          191 TNQ  193 (302)
Q Consensus       191 ~n~  193 (302)
                      .+.
T Consensus       456 ~tn  458 (774)
T KOG0731|consen  456 ATN  458 (774)
T ss_pred             ccC
Confidence            544

>PLN03140 ABC transporter G family member; Provisional

Probab=97.71  E-value=0.00013  Score=78.27  Aligned_cols=39  Identities=28%  Similarity=0.302  Sum_probs=33.6

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +...|+++ +|-+++|+++.|.||||||||||+..++...
T Consensus       177 ~~~IL~~v-s~~i~~Ge~~~llGpnGSGKSTLLk~LaG~l  215 (1470)
T PLN03140        177 KLTILKDA-SGIIKPSRMTLLLGPPSSGKTTLLLALAGKL  215 (1470)
T ss_pred             cceeccCC-eEEEeCCeEEEEEcCCCCCHHHHHHHHhCCC
Confidence            45567776 6889999999999999999999999888764

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.70  E-value=0.00054  Score=58.58  Aligned_cols=37  Identities=22%  Similarity=0.176  Sum_probs=29.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+.+|+-..|.||+|||||||+..+++..
T Consensus        45 ~iL~~i-sW~V~~ge~W~I~G~NGsGKTTLL~ll~~~~   81 (257)
T COG1119          45 KILGDL-SWQVNPGEHWAIVGPNGAGKTTLLSLLTGEH   81 (257)
T ss_pred             eecccc-ceeecCCCcEEEECCCCCCHHHHHHHHhccc
Confidence            344544 5578999999999999999999997776653

>TIGR01257 rim_protein retinal-specific rim ABC transporter

Probab=97.70  E-value=0.00011  Score=80.28  Aligned_cols=49  Identities=24%  Similarity=0.291  Sum_probs=37.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..++.+ .-.+++|+++.|.||+|+||||++..++...  ++..|     -++++..
T Consensus      1953 ~aL~~I-Sf~I~~GEi~gLLG~NGAGKTTLlkmL~Gll--~ptsG-----~I~i~G~ 2001 (2272)
T TIGR01257      1953 PAVDRL-CVGVRPGECFGLLGVNGAGKTTTFKMLTGDT--TVTSG-----DATVAGK 2001 (2272)
T ss_pred             eEEEee-EEEEcCCcEEEEECCCCCcHHHHHHHHhCCC--CCCcc-----EEEECCE
Confidence            456665 5689999999999999999999998888764  22333     4666654

This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.

>PLN03073 ABC transporter F family; Provisional

Probab=97.70  E-value=0.00021  Score=71.42  Aligned_cols=52  Identities=21%  Similarity=0.216  Sum_probs=36.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--|..|+.+.|+|++|||||||+..++.......+.++   .+.|+.-+
T Consensus       192 ll~~i-sl~i~~Ge~~gLvG~NGsGKSTLLr~l~g~~~~g~p~~g---~I~~~~Q~  243 (718)
T PLN03073        192 LIVDA-SVTLAFGRHYGLVGRNGTGKTTFLRYMAMHAIDGIPKNC---QILHVEQE  243 (718)
T ss_pred             EEECC-EEEECCCCEEEEECCCCCCHHHHHHHHcCCCCCCCCCCC---EEEEEecc
Confidence            45554 457899999999999999999999988764210012233   77887643

>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]

Probab=97.69  E-value=0.00034  Score=72.02  Aligned_cols=151  Identities=15%  Similarity=0.189  Sum_probs=85.8

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCCCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPSND  101 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~~~  101 (302)
                      .+.|+.+ +--+++|+.+.|+||+||||||....+-+.+.   +..    ..++||..+  .++...|++-..- -.++|
T Consensus      1003 ~~Il~~l-~l~i~~GqTvALVG~SGsGKSTvI~LLeRfYd---p~~----G~V~IDg~dik~lnl~~LR~~i~l-VsQEP 1073 (1228)
T KOG0055|consen 1003 VPVLNNL-SLSIRAGQTVALVGPSGSGKSTVISLLERFYD---PDA----GKVKIDGVDIKDLNLKWLRKQIGL-VSQEP 1073 (1228)
T ss_pred             chhhcCC-cEEecCCCEEEEECCCCCCHHHHHHHHHHhcC---CCC----CeEEECCcccccCCHHHHHHhcce-eccCc
Confidence            4445554 45789999999999999999999977766653   223    469999764  4566666432211 12222


Q ss_pred             ----CCCCCcEEEEe-CCCHHHHHHHHH--HHHHHHHhc---------------------------cCCCCCeeEEEEec
Q 022155          102 ----HNPCDYIFVQS-VHSVDQLLDIMP--KIESFIKNS---------------------------SNSRLPIRLIVIDS  147 (302)
Q Consensus       102 ----~~~l~~i~~~~-~~~~~~l~~~l~--~l~~~l~~~---------------------------~~~~~~~~lvVIDs  147 (302)
                          .+..+||.+-. .-+.+++.+...  .+.+++.+-                           +. -++++++.+|+
T Consensus      1074 ~LF~~TIrENI~YG~~~vs~~eIi~Aak~ANaH~FI~sLP~GyDT~vGerG~QLSGGQKQRIAIARAi-lRnPkILLLDE 1152 (1228)
T KOG0055|consen 1074 VLFNGTIRENIAYGSEEVSEEEIIEAAKLANAHNFISSLPQGYDTRVGERGVQLSGGQKQRIAIARAI-LRNPKILLLDE 1152 (1228)
T ss_pred             hhhcccHHHHHhccCCCCCHHHHHHHHHHhhhHHHHhcCcCcccCccCcccCcCCchHHHHHHHHHHH-HcCCCeeeeec
Confidence                13446776652 235555554432  122222110                           00 13459999999


Q ss_pred             hhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCC
Q 022155          148 IAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLME  199 (302)
Q Consensus       148 i~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~  199 (302)
                      -++.+..+        .+|  .+.   +.|.+..  .+.|+|++.|=-+.+.
T Consensus      1153 ATSALDse--------SEr--vVQ---eALd~a~--~gRT~IvIAHRLSTIq 1189 (1228)
T KOG0055|consen 1153 ATSALDSE--------SER--VVQ---EALDRAM--EGRTTIVIAHRLSTIQ 1189 (1228)
T ss_pred             cchhhhhh--------hHH--HHH---HHHHHhh--cCCcEEEEecchhhhh
Confidence            88865332        222  223   3344332  3677777777555444

>TIGR00767 rho transcription termination factor Rho

Probab=97.69  E-value=0.00015  Score=66.76  Aligned_cols=38  Identities=18%  Similarity=0.173  Sum_probs=30.8

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |...+|-.+  -+.+|+.+.|+||+|+|||+++..++...
T Consensus       155 ~~R~id~~~--pig~Gq~~~IvG~~g~GKTtL~~~i~~~I  192 (415)
T TIGR00767       155 STRVLDLFA--PIGKGQRGLIVAPPKAGKTVLLQKIAQAI  192 (415)
T ss_pred             ceeeeeeEE--EeCCCCEEEEECCCCCChhHHHHHHHHhh
Confidence            334446554  57899999999999999999999888775

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

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.69  E-value=0.00046  Score=66.58  Aligned_cols=70  Identities=19%  Similarity=0.181  Sum_probs=46.7

Q ss_pred             ccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCC----CCeEEEEeCCCCCCHHHHHHHH
Q 022155           21 TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL----SASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        21 ~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~----~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      |.|..-++++ +-.+++|+-+.|.||||||||+|...+|..+.  .-.|..    +..++|+.-.-.++.-.|++..
T Consensus       403 p~~~~ll~~l-~~~v~~G~~llI~G~SG~GKTsLlRaiaGLWP--~g~G~I~~P~~~~~lflpQ~PY~p~GtLre~l  476 (604)
T COG4178         403 PDGQTLLSEL-NFEVRPGERLLITGESGAGKTSLLRALAGLWP--WGSGRISMPADSALLFLPQRPYLPQGTLREAL  476 (604)
T ss_pred             CCCCeeeccc-eeeeCCCCEEEEECCCCCCHHHHHHHHhccCc--cCCCceecCCCCceEEecCCCCCCCccHHHHH
Confidence            4444444443 45789999999999999999999999998863  222221    1246777755555555555544

>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]

Probab=97.68  E-value=1e-05  Score=66.86  Aligned_cols=57  Identities=19%  Similarity=0.308  Sum_probs=38.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFR   97 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~   97 (302)
                      .+.+|+++.+.||+|+||||.-+.++..+.  +..     .-+++|..+  .+|..+-.+++..+-
T Consensus        26 ~v~~GEiVGLLGPNGAGKTT~Fymi~Glv~--~d~-----G~i~ld~~diT~lPm~~RArlGigYL   84 (243)
T COG1137          26 EVNSGEIVGLLGPNGAGKTTTFYMIVGLVR--PDS-----GKILLDDEDITKLPMHKRARLGIGYL   84 (243)
T ss_pred             EEcCCcEEEEECCCCCCceeEEEEEEEEEe--cCC-----ceEEECCcccccCChHHHhhcCcccc
Confidence            578999999999999999998877666542  222     357888765  455544344444433

>PLN03232 ABC transporter C family member; Provisional

Probab=97.68  E-value=0.00055  Score=73.99  Aligned_cols=36  Identities=22%  Similarity=0.325  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+++ +--+++|+.+.|+||+|||||||+..++...
T Consensus       632 vL~~i-nl~i~~Ge~vaIvG~sGSGKSTLl~lLlG~~  667 (1495)
T PLN03232        632 TLSDI-NLEIPVGSLVAIVGGTGEGKTSLISAMLGEL  667 (1495)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34444 4468999999999999999999999888775

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.67  E-value=0.0004  Score=57.77  Aligned_cols=25  Identities=16%  Similarity=0.272  Sum_probs=21.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQL   64 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l   64 (302)
                      ++.|.||+|+|||+++.+++....+
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~~l   25 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIVIM   25 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3679999999999999999866543

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=97.67  E-value=0.0003  Score=69.74  Aligned_cols=31  Identities=16%  Similarity=0.203  Sum_probs=27.2

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--|.+|+++.|+||+|||||||+..++...
T Consensus       339 sl~i~~Ge~~~l~G~NGsGKSTLlk~l~G~~  369 (635)
T PRK11147        339 SAQVQRGDKIALIGPNGCGKTTLLKLMLGQL  369 (635)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3468899999999999999999998888753

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.67  E-value=0.00039  Score=59.23  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=22.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++.|.||+|+|||||+.+++...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~   53 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIV   53 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHH
Confidence            3789999999999999999998654

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

>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional

Probab=97.66  E-value=2.4e-05  Score=77.52  Aligned_cols=36  Identities=22%  Similarity=0.271  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+.+|+++.|+|++|+|||||+..++...
T Consensus        23 il~~v-s~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   58 (648)
T PRK10535         23 VLKGI-SLDIYAGEMVAIVGASGSGKSTLMNILGCLD   58 (648)
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45444 4468899999999999999999999888764

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.66  E-value=0.00048  Score=65.74  Aligned_cols=29  Identities=24%  Similarity=0.269  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |++...-+.|+||||+|||.+|..+|..+
T Consensus       255 gl~~pkGILL~GPpGTGKTllAkaiA~e~  283 (489)
T CHL00195        255 GLPTPRGLLLVGIQGTGKSLTAKAIANDW  283 (489)
T ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            67777779999999999999999998876

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.66  E-value=0.00014  Score=70.90  Aligned_cols=119  Identities=17%  Similarity=0.235  Sum_probs=75.5

Q ss_pred             hhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEE
Q 022155           30 CLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIF  109 (302)
Q Consensus        30 ~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~  109 (302)
                      +++-|+.+.+=+.++||||+|||.+|..+|-++           +.-|++-.++   +-+                 |++
T Consensus       697 LfssglrkRSGILLYGPPGTGKTLlAKAVATEc-----------sL~FlSVKGP---ELL-----------------NMY  745 (953)
T KOG0736|consen  697 LFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC-----------SLNFLSVKGP---ELL-----------------NMY  745 (953)
T ss_pred             hhhccccccceeEEECCCCCchHHHHHHHHhhc-----------eeeEEeecCH---HHH-----------------HHH
Confidence            345688877779999999999999999888776           4567777663   222                 223


Q ss_pred             EEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhc-cCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEE
Q 022155          110 VQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSD-FDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAV  188 (302)
Q Consensus       110 ~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~-~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~v  188 (302)
                      +-  .+.+.+.+++++.+         ...+.+|++|.|.++...- .++..+....|  ++.+++..|..+.+...--|
T Consensus       746 VG--qSE~NVR~VFerAR---------~A~PCVIFFDELDSlAP~RG~sGDSGGVMDR--VVSQLLAELDgls~~~s~~V  812 (953)
T KOG0736|consen  746 VG--QSEENVREVFERAR---------SAAPCVIFFDELDSLAPNRGRSGDSGGVMDR--VVSQLLAELDGLSDSSSQDV  812 (953)
T ss_pred             hc--chHHHHHHHHHHhh---------ccCCeEEEeccccccCccCCCCCCccccHHH--HHHHHHHHhhcccCCCCCce
Confidence            22  23344455555443         2345999999999976421 22233345555  45677777777775444445


Q ss_pred             EEEe
Q 022155          189 LVTN  192 (302)
Q Consensus       189 iv~n  192 (302)
                      +++.
T Consensus       813 FViG  816 (953)
T KOG0736|consen  813 FVIG  816 (953)
T ss_pred             EEEe
Confidence            5544

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=97.66  E-value=0.00046  Score=56.66  Aligned_cols=43  Identities=19%  Similarity=0.238  Sum_probs=33.0

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      --|.+|+++-|.||+|+|||||+..+|....  +..|     -+|+..+.
T Consensus        23 f~l~~Ge~~~i~G~NG~GKTtLLRilaGLl~--p~~G-----~v~~~~~~   65 (209)
T COG4133          23 FTLNAGEALQITGPNGAGKTTLLRILAGLLR--PDAG-----EVYWQGEP   65 (209)
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHHcccC--CCCC-----eEEecCCC
Confidence            3578999999999999999999998888753  2333     36666553

>KOG0060 consensus Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism; General function prediction only]

Probab=97.66  E-value=0.00025  Score=67.21  Aligned_cols=53  Identities=17%  Similarity=0.122  Sum_probs=40.2

Q ss_pred             cccCCCCCCcccc-CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           10 LLDNPLTTEKCTV-GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        10 l~~~~~~~~~i~t-G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      +++.+...-.-|| |.-.++.+ .--++.|+-+.|+||+|||||.|...++..+-
T Consensus       433 ~i~~e~v~l~tPt~g~~lie~L-s~~V~~g~~LLItG~sG~GKtSLlRvlggLWp  486 (659)
T KOG0060|consen  433 AIEFEEVSLSTPTNGDLLIENL-SLEVPSGQNLLITGPSGCGKTSLLRVLGGLWP  486 (659)
T ss_pred             eEEeeeeeecCCCCCceeeeee-eeEecCCCeEEEECCCCCchhHHHHHHhcccc
Confidence            4555555445566 55555554 66899999999999999999999999988763

>TIGR01187 potA spermidine/putrescine ABC transporter ATP-binding subunit

Probab=97.66  E-value=1.6e-05  Score=72.14  Aligned_cols=45  Identities=16%  Similarity=0.265  Sum_probs=31.5

Q ss_pred             CeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       139 ~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +++++++|+..+-+         |...|    ..+...|+++.++.+.++|+++|...
T Consensus       118 ~p~lllLDEP~s~L---------D~~~~----~~l~~~l~~l~~~~g~tiiivTHd~~  162 (325)
T TIGR01187       118 KPKILLLDEPLSAL---------DKKLR----DQMQLELKTIQEQLGITFVFVTHDQE  162 (325)
T ss_pred             CCCEEEEeCCCccC---------CHHHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            34999999988744         22222    35567777777788999999998543

This model describes spermidine/putrescine ABC transporter, ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Polyamines like spermidine and putrescine play vital role in cell proliferation, differentiation, and ion homeostasis. The concentration of polyamines within the cell are regulated by biosynthesis, degradation and transport (uptake and efflux included).

>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=97.65  E-value=0.00048  Score=59.36  Aligned_cols=122  Identities=20%  Similarity=0.234  Sum_probs=63.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQL  119 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l  119 (302)
                      -+.|+|++|||||++++.+.....  ...     ..+|+-++..-.  ...+           -+..+ ++....+.+++
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~--~~f-----~~I~l~t~~~n~--~~~~-----------~i~p~-~i~~~~~~e~l   73 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLR--HKF-----DHIFLITPEYNN--EYYK-----------YIWPD-HIFKVFDKEEL   73 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhc--ccC-----CEEEEEecCCch--hhhh-----------hcchh-hccccccHHHH
Confidence            467999999999999999987642  111     345554442110  0000           01111 22233344444


Q ss_pred             HHHHHH----HHHHHHhccCC-CCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          120 LDIMPK----IESFIKNSSNS-RLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       120 ~~~l~~----l~~~l~~~~~~-~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      ...+..    +.+........ ..+-.|||+|.++.-            ..|.+.+..+..    -.+.+++++|++.|.
T Consensus        74 e~~l~~~k~~I~k~~~k~~~~k~~~~~LiIlDD~~~~------------~~k~~~l~~~~~----~gRH~~is~i~l~Q~  137 (241)
T PF04665_consen   74 EYILIRQKEKIEKYIKKSPQKKNNPRFLIILDDLGDK------------KLKSKILRQFFN----NGRHYNISIIFLSQS  137 (241)
T ss_pred             HHHHHHHHHHHHHHhhhhcccCCCCCeEEEEeCCCCc------------hhhhHHHHHHHh----cccccceEEEEEeee
Confidence            433333    33333211111 123479999997641            112223344443    356789999999997


Q ss_pred             cccC
Q 022155          195 VDLM  198 (302)
Q Consensus       195 ~~~~  198 (302)
                      ....
T Consensus       138 ~~~l  141 (241)
T PF04665_consen  138 YFHL  141 (241)
T ss_pred             cccC
Confidence            6544

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG0056 consensus Heavy metal exporter HMT1, ABC superfamily [Inorganic ion transport and metabolism]

Probab=97.65  E-value=0.00081  Score=62.85  Aligned_cols=92  Identities=14%  Similarity=0.088  Sum_probs=55.6

Q ss_pred             ccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCC
Q 022155           21 TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSN  100 (302)
Q Consensus        21 ~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~  100 (302)
                      .+|-+.|.++ +--+++|+.+.|+||+|+||||++.-+.+....   ..    .++-||..+- ..-....+-.+.....
T Consensus       548 ~p~k~vl~di-sF~v~pGktvAlVG~SGaGKSTimRlLfRffdv---~s----GsI~iDgqdI-rnvt~~SLRs~IGVVP  618 (790)
T KOG0056|consen  548 DPGKPVLSDI-SFTVQPGKTVALVGPSGAGKSTIMRLLFRFFDV---NS----GSITIDGQDI-RNVTQSSLRSSIGVVP  618 (790)
T ss_pred             CCCCceeecc-eEEecCCcEEEEECCCCCchhHHHHHHHHHhhc---cC----ceEEEcCchH-HHHHHHHHHHhcCccc
Confidence            4444555554 346789999999999999999999888777642   22    5799997642 1111222333322222


Q ss_pred             C------CCCCCcEEEEeCC-CHHHHHH
Q 022155          101 D------HNPCDYIFVQSVH-SVDQLLD  121 (302)
Q Consensus       101 ~------~~~l~~i~~~~~~-~~~~l~~  121 (302)
                      .      ++.+.||.+.++. +.+++.+
T Consensus       619 QDtvLFNdTI~yNIryak~~Asneevya  646 (790)
T KOG0056|consen  619 QDTVLFNDTILYNIRYAKPSASNEEVYA  646 (790)
T ss_pred             CcceeecceeeeheeecCCCCChHHHHH
Confidence            2      3456677776553 3444443

>COG4138 BtuD ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]

Probab=97.64  E-value=0.0012  Score=53.71  Aligned_cols=31  Identities=23%  Similarity=0.419  Sum_probs=27.2

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|-...|+++-++||+|+||||++-.+|...
T Consensus        19 S~qv~aGe~~HliGPNGaGKSTLLA~lAGm~   49 (248)
T COG4138          19 SGEVRAGEILHLVGPNGAGKSTLLARMAGMT   49 (248)
T ss_pred             ccccccceEEEEECCCCccHHHHHHHHhCCC
Confidence            4678899999999999999999998887753

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.64  E-value=0.00066  Score=62.18  Aligned_cols=127  Identities=17%  Similarity=0.159  Sum_probs=82.6

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCC-C
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPF-P   85 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~-~   85 (302)
                      |.+.+++..-.+.++||+..+|-+|  .+-.|+=+.|+..+|+|||||+-.||.+..    ..   ..|+=+=+|..- -
T Consensus       134 pp~pm~R~~I~~~l~tGVRaIDgll--T~G~GQRiGIFAgsGVGKStLLgMiar~t~----aD---v~ViaLIGERGREV  204 (441)
T COG1157         134 PPNPLKRRPIEEPLDTGVRAIDGLL--TCGKGQRIGIFAGSGVGKSTLLGMIARNTE----AD---VNVIALIGERGREV  204 (441)
T ss_pred             CCCchhcccccccccccceeeeccc--ccccCceeEEEecCCCcHHHHHHHHhcccc----CC---EEEEEEeeccchhH
Confidence            4456777777899999999999998  456899999999999999999999988763    22   155555556432 1


Q ss_pred             HHHHHHHHHHhCCCCCCCCC-CcEEEEeCCCHHHHHH-----HHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           86 MRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLD-----IMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        86 ~~rl~~i~~~~~~~~~~~~l-~~i~~~~~~~~~~l~~-----~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      .+.+++....       +-+ .-+.+....+...+..     ....+.+++.+    +.+--|+++||++.+..
T Consensus       205 rEFIE~~Lg~-------egl~rsViVvATSD~s~l~R~~aa~~At~IAEyFRD----qG~~VLL~mDSlTRfA~  267 (441)
T COG1157         205 REFIEKDLGE-------EGLKRSVVVVATSDESALMRLKAAFTATTIAEYFRD----QGKRVLLIMDSLTRFAM  267 (441)
T ss_pred             HHHHHHhcch-------hhccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHh----CCCeEEEEeecHHHHHH
Confidence            2333333321       112 3355555444333321     12245566665    45558889999998653

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.64  E-value=0.00055  Score=65.89  Aligned_cols=57  Identities=21%  Similarity=0.318  Sum_probs=38.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCC----CCeEEEEeCCCCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL----SASSLYLHTEFPFP   85 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~----~~~vlyid~e~~~~   85 (302)
                      -|+.+ .-.+.+|+-+.|+|++|+|||||+.-++.... | ..|..    ..++-|+.-+..+.
T Consensus        18 l~~~~-~l~~~~G~riGLvG~NGaGKSTLLkilaG~~~-~-~~G~i~~~~~~~v~~l~Q~~~~~   78 (530)
T COG0488          18 LLENV-SLTLNPGERIGLVGRNGAGKSTLLKILAGELE-P-DSGEVTRPKGLRVGYLSQEPPLD   78 (530)
T ss_pred             eecCC-cceeCCCCEEEEECCCCCCHHHHHHHHcCCCc-C-CCCeEeecCCceEEEeCCCCCcC
Confidence            34544 45789999999999999999999988877642 2 22321    12566776554443

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=97.64  E-value=0.00061  Score=67.52  Aligned_cols=36  Identities=22%  Similarity=0.310  Sum_probs=30.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +-.|.+|+++.|+||+|||||||+..|+...
T Consensus        16 ~l~~v-s~~i~~Ge~v~LvG~NGsGKSTLLkiL~G~~   51 (638)
T PRK10636         16 LLDNA-TATINPGQKVGLVGKNGCGKSTLLALLKNEI   51 (638)
T ss_pred             eecCc-EEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4578999999999999999999999888753

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=97.63  E-value=0.00019  Score=71.13  Aligned_cols=35  Identities=20%  Similarity=0.200  Sum_probs=29.0

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+ +--+.+|+++.|+||+|||||||+..++...
T Consensus       328 l~~i-sl~i~~Ge~~~l~G~NGsGKSTLlk~l~G~~  362 (638)
T PRK10636        328 LDSI-KLNLVPGSRIGLLGRNGAGKSTLIKLLAGEL  362 (638)
T ss_pred             eccc-eEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4433 3468899999999999999999999888754

>PLN03130 ABC transporter C family member; Provisional

Probab=97.61  E-value=0.00088  Score=72.82  Aligned_cols=35  Identities=20%  Similarity=0.355  Sum_probs=30.1

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+++ +--+++|+++.|+||+|||||||+..++...
T Consensus       633 L~~i-nl~i~~Ge~vaIvG~sGSGKSTLl~lLlG~~  667 (1622)
T PLN03130        633 LSNI-NLDVPVGSLVAIVGSTGEGKTSLISAMLGEL  667 (1622)
T ss_pred             eece-eEEecCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4443 4468999999999999999999999998885

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.61  E-value=0.00056  Score=64.68  Aligned_cols=38  Identities=16%  Similarity=0.184  Sum_probs=28.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -+.|+||+|+|||+|+..++..+. ....+   .+|+|++++
T Consensus       132 ~l~lyG~~G~GKTHLl~ai~~~l~-~~~~~---~~v~yi~~~  169 (440)
T PRK14088        132 PLFIYGGVGLGKTHLLQSIGNYVV-QNEPD---LRVMYITSE  169 (440)
T ss_pred             eEEEEcCCCCcHHHHHHHHHHHHH-HhCCC---CeEEEEEHH
Confidence            489999999999999988887653 10112   379999975

>PF05625 PAXNEB: PAXNEB protein; InterPro: IPR008728 The RNA polymerase II elongator complex is a major histone acetyltransferase component of the RNA polymerase II (RNAPII) holoenzyme and is involved in transcriptional elongation [, ]

Probab=97.60  E-value=0.00058  Score=62.87  Aligned_cols=98  Identities=15%  Similarity=0.169  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHHHhcc-CCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHH--HcCcEEEEEeccc
Q 022155          119 LLDIMPKIESFIKNSS-NSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAV--GFGLAVLVTNQVV  195 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~-~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~--~~~~~viv~n~~~  195 (302)
                      +..++..|.+.+.+.. ....++-.|+|-++....+......  ...    .+..++..||.|.+  ..++++++|--..
T Consensus       179 ~~~ll~~i~~~i~~~~~~~~~~v~RI~I~sl~SP~w~~~~~~--~~~----~ll~FL~~LR~LlR~~~s~~v~~iTlP~~  252 (363)
T PF05625_consen  179 YRSLLQQIQQIISKSGFSPPSKVLRIVIPSLGSPLWYPPSAS--QPS----ELLRFLHSLRALLRKYSSNAVAMITLPSH  252 (363)
T ss_dssp             HHHHHHHHHHHHHH----TTTSEEEEEETTTT-TTTS-GGGG--BHH----HHHHHHHHHHHHHHHTTTTEEEEEEEEGT
T ss_pred             HHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCcccCCcccc--cHH----HHHHHHHHHHHHHhccCCCEEEEEEECHH
Confidence            5667777777776520 0246789999999998776542211  111    26789999999999  5566666664221


Q ss_pred             ccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          196 DLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                                         ++.    ..+.+-..|.+++|+.|.|+--..
T Consensus       253 -------------------L~~----~~~~~~~~l~~l~D~vi~Le~F~~  279 (363)
T PF05625_consen  253 -------------------LYP----RSPSLVRRLEHLADGVIELESFAG  279 (363)
T ss_dssp             -------------------TS-------HHHHHHHHHHSSEEEEEEE--H
T ss_pred             -------------------Hhc----cChHHHHHHHHhCCEEEEeecCCC
Confidence                               110    034555778899999999987553

It may also play some role in wobble uridine tRNA modification []. This entry represents the ELP4 subunit. ELP4 is not required for the association of the complex with nascent RNA transcript, but is required for complex integrity and histone acetyltransferase activity. It is also required for an early step in synthesis of 5-methoxycarbonylmethyl (mcm5) and 5-carbamoylmethyl (ncm5) groups present on uridines at the wobble position in tRNA in yeast species.; GO: 0006357 regulation of transcription from RNA polymerase II promoter, 0033588 Elongator holoenzyme complex; PDB: 4EJS_A 4A8J_A.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.60  E-value=9.6e-05  Score=60.79  Aligned_cols=40  Identities=20%  Similarity=0.159  Sum_probs=33.5

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++|+++.|.|+|||||||++..++....   ..|+   ++.+++++
T Consensus         2 ~~g~~i~~~G~~GsGKST~a~~la~~l~---~~g~---~v~~id~D   41 (175)
T PRK00889          2 QRGVTVWFTGLSGAGKTTIARALAEKLR---EAGY---PVEVLDGD   41 (175)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEEcCc
Confidence            4789999999999999999999998763   3444   78899876

>PRK12678 transcription termination factor Rho; Provisional

Probab=97.60  E-value=0.00026  Score=67.69  Aligned_cols=44  Identities=20%  Similarity=0.188  Sum_probs=38.9

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.+.+|+..+|-++  -|-.|+-.+|+||||+|||+|+..|+...
T Consensus       397 ~e~~~~giRvIDll~--PIGkGQR~LIvgpp~aGKTtLL~~IAn~i  440 (672)
T PRK12678        397 TEPKKLTTRVIDLIM--PIGKGQRGLIVSPPKAGKTTILQNIANAI  440 (672)
T ss_pred             cCcccccceeeeeec--ccccCCEeEEeCCCCCCHHHHHHHHHHHH
Confidence            478899999999887  56799999999999999999998887754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	302
2dfl_A	324	Crystal Structure Of Left-Handed Rada Filament Leng		7e-21
1pzn_A	349	Rad51 (Rada) Length = 349		1e-20
2bke_A	324	Conformational Flexibility Revealed By The Crystal		8e-20
4b2i_A	231	Humanised Monomeric Rada In Complex With Indazole L		1e-19
4a6p_A	231	Rada C-Terminal Atpase Domain From Pyrococcus Furio		2e-19
1n0w_A	243	Crystal Structure Of A Rad51-Brca2 Brc Repeat Compl		2e-14
1v5w_A	343	Crystal Structure Of The Human Dmc1 Protein Length		2e-14
3lda_A	400	Yeast Rad51 H352y Filament Interface Mutant Length		3e-14
2zjb_A	343	Crystal Structure Of The Human Dmc1-M200v Polymorph		3e-14
1szp_A	321	A Crystal Structure Of The Rad51 Filament Length =		4e-14
1t4g_A	322	Atpase In Complex With Amp-pnp Length = 322		7e-13
3ntu_A	319	Rada Recombinase D302k Mutant In Complex With Amp-P		8e-13
2gdj_A	264	Delta-62 Rada Recombinase In Complex With Amp-Pnp A		9e-13
4dc9_A	266	Hexameric Ring Of Methanococcus Voltae Rada Length		9e-13
2f1h_A	322	Recombinase In Complex With Amp-pnp And Potassium L		2e-12
3etl_A	322	Rada Recombinase From Methanococcus Maripaludis In		5e-12
2cvf_A	220	Crystal Structure Of The Radb Recombinase Length =		8e-04

>pdb|2DFL|A Chain A, Crystal Structure Of Left-Handed Rada Filament Length = 324

Iteration: 1
 Score = 97.8 bits (242), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 74/287 (25%), Positives = 126/287 (43%), Gaps = 47/287 (16%)
Query: 15  LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSAS 74
           +  +K + G   +D  L GGI   ++TE   E GSGKTQ C QL+++ QLP   GGLS  
Sbjct: 84  MNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGK 143
Query: 75  SLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSS 134
           ++Y+ TE  F   R+  ++       D+   +  +++++++ D  + I+  ++  +    
Sbjct: 144 AVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINT-DHQIAIVDDLQELVSKDP 202
Query: 135 NSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
           +    I+LIV+DS+ + FR+++    ++L  R     K    L  +A  + +AV++TNQV
Sbjct: 203 S----IKLIVVDSVTSHFRAEYPGR-ENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQV 257
Query: 195 VDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMV 254
             +  P+              Y  G P     G    +    R+ L +            
Sbjct: 258 --MARPD------------MFY--GDPTVAVGGHTLYHVPGIRIQLKK------------ 289
Query: 255 NGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                         R  RR   VV APHL +    F +T EG+   E
Sbjct: 290 -------------SRGNRRIARVVDAPHLPEGEVVFALTEEGIRDAE 323

>pdb|1PZN|A Chain A, Rad51 (Rada) Length = 349

Iteration: 1
 Score = 96.7 bits (239), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 78/297 (26%), Positives = 128/297 (43%), Gaps = 43/297 (14%)
Query: 1   MGAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTL 60
           +G        L    T  + + G   +D+ LGGGI   +ITE+  E GSGKTQ    L +
Sbjct: 94  LGTFXRADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAV 153
Query: 61  SAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLL 120
             QLP   GGL+ S +++ TE  F   R+ +++   R  +      +I+V    + +   
Sbjct: 154 XVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQN-RGLDPDEVLKHIYVARAFNSNHQX 212
Query: 121 DIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM 180
            ++ + E  IK   N+  P++L+++DS+ + FRS++      L +R     K    L  +
Sbjct: 213 LLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIG-RGALAERQQKLAKHLADLHRL 271
Query: 181 AVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFL 240
           A  + +AV VTNQV     P+              +  G P  P  G   A+    R++L
Sbjct: 272 ANLYDIAVFVTNQV--QARPD------------AFF--GDPTRPIGGHILAHSATLRVYL 315
Query: 241 SRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
            +              G GG           +R   ++ APHL +    F IT +G+
Sbjct: 316 RK--------------GKGG-----------KRIARLIDAPHLPEGEAVFSITEKGI 347

>pdb|2BKE|A Chain A, Conformational Flexibility Revealed By The Crystal Structure Of A Crenarchaeal Rada Length = 324

Iteration: 1
 Score = 94.0 bits (232), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 74/284 (26%), Positives = 122/284 (42%), Gaps = 47/284 (16%)
Query: 18  EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLY 77
           +K + G   +D  L GGI   + TE   E GSGKTQ C QL+++ QLP   GGLS  ++Y
Sbjct: 87  KKISTGSQALDGLLAGGIETRTXTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVY 146
Query: 78  LHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSR 137
           + TE  F   R+   +       D+   +  +++++++ D  + I+  ++  +    +  
Sbjct: 147 IDTEGTFRWERIENXAKALGLDIDNVXNNIYYIRAINT-DHQIAIVDDLQELVSKDPS-- 203
Query: 138 LPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL 197
             I+LIV+DS+ + FR+++    ++L  R     K    L  +A  + +AV++TNQV   
Sbjct: 204 --IKLIVVDSVTSHFRAEYPG-RENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVX-- 258
Query: 198 MEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGG 257
             P+              Y  G P     G    +    R+ L +               
Sbjct: 259 ARPD------------XFY--GDPTVAVGGHTLYHVPGIRIQLKK--------------- 289
Query: 258 VGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                      R  RR   VV APHL +    F +T EG+   E
Sbjct: 290 ----------SRGNRRIARVVDAPHLPEGEVVFALTEEGIRDAE 323

>pdb|4B2I|A Chain A, Humanised Monomeric Rada In Complex With Indazole Length = 231

Iteration: 1
 Score = 93.6 bits (231), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 57/179 (31%), Positives = 94/179 (52%), Gaps = 2/179 (1%)
Query: 16  TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
           T  + + G   +D+ LGGGI   +ITE+  E GSGKTQ    L +  QLP   GGL+ S 
Sbjct: 3   TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSV 62
Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
           +++ TE  F   R+ +++       D       + ++ +S  Q+L ++ + E  IK   N
Sbjct: 63  MWIDTENTFRPERIREIAQNRGLDPDEVLKHIAYARAFNSNHQML-LVQQAEDMIKELLN 121
Query: 136 SRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
           +  P++L+++DS+ + FRS++      L +R     K    L  +A  + +AV VTNQV
Sbjct: 122 TDRPVKLLIVDSLTSHFRSEYIGR-GALAERQQKLAKHLADLHRLANLYDIAVFVTNQV 179

>pdb|4A6P|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Length = 231

Iteration: 1
 Score = 93.2 bits (230), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 56/179 (31%), Positives = 94/179 (52%), Gaps = 2/179 (1%)
Query: 16  TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
           T  + + G   +D+ LGGGI   +ITE+  E GSGKTQ    L +  QLP   GGL+ S 
Sbjct: 3   TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSV 62
Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
           +++ TE  F   R+ +++   R  +      +I+V    + +  + ++ + E  IK   N
Sbjct: 63  IWIDTENTFRPERIREIAQN-RGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLN 121
Query: 136 SRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
           +  P++L+++DS+ + FRS++      L +R     K    L  +A  + +AV VTNQV
Sbjct: 122 TDRPVKLLIVDSLTSHFRSEYIGR-GALAERQQKLAKHLADLHRLANLYDIAVFVTNQV 179

>pdb|1N0W|A Chain A, Crystal Structure Of A Rad51-Brca2 Brc Repeat Complex Length = 243

Iteration: 1
 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 61/224 (27%), Positives = 99/224 (44%), Gaps = 20/224 (8%)
Query: 19  KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
           + T G   +D+ L GGI   SITE   E  +GKTQ C  L ++ QLP   GG    + Y+
Sbjct: 5   QITTGSKELDKLLQGGIETGSITEXFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAXYI 64
Query: 79  HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
            TE  F   RL  ++  +  S   +  D +      + D    ++ +  +    S  +  
Sbjct: 65  DTEGTFRPERLLAVAERYGLSGS-DVLDNVAYARAFNTDHQTQLLYQASAXXVESRYA-- 121
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM 198
              L+++DS  AL+R+D+     +L  R     +    L  +A  FG+AV++TNQVV  +
Sbjct: 122 ---LLIVDSATALYRTDYSG-RGELSARQXHLARFLRXLLRLADEFGVAVVITNQVVAQV 177
Query: 199 EPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
           +             G    +  P  P  G   A+   +RL+L +
Sbjct: 178 D-------------GAAXFAADPKKPIGGNIIAHASTTRLYLRK 208

>pdb|1V5W|A Chain A, Crystal Structure Of The Human Dmc1 Protein Length = 343

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/177 (28%), Positives = 88/177 (49%), Gaps = 7/177 (3%)
Query: 20  CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH 79
            T G    D+ LGGGI   +ITE   E  +GKTQ    L ++AQLP + G      +++ 
Sbjct: 104 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID 163
Query: 80  TEFPFPMRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
           TE  F   RL  ++  F  + DH+   D +     ++ +  ++++  + +     +    
Sbjct: 164 TENTFRPDRLRDIADRF--NVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAG--- 218
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
             +L++IDSI ALFR DF     +L +R     ++   L+ ++  + +AV VTNQ+ 
Sbjct: 219 IFKLLIIDSIMALFRVDFSGR-GELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMT 274

>pdb|3LDA|A Chain A, Yeast Rad51 H352y Filament Interface Mutant Length = 400

Iteration: 1
 Score = 75.5 bits (184), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 56/167 (33%), Positives = 79/167 (47%), Gaps = 11/167 (6%)
Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           T G   +D  LGGG+   SITEL  E  +GK+Q C  L ++ Q+P   GG     LY+ T
Sbjct: 161 TTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDT 220
Query: 81  EFPFPMRRLHQLSHTF--RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
           E  F   RL  ++  F   P +  N   Y    +     +LLD   ++       S SR 
Sbjct: 221 EGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQM------MSESRF 274
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
              LIV+DS+ AL+R+DF +   +L  R     K    L+ +A  FG
Sbjct: 275 S--LIVVDSVMALYRTDF-SGRGELSARQMHLAKFMRALQRLADQFG 318

>pdb|2ZJB|A Chain A, Crystal Structure Of The Human Dmc1-M200v Polymorphic Variant Length = 343

Iteration: 1
 Score = 75.5 bits (184), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/177 (28%), Positives = 88/177 (49%), Gaps = 7/177 (3%)
Query: 20  CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH 79
            T G    D+ LGGGI   +ITE   E  +GKTQ    L ++AQLP + G      +++ 
Sbjct: 104 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID 163
Query: 80  TEFPFPMRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
           TE  F   RL  ++  F  + DH+   D +     ++ +  ++++  + +     +    
Sbjct: 164 TENTFRPDRLRDIADRF--NVDHDAVLDNVLYARAYTSEHQVELLDYVAAKFHEEAG--- 218
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
             +L++IDSI ALFR DF     +L +R     ++   L+ ++  + +AV VTNQ+ 
Sbjct: 219 IFKLLIIDSIMALFRVDFSGR-GELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMT 274

>pdb|1SZP|A Chain A, A Crystal Structure Of The Rad51 Filament Length = 321

Iteration: 1
 Score = 75.1 bits (183), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 56/167 (33%), Positives = 78/167 (46%), Gaps = 11/167 (6%)
Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           T G   +D  LGGG+   SITEL  E  +GK+Q C  L ++ Q+P   GG     LY+ T
Sbjct: 82  TTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDT 141
Query: 81  EFPFPMRRLHQLSHTF--RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
           E  F   RL  ++  F   P +  N   Y    +     +LLD   ++       S SR 
Sbjct: 142 EGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQM------MSESRF 195
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
              LIV+DS+ AL+R+DF     +L  R     K    L+ +A  FG
Sbjct: 196 S--LIVVDSVMALYRTDFSGR-GELSARQMHLAKFMRALQRLADQFG 239

>pdb|1T4G|A Chain A, Atpase In Complex With Amp-pnp Length = 322

Iteration: 1
 Score = 70.9 bits (172), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9   NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
           +LL    T  K +     +D  LGGG+   S+TE     GSGKTQ   Q  ++ Q P   
Sbjct: 69  DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 128
Query: 67  -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
                  S G ++   ++Y+ TE  F   R+ Q++      +     D  FV   ++ D 
Sbjct: 129 FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 187
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
            +    KIE  I+  +N    I+L+VIDS+ + FR+++      L +R     +    L 
Sbjct: 188 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEY-TGRGKLAERQQKLGRHMATLN 242
Query: 179 AMAVGFGLAVLVTNQV 194
            +A  F   VLVTNQV
Sbjct: 243 KLADLFNCVVLVTNQV 258

>pdb|3NTU|A Chain A, Rada Recombinase D302k Mutant In Complex With Amp-Pnp Length = 319

Iteration: 1
 Score = 70.9 bits (172), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9   NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
           +LL    T  K +     +D  LGGG+   S+TE     GSGKTQ   Q  ++ Q P   
Sbjct: 66  DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 125
Query: 67  -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
                  S G ++   ++Y+ TE  F   R+ Q++      +     D  FV   ++ D 
Sbjct: 126 FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 184
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
            +    KIE  I+  +N    I+L+VIDS+ + FR+++      L +R     +    L 
Sbjct: 185 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEYTGR-GKLAERQQKLGRHMATLN 239
Query: 179 AMAVGFGLAVLVTNQV 194
            +A  F   VLVTNQV
Sbjct: 240 KLADLFNCVVLVTNQV 255

>pdb|2GDJ|A Chain A, Delta-62 Rada Recombinase In Complex With Amp-Pnp And Magnesium Length = 264

Iteration: 1
 Score = 70.9 bits (172), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9   NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
           +LL    T  K +     +D  LGGG+   S+TE     GSGKTQ   Q  ++ Q P   
Sbjct: 11  DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 70
Query: 67  -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
                  S G ++   ++Y+ TE  F   R+ Q++      +     D  FV   ++ D 
Sbjct: 71  FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 129
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
            +    KIE  I+  +N    I+L+VIDS+ + FR+++      L +R     +    L 
Sbjct: 130 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEYTGR-GKLAERQQKLGRHMATLN 184
Query: 179 AMAVGFGLAVLVTNQV 194
            +A  F   VLVTNQV
Sbjct: 185 KLADLFNCVVLVTNQV 200

>pdb|4DC9|A Chain A, Hexameric Ring Of Methanococcus Voltae Rada Length = 266

Iteration: 1
 Score = 70.9 bits (172), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9   NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
           +LL    T  K +     +D  LGGG+   S+TE     GSGKTQ   Q  ++ Q P   
Sbjct: 13  DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 72
Query: 67  -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
                  S G ++   ++Y+ TE  F   R+ Q++      +     D  FV   ++ D 
Sbjct: 73  FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 131
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
            +    KIE  I+  +N    I+L+VIDS+ + FR+++      L +R     +    L 
Sbjct: 132 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEY-TGRGKLAERQQKLGRHMATLN 186
Query: 179 AMAVGFGLAVLVTNQV 194
            +A  F   VLVTNQV
Sbjct: 187 KLADLFNCVVLVTNQV 202

>pdb|2F1H|A Chain A, Recombinase In Complex With Amp-pnp And Potassium Length = 322

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 57/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9   NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
           +LL    T  K +     +D  LGGG+   S+TE     GSGKTQ   Q  ++ Q P   
Sbjct: 69  DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 128
Query: 67  -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
                  S G ++   ++Y+ T+  F   R+ Q++      +     D  FV   ++ D 
Sbjct: 129 FYDEEAVSKGEVAQPKAVYIDTDGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 187
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
            +    KIE  I+  +N    I+L+VIDS+ + FR+++      L +R     +    L 
Sbjct: 188 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEY-TGRGKLAERQQKLGRHMATLN 242
Query: 179 AMAVGFGLAVLVTNQV 194
            +A  F   VLVTNQV
Sbjct: 243 KLADLFNCVVLVTNQV 258

>pdb|3ETL|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex With Amppnp Length = 322

Iteration: 1
 Score = 68.2 bits (165), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 70/299 (23%), Positives = 113/299 (37%), Gaps = 57/299 (19%)
Query: 9   NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSS- 67
            LL    +  + + G   +D  L GGI   S+TE     GSGKTQ   Q  ++ Q+    
Sbjct: 69  ELLKQRQSVWRLSTGSTELDTVLAGGIESQSVTEFAGMFGSGKTQIMHQTCVNLQMREKI 128
Query: 68  ---------HGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
                        +  ++Y+ TE  F   R+ Q++      +     D  FV   ++ D 
Sbjct: 129 FADLEGVVEEELEAPKAVYIDTEGTFRPERVVQMAEG-AGIDGQTVLDNTFVARAYNSDM 187
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
            +    KIE  IK  +N    I+L++IDS+ + FR++F      L +R     +    L 
Sbjct: 188 QMLFAEKIEDLIKGGNN----IKLVIIDSLTSTFRNEFTGR-GKLAERQQKLGRHMATLN 242
Query: 179 AMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRL 238
            +A  +   VLVTNQV    +   GV    +G                G    +    R 
Sbjct: 243 KLADLYNCIVLVTNQVAAKPDAYFGVAEQAIG----------------GHVVGHAATFRF 286
Query: 239 FLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
           FL ++                         +  +R   +  +PHL D+   F IT +G+
Sbjct: 287 FLRKS-------------------------KGDKRVAKLYDSPHLPDSEAVFRITEKGI 320

>pdb|2CVF|A Chain A, Crystal Structure Of The Radb Recombinase Length = 220

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 46/179 (25%), Positives = 76/179 (42%), Gaps = 29/179 (16%)
Query: 20  CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSL-YL 78
            + G   +D  LGGG     +T++     SGKT   LQ  L          LS   + Y+
Sbjct: 2   LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL----------LSGKKVAYV 51
Query: 79  HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
            TE  F   RL Q++ T   + +     +I        +Q      ++   +K + +S  
Sbjct: 52  DTEGGFSPERLVQMAETRGLNPEEALSRFILFTPSDFKEQ-----RRVIGSLKKTVDSNF 106
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM---AVGFGLAVLVTNQV 194
              L+V+DSI A +R++        + RS L  ++S  L+ +   A    + V+V NQV
Sbjct: 107 A--LVVVDSITAHYRAE--------ENRSGLIAELSRQLQVLLWIARKHNIPVIVINQV 155

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	302
2z43_A	324	DNA repair and recombination protein RADA; archaea	1e-70
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	2e-66
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	3e-63
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	3e-59
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	6e-59
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	1e-52
2cvh_A	220	DNA repair and recombination protein RADB; filamen	2e-21
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	1e-10
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	8e-10
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	9e-10
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	2e-09
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	4e-09
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A* Length = 324

 Score =  220 bits (562), Expect = 1e-70
 Identities = 76/296 (25%), Positives = 122/296 (41%), Gaps = 47/296 (15%)

Query: 6   TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLP 65
           T   +    +  +K + G   +D  L GGI   ++TE   E GSGKTQ C QL+++ QLP
Sbjct: 75  TALEVKKERMNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLP 134

Query: 66  SSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPK 125
              GGLS  ++Y+ TE  F   R+  ++       D N  + I+     + D  + I+  
Sbjct: 135 PEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDID-NVMNNIYYIRAINTDHQIAIVDD 193

Query: 126 IESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
           ++  +         I+LIV+DS+ + FR+++    ++L  R     K    L  +A  + 
Sbjct: 194 LQELVSKDP----SIKLIVVDSVTSHFRAEYPGR-ENLAVRQQKLNKHLHQLTRLAEVYD 248

Query: 186 LAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED 245
           +AV++TNQV+            R          G P     G    +    R+ L ++  
Sbjct: 249 IAVIITNQVMA-----------RPDM-----FYGDPTVAVGGHTLYHVPGIRIQLKKS-- 290

Query: 246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                                  R  RR   VV APHL +    F +T EG+   E
Sbjct: 291 -----------------------RGNRRIARVVDAPHLPEGEVVFALTEEGIRDAE 323

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A Length = 343

 Score =  210 bits (536), Expect = 2e-66
 Identities = 63/292 (21%), Positives = 111/292 (38%), Gaps = 43/292 (14%)

Query: 10  LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHG 69
             +        T G    D+ LGGGI   +ITE   E  +GKTQ    L ++AQLP + G
Sbjct: 94  YSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGG 153

Query: 70  GLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESF 129
                 +++ TE  F   RL  ++  F   +D    D +     ++ +  ++++  + + 
Sbjct: 154 YPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAV-LDNVLYARAYTSEHQMELLDYVAAK 212

Query: 130 IKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVL 189
               +      +L++IDSI ALFR DF     +L +R     ++   L+ ++  + +AV 
Sbjct: 213 FHEEAG---IFKLLIIDSIMALFRVDFSGR-GELAERQQKLAQMLSRLQKISEEYNVAVF 268

Query: 190 VTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR 249
           VTNQ+                    +     P  P  G   A+   +R+ L +       
Sbjct: 269 VTNQMTADPGAT-------------MTFQADPKKPIGGHILAHASTTRISLRKG------ 309

Query: 250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                              R   R   +  +P + +    F IT  G+   +
Sbjct: 310 -------------------RGELRIAKIYDSPEMPENEATFAITAGGIGDAK 342

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11 Length = 243

 Score =  199 bits (507), Expect = 3e-63
 Identities = 70/284 (24%), Positives = 115/284 (40%), Gaps = 45/284 (15%)

Query: 18  EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLY 77
            + T G   +D+ L GGI   SITE+  E  +GKTQ C  L ++ QLP   GG    ++Y
Sbjct: 4   IQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMY 63

Query: 78  LHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSR 137
           + TE  F   RL  ++  +  S   +  D +      + D    ++ +  + +  S    
Sbjct: 64  IDTEGTFRPERLLAVAERYGLSGS-DVLDNVAYARAFNTDHQTQLLYQASAMMVES---- 118

Query: 138 LPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL 197
               L+++DS  AL+R+D+     +L  R     +   ML  +A  FG+AV++TNQVV  
Sbjct: 119 -RYALLIVDSATALYRTDYSGR-GELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQ 176

Query: 198 MEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGG 257
           ++             G    +  P  P  G   A+   +RL+L +               
Sbjct: 177 VD-------------GAAMFAADPKKPIGGNIIAHASTTRLYLRKG-------------- 209

Query: 258 VGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                      R   R   +  +P L +    F I  +GV   +
Sbjct: 210 -----------RGETRICKIYDSPCLPEAEAMFAINADGVGDAK 242

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11 Length = 349

 Score =  192 bits (488), Expect = 3e-59
 Identities = 76/297 (25%), Positives = 125/297 (42%), Gaps = 43/297 (14%)

Query: 1   MGAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTL 60
           +G  M     L    T  + + G   +D+ LGGGI   +ITE+  E GSGKTQ    L +
Sbjct: 94  LGTFMRADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAV 153

Query: 61  SAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLL 120
             QLP   GGL+ S +++ TE  F   R+ +++       D     +I+V    + +  +
Sbjct: 154 MVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPD-EVLKHIYVARAFNSNHQM 212

Query: 121 DIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM 180
            ++ + E  IK   N+  P++L+++DS+ + FRS++      L +R     K    L  +
Sbjct: 213 LLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIG-RGALAERQQKLAKHLADLHRL 271

Query: 181 AVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFL 240
           A  + +AV VTNQV             R          G P  P  G   A+    R++L
Sbjct: 272 ANLYDIAVFVTNQVQA-----------RPDAFF-----GDPTRPIGGHILAHSATLRVYL 315

Query: 241 SRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
            + +                           +R   ++ APHL +    F IT +G+
Sbjct: 316 RKGKG-------------------------GKRIARLIDAPHLPEGEAVFSITEKGI 347

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A* Length = 400

 Score =  193 bits (490), Expect = 6e-59
 Identities = 76/286 (26%), Positives = 112/286 (39%), Gaps = 45/286 (15%)

Query: 16  TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
                T G   +D  LGGG+   SITEL  E  +GK+Q C  L ++ Q+P   GG     
Sbjct: 156 ELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKC 215

Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
           LY+ TE  F   RL  ++  F    D +  + +     ++ D  L ++      +  S  
Sbjct: 216 LYIDTEGTFRPVRLVSIAQRFGLDPD-DALNNVAYARAYNADHQLRLLDAAAQMMSES-- 272

Query: 136 SRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
                 LIV+DS+ AL+R+DF     +L  R     K    L+ +A  FG+AV+VTNQVV
Sbjct: 273 ---RFSLIVVDSVMALYRTDFSGRG-ELSARQMHLAKFMRALQRLADQFGVAVVVTNQVV 328

Query: 196 DLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVN 255
             ++     N               P  P  G   A    +RL   +             
Sbjct: 329 AQVDGGMAFN-------------PDPKKPIGGNIMAYSSTTRLGFKKG------------ 363

Query: 256 GGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                        +  +R   VV +P L +  C F I  +GV    
Sbjct: 364 -------------KGCQRLCKVVDSPCLPEAECVFAIYEDGVGDPR 396

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A* Length = 322

 Score =  174 bits (442), Expect = 1e-52
 Identities = 69/303 (22%), Positives = 108/303 (35%), Gaps = 57/303 (18%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
            +  +LL    T  K +     +D  LGGG+   S+TE     GSGKTQ   Q  ++ Q 
Sbjct: 65  KSGIDLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQN 124

Query: 65  PSSH----------GGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVH 114
           P                   ++Y+ TE  F   R+ Q++            D  FV   +
Sbjct: 125 PEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQT-VLDNTFVARAY 183

Query: 115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKIS 174
           + D  +    KIE  I+  +N    I+L+VIDS+ + FR+++      L +R     +  
Sbjct: 184 NSDMQMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEYTGR-GKLAERQQKLGRHM 238

Query: 175 GMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCV 234
             L  +A  F   VLVTNQV    +                   G       G    +  
Sbjct: 239 ATLNKLADLFNCVVLVTNQVSAKPDAF----------------FGMAEQAIGGHIVGHAA 282

Query: 235 NSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITR 294
             R F+ +                          +  +R   +  +PHL D    F IT 
Sbjct: 283 TFRFFVRKG-------------------------KGDKRVAKLYDSPHLPDAEAIFRITE 317

Query: 295 EGV 297
           +G+
Sbjct: 318 KGI 320

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A* Length = 220

 Score = 89.5 bits (223), Expect = 2e-21
 Identities = 48/284 (16%), Positives = 84/284 (29%), Gaps = 69/284 (24%)

Query: 21  TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
           + G   +D  LGGG     +T++     SGKT   LQ  L +              Y+ T
Sbjct: 3   STGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGLLSG---------KKVAYVDT 53

Query: 81  EFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           E  F   RL Q++ T   + +        + +     +   ++  ++  + +        
Sbjct: 54  EGGFSPERLVQMAETRGLNPE-EALSRFILFTPSDFKEQRRVIGSLKKTVDS------NF 106

Query: 141 RLIVIDSIAALFRSDFD--NTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM 198
            L+V+DSI A +R++ +    + +L     L      +L  +A    + V+V NQV    
Sbjct: 107 ALVVVDSITAHYRAEENRSGLIAEL--SRQL-----QVLLWIARKHNIPVIVINQVHFDS 159

Query: 199 EPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGV 258
                                    P             L L +                
Sbjct: 160 RTEMTK-------------------PVAEQTLGYRCKDILRLDKLP-------------- 186

Query: 259 GGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEITREGVFGVE 301
                     +   R   +             F IT  G+  VE
Sbjct: 187 ----------KPGLRVAVLERHRFRPEGLMAYFRITERGIEDVE 220

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2} Length = 235

 Score = 59.3 bits (144), Expect = 1e-10
 Identities = 31/186 (16%), Positives = 61/186 (32%), Gaps = 26/186 (13%)

Query: 18  EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL------ 71
            + + G    D+ + GGIP      L  E G+GKT F L   ++  L      +      
Sbjct: 3   SRLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLH-FIAKGLRDGDPCIYVTTEE 61

Query: 72  SASSLYLHTE-FPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFI 130
           S  S+    + F +      +       +      D   + ++   + +  ++   +   
Sbjct: 62  SRDSIIRQAKQFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLG 121

Query: 131 KNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLV 190
                       +VIDS++ALF             R   ++     LK +   +   +  
Sbjct: 122 YG-------KARLVIDSVSALFLD------KPAMARKISYY-----LKRVLNKWNFTIYA 163

Query: 191 TNQVVD 196
           T+Q   
Sbjct: 164 TSQYAI 169

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii} Length = 247

 Score = 57.0 bits (138), Expect = 8e-10
 Identities = 35/188 (18%), Positives = 62/188 (32%), Gaps = 27/188 (14%)

Query: 17  TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL----- 71
           T +   G P +D  L GGIP  ++  L    G+GKT F  Q  L   L     G+     
Sbjct: 2   TRRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQ-FLWNGLKMGEPGIYVALE 60

Query: 72  -SASSLYLHTE----FPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKI 126
                +  +         P       +     +             VH +  + + +  +
Sbjct: 61  EHPVQVRQNMAQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVL 120

Query: 127 ESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGL 186
              I+      +  + +V+DS+  L+ +           RS +       LK +  G G 
Sbjct: 121 RQAIR-----DINAKRVVVDSVTTLYIN------KPAMARSIIL-----QLKRVLAGTGC 164

Query: 187 AVLVTNQV 194
             +  +QV
Sbjct: 165 TSIFVSQV 172

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A* Length = 525

 Score = 57.6 bits (139), Expect = 2e-09
 Identities = 38/201 (18%), Positives = 67/201 (33%), Gaps = 25/201 (12%)

Query: 3   APMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA 62
           A MT  N         K        D    GG+P    T +   SG+GKT F +Q   + 
Sbjct: 4   AEMTSPNNNSEHQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNG 63

Query: 63  QLPSSHGGL------SASSLYLH-TEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHS 115
            +     G+      +   +  +   F + + +L      F      +P        V  
Sbjct: 64  IIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQ----EVVG 119

Query: 116 VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISG 175
              L  ++ +I   I+     +   R + IDS+ ++F+            R  LF     
Sbjct: 120 GFDLSALIERINYAIQ-----KYRARRVSIDSVTSVFQQ----YDASSVVRRELF----- 165

Query: 176 MLKAMAVGFGLAVLVTNQVVD 196
            L A     G   ++T + ++
Sbjct: 166 RLVARLKQIGATTVMTTERIE 186

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A* Length = 525

 Score = 56.5 bits (136), Expect = 4e-09
 Identities = 34/202 (16%), Positives = 61/202 (30%), Gaps = 27/202 (13%)

Query: 4   PMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
                  L    +  + + G   +D   GGG   +SI      +G+GKT    +  +   
Sbjct: 247 FPLGAMRLTQRSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSR-FVENA 305

Query: 64  LPSSHGGLSASSLYLHTEFPFP--MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLD 121
             +         +    E      +R  +     F      N    + +   +     L+
Sbjct: 306 CANKERA-----ILFAYEESRAQLLRNAYSWGMDFEEMERQN---LLKIVCAYPESAGLE 357

Query: 122 -IMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM 180
             +  I+S I            I IDS++AL R      + +   R F+       +   
Sbjct: 358 DHLQIIKSEIN-----DFKPARIAIDSLSALARG-----VSNNAFRQFVI-----GVTGY 402

Query: 181 AVGFGLAVLVTNQVVDLMEPNE 202
           A    +  L TN     M  + 
Sbjct: 403 AKQEEITGLFTNTSDQFMGAHS 424

>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 Length = 279

 Score = 48.2 bits (114), Expect = 1e-06
 Identities = 28/185 (15%), Positives = 61/185 (32%), Gaps = 21/185 (11%)

Query: 33  GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS----LYLHTEFPFPM-- 86
             +   ++  LV+  G+GK+   LQL            +        +YL  E P     
Sbjct: 25  PNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIH 84

Query: 87  RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVID 146
            RLH L             D + +Q +      +      +   + +       RL+V+D
Sbjct: 85  HRLHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRAAEG----RRLMVLD 140

Query: 147 SIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLV---TNQVVDLMEPNEG 203
           ++      + + +         +     G ++A+A   G +++     ++   +M   + 
Sbjct: 141 TLRRFHIEEENASGPM---AQVI-----GRMEAIAADTGCSIVFLHHASKGAAMMGAGDQ 192

Query: 204 VNGLR 208
               R
Sbjct: 193 QQASR 197

>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 = 47.9 bits (113), Expect = 3e-06
 Identities = 38/286 (13%), Positives = 73/286 (25%), Gaps = 87/286 (30%)

Query: 48  GSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP---------------MRRLHQL 92
           GSGKT       ++  +  S+         +  +  F                +  L +L
Sbjct: 160 GSGKT------WVALDVCLSYK--------VQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205

Query: 93  SHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVID-----S 147
            +   P N  +  D     S +   ++  I  ++   +K   +      L+V+       
Sbjct: 206 LYQIDP-NWTSRSD----HSSNIKLRIHSIQAELRRLLK---SKPYENCLLVLLNVQNAK 257

Query: 148 IAALF------------RSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
               F            +   D           L      +         L   +  +  
Sbjct: 258 AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL-LLKYLDCRPQ 316

Query: 196 DLMEPNE--GVNGLRVGNLGCLYSSG--------RPICPALGIAWANCVNS-------RL 238
           DL  P E    N  R+  +      G           C  L     + +N        ++
Sbjct: 317 DL--PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374

Query: 239 FLSRNEDFVV-REN--------QMVNGGVGGSGSEDFVCRRTRRSL 275
           F    +   V   +         ++   V  S     V +  + SL
Sbjct: 375 F----DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	302
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	100.0
2z43_A	324	DNA repair and recombination protein RADA; archaea	100.0
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	100.0
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	100.0
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	100.0
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	100.0
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	100.0
3io5_A	333	Recombination and repair protein; storage dimer, i	100.0
4a74_A	231	DNA repair and recombination protein RADA; hydrola	99.97
2cvh_A	220	DNA repair and recombination protein RADB; filamen	99.97
1u94_A	356	RECA protein, recombinase A; homologous recombinat	99.97
1xp8_A	366	RECA protein, recombinase A; recombination, radior	99.97
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	99.97
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	99.96
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.95
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.95
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.94
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	99.93
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.92
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	99.91
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	99.9
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	99.89
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	99.87
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	99.87
2r6a_A	454	DNAB helicase, replicative helicase; replication,	99.85
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	99.83
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	99.82
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	99.81
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	99.79
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.77
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	99.69
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.61
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	99.55
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	98.71
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	98.67
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	98.65
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.63
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.59
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	98.57
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.57
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	98.48
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	98.45
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	98.45
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	98.44
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.44
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	98.41
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.4
1g6h_A	257	High-affinity branched-chain amino acid transport	98.4
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	98.39
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	98.39
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	98.39
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	98.39
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	98.37
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.33
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.33
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	98.31
1b0u_A	262	Histidine permease; ABC transporter, transport pro	98.31
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.31
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.3
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	98.29
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.27
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.26
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	98.26
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.25
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.24
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.23
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	98.21
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.21
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	98.2
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.17
1sgw_A	214	Putative ABC transporter; structural genomics, P p	98.17
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.17
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	98.16
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.16
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.16
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.15
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.11
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.09
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.08
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.08
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.08
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.08
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.07
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	98.02
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.01
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.01
4a8j_A	361	Elongator complex protein 4; transcription; 2.10A	98.01
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	98.01
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.0
3ice_A	422	Transcription termination factor RHO; transcriptio	98.0
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.98
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.97
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	97.96
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	97.96
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.94
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.94
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.93
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	97.92
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.91
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.91
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.88
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.88
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	97.87
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.86
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.86
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.85
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	97.85
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.85
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	97.85
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	97.84
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.84
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.84
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	97.82
3bos_A	242	Putative DNA replication factor; P-loop containing	97.82
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	97.8
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.8
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	97.79
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	97.75
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.75
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.74
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.74
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.74
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.73
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.71
3l0o_A	427	Transcription termination factor RHO; helicase, RH	97.7
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	97.7
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.67
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.67
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.67
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	97.65
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	97.62
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.62
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.61
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.61
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	97.61
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	97.59
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.57
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.56
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.54
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.53
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	97.52
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.52
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.51
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.5
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.5
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.5
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.5
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.5
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.5
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	97.49
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.48
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.46
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.46
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.46
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.45
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.45
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.44
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.44
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.44
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	97.44
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.43
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.4
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.39
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.38
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.37
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.37
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.36
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.35
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.34
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.34
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	97.34
2og2_A	359	Putative signal recognition particle receptor; nuc	97.33
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.33
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.33
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.32
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.32
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.31
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.31
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.31
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.3
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.3
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.29
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.29
2xxa_A	433	Signal recognition particle protein; protein trans	97.28
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.28
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.27
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.26
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.25
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.24
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.22
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.22
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.21
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.2
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.2
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.18
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.17
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.16
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	97.15
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.15
2ghi_A	260	Transport protein; multidrug resistance protein, M	97.14
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.14
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.14
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.13
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.11
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.1
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	97.08
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.06
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.06
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.05
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.05
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.04
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.0
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.0
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.98
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.97
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.97
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.95
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.94
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.92
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.88
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	96.87
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	96.85
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.85
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.85
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.85
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.84
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.84
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.82
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.82
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.8
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.8
3pvs_A	447	Replication-associated recombination protein A; ma	96.8
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.79
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.79
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.78
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.78
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.77
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.77
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.77
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.75
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.74
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.74
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.74
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	96.73
1via_A	175	Shikimate kinase; structural genomics, transferase	96.72
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.7
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.69
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.69
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.69
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	96.68
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.67
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.66
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.66
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.65
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.64
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.64
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.62
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.62
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.61
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.61
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.6
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	96.6
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.59
1oft_A	161	SULA, hypothetical protein PA3008; bacterial cell	96.59
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.59
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.58
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	96.57
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.57
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.55
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.52
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.51
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.51
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.5
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.5
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.5
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.46
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	96.45
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.45
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.41
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.38
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.37
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.35
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.35
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.35
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.34
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.34
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.33
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.32
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.3
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.29
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.28
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.27
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.27
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.25
3end_A	307	Light-independent protochlorophyllide reductase ir	96.25
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.24
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.21
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.2
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.19
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.19
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.18
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.17
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	96.17
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.16
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.16
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.15
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.14
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.13
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.12
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.12
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.11
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.1
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.09
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	96.09
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	96.06
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.06
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.05
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.05
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.05
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.05
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.05
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.02
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.01
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	95.97
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	95.95
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.95
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.94
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.94
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.91
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.91
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.89
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.89
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	95.89
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.88
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.87
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.84
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	95.82
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.81
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.81
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	95.8
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.78
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.77
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.76
2qgz_A	308	Helicase loader, putative primosome component; str	95.76
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.74
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	95.74
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	95.72
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	95.72
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.72
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.71
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.69
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.65
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.64
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.61
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.6
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.58
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	95.57
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.57
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.57
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	95.57
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.56
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.55
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.55
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.54
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.53
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	95.5
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	95.5
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.49
2chq_A	319	Replication factor C small subunit; DNA-binding pr	95.45
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	95.44
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.44
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.34
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	95.34
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.32
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.3
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	95.3
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.29
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.29
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	95.28
2fna_A	357	Conserved hypothetical protein; structural genomic	95.28
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.27
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	95.19
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.18
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.17
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	95.16
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	95.16
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.16
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.13
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.12
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.09
3co5_A	143	Putative two-component system transcriptional RES	95.09
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	95.09
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	95.09
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.08
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.07
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	95.06
3igf_A	374	ALL4481 protein; two-domained protein consisting o	95.05
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	95.03
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.03
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.98
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	94.98
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	94.95
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.95
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.93
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	94.93
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.91
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	94.91
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	94.91
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.9
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	94.9
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	94.88
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.86
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.79
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	94.75
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	94.73
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	94.71
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	94.7
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.68
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.66
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.63
1e69_A	322	Chromosome segregation SMC protein; structural mai	94.61
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.52
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.51
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	94.48
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.4
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	94.38
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	94.37
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	94.35
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.34
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.32
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	94.31
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.3
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	94.3
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	94.3
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	94.28
4eq6_A	214	Chromosome segregation in meiosis protein 2; DNA b	94.26
2ygr_A	993	Uvrabc system protein A; hydrolase, nucleotide exc	94.26
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.23
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.19
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.17
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.14
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	94.12
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.11
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.1
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.04
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	94.03
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	94.02
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.01
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.0
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	93.99
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	93.97
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	93.97
2r6f_A	972	Excinuclease ABC subunit A; UVRA, nucleotide excis	93.91
2vf7_A	842	UVRA2, excinuclease ABC, subunit A.; DNA-binding p	93.9
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.89
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.87
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.87
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.86
3pih_A	916	Uvrabc system protein A; hydrolase, ABC ATPase, DN	93.8
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.78
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.78
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.78
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	93.73
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	93.73
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.71
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.7
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.7
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	93.7
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.69
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	93.68
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.66
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.65
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	93.65
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.64
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.59
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.56
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.55
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	93.54
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.52
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.48
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	93.46
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.46
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.43
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.39
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	93.39
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.37
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.37
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.35
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	93.32
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.32
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.26
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	93.25
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.24
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.23
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.22
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	93.22
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.21
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.2
3bor_A	237	Human initiation factor 4A-II; translation initiat	93.19

>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=100.00  E-value=3.1e-38  Score=286.80  Aligned_cols=248  Identities=25%  Similarity=0.383  Sum_probs=193.0

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      +++.+.....++||++.||.+|+||+++|++++|+||||+|||+||++++.+++++...||...+|+||++|.+|+++++
T Consensus        94 ~~~~~~~~~~i~TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l  173 (343)
T 1v5w_A           94 YSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL  173 (343)
T ss_dssp             HHHHGGGCCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             HHhhhcccceeecCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHH
Confidence            44555567899999999999999999999999999999999999999999998776554444559999999999999999


Q ss_pred             HHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCC-CCeeEEEEechhhhhhhccCCChhhHHHHHH
Q 022155           90 HQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSR-LPIRLIVIDSIAALFRSDFDNTMDDLKKRSF  168 (302)
Q Consensus        90 ~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~-~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~  168 (302)
                      .+++..+.. ..+..++++++.++.+.+++.+++..+..++.+    . .++++|||||++++++.++.+. +++..|++
T Consensus       174 ~~~~~~~g~-~~~~~l~~l~~~~~~~~e~~~~ll~~l~~~i~~----~~~~~~lvVIDsl~~l~~~~~~~~-g~~~~r~~  247 (343)
T 1v5w_A          174 RDIADRFNV-DHDAVLDNVLYARAYTSEHQMELLDYVAAKFHE----EAGIFKLLIIDSIMALFRVDFSGR-GELAERQQ  247 (343)
T ss_dssp             HHHHHHTTC-CHHHHHHTEEEEECCSTTHHHHHHHHHHHHHHH----SCSSEEEEEEETSGGGHHHHCCGG-GCHHHHHH
T ss_pred             HHHHHHcCC-CHHHHHhceeEeecCCHHHHHHHHHHHHHHHHh----cCCCccEEEEechHHHHHHHhccc-ccHHHHHH
Confidence            888876542 222345788888888888887888777777753    2 5789999999999997765432 24566777


Q ss_pred             HHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchh
Q 022155          169 LFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVV  248 (302)
Q Consensus       169 ~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~  248 (302)
                      .+.++++.|+.++++++++||++||+.+......            ++. +...+|++|..|.|.+++||+|+|.+.   
T Consensus       248 ~l~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~~~------------~~~-g~~~~~~gg~~i~~~ad~~l~l~r~~~---  311 (343)
T 1v5w_A          248 KLAQMLSRLQKISEEYNVAVFVTNQMTADPGATM------------TFQ-ADPKKPIGGHILAHASTTRISLRKGRG---  311 (343)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEECC--------------------------------CCTTTTSSSEEEEEEESST---
T ss_pred             HHHHHHHHHHHHHHHhCCEEEEEeeceecCCCcc------------ccC-CCCCcCCchHHHHHhCCEEEEEEEcCC---
Confidence            7899999999999999999999999987654310            110 134689999999999999999998532   


Q ss_pred             cccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          249 RENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       249 ~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                            ..|.++|.|+|+.|...+.|.|++.||++++
T Consensus       312 ----------------------~~r~~~v~K~r~~p~~~~~f~I~~~Gi~~~~  342 (343)
T 1v5w_A          312 ----------------------ELRIAKIYDSPEMPENEATFAITAGGIGDAK  342 (343)
T ss_dssp             ----------------------TEEEEEEEECTTCCSSCEEEEEETTEEEECC
T ss_pred             ----------------------CEEEEEEEECCCCCCeeEEEEEeCCCccCCC
Confidence                                  4789999999999988999999999999886

>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=100.00  E-value=6.3e-38  Score=282.80  Aligned_cols=245  Identities=30%  Similarity=0.496  Sum_probs=184.3

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      +++.+.....++||++.||.+|+||+++|++++|+|+||+|||+||++++.+++.+...|+...+|+||++|.+|+++++
T Consensus        79 ~~~~~~~~~~i~TG~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l  158 (324)
T 2z43_A           79 VKKERMNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERI  158 (324)
T ss_dssp             HHHHHCSCCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHH
T ss_pred             hhhhhccCCcccCCchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHH
Confidence            44445567899999999999999999999999999999999999999999998765445555569999999999999999


Q ss_pred             HHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHH
Q 022155           90 HQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFL  169 (302)
Q Consensus        90 ~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~  169 (302)
                      .+++..+.. ..+..++++++.++.+.+++.+++..+..++.+    ..++++|||||+++++..++.+. +++..|++.
T Consensus       159 ~~~~~~~g~-~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~~----~~~~~lvVIDsl~~l~~~~~~~~-g~~~~r~~~  232 (324)
T 2z43_A          159 ENMAKALGL-DIDNVMNNIYYIRAINTDHQIAIVDDLQELVSK----DPSIKLIVVDSVTSHFRAEYPGR-ENLAVRQQK  232 (324)
T ss_dssp             HHHHHHTTC-CHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHH----CTTEEEEEETTTTHHHHHHSCTT-TSHHHHHHH
T ss_pred             HHHHHHhCC-CHHHHhccEEEEeCCCHHHHHHHHHHHHHHHHh----ccCCCEEEEeCcHHHhhhhhcCc-ccHHHHHHH
Confidence            888776532 222344688888888888877788888777753    25789999999999987665432 244567677


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhc
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR  249 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~  249 (302)
                      +.++++.|+.++++++++||++||+.......              +  +....|++|..|.|.+++||+|+|...    
T Consensus       233 ~~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~~--------------~--~~~~~~~gg~~l~~~~d~~l~l~r~~~----  292 (324)
T 2z43_A          233 LNKHLHQLTRLAEVYDIAVIITNQVMARPDMF--------------Y--GDPTVAVGGHTLYHVPGIRIQLKKSRG----  292 (324)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEEC----------------------------------------CEEEEEEECST----
T ss_pred             HHHHHHHHHHHHHHhCCEEEEEcceeecCCCc--------------C--CCCCCCCchHHHHhhCcEEEEEEEcCC----
Confidence            89999999999999999999999998765432              1  134679999999999999999998532    


Q ss_pred             ccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       250 ~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                           ..|.+++.|+|+.|...+.|.|++.||++++
T Consensus       293 ---------------------~~r~~~v~k~~~~p~~~~~f~I~~~Gi~~~~  323 (324)
T 2z43_A          293 ---------------------NRRIARVVDAPHLPEGEVVFALTEEGIRDAE  323 (324)
T ss_dssp             ---------------------TEEEEEEEECSSSCCEEEEEEEETTEEECCC
T ss_pred             ---------------------CeEEEEEEECCCCCceEEEEEEeCCCcccCC
Confidence                                 3789999999999988999999999999986

>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=100.00  E-value=1.2e-37  Score=280.93  Aligned_cols=244  Identities=29%  Similarity=0.403  Sum_probs=197.0

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCC---------cCCCCC-CeEEEE
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS---------SHGGLS-ASSLYL   78 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~---------~~gg~~-~~vlyi   78 (302)
                      ++++.+.....++||++.||.+|+||+++|++++|+|+||+|||+||++++.+++++.         ..||.. .+|+||
T Consensus        69 ~~~~~~~~~~~i~TG~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi  148 (322)
T 2i1q_A           69 DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYI  148 (322)
T ss_dssp             HHHHHHTTCCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEE
T ss_pred             HHHHHhccCCeecCCChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEE
Confidence            4555556688999999999999999999999999999999999999999999876653         345333 599999


Q ss_pred             eCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCC
Q 022155           79 HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDN  158 (302)
Q Consensus        79 d~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~  158 (302)
                      ++|.+|+++|+.+++..+.. ..+..++++++.++.+.+++.+++..+..++.+    ..++++|||||++.+++.++.+
T Consensus       149 ~~e~~~~~~~l~~~~~~~g~-~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~~----~~~~~lvVIDsl~~l~~~~~~~  223 (322)
T 2i1q_A          149 DTEGTFRPERIMQMAEHAGI-DGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQE----GNNIKLVVIDSLTSTFRNEYTG  223 (322)
T ss_dssp             ESSSCCCHHHHHHHHHHHTC-CHHHHHHTEEEEECSSHHHHHHHHHTHHHHHHT----TCEEEEEEEECSSHHHHHHCCC
T ss_pred             ECCCCCCHHHHHHHHHHcCC-CHHHHhcCEEEEeCCCHHHHHHHHHHHHHHHhh----ccCccEEEEECcHHHHHHHhcC
Confidence            99999999999888776542 222344688999988988887788888777753    2578999999999998766543


Q ss_pred             ChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEE
Q 022155          159 TMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRL  238 (302)
Q Consensus       159 ~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl  238 (302)
                      . +++..|++.+.++++.|+.++++++++||++||+.......              +  +....|++|..|.|.+++||
T Consensus       224 ~-~~~~~r~~~~~~~~~~L~~la~~~~~~vi~~nq~~~~~~~~--------------~--g~~~~~~g~~~~~~~~d~~i  286 (322)
T 2i1q_A          224 R-GKLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDAF--------------F--GMAEQAIGGHIVGHAATFRF  286 (322)
T ss_dssp             T-TSHHHHHHHHHHHHHHHHHHHHHTTCEEEEEECEECC-----------------------CCEESSHHHHHHHCSEEE
T ss_pred             C-ccHHHHHHHHHHHHHHHHHHHHHhCCEEEEECceeecCCCC--------------C--CCCcCCCCcHHHHhcCcEEE
Confidence            2 24456777789999999999999999999999998765432              1  13468999999999999999


Q ss_pred             EEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          239 FLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       239 ~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                      .|+|...                         ..|.+++.|+|+.|...+.|.|+++||+|
T Consensus       287 ~l~~~~~-------------------------~~r~~~v~k~~~~p~~~~~f~I~~~Gi~~  322 (322)
T 2i1q_A          287 FVRKGKG-------------------------DKRVAKLYDSPHLPDAEAIFRITEKGIQD  322 (322)
T ss_dssp             EEEECST-------------------------TEEEEEEEECSSSCCEEEEEEEETTEEEC
T ss_pred             EEEecCC-------------------------CeEEEEEEECCCCCCeEEEEEEeCCCcCC
Confidence            9988542                         36899999999999889999999999986

>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=100.00  E-value=1.8e-37  Score=285.69  Aligned_cols=249  Identities=29%  Similarity=0.440  Sum_probs=192.8

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .++++.+....+++||++.||++|+|||++|++++|+||||+||||||++++.+.++|...|+...+++||+++..++..
T Consensus       148 ~~l~~~~~~~~~i~TG~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~  227 (400)
T 3lda_A          148 ADFHMRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPV  227 (400)
T ss_dssp             HHHHHHHHTSCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             HHHHhhhccCCccccCChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHH
Confidence            34666667789999999999999999999999999999999999999999998887776666556699999999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHH
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRS  167 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~  167 (302)
                      ++.+++..+.. .++.+++++.+....+.++..+.+..+...+..     .++++||||++++++..++.+. +++.+|+
T Consensus       228 rl~~~a~~~gl-~~~~vleni~~~~~~~~~~~~~~l~~~~~~l~~-----~~~~llVIDs~t~~~~~~~sg~-g~l~~Rq  300 (400)
T 3lda_A          228 RLVSIAQRFGL-DPDDALNNVAYARAYNADHQLRLLDAAAQMMSE-----SRFSLIVVDSVMALYRTDFSGR-GELSARQ  300 (400)
T ss_dssp             HHHHHHHHTTC-CHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHH-----SCEEEEEEETGGGGCC-------CCHHHHH
T ss_pred             HHHHHHHHcCC-ChHhHhhcEEEeccCChHHHHHHHHHHHHHHHh-----cCCceEEecchhhhCchhhcCc-cchHHHH
Confidence            99888877542 222456788998888887777777777777765     4689999999999988776642 3567788


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                      +.+.++++.|++++++++++||++||+.+..+...            ++. +...+|++|..|+|++++||+|++...  
T Consensus       301 ~~l~~il~~L~~lake~gitVIlv~Hv~~~~~g~~------------~~~-g~~~~p~gg~~l~~~ad~vl~L~~~~g--  365 (400)
T 3lda_A          301 MHLAKFMRALQRLADQFGVAVVVTNQVVAQVDGGM------------AFN-PDPKKPIGGNIMAYSSTTRLGFKKGKG--  365 (400)
T ss_dssp             HHHHHHHHHHHHHHHHHCCEEEEEEEC---------------------------------CHHHHHCSEEEEEEECST--
T ss_pred             HHHHHHHHHHHHHHHHcCCEEEEEEeecccCCccc------------ccc-CCCccCCchhHHHHhcceEEEEEecCC--
Confidence            88899999999999999999999999976554310            111 134679999999999999999998533  


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                             ..|.++|+|+|+.|...+.|.|++.||++++
T Consensus       366 -----------------------~~R~l~v~K~R~~p~~e~~F~It~~Gi~~~~  396 (400)
T 3lda_A          366 -----------------------CQRLCKVVDSPCLPEAECVFAIYEDGVGDPR  396 (400)
T ss_dssp             -----------------------TEEEEEEEECSSSCSCEEEEEEETTEEECCC
T ss_pred             -----------------------CcEEEEEEcCCCCCCCceEEEEeCCcccccc
Confidence                                   3699999999999988899999999999986

>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=100.00  E-value=5.1e-36  Score=272.52  Aligned_cols=248  Identities=29%  Similarity=0.470  Sum_probs=190.2

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      ++++.+....+++||++.||.+|+||+++|++++|+|||||||||||++++..++.++..|+..++|+||+++..+..++
T Consensus       102 ~~~~~~~~~~~isTG~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~  181 (349)
T 1pzn_A          102 EYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER  181 (349)
T ss_dssp             HHHHHHHTCCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             HHHhhhccCCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH
Confidence            45565666889999999999999999999999999999999999999999999865555654455899999999888888


Q ss_pred             HHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHH
Q 022155           89 LHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSF  168 (302)
Q Consensus        89 l~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~  168 (302)
                      +..+.+.+.. ....+++|+.+....+.....+++..+..++.+.+....++++|||||+++++..++.+. +++.+|++
T Consensus       182 i~~i~q~~~~-~~~~v~~ni~~~~~~~~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~ld~~~~~~-~~~~~r~~  259 (349)
T 1pzn_A          182 IREIAQNRGL-DPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGR-GALAERQQ  259 (349)
T ss_dssp             HHHHHHTTTC-CHHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHHHCCST-TTHHHHHH
T ss_pred             HHHHHHHcCC-CHHHHhhCEEEEecCChHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHhhhhhhccc-ccHHHHHH
Confidence            8888876532 223567888888776666666666666666653111114689999999999987665433 24567777


Q ss_pred             HHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchh
Q 022155          169 LFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVV  248 (302)
Q Consensus       169 ~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~  248 (302)
                      .+.++++.|++++++++++||++||+.......              +  +....|++|..|+|++++||+|++...   
T Consensus       260 ~~~~~l~~L~~la~~~~~tvii~~h~~~~~~~~--------------~--~~~~~~~~G~~l~~~~~~rL~l~~~~~---  320 (349)
T 1pzn_A          260 KLAKHLADLHRLANLYDIAVFVTNQVQARPDAF--------------F--GDPTRPIGGHILAHSATLRVYLRKGKG---  320 (349)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEEECC-------------------------------CCCCCTTCSEEEEEEECTT---
T ss_pred             HHHHHHHHHHHHHHHcCcEEEEEcccccccccc--------------c--CCccccCCcceEeecCcEEEEEEEcCC---
Confidence            788999999999999999999999997654321              1  134679999999999999999988432   


Q ss_pred             cccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          249 RENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       249 ~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                                            ..|.+++.|+|+.|...+.|.|++.||+|
T Consensus       321 ----------------------~~Ri~k~~ks~~~~~~~~~f~It~~Gi~d  349 (349)
T 1pzn_A          321 ----------------------GKRIARLIDAPHLPEGEAVFSITEKGIED  349 (349)
T ss_dssp             ----------------------SEEEEEESCSSSSCCSEEEEEEETTEEEC
T ss_pred             ----------------------CeEEEEEEeCCCCCCeEEEEEEcCCCCCC
Confidence                                  47999999999999888999999999986

>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=100.00  E-value=7.1e-34  Score=245.25  Aligned_cols=242  Identities=27%  Similarity=0.456  Sum_probs=172.4

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ..++++||++.||++|+||+++|++++|+||||+|||||+++++.+++++...|+...+++|++++..++.+++.++...
T Consensus         2 ~~~~i~tG~~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~   81 (243)
T 1n0w_A            2 EIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAER   81 (243)
T ss_dssp             CCCEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHH
T ss_pred             CceEecCCChHHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHH
Confidence            35689999999999999999999999999999999999999999987655433333458999999998888888777665


Q ss_pred             hCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHH
Q 022155           96 FRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISG  175 (302)
Q Consensus        96 ~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~  175 (302)
                      +.. .++..++++.+....+..++.+.+..+.+.+..     .++++||||+++.++..++++. ++..+|++.+..++.
T Consensus        82 ~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~lliiD~~~~~~~~~~~~~-~~~~~r~~~~~~~~~  154 (243)
T 1n0w_A           82 YGL-SGSDVLDNVAYARAFNTDHQTQLLYQASAMMVE-----SRYALLIVDSATALYRTDYSGR-GELSARQMHLARFLR  154 (243)
T ss_dssp             TTC-CHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHH-----SCEEEEEEETSSGGGC--------CHHHHHHHHHHHHH
T ss_pred             cCC-CHHHHhhCeEEEecCCHHHHHHHHHHHHHHHhc-----CCceEEEEeCchHHHHHHhcCC-ccHHHHHHHHHHHHH
Confidence            432 222244678888888877777777777777764     5679999999999886554432 123455556788999


Q ss_pred             HHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccccccc
Q 022155          176 MLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVN  255 (302)
Q Consensus       176 ~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~  255 (302)
                      .|++++++++++||++||..+......            .++ +....|++|..|.+.++.+++|.+...          
T Consensus       155 ~l~~~~~~~~~tvi~~~h~~~~~~~~~------------~~~-~~~~~~~g~~~~~~~~d~vi~l~~~~~----------  211 (243)
T 1n0w_A          155 MLLRLADEFGVAVVITNQVVAQVDGAA------------MFA-ADPKKPIGGNIIAHASTTRLYLRKGRG----------  211 (243)
T ss_dssp             HHHHHHHHHCCEEEEEC--------------------------------------CCTTCEEEEEEECST----------
T ss_pred             HHHHHHHHcCCEEEEEeeeeecCCCcc------------ccC-CCcccCCccChhhhcCcEEEEEEEcCC----------
Confidence            999999999999999999876554210            010 134678999999999999999998422          


Q ss_pred             CCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccCC
Q 022155          256 GGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVER  302 (302)
Q Consensus       256 g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~~  302 (302)
                                     ..|.++|.|+++.|...+.|.|++.||++++.
T Consensus       212 ---------------~~r~l~v~K~r~~~~~~~~f~I~~~Gi~~~~~  243 (243)
T 1n0w_A          212 ---------------ETRICKIYDSPCLPEAEAMFAINADGVGDAKD  243 (243)
T ss_dssp             ---------------TEEEEEECCBTTBSCEEEEEEEETTEEECCCC
T ss_pred             ---------------CeEEEEEEECCCCCCCeEEEEEeCCccccCCC
Confidence                           47899999999998878999999999999863

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=100.00  E-value=8e-33  Score=250.50  Aligned_cols=229  Identities=23%  Similarity=0.294  Sum_probs=178.7

Q ss_pred             CCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           17 TEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ..++|||++.||.+|+ ||+++|++++|+||||+||||||++++..++   ..|+   +|+||+++..++..|.+++.. 
T Consensus        39 ~~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~---~~gg---~VlyId~E~s~~~~ra~rlgv-  111 (356)
T 3hr8_A           39 VEVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQ---KMGG---VAAFIDAEHALDPVYAKNLGV-  111 (356)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHH---HTTC---CEEEEESSCCCCHHHHHHHTC-
T ss_pred             CceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHH---hcCC---eEEEEecccccchHHHHHcCC-
Confidence            6889999999999999 9999999999999999999999999999876   4555   899999999998887766642 


Q ss_pred             hCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhhH--HHHHHHHHH
Q 022155           96 FRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDDL--KKRSFLFFK  172 (302)
Q Consensus        96 ~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~~--~~r~~~l~~  172 (302)
                              ..+++.+..+.+.+++.+.+   ..++..     ..+++|||||+++++. .++.+.+++.  ..+.+.+.+
T Consensus       112 --------~~~~l~i~~~~~~e~~l~~~---~~l~~~-----~~~dlvVIDSi~~l~~~~el~g~~G~~q~~~qar~la~  175 (356)
T 3hr8_A          112 --------DLKSLLISQPDHGEQALEIV---DELVRS-----GVVDLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQ  175 (356)
T ss_dssp             --------CGGGCEEECCSSHHHHHHHH---HHHHHT-----SCCSEEEEECTTTCCCHHHHTTCCCSSCSSHHHHHHHH
T ss_pred             --------chhhhhhhhccCHHHHHHHH---HHHhhh-----cCCCeEEehHhhhhcChhhhcccchhhHHHHHHHHHHH
Confidence                    24677788777777665544   344443     4569999999999985 6666543321  123445778


Q ss_pred             HHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccc
Q 022155          173 ISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQ  252 (302)
Q Consensus       173 l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~  252 (302)
                      +++.|+.++++++++||++||++++....              |  +.+.+|++|..|.|++++||.|++....+  ++.
T Consensus       176 ~L~~L~~lak~~~~tVI~inqv~~k~g~~--------------f--g~p~~~~GG~~l~h~~~~rl~l~k~~~~k--~g~  237 (356)
T 3hr8_A          176 ALRKIAGSVNKSKAVVIFTNQIRMKIGVM--------------F--GSPETTTGGLALKFYATMRMEVRRGEPIK--EGK  237 (356)
T ss_dssp             HHHHHHHHHHTSSCEEEEEEESSSCSSSS--------------S--CSCSSCTHHHHHHHHCSEEEEEEEEEEEE--ETT
T ss_pred             HHHHHHHHHHhcCCEEEEEeeeeeccccc--------------c--CCcccCCCcchhhhhCcEEEEEEeccccc--cCC
Confidence            89999999999999999999998776543              2  13467999999999999999999865321  111


Q ss_pred             cccCCCCCCCCCCcccccceEEEEEEECCCC-CCceeeEEE-ecCccccc
Q 022155          253 MVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL-ADTSCEFEI-TREGVFGV  300 (302)
Q Consensus       253 ~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~-~~~~~~F~I-~~~Gi~~~  300 (302)
                      .+.              ...|.++++|+++. |...+.|.| ..+||..+
T Consensus       238 ~~~--------------g~~~~vkvvKnr~~~~~~~~~f~i~~~~Gi~~~  273 (356)
T 3hr8_A          238 DVI--------------GNVISVKIVKNKVAPPFKTAQTYIIYGKGIDRE  273 (356)
T ss_dssp             EEE--------------EEEEEEEEEEESSSCCCCEEEEEEETTTBSCHH
T ss_pred             ccc--------------ccEEEEEEEeCCCCCCCceEEEEEeeCCCcChh
Confidence            111              25799999999998 467899999 58998753

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=100.00  E-value=7.3e-33  Score=243.92  Aligned_cols=226  Identities=15%  Similarity=0.266  Sum_probs=156.9

Q ss_pred             CCccccCChhhHhhhC----CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC--CCCCCeEEEEeCCCCCCHHHHH
Q 022155           17 TEKCTVGCPIIDRCLG----GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH--GGLSASSLYLHTEFPFPMRRLH   90 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~----GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~--gg~~~~vlyid~e~~~~~~rl~   90 (302)
                      .++++||++.||.+|+    ||+++| +++|+||||+||||||+|++.+++   ..  |+   +|+|||+|+++++.|++
T Consensus         4 ~~risTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~~---~~g~g~---~vlyId~E~s~~~~ra~   76 (333)
T 3io5_A            4 MDVVRTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSYM---RQYPDA---VCLFYDSEFGITPAYLR   76 (333)
T ss_dssp             --CBCCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHHH---HHCTTC---EEEEEESSCCCCHHHHH
T ss_pred             CCEecCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHHH---hcCCCc---eEEEEeccchhhHHHHH
Confidence            5689999999999999    999999 999999999999999999999986   33  44   89999999999988866


Q ss_pred             HHHHHhCCCCCCCCCCcEEEEeCCCHHHH-HHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhh--HH--
Q 022155           91 QLSHTFRPSNDHNPCDYIFVQSVHSVDQL-LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDD--LK--  164 (302)
Q Consensus        91 ~i~~~~~~~~~~~~l~~i~~~~~~~~~~l-~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~--~~--  164 (302)
                      ++.         ...+++++..+.+.+++ ++++..+.. +.     +..+++|||||++++++ .++.+.+++  ..  
T Consensus        77 ~lG---------vd~d~llv~~~~~~E~~~l~i~~~l~~-i~-----~~~~~lvVIDSI~aL~~~~eieg~~gd~~~gsv  141 (333)
T 3io5_A           77 SMG---------VDPERVIHTPVQSLEQLRIDMVNQLDA-IE-----RGEKVVVFIDSLGNLASKKETEDALNEKVVSDM  141 (333)
T ss_dssp             HTT---------CCGGGEEEEECSBHHHHHHHHHHHHHT-CC-----TTCCEEEEEECSTTCBCC--------------C
T ss_pred             HhC---------CCHHHeEEEcCCCHHHHHHHHHHHHHH-hh-----ccCceEEEEecccccccchhccCccccccccHH
Confidence            654         23578889898888887 665544432 33     35679999999999984 566554432  11  


Q ss_pred             HHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEec
Q 022155          165 KRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNE  244 (302)
Q Consensus       165 ~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~  244 (302)
                      .+.+.+.+.++.|..+++++|++||+|||+++ +..              +|.+  + ++.+|..+ |..++||.|.|..
T Consensus       142 ~qaR~~s~~LrkL~~~ak~~~i~vi~tNQV~k-~G~--------------~fg~--p-~~~GG~~l-~~ss~Rl~lrk~~  202 (333)
T 3io5_A          142 TRAKTMKSLFRIVTPYFSTKNIPCIAINHTYE-TQE--------------MFSK--T-VMGGGTGP-MYSADTVFIIGKR  202 (333)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCEEEEEEEC---------------------------------CCG-GGGSSEEEEEEEC
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCEEEEECCeee-cCc--------------ccCC--C-CCCCccee-eeeeEEEEEEecc
Confidence            34556788889999999999999999999987 543              3322  2 34899999 9999999999876


Q ss_pred             CchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEe-cCcccc
Q 022155          245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEIT-REGVFG  299 (302)
Q Consensus       245 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~-~~Gi~~  299 (302)
                      ..+  ++.++.|              .+.+++++|+...+ ....+|.|. ..||..
T Consensus       203 ~ik--~~~~~~G--------------~~~~v~~~k~kv~k~k~~~~~~i~~~~Gi~~  243 (333)
T 3io5_A          203 QIK--DGSDLQG--------------YQFVLNVEKSRTVKEKSKFFIDVKFDGGIDP  243 (333)
T ss_dssp             --------------------------CEEEEEEEECSSBCTTCEEEEEBCTTSCBCT
T ss_pred             ccc--cCCccEE--------------eEEEEeEEEEEEccCCcCCcEEEEecCCCCh
Confidence            543  3333444              57788889988774 456789988 578754

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=99.97  E-value=4.4e-30  Score=219.62  Aligned_cols=229  Identities=30%  Similarity=0.472  Sum_probs=171.8

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ..++++||++.||++|+||+++|+++.|+||||||||||+.+++.....+...|+..++++|++++..++.+++..+.+.
T Consensus         3 ~~~~i~tG~~~LD~~l~ggi~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~i~~~~~~   82 (231)
T 4a74_A            3 TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQN   82 (231)
T ss_dssp             CCCEECCSCHHHHHHTTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHH
T ss_pred             cCCccCCCChhHHhHhcCCCCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999999999999999999999999999987544444444558999999988888888877776


Q ss_pred             hCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHH
Q 022155           96 FRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISG  175 (302)
Q Consensus        96 ~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~  175 (302)
                      +.. .++.+.+++.+....+..+....+..+..++........++++|++|++++.+..++++. ++..+|.+.+.+++.
T Consensus        83 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~l~~~~~~~-~~~~~r~~~~~~~~~  160 (231)
T 4a74_A           83 RGL-DPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGR-GALAERQQKLAKHLA  160 (231)
T ss_dssp             TTS-CHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSHHHHHHSCST-THHHHHHHHHHHHHH
T ss_pred             cCC-CHHHHhhcEEEEecCChHHHHHHHHHHHHHHHHhcccCCceeEEEECChHHHhccccCCC-cchhHHHHHHHHHHH
Confidence            532 222455788887777766555555555555541000024679999999999887766653 245677777789999


Q ss_pred             HHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccccccc
Q 022155          176 MLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVN  255 (302)
Q Consensus       176 ~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~  255 (302)
                      .|++++++++++||+++|..+.                            .|..|.+.++.+++|.+...          
T Consensus       161 ~l~~~~~~~g~tvi~vtH~~~~----------------------------~g~~~~~~~d~~l~l~~~~~----------  202 (231)
T 4a74_A          161 DLHRLANLYDIAVFVTNQVQAN----------------------------GGHILAHSATLRVYLRKGKG----------  202 (231)
T ss_dssp             HHHHHHHHHTCEEEEEEECC-------------------------------------CCSEEEEEEECTT----------
T ss_pred             HHHHHHHHCCCeEEEEeecccC----------------------------cchhhHhhceEEEEEEecCC----------
Confidence            9999999999999999998642                            45678899999999988432          


Q ss_pred             CCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          256 GGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       256 g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                                     ..|.+++.|+++.|...+.|+|+++||++
T Consensus       203 ---------------~~r~l~~~K~r~~~~~~~~f~i~~~Gl~~  231 (231)
T 4a74_A          203 ---------------GKRIARLIDAPHLPEGEAVFSITEKGIED  231 (231)
T ss_dssp             ---------------SCEEEEEESCC--CCSCEEEEEETTEEEC
T ss_pred             ---------------CeEEEEEEeCCCCCCceEEEEEecccccC
Confidence                           57999999999998888899999999985

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=99.97  E-value=3.5e-30  Score=218.78  Aligned_cols=219  Identities=22%  Similarity=0.228  Sum_probs=169.5

Q ss_pred             ccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCC
Q 022155           19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRP   98 (302)
Q Consensus        19 ~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~   98 (302)
                      +++||++.||.+++||+++|++++|+||||+|||||+++++. .     .++   +|+|++++..++.+++.++...+..
T Consensus         1 ri~tG~~~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~-~-----~~~---~v~~i~~~~~~~~~~~~~~~~~~~~   71 (220)
T 2cvh_A            1 MLSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL-L-----SGK---KVAYVDTEGGFSPERLVQMAETRGL   71 (220)
T ss_dssp             CBCCSCHHHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH-H-----HCS---EEEEEESSCCCCHHHHHHHHHTTTC
T ss_pred             CcccCcHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH-H-----cCC---cEEEEECCCCCCHHHHHHHHHhcCC
Confidence            479999999999999999999999999999999999999998 2     233   8999999988888888776654321


Q ss_pred             CCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHH
Q 022155           99 SNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK  178 (302)
Q Consensus        99 ~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~  178 (302)
                       ..+..++++.+....+.+++...+..+..++.     . ++++||||+++.++......     ..+.+.+.++++.|+
T Consensus        72 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-----~-~~~lliiD~~~~~l~~~~~~-----~~~~~~~~~~~~~L~  139 (220)
T 2cvh_A           72 -NPEEALSRFILFTPSDFKEQRRVIGSLKKTVD-----S-NFALVVVDSITAHYRAEENR-----SGLIAELSRQLQVLL  139 (220)
T ss_dssp             -CHHHHHHHEEEECCTTTSHHHHHHHHHHHHCC-----T-TEEEEEEECCCCCTTGGGGS-----STTHHHHHHHHHHHH
T ss_pred             -ChHHHhhcEEEEecCCHHHHHHHHHHHHHHhh-----c-CCCEEEEcCcHHHhhhcCch-----HHHHHHHHHHHHHHH
Confidence             11123456777777666665556666665553     1 57999999999976432111     112334678889999


Q ss_pred             HHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccCCC
Q 022155          179 AMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGV  258 (302)
Q Consensus       179 ~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~  258 (302)
                      +++++++++||+++|.......                   ....|+++..|.+.++.+++|.+.+.             
T Consensus       140 ~l~~~~~~~vi~~~h~~~~~~~-------------------~~~~p~~~~~~~~~~d~vi~l~~~~~-------------  187 (220)
T 2cvh_A          140 WIARKHNIPVIVINQVHFDSRT-------------------EMTKPVAEQTLGYRCKDILRLDKLPK-------------  187 (220)
T ss_dssp             HHHHHHTCCEEEEECSSSSCTT-------------------SSCCSCCCHHHHHTSSEEEEEEECSS-------------
T ss_pred             HHHHHcCCEEEEEeeEEEcCCC-------------------CccccCCCcceeecCcEEEEEEEecC-------------
Confidence            9999999999999998754331                   23578999999999999999998754             


Q ss_pred             CCCCCCCcccccceEEEEEEECCCCCCc-eeeEEEecCcccccC
Q 022155          259 GGSGSEDFVCRRTRRSLHVVFAPHLADT-SCEFEITREGVFGVE  301 (302)
Q Consensus       259 ~~~~~~~~~~~~~~R~~~v~ks~~~~~~-~~~F~I~~~Gi~~~~  301 (302)
                                 ...|.+.|.|+++.+.. .+.|+|+++||+.++
T Consensus       188 -----------~~~r~l~v~K~r~~~~~~~~~f~I~~~Gi~~~~  220 (220)
T 2cvh_A          188 -----------PGLRVAVLERHRFRPEGLMAYFRITERGIEDVE  220 (220)
T ss_dssp             -----------TTEEEEEEEECSSSCTTCEEEEEEETTEEEECC
T ss_pred             -----------CCEEEEEEEeCCCCCCCceEEEEEeCCceecCC
Confidence                       24799999999988654 599999999999874

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=99.97  E-value=8.2e-30  Score=231.58  Aligned_cols=230  Identities=23%  Similarity=0.277  Sum_probs=164.7

Q ss_pred             CCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      .....+|||++.||.+|+ |||++|.+++|+|+||+|||+||++++.+++   ..|+   +|+|||+|.++++.+...+ 
T Consensus        39 ~~~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~---~~g~---~vlyid~E~s~~~~~a~~~-  111 (356)
T 1u94_A           39 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGK---TCAFIDAEHALDPIYARKL-  111 (356)
T ss_dssp             CCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEESSCCCCHHHHHHT-
T ss_pred             ccCCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHH---HCCC---eEEEEeCCCCccHHHHHHc-
Confidence            457899999999999999 9999999999999999999999999999886   4555   8999999999887654332 


Q ss_pred             HHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhhH--HHHHHHH
Q 022155           94 HTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDDL--KKRSFLF  170 (302)
Q Consensus        94 ~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~~--~~r~~~l  170 (302)
                         .     ...+++.+..+.+.+++.+++.   .++.+     ..+++||||+++.++. .++.+..++.  ..+.+.+
T Consensus       112 ---g-----~~~~~l~i~~~~~~e~~~~~~~---~l~~~-----~~~~lVVIDsl~~l~~~~e~~~~~g~~~~~~q~r~~  175 (356)
T 1u94_A          112 ---G-----VDIDNLLCSQPDTGEQALEICD---ALARS-----GAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMM  175 (356)
T ss_dssp             ---T-----CCGGGCEEECCSSHHHHHHHHH---HHHHH-----TCCSEEEEECGGGCCCHHHHTTC------CHHHHHH
T ss_pred             ---C-----CChhheeeeCCCCHHHHHHHHH---HHHhc-----cCCCEEEEcCHHHhcchhhhccccccchhHHHHHHH
Confidence               2     1246777777777666655543   33333     4679999999999874 4443322110  0122356


Q ss_pred             HHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcc
Q 022155          171 FKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRE  250 (302)
Q Consensus       171 ~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~  250 (302)
                      .++++.|+.++++++++||++||+...+...+                +....|.+|..|.+.+++|+.|.|.+..+  +
T Consensus       176 ~~~l~~L~~~a~~~~~~VI~~nq~~~~~~~~f----------------g~~~~~~gG~~l~~~advrl~l~r~~~~k--~  237 (356)
T 1u94_A          176 SQAMRKLAGNLKQSNTLLIFINQIRMKIGVMF----------------GNPETTTGGNALKFYASVRLDIRRIGAVK--E  237 (356)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEC------------------------------CTTCSHHHHHCSEEEEEEEEEEEE--S
T ss_pred             HHHHHHHHHHHHHhCCEEEEEeccccccCccc----------------CCCcccCCCcceeeeccEEEEEEEeeeec--c
Confidence            78899999999999999999999987655321                12467889999999999999999875321  1


Q ss_pred             cccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEE-ecCcccc
Q 022155          251 NQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEI-TREGVFG  299 (302)
Q Consensus       251 ~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I-~~~Gi~~  299 (302)
                      +....              ...|.++|+|++..| ...++|.| ...||..
T Consensus       238 g~~~~--------------g~~~~~~i~K~r~~p~~~~~~f~i~~~~Gi~~  274 (356)
T 1u94_A          238 GENVV--------------GSETRVKVVKNKIAAPFKQAEFQILYGEGINF  274 (356)
T ss_dssp             SSSEE--------------EEEEEEEEEEESSBCSCCEEEEEEETTTEECH
T ss_pred             Ccccc--------------CcEEEEEECCCccCCCCCcEEEEEEcCCCcCc
Confidence            11011              258899999999887 67899999 5888863

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=99.97  E-value=7.6e-30  Score=232.48  Aligned_cols=231  Identities=25%  Similarity=0.315  Sum_probs=163.8

Q ss_pred             CCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQL   92 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i   92 (302)
                      ......++||++.||.+|+ |||++|.+++|+|+||+|||+||++++.+++   ..|+   +|+||++|.++...+.+.+
T Consensus        49 ~~~~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~---~~g~---~vlyi~~E~s~~~~~a~~~  122 (366)
T 1xp8_A           49 KLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ---KAGG---TCAFIDAEHALDPVYARAL  122 (366)
T ss_dssp             CCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH---HTTC---CEEEEESSCCCCHHHHHHT
T ss_pred             cccCceecCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHH---HCCC---eEEEEECCCChhHHHHHHc
Confidence            3457899999999999999 9999999999999999999999999999986   4455   8999999998887654332


Q ss_pred             HHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhhH--HHHHHH
Q 022155           93 SHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDDL--KKRSFL  169 (302)
Q Consensus        93 ~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~~--~~r~~~  169 (302)
                      .         ...+++++.++.+.+++.+.+   +.++.+     ..+++||||+++.++. .++.+.+++.  ..+.+.
T Consensus       123 g---------~d~~~l~i~~~~~~e~~l~~l---~~l~~~-----~~~~lVVIDsl~~l~~~~e~~g~~gd~~~~~~~r~  185 (366)
T 1xp8_A          123 G---------VNTDELLVSQPDNGEQALEIM---ELLVRS-----GAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARL  185 (366)
T ss_dssp             T---------CCGGGCEEECCSSHHHHHHHH---HHHHTT-----TCCSEEEEECTTTCCCSTTC--------CCHHHHH
T ss_pred             C---------CCHHHceeecCCcHHHHHHHH---HHHHhc-----CCCCEEEEeChHHhccccccccccccchhhHHHHH
Confidence            2         124677887777776655444   344432     4679999999999873 4443222110  023345


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC-chh
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED-FVV  248 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~-~~~  248 (302)
                      +.++++.|+.++++++++||++||+.......              |  +....|.+|.+|.+.+++|++|.|... .+ 
T Consensus       186 ~~~~lr~L~~~a~~~~~~VI~~nq~~~~~~~~--------------f--g~p~~~~gg~al~~~a~~rl~L~r~~~~~k-  248 (366)
T 1xp8_A          186 MSQALRKLTAILSKTGTAAIFINQVREKIGVM--------------Y--GNPETTTGGRALKFYASVRLDVRKIGQPTK-  248 (366)
T ss_dssp             HHHHHHHHHHHHTTTCCEEEEEEEC-------------------------------CHHHHHHHCSEEEEEEEESCCC--
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEEecccccCcc--------------c--CCccccCCcchhhheeeEEEEEEecchhcc-
Confidence            77889999999999999999999998766432              1  124578899999999999999999764 22 


Q ss_pred             cccccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEe-cCcccc
Q 022155          249 RENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEIT-REGVFG  299 (302)
Q Consensus       249 ~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~-~~Gi~~  299 (302)
                       ++....              ...|.++|+|++..| ...+.|.|. ..||..
T Consensus       249 -~~~~~~--------------g~~~~v~v~Knr~~p~~~~~~f~i~~~~Gi~~  286 (366)
T 1xp8_A          249 -VGNDAV--------------ANTVKIKTVKNKVAAPFKEVELALVYGKGFDQ  286 (366)
T ss_dssp             ------C--------------EEEEEEEEEEESSSCCCCEEEEEEETTTEECH
T ss_pred             -cCcccc--------------CCEEEEEEEcCCCCCCCceEEEEEEeCCCccc
Confidence             111111              258999999999986 678999998 788863

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=99.97  E-value=1e-29  Score=230.68  Aligned_cols=230  Identities=23%  Similarity=0.310  Sum_probs=166.1

Q ss_pred             CCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      ....+++||++.||.+|+ ||+++|++++|+||||+||||||++++.+++   ..|+   +|+||++|.+++..+.+.+.
T Consensus        37 ~~~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~---~~g~---~vlyi~~E~~~~~~~a~~lG  110 (349)
T 2zr9_A           37 QPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGG---IAAFIDAEHALDPEYAKKLG  110 (349)
T ss_dssp             CCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH---HTTC---CEEEEESSCCCCHHHHHHTT
T ss_pred             ccCCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHH---hCCC---eEEEEECCCCcCHHHHHHcC
Confidence            457899999999999999 9999999999999999999999999999886   4455   89999999988876533322


Q ss_pred             HHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhhH--HHHHHHH
Q 022155           94 HTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDDL--KKRSFLF  170 (302)
Q Consensus        94 ~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~~--~~r~~~l  170 (302)
                               ...+++.+..+.+.+++.+++   ..++.+     .++++|||||+++++. .++.+.+++.  ..+.+.+
T Consensus       111 ---------~~~~~l~i~~~~~~e~~l~~~---~~l~~~-----~~~~lIVIDsl~~l~~~~e~~~~~gd~~~~~q~r~~  173 (349)
T 2zr9_A          111 ---------VDTDSLLVSQPDTGEQALEIA---DMLVRS-----GALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLM  173 (349)
T ss_dssp             ---------CCGGGCEEECCSSHHHHHHHH---HHHHTT-----TCCSEEEEECGGGCCCHHHHTTC----CCCHHHHHH
T ss_pred             ---------CCHHHeEEecCCCHHHHHHHH---HHHHhc-----CCCCEEEEcChHhhcchhhhccccccchhhHHHHHH
Confidence                     124677777777766655443   334432     4679999999999873 4444332221  0122346


Q ss_pred             HHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcc
Q 022155          171 FKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRE  250 (302)
Q Consensus       171 ~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~  250 (302)
                      .++++.|..++++++++||++||+.......+                +.+..|.+|..|.|.++.|++|.|.+..+  +
T Consensus       174 ~~~l~~L~~~a~~~~~tVI~inh~~~~~~~~~----------------~~p~~~~gg~~l~~~ad~~l~lrr~~~~k--~  235 (349)
T 2zr9_A          174 SQALRKMTGALNNSGTTAIFINELREKIGVMF----------------GSPETTTGGKALKFYASVRLDVRRIETLK--D  235 (349)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECC---------------------------CCSSHHHHHHHCSEEEEEEEEEEEC--S
T ss_pred             HHHHHHHHHHHHHhCCEEEEEeccccccCccc----------------CCCcccCCchHhhhccceEEEEEEeeeee--c
Confidence            78888888889999999999999987654321                12456889999999999999999865321  1


Q ss_pred             cccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEe-cCcccc
Q 022155          251 NQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEIT-REGVFG  299 (302)
Q Consensus       251 ~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~-~~Gi~~  299 (302)
                      +....              ...|.++|+|++..| ...++|.|. ..||..
T Consensus       236 g~~~~--------------g~~~~~~i~K~~~~p~~~~~~fdi~~~~Gi~~  272 (349)
T 2zr9_A          236 GTDAV--------------GNRTRVKVVKNKVSPPFKQAEFDILYGQGISR  272 (349)
T ss_dssp             SSSCC--------------EEEEEEEEEEESSSCCCCEEEEEEETTSCBCH
T ss_pred             Ccccc--------------CCEEEEEeCCCccCCCCceEEEEEEeCCCcCc
Confidence            11011              257899999999886 678999994 889863

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=99.96  E-value=1.9e-27  Score=205.60  Aligned_cols=221  Identities=17%  Similarity=0.193  Sum_probs=146.8

Q ss_pred             CCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSH   94 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~   94 (302)
                      ...+++|||++.||++|+|||++|++++|+|+||+|||+||+|+|.+.+.  ..+.   +|+|+++|.+  .+++.+.+.
T Consensus         7 ~~i~ri~TGi~~LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~--~~~~---~v~~~s~E~~--~~~~~~~~~   79 (251)
T 2zts_A            7 QPVRRVKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAE--EYGE---PGVFVTLEER--ARDLRREMA   79 (251)
T ss_dssp             -CCCEECCSCTTTGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHHHH--HHCC---CEEEEESSSC--HHHHHHHHH
T ss_pred             CCCCeecCCcHHHHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHH--hcCC---CceeecccCC--HHHHHHHHH
Confidence            35678999999999999999999999999999999999999999987642  2344   7999999864  444433333


Q ss_pred             HhCCCCCC-CCCCcEEEE---------------eCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCC
Q 022155           95 TFRPSNDH-NPCDYIFVQ---------------SVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDN  158 (302)
Q Consensus        95 ~~~~~~~~-~~l~~i~~~---------------~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~  158 (302)
                      ++...... ....++.+.               ..........++..+...+..     .+++++|||+++.+.... . 
T Consensus        80 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~vviD~~~~l~~~~-~-  152 (251)
T 2zts_A           80 SFGWDFEKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLRYIYRVVKA-----INAKRLVIDSIPSIALRL-E-  152 (251)
T ss_dssp             TTTCCHHHHHHTTSEEEEC-------------------CCHHHHHHHHHHHHHH-----TTCSEEEEECHHHHHHHS-S-
T ss_pred             HcCCChHHHHhcCcchhhhhHHHHhhcccchhccccccccHHHHHHHHHHHHHh-----cCCcEEEEEcHHHHhhhc-c-
Confidence            32110000 000011111               111111123344555555554     467999999999976432 1 


Q ss_pred             ChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEE
Q 022155          159 TMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRL  238 (302)
Q Consensus       159 ~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl  238 (302)
                      ..   .    .+.+++..|+.+++++++++++++|+.......                      ......+.+.+|..+
T Consensus       153 ~~---~----~~~~~~~~L~~~a~~~~i~vi~~~q~~~~~~~~----------------------~~~~~~~~~~aD~vi  203 (251)
T 2zts_A          153 EE---R----KIREVLLKLNTILLEMGVTTILTTEAPDPQHGK----------------------LSRYGIEEFIARGVI  203 (251)
T ss_dssp             SG---G----GHHHHHHHHHHHHHHHCCEEEEEECCC----CC----------------------SSSSSCGGGGCSEEE
T ss_pred             Ch---H----HHHHHHHHHHHHHHHcCCCeEEEEEEecccccc----------------------cccCCceeEEeeEEE
Confidence            11   1    145778899999999999999999986432211                      011123566778889


Q ss_pred             EEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCccccc
Q 022155          239 FLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGV  300 (302)
Q Consensus       239 ~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~  300 (302)
                      .|.+.+.    .     +             ...|.++|.|.++.|  ...++|+|+++||+.+
T Consensus       204 ~l~~~~~----~-----~-------------~~~R~l~I~K~R~~~~~~~~~~f~It~~Gi~v~  245 (251)
T 2zts_A          204 VLDLQEK----N-----I-------------ELKRYVLIRKMRETRHSMKKYPFEIGPNGIVVY  245 (251)
T ss_dssp             EEEEEEC----S-----S-------------SEEEEEEEEEETTCCCCCBEEEEEEETTEEEEC
T ss_pred             EEEEEec----C-----C-------------eEEEEEEEEEcCCCCCCCEEEEEEEeCCcEEEe
Confidence            9988665    1     1             468999999988775  5678999999999865

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.95  E-value=1.8e-27  Score=250.49  Aligned_cols=230  Identities=23%  Similarity=0.288  Sum_probs=178.7

Q ss_pred             CCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      .....++||++.||++|+ |||++|++++|+|+||+|||+||+++|.+++   ..++   +|+||++|.++.+.+    +
T Consensus       708 ~~~~~i~TG~~eLD~llggGGl~~G~lilIaG~PG~GKTtLalqlA~~~a---~~g~---~VlyiS~Ees~~ql~----A  777 (2050)
T 3cmu_A          708 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGK---TCAFIDAEHALDPIY----A  777 (2050)
T ss_dssp             TSCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHH---TTTC---CEEEECTTSCCCHHH----H
T ss_pred             cccceeecCChHHHHHhccCCcCCCcEEEEEcCCCCCHHHHHHHHHHHHH---hcCC---cEEEEECCCcHHHHH----H
Confidence            457899999999999998 7999999999999999999999999999987   3344   899999999988764    2


Q ss_pred             HHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChh----hHHHHHH
Q 022155           94 HTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMD----DLKKRSF  168 (302)
Q Consensus        94 ~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~----~~~~r~~  168 (302)
                      ..+.     ...+++++.+..+.+++.+.+.+   +..+     .++++||||||+.++. .++.+..+    ++..|. 
T Consensus       778 ~rlG-----~~~~~l~i~~~~~i~~i~~~~r~---l~~~-----~~~~LVIIDsLq~i~~~~~~~~~~Gs~~q~La~Re-  843 (2050)
T 3cmu_A          778 RKLG-----VDIDNLLCSQPDTGEQALEICDA---LARS-----GAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARM-  843 (2050)
T ss_dssp             HHTT-----CCTTTCEEECCSSHHHHHHHHHH---HHHH-----TCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHH-
T ss_pred             HHcC-----CCccceEEecCCCHHHHHHHHHH---Hhhc-----cCCCEEEEcchhhhcccccccCCCCchhhHHHHHH-
Confidence            2332     12368888888777776665543   3333     3579999999999986 44322211    234443 


Q ss_pred             HHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchh
Q 022155          169 LFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVV  248 (302)
Q Consensus       169 ~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~  248 (302)
                       +.++++.|+.+|++++|+||++||+.+..+..              |  +.+.+|++|..|+|++++|++|.|..... 
T Consensus       844 -is~ilr~Lk~lAke~~v~VI~l~Qv~r~~e~~--------------f--gdp~~p~GG~~l~h~a~~Rl~Lrr~~~~~-  905 (2050)
T 3cmu_A          844 -MSQAMRKLAGNLKQSNTLLIFINQIRMKIGVM--------------F--GNPETTTGGNALKFYASVRLDIRRIGAVK-  905 (2050)
T ss_dssp             -HHHHHHHHHHHHHTTTCEEEEEECCEECTTCC--------------S--SCCEECSSHHHHHHHEEEEEEEEEEEEEE-
T ss_pred             -HHHHHHHHHHHHHHhCCEEEEeccccccchhh--------------c--CCCccccCCceeeeeeeEEEEEEeecccc-
Confidence             67889999999999999999999999887643              2  24689999999999999999999863210 


Q ss_pred             cccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEE-ecCccccc
Q 022155          249 RENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEI-TREGVFGV  300 (302)
Q Consensus       249 ~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I-~~~Gi~~~  300 (302)
                       ++....|             ...|.++|.+||..|..++.|.| +..||.++
T Consensus       906 -~g~~~~G-------------~~~Rv~~v~~sp~lp~~e~~f~I~~~~Gi~~~  944 (2050)
T 3cmu_A          906 -EGENVVG-------------SETRVKVVKNKIAAPFKQAEFQILYGEGINFY  944 (2050)
T ss_dssp             -ETTEEEE-------------EEEEEEEEEESSSCSCCEEEEEEETTTEECHH
T ss_pred             -ccccccC-------------CcceEEEEecCCCCCCceEEEEEEcCCCcccH
Confidence             0111223             46889999999999999999999 89999853

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.95  E-value=6.9e-27  Score=246.10  Aligned_cols=230  Identities=23%  Similarity=0.289  Sum_probs=170.0

Q ss_pred             CCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      ....+++||++.||.+|+ ||||+|++++|+|+||+|||+||+|++.+++   ..|.   +|+||++|.+++..++.++.
T Consensus        10 ~~~~~i~TGi~~LD~lLg~GGip~G~vtlI~G~pGsGKT~lalq~a~~~~---~~Ge---~vlYI~tEes~~~~ra~~lG   83 (2050)
T 3cmu_A           10 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGK---TCAFIDAEHALDPIYARKLG   83 (2050)
T ss_dssp             --CCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHH---TTTC---CEEEECTTSCCCHHHHHHTT
T ss_pred             cCCCeeccCcHHHHHHHhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHhh---ccCC---ceEEEEccCcchhhHHhhhc
Confidence            446889999999999998 9999999999999999999999999999986   3455   89999999999888754432


Q ss_pred             HHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhc-cCCC--hhhHHHHHHHH
Q 022155           94 HTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSD-FDNT--MDDLKKRSFLF  170 (302)
Q Consensus        94 ~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~-~~~~--~~~~~~r~~~l  170 (302)
                               ..++++.+.++...+++.+++..+.   ..     .++++|||||++++++.. ...+  ..+...|.+.+
T Consensus        84 ---------~dl~~i~v~~p~~~e~ll~il~~L~---~~-----~~~~lVVIDSISaL~~~~e~~~e~~d~~~~~raR~l  146 (2050)
T 3cmu_A           84 ---------VDIDNLLCSQPDTGEQALEICDALA---RS-----GAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMM  146 (2050)
T ss_dssp             ---------CCTTTCEEECCSSHHHHHHHHHHHH---HH-----TCCSEEEESCGGGCCCHHHHHSCSSSCCTTHHHHHH
T ss_pred             ---------cCcccceecCCCcHHHHHHHHHHHH---hc-----cCCcEEEEcChHHhhhhcccccccccchhhHHHHHH
Confidence                     1245566666666666555544332   22     457999999999998642 1110  00122344557


Q ss_pred             HHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcc
Q 022155          171 FKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRE  250 (302)
Q Consensus       171 ~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~  250 (302)
                      ..++..|+.++++++++||+|||+.+.....              +  +....|.+|..|.|++++||.|++....+  +
T Consensus       147 ~~~l~~L~~~ak~~gitVVlTNQv~~~~g~~--------------f--g~~~~~~gG~~l~~iaD~VI~L~r~~~vk--~  208 (2050)
T 3cmu_A          147 SQAMRKLAGNLKQSNTLLIFINQIRMKIGVM--------------F--GNPETTTGGNALKFYASVRLDIRRIGAVK--E  208 (2050)
T ss_dssp             HHHHHHHHHHHHTTTCEEEEEECCEECTTCC--------------S--SCCEECSSHHHHHHHEEEEEEEEEEEEEE--E
T ss_pred             HHHHHHHHHHHHHhCCeEEEEEecccccccc--------------c--CcccccCCcchhhhhCcEEEEEEeccccc--c
Confidence            7899999999999999999999998765432              1  12467999999999999999999854311  1


Q ss_pred             cccccCCCCCCCCCCcccccceEEEEEEECCCC-CCceeeEEEe-cCcccc
Q 022155          251 NQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL-ADTSCEFEIT-REGVFG  299 (302)
Q Consensus       251 ~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~-~~~~~~F~I~-~~Gi~~  299 (302)
                      +....|              ..|+++|.|++.. |...++|.|. ..||.-
T Consensus       209 ge~~~G--------------~~Rrl~V~K~R~~~p~~~~~F~I~~g~GI~~  245 (2050)
T 3cmu_A          209 GENVVG--------------SETRVKVVKNKIAAPFKQAEFQILYGEGINF  245 (2050)
T ss_dssp             TTEEEE--------------EEEEEEEEEESSSCSCCEEEEEEETTTEECH
T ss_pred             cccccc--------------ceEEEEEEeccCCCCCceEEEEEEcCCCeEE
Confidence            111112              4699999999987 4568999996 568753

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.94  E-value=5.9e-26  Score=237.01  Aligned_cols=230  Identities=23%  Similarity=0.292  Sum_probs=173.9

Q ss_pred             CCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      .....++||++.||.+|+ |||++|++++|+||||+|||+||++++.+++   ..|+   +|+||++|.+++..+.+.+.
T Consensus       359 ~~~~~isTGi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~---~~G~---~vlyis~E~s~~~~~a~~lG  432 (1706)
T 3cmw_A          359 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGK---TCAFIDAEHALDPIYARKLG  432 (1706)
T ss_dssp             GSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEECTTSCCCHHHHHHTT
T ss_pred             ccCceeccCcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHH---HhCC---CeEEEEccCchHHHHHHHcC
Confidence            457899999999999999 9999999999999999999999999999987   4565   89999999999876543322


Q ss_pred             HHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhh--HHHHHHHH
Q 022155           94 HTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDD--LKKRSFLF  170 (302)
Q Consensus        94 ~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~--~~~r~~~l  170 (302)
                               ..++++++..+.+.+++.+.+   ..++.+     .++++|||||+++++. .++++.+++  ...+.+.+
T Consensus       433 ---------vd~~~L~i~~~~~~e~~l~~l---~~lv~~-----~~~~lVVIDSL~al~~~~e~e~~~g~~~~~~q~r~~  495 (1706)
T 3cmw_A          433 ---------VDIDNLLCSQPDTGEQALEIC---DALARS-----GAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMM  495 (1706)
T ss_dssp             ---------CCGGGCEEECCSSHHHHHHHH---HHHHHH-----TCCSEEEESCSTTCCCHHHHHSCTTCCCTTHHHHHH
T ss_pred             ---------CCHHHeEEcCCCCHHHHHHHH---HHHHHh-----cCCCEEEECCHHHhhccccccccccccchhHHHHHH
Confidence                     234678888887777665544   344443     4679999999999884 333322211  11233457


Q ss_pred             HHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcc
Q 022155          171 FKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRE  250 (302)
Q Consensus       171 ~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~  250 (302)
                      .++++.|+.++++++++||++||++..+...+                +...+|++|.+|.+.+++|++|.|.+...  +
T Consensus       496 s~~Lr~L~~~ak~~~v~VI~inQl~~~vg~~f----------------g~~~~p~gg~ale~~ADv~L~L~R~~~~~--~  557 (1706)
T 3cmw_A          496 SQAMRKLAGNLKQSNTLLIFINQIRMKIGVMF----------------GNPETTTGGNALKFYASVRLDIRRIGAVK--E  557 (1706)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEECEEECTTCCS----------------SCCEEESSCSHHHHHEEEEEEEEEEEEEE--E
T ss_pred             HHHHHHHHHHHHHcCCEEEEEeeccccccccc----------------CCCccCCCCcceeeeCCEEEEEEeccccc--c
Confidence            78899999999999999999999998765432                13467899999999999999999975321  1


Q ss_pred             cccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEe-cCcccc
Q 022155          251 NQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEIT-REGVFG  299 (302)
Q Consensus       251 ~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~-~~Gi~~  299 (302)
                      +....              ..+|.++|+|++..| ...+.|.|. +.||..
T Consensus       558 g~~~~--------------~~~~~l~V~KnR~gp~~~~~~F~I~~~~Gi~~  594 (1706)
T 3cmw_A          558 GENVV--------------GSETRVKVVKNKIAAPFKQAEFQILYGEGINF  594 (1706)
T ss_dssp             TTEEE--------------EEEEEEEEEEESSSCSCCEEEEEEETTTEECH
T ss_pred             Ccccc--------------CcEEEEEEEecCCCCCCCeEEEEEecCCCccc
Confidence            10000              257899999999885 567999974 678763

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=99.93  E-value=4.4e-25  Score=190.39  Aligned_cols=213  Identities=22%  Similarity=0.263  Sum_probs=145.1

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhC
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFR   97 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~   97 (302)
                      ++++||++.||++|+||+++|++++|+||||+|||||+++++...+   ..|+   +|+|++++.+  ..++.+....+.
T Consensus         3 ~~i~tG~~~LD~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~---~~~~---~v~~~~~e~~--~~~~~~~~~~~g   74 (247)
T 2dr3_A            3 RRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGL---KMGE---PGIYVALEEH--PVQVRQNMAQFG   74 (247)
T ss_dssp             CEECCCCTTHHHHTTTSEETTCEEEEEECTTSSHHHHHHHHHHHHH---HTTC---CEEEEESSSC--HHHHHHHHHTTT
T ss_pred             ccccCCchhHHHHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHH---hcCC---eEEEEEccCC--HHHHHHHHHHcC
Confidence            5789999999999999999999999999999999999999998875   4455   8999999865  344433333222


Q ss_pred             CCCCCCC--CCcEEEEeC----------------CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCC
Q 022155           98 PSNDHNP--CDYIFVQSV----------------HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNT  159 (302)
Q Consensus        98 ~~~~~~~--l~~i~~~~~----------------~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~  159 (302)
                      .. .+..  ..++.+...                ....++.+++..+.+.+.+     .++++||||+++.+...+    
T Consensus        75 ~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-----~~~~~vviD~~~~l~~~~----  144 (247)
T 2dr3_A           75 WD-VKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRD-----INAKRVVVDSVTTLYINK----  144 (247)
T ss_dssp             CC-CHHHHHHTSEEEEECSTTTTCC--CCCSCBCSCCSSHHHHHHHHHHHHHH-----HTCCEEEEETSGGGTTTC----
T ss_pred             CC-HHHHhhCCcEEEEecchhhcccccccccccccCccCHHHHHHHHHHHHHH-----hCCCEEEECCchHhhcCC----
Confidence            11 0000  012322221                0111233344555555543     356999999999976221    


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEE
Q 022155          160 MDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLF  239 (302)
Q Consensus       160 ~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~  239 (302)
                      .   ..    ..+++..|.+++++++++||+++|......                        +..+..|.+.++.+++
T Consensus       145 ~---~~----~~~~l~~l~~~~~~~~~~vi~~~h~~~~~~------------------------~~~~~~~~~~~D~vi~  193 (247)
T 2dr3_A          145 P---AM----ARSIILQLKRVLAGTGCTSIFVSQVSVGER------------------------GFGGPGVEHGVDGIIR  193 (247)
T ss_dssp             G---GG----HHHHHHHHHHHHHHTTCEEEEEEECC----------------------------CCC-CCHHHHSSEEEE
T ss_pred             H---HH----HHHHHHHHHHHHHHCCCeEEEEecCCCCcc------------------------cccccccceeEEEEEE
Confidence            1   11    224556777888899999999999865321                        0112358898899999


Q ss_pred             EEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCcccccC
Q 022155          240 LSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGVE  301 (302)
Q Consensus       240 l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~~  301 (302)
                      |.+.+.    .     +             ...|.++|.|+++.+  ...+.|.|+++||+.+.
T Consensus       194 L~~~~~----~-----~-------------~~~r~l~v~K~R~~~~~~~~~~f~i~~~Gi~~~~  235 (247)
T 2dr3_A          194 LDLDEI----D-----G-------------ELKRSLIVWKMRGTSHSMRRHPFDITDKGIIVYP  235 (247)
T ss_dssp             EEEEEE----T-----T-------------EEEEEEEEEEETTSCCCCBCEEEEEETTEEEECT
T ss_pred             EEEEcc----C-----C-------------eeEEEEEEEECCCCCCCCceEEEEEcCCCEEEec
Confidence            998754    1     1             358999999999875  36799999999998764

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.92  E-value=8.8e-24  Score=220.76  Aligned_cols=228  Identities=24%  Similarity=0.322  Sum_probs=176.6

Q ss_pred             CCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQL   92 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i   92 (302)
                      ....+.+|||+..||.+|+ ||+|+|.++||+||+|||||||++++++.++   ..|+   .|+|||.|+.+++..++.+
T Consensus      1406 ~~~~~~i~tG~~~lD~~lg~gG~prg~~iei~g~~~sGkttl~~~~~a~~~---~~g~---~~~~i~~e~~~~~~~~~~~ 1479 (1706)
T 3cmw_A         1406 SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGK---TCAFIDAEHALDPIYARKL 1479 (1706)
T ss_dssp             GGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEECTTSCCCHHHHHHT
T ss_pred             CCcCceecCCCHHHHHhcCCCCCCCCCEEEEEcCCCCCHHHHHHHHHHHHH---hcCC---eEEEEecCCCCCHHHHHHc
Confidence            4568999999999999999 6999999999999999999999999999887   6787   9999999999998876666


Q ss_pred             HHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChhh----HHHHH
Q 022155           93 SHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMDD----LKKRS  167 (302)
Q Consensus        93 ~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~~----~~~r~  167 (302)
                      +         ..++++++.++.+.++.++++.   .++.+     ..+++|||||++++.. .+..+++++    ++.| 
T Consensus      1480 G---------v~~~~l~~~~p~~~e~~l~~~~---~~~~s-----~~~~~vvvDsv~al~~~~e~~~~~~~~~~~~~ar- 1541 (1706)
T 3cmw_A         1480 G---------VDIDNLLCSQPDTGEQALEICD---ALARS-----GAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAAR- 1541 (1706)
T ss_dssp             T---------CCGGGCEEECCSSHHHHHHHHH---HHHHH-----TCCSEEEESCSTTCCCTTTTC-------CCHHHH-
T ss_pred             C---------CCHHHeEEeCCCcHHHHHHHHH---HHHHc-----CCCCEEEEccHHhCCccccccccccccchhHHHH-
Confidence            5         3467899999999877655544   55554     6789999999999885 355544443    3444 


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                       +|.+.+++|...+++.++++|++||++.++..++|                .+-+..+|.+.....+.|+-+.|....+
T Consensus      1542 -~m~~~lr~l~~~~~~~~~~~i~~~~~~~~~~~~~~----------------~~~~~~~g~al~~~~~~r~~~~~~~~~~ 1604 (1706)
T 3cmw_A         1542 -MMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFG----------------NPETTTGGNALKFYASVRLDIRRIGAVK 1604 (1706)
T ss_dssp             -HHHHHHHHHHHHHHHHTCEEEEEECBC------------------------CCCCBSSCSHHHHHEEEEEEEEEEEEEE
T ss_pred             -HHHHHHHHHHHHHHhCCcEEEEeeccccccceecC----------------CCccccCcceeeeeeeeeeeeeeccccc
Confidence             56677888888889999999999999998876553                2445678999999999999999987644


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCC-CCceeeEEEe-cCccc
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL-ADTSCEFEIT-REGVF  298 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~-~~~~~~F~I~-~~Gi~  298 (302)
                        ++.++.|              .+.+++|+|+.-. |...++|.|- ..||.
T Consensus      1605 --~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1641 (1706)
T 3cmw_A         1605 --EGENVVG--------------SETRVKVVKNKIAAPFKQAEFQILYGEGIN 1641 (1706)
T ss_dssp             --ETTEEEE--------------EEEEEEEEEESSSCSCCEEEEEEETTTEEC
T ss_pred             --cCCeeEe--------------eEEEEEEecccCCCCcceEEEEEEecCCcC
Confidence              3333444              6789999998877 6799999998 56775

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=99.91  E-value=1e-22  Score=173.76  Aligned_cols=212  Identities=21%  Similarity=0.277  Sum_probs=141.3

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhC
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFR   97 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~   97 (302)
                      +.++||++.||.++.||+++|+++.|+||||+|||||+.+++....   ..++   +|+|++.+..  .+++......+.
T Consensus         3 ~~i~tg~~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~---~~~~---~v~~~~~~~~--~~~~~~~~~~~~   74 (235)
T 2w0m_A            3 SRLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGL---RDGD---PCIYVTTEES--RDSIIRQAKQFN   74 (235)
T ss_dssp             CEECCSCHHHHGGGTTSEETTCEEEEECSTTSSHHHHHHHHHHHHH---HHTC---CEEEEESSSC--HHHHHHHHHHTT
T ss_pred             ccccCCchHHHHHhcCCCcCCCEEEEEcCCCCCHHHHHHHHHHHHH---HCCC---eEEEEEcccC--HHHHHHHHHHhc
Confidence            4789999999999989999999999999999999999999998764   3454   8999998764  444433332322


Q ss_pred             CCCCCCCCCcEEEEeC-------------CCHHHHHHHHHHHHHHHHhccCCCCCee--EEEEechhhhhhhccCCChhh
Q 022155           98 PSNDHNPCDYIFVQSV-------------HSVDQLLDIMPKIESFIKNSSNSRLPIR--LIVIDSIAALFRSDFDNTMDD  162 (302)
Q Consensus        98 ~~~~~~~l~~i~~~~~-------------~~~~~l~~~l~~l~~~l~~~~~~~~~~~--lvVIDsi~~~~~~~~~~~~~~  162 (302)
                      .........++.+...             .+..++.   ..+.+.+..     .+++  +||||+++.++..+    .  
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-----~~~~~~llilDe~~~~~~~d----~--  140 (235)
T 2w0m_A           75 WDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELV---NKVIEAKQK-----LGYGKARLVIDSVSALFLDK----P--  140 (235)
T ss_dssp             CCCGGGBTTTEEEEECCC----CTTBCSSCCHHHHH---HHHHHHHHH-----HCSSCEEEEEETGGGGSSSC----G--
T ss_pred             chHHHHhhCCEEEEeccccccCceeeecCCCHHHHH---HHHHHHHHh-----hCCCceEEEEECchHhhcCC----H--
Confidence            1111001112222211             1334433   333333332     2458  99999999875322    1  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEE
Q 022155          163 LKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR  242 (302)
Q Consensus       163 ~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~  242 (302)
                       ..    ...++..|++++++++++||+++|.... ...                   ..    +..|.+.++..++|.+
T Consensus       141 -~~----~~~~~~~l~~~~~~~~~~vi~~~h~~~~-~~~-------------------~~----~~~~~~~~d~vi~l~~  191 (235)
T 2w0m_A          141 -AM----ARKISYYLKRVLNKWNFTIYATSQYAIT-TSQ-------------------AF----GFGVEHVADGIIRFRR  191 (235)
T ss_dssp             -GG----HHHHHHHHHHHHHHTTEEEEEEEC-----------------------------------CHHHHCSEEEEEEE
T ss_pred             -HH----HHHHHHHHHHHHHhCCCeEEEEeccCcc-ccc-------------------cc----ccchheeeeEEEEEEE
Confidence             11    2467788899999999999999998641 110                   00    1457888899999988


Q ss_pred             ecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecC-cccccCC
Q 022155          243 NEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITRE-GVFGVER  302 (302)
Q Consensus       243 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~-Gi~~~~~  302 (302)
                      ...    +     +             ...|.++|.|+++.+  ...+.|+|++. ||+.+.|
T Consensus       192 ~~~----~-----~-------------~~~r~l~v~K~r~~~~~~~~~~f~i~~~~Gi~~~~~  232 (235)
T 2w0m_A          192 MIR----N-----G-------------ELHRYILIEKMRQTDHDKHVWEIDIVNGKGIVLKGR  232 (235)
T ss_dssp             EEE----T-----T-------------EEEEEEEEEEETTCCCCCSCEEEEEETTTEEEEEEE
T ss_pred             Eec----C-----C-------------cEEEEEEEEeccCCcccceeEEEEEcCCCCeEEecC
Confidence            654    1     1             368999999998875  36899999999 9987643

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=99.90  E-value=3.5e-22  Score=179.14  Aligned_cols=220  Identities=18%  Similarity=0.164  Sum_probs=146.2

Q ss_pred             CCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQL   92 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i   92 (302)
                      .....++||++.||.++ ||+++|+++.|+|+||+|||+|+++++.+++   ..|.   +|+||+.|.+...  .|+...
T Consensus        46 ~~~~~i~TG~~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a---~~g~---~vl~~slE~s~~~l~~R~~~~  118 (315)
T 3bh0_A           46 GNITGVPSGFTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMS---DNDD---VVNLHSLEMGKKENIKRLIVT  118 (315)
T ss_dssp             SSCCSBCCSCHHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHH---TTTC---EEEEEESSSCHHHHHHHHHHH
T ss_pred             CCCCCccCChHHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHH---HcCC---eEEEEECCCCHHHHHHHHHHH
Confidence            33678999999999999 8999999999999999999999999999886   3444   8999999954321  222222


Q ss_pred             HHHhC------C---CCCCC-----------CCCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCee--EEEEech
Q 022155           93 SHTFR------P---SNDHN-----------PCDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIR--LIVIDSI  148 (302)
Q Consensus        93 ~~~~~------~---~~~~~-----------~l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~--lvVIDsi  148 (302)
                      ...+.      .   .....           .-.++++....  +..+   +...+..+..+     .+++  +||||++
T Consensus       119 ~~~i~~~~l~~~~~~l~~~~~~~l~~a~~~l~~~~i~i~d~~~~~~~~---i~~~i~~l~~~-----~~~~~~lVVID~l  190 (315)
T 3bh0_A          119 AGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNY---IWSKTRQTKRK-----NPGKRVIVMIDYL  190 (315)
T ss_dssp             HTTCCHHHHHSCHHHHCSSCHHHHHHHHHHHHTSCEEEECCSCCBHHH---HHHHHHHHHHT-----SSSCCEEEEEECG
T ss_pred             HcCCCHHHHhcCCCCCCHHHHHHHHHHHHHHhCCCEEEECCCCCCHHH---HHHHHHHHHHh-----cCCCCeEEEEeCc
Confidence            11110      0   00000           01256665543  4444   44445555543     4568  9999999


Q ss_pred             hhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC--
Q 022155          149 AALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL--  226 (302)
Q Consensus       149 ~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l--  226 (302)
                      +.+.... ..     ..|.+.+..+++.|+.+|++++|+||+++|+........                  ...|.+  
T Consensus       191 ~~l~~~~-~~-----~~r~~~i~~~~~~Lk~lAk~~~i~vi~lsql~r~~e~r~------------------~~~p~l~d  246 (315)
T 3bh0_A          191 QLLEPAK-AN-----DSRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQRQ------------------DKRPMLSD  246 (315)
T ss_dssp             GGSBCSC-TT-----SCHHHHHHHHHHHHHHHHHHHTCEEEEEECCCGGGTTSS------------------SCCCCGGG
T ss_pred             hhcCCCC-CC-----CCHHHHHHHHHHHHHHHHHHhCCeEEEEeecCcccccCC------------------CCCCCHHH
Confidence            9976321 10     124445789999999999999999999999976543211                  112222  


Q ss_pred             ---CchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeE
Q 022155          227 ---GIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEF  290 (302)
Q Consensus       227 ---G~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F  290 (302)
                         ...+.+.+++.++|.+.+.. ..+.                .....|.+.|.|.++.+...+.+
T Consensus       247 lr~sg~ie~~aD~vi~L~r~~~~-~~~~----------------~~~~~~~l~v~K~R~G~~g~~~l  296 (315)
T 3bh0_A          247 LRESGQLEQDADIIEFLYRDDYY-DKES----------------ESKNIVEVIIAKHRDGPVGTVSL  296 (315)
T ss_dssp             GTTTSHHHHHCSEEEEEEEHHHH-CTTC----------------TTTTEEEEEEEEETTSCCEEEEE
T ss_pred             hhhhhhhHhhCCEEEEEeccccc-Cccc----------------cCCCcEEEEEECCcCCCCceEEE
Confidence               24688999999999986431 0000                00247899999999877665443

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=99.89  E-value=1.4e-21  Score=183.20  Aligned_cols=224  Identities=17%  Similarity=0.232  Sum_probs=146.9

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHH-HHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLH-QLSH   94 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~-~i~~   94 (302)
                      ....++||++.||.++ ||+++|++++|+|+||+|||+||++++.+++.  ..|.   +|+||+.|.+  .+.+. .+..
T Consensus       179 ~~~~i~tG~~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~--~~g~---~vl~~slE~~--~~~l~~R~~~  250 (444)
T 2q6t_A          179 EVAGVRTGFKELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAAL--KEGV---GVGIYSLEMP--AAQLTLRMMC  250 (444)
T ss_dssp             ----CCCSCHHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCC---CEEEEESSSC--HHHHHHHHHH
T ss_pred             CCCcccCCCHhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHH--hCCC---eEEEEECCCC--HHHHHHHHHH
Confidence            3578999999999999 89999999999999999999999999999862  1244   8999999965  33322 2221


Q ss_pred             HhCCCCCCCC---------------------CCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhh
Q 022155           95 TFRPSNDHNP---------------------CDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAAL  151 (302)
Q Consensus        95 ~~~~~~~~~~---------------------l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~  151 (302)
                      ..........                     ..++++....  +..++   ...+..+..+     .++++||||+++.+
T Consensus       251 ~~~~i~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~l---~~~~~~l~~~-----~~~~lIvID~l~~~  322 (444)
T 2q6t_A          251 SEARIDMNRVRLGQLTDRDFSRLVDVASRLSEAPIYIDDTPDLTLMEV---RARARRLVSQ-----NQVGLIIIDYLQLM  322 (444)
T ss_dssp             HHTTCCTTTCCGGGCCHHHHHHHHHHHHHHHTSCEEEECCTTCBHHHH---HHHHHHHHHH-----SCCCEEEEECGGGC
T ss_pred             HHcCCCHHHHhCCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHH---HHHHHHHHHH-----cCCCEEEEcChhhc
Confidence            1111111100                     1245655443  44444   4445555544     46799999999997


Q ss_pred             hhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCc---
Q 022155          152 FRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGI---  228 (302)
Q Consensus       152 ~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~---  228 (302)
                      .... ...  ....|.+.+..+++.|+.+|++++|+||+++|+.......                  ....|.++.   
T Consensus       323 ~~~~-~~~--~~~~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r------------------~~~~p~l~dlr~  381 (444)
T 2q6t_A          323 SGPG-SGK--SGENRQQEIAAISRGLKALARELGIPIIALSQLSRAVEAR------------------PNKRPMLSDLRE  381 (444)
T ss_dssp             BCC----------CHHHHHHHHHHHHHHHHHHHTSCEEEEEECCGGGGSS------------------SSCSCCGGGGGG
T ss_pred             CCCc-CCC--CCCCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccC------------------CCCCCChHHhcc
Confidence            5320 000  0123555678999999999999999999999997654321                  123455443   


Q ss_pred             --hhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEe
Q 022155          229 --AWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEIT  293 (302)
Q Consensus       229 --~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~  293 (302)
                        .|.+.++.+++|.+.+..    +.        ++     .....|.+.|.|.++.|...+.+.-.
T Consensus       382 Sg~ie~~aD~vi~L~r~~~~----~~--------~~-----~~~~~~~l~i~K~R~g~~g~~~l~f~  431 (444)
T 2q6t_A          382 SGSIEQDADLVMFIYRDEYY----NP--------HS-----EKAGIAEIIVGKQRNGPTGTVELQFH  431 (444)
T ss_dssp             GCTTGGGCSEEEEEEEGGGT----CS--------SS-----SCCSEEEEEEEECSSSCCEEEEEEEE
T ss_pred             hhHHHHhCCEEEEEeccccc----CC--------cC-----CCCCeEEEEEEecCCCCceEEEEEEE
Confidence              578899999999987541    00        00     01357999999999888765544433

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=99.87  E-value=2.3e-20  Score=174.37  Aligned_cols=223  Identities=17%  Similarity=0.155  Sum_probs=149.5

Q ss_pred             CCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHHHH
Q 022155           15 LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLHQL   92 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~~i   92 (302)
                      .....++||++.||+++ ||+++|+++.|+|+||+|||+|++++|.+++   ..|.   +|+||+.|.+...  .|+...
T Consensus       175 ~~~~gi~TG~~~LD~~l-gGl~~G~liiIaG~pG~GKTtlal~ia~~~a---~~g~---~vl~fSlEms~~ql~~R~~~~  247 (444)
T 3bgw_A          175 GNITGVPSGFTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMS---DNDD---VVNLHSLEMGKKENIKRLIVT  247 (444)
T ss_dssp             SSCCSBCCSCHHHHHHH-SSBCSSCEEEEEECSSSSHHHHHHHHHHHHH---HTTC---EEEEECSSSCTTHHHHHHHHH
T ss_pred             cCCCCcCCCcHHHHhhc-CCCCCCcEEEEEeCCCCChHHHHHHHHHHHH---HcCC---EEEEEECCCCHHHHHHHHHHH
Confidence            34678999999999999 6999999999999999999999999999986   3355   8999999976543  232221


Q ss_pred             HHHhC-------C--CCCCC-----------CCCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCee--EEEEech
Q 022155           93 SHTFR-------P--SNDHN-----------PCDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIR--LIVIDSI  148 (302)
Q Consensus        93 ~~~~~-------~--~~~~~-----------~l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~--lvVIDsi  148 (302)
                      ...+.       .  .....           .-.++++....  +..++   ...+..+..+     .+++  +||||++
T Consensus       248 ~~~i~~~~l~~g~~~l~~~~~~~l~~a~~~l~~~~l~i~d~~~~s~~~i---~~~ir~l~~~-----~~~~~~lIVID~L  319 (444)
T 3bgw_A          248 AGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYI---WSKTRQTKRK-----NPGKRVIVMIDYL  319 (444)
T ss_dssp             HSCCCHHHHHHTGGGTCCSCHHHHHHHHHHHHTSCEEEECCSSCBHHHH---HHHHHHHHHH-----SCSSCEEEEEECS
T ss_pred             HcCCCHHHHhcccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHH---HHHHHHHHHH-----hCCCCeEEEEecH
Confidence            11000       0  11100           01356665543  44444   4445555544     4578  9999999


Q ss_pred             hhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCC-
Q 022155          149 AALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALG-  227 (302)
Q Consensus       149 ~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG-  227 (302)
                      +.+..... .     ..|.+.+..+++.|+.+|++++|+||+++|+........                  ...|.+. 
T Consensus       320 q~~~~~~~-~-----~~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r~------------------~krp~lsd  375 (444)
T 3bgw_A          320 QLLEPAKA-N-----DSRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQRQ------------------DKRPMLSD  375 (444)
T ss_dssp             TTSBCSCS-S-----SCHHHHHHHHHHHHHHHHHHHTCEEEEEEECCGGGGGSS------------------CCCCCGGG
T ss_pred             HhccCCCC-C-----CCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCccccccC------------------CCCCchhh
Confidence            98753211 1     124445789999999999999999999999976543210                  1223322 


Q ss_pred             ----chhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEe
Q 022155          228 ----IAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEIT  293 (302)
Q Consensus       228 ----~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~  293 (302)
                          ..+.+.+++.++|.|.+.. ..+           +     .....+.+.|.|.++.|...+.+...
T Consensus       376 lr~Sg~ieq~aD~Vi~L~r~~~~-~~~-----------~-----~~~~~~~l~i~K~R~G~~g~v~l~f~  428 (444)
T 3bgw_A          376 LRESGQLEQDADIIEFLYRDDYY-DKE-----------S-----ESKNIVEVIIAKHRDGPVGTVSLAFI  428 (444)
T ss_dssp             CCSCSHHHHHCSEEEECCBGGGT-CTT-----------C-----SSTTEEEEEEEEESSSCCEEEEEEEE
T ss_pred             hhhhhhHHhhCCEEEEEeccccc-ccc-----------c-----cCCCeEEEEEEcccCCCCeEEEEEEE
Confidence                3688999999999986531 000           0     00247899999999887765544443

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=99.87  E-value=2.2e-20  Score=177.66  Aligned_cols=231  Identities=13%  Similarity=0.071  Sum_probs=150.9

Q ss_pred             CCCCcccc-CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHH-HH
Q 022155           15 LTTEKCTV-GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLH-QL   92 (302)
Q Consensus        15 ~~~~~i~t-G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~-~i   92 (302)
                      .....++| |++.||.++ ||+++|++++|+|+||+|||+|++++|.+++.  ..|.   +|+||++|.+  .+++. .+
T Consensus       219 ~~~~~i~t~G~~~LD~~l-gGl~~G~l~li~G~pG~GKT~lal~~a~~~a~--~~g~---~vl~~s~E~s--~~~l~~r~  290 (503)
T 1q57_A          219 EESVGLLFSGCTGINDKT-LGARGGEVIMVTSGSGMVMSTFVRQQALQWGT--AMGK---KVGLAMLEES--VEETAEDL  290 (503)
T ss_dssp             SCTTCSCCSSCTTHHHHH-CCCCTTCEEEEEESSCHHHHHHHHHHHHHHTT--TSCC---CEEEEESSSC--HHHHHHHH
T ss_pred             cccCCccccchhhhhHhh-cccCCCeEEEEeecCCCCchHHHHHHHHHHHH--hcCC---cEEEEeccCC--HHHHHHHH
Confidence            34678999 999999999 69999999999999999999999999999862  1254   8999999975  33322 22


Q ss_pred             H-HHhCCCCC------------CC---------CCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155           93 S-HTFRPSND------------HN---------PCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus        93 ~-~~~~~~~~------------~~---------~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      . ........            +.         ...++++........+.+++..+..+..+     .++++||||+|+.
T Consensus       291 ~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~~~-----~~~~lvVID~l~~  365 (503)
T 1q57_A          291 IGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSG-----LGCDVIILDHISI  365 (503)
T ss_dssp             HHHHTTSCCTTCHHHHHHHHHTSHHHHHHHHHHTTTCEEEECCC---CHHHHHHHHHHHHHT-----TCCSEEEEECTTC
T ss_pred             HHHHcCCChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHh-----cCCCEEEEccchh
Confidence            1 11111000            00         02456666543223344455566666554     4689999999998


Q ss_pred             hhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCcccc-----
Q 022155          151 LFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPA-----  225 (302)
Q Consensus       151 ~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-----  225 (302)
                      +.... . .    ..|.+.+.++++.|+.+|++++|+||+++|+.. .......              .....|.     
T Consensus       366 l~~~~-~-~----~~~~~~~~~~~~~Lk~lak~~~i~vi~~~q~~r-~~~~~~~--------------~~~~~p~l~dlr  424 (503)
T 1q57_A          366 VVSAS-G-E----SDERKMIDNLMTKLKGFAKSTGVVLVVICHLKN-PDKGKAH--------------EEGRPVSITDLR  424 (503)
T ss_dssp             CCSCC-S-C----CCHHHHHHHHHHHHHHHHHHHTCEEEEEEECCC-CSSSSCS--------------TTCCCCCSSSCS
T ss_pred             cCCCC-C-C----CCHHHHHHHHHHHHHHHHHHHCCeEEEEEcCCc-hhccCcc--------------ccCCCCChhhhc
Confidence            65321 1 1    123445788999999999999999999999986 2211000              0011121     


Q ss_pred             CCchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECC-CCCCcee---eEEEecCccccc
Q 022155          226 LGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAP-HLADTSC---EFEITREGVFGV  300 (302)
Q Consensus       226 lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~-~~~~~~~---~F~I~~~Gi~~~  300 (302)
                      ....|.+.+++.++|.+.+.    ++    .             ...|.+.|.|.+ ..+...+   .|......+.++
T Consensus       425 ~s~~ie~~aD~vi~l~r~~~----~~----~-------------~~~~~l~v~K~R~~G~~g~~~~l~f~~~~~~f~~~  482 (503)
T 1q57_A          425 GSGALRQLSDTIIALERNQQ----GD----M-------------PNLVLVRILKCRFTGDTGIAGYMEYNKETGWLEPS  482 (503)
T ss_dssp             SSSHHHHHCSEEEEEEECSS----SS----C-------------TTEEEEEEEEETTTCCCEEEEEEEECTTTCCEEEE
T ss_pred             cchHhhecCcEEEEEEeCCc----CC----C-------------CCeEEEEEEeccCCCCCCceEEEEEEcCCceEecC
Confidence            13568999999999998754    00    0             247999999999 4665543   454444555443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=99.85  E-value=3.8e-20  Score=173.83  Aligned_cols=221  Identities=15%  Similarity=0.182  Sum_probs=144.9

Q ss_pred             CCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHH-HH-
Q 022155           15 LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLH-QL-   92 (302)
Q Consensus        15 ~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~-~i-   92 (302)
                      .....++||++.||+++ ||+++|+++.|+|+||+|||+|+++++.+++.  ..|.   +|+|++.|.+.  +.+. .+ 
T Consensus       181 ~~~~~i~tG~~~LD~~~-gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~--~~g~---~Vl~~s~E~s~--~~l~~r~~  252 (454)
T 2r6a_A          181 GEITGIPTGFTELDRMT-SGFQRSDLIIVAARPSVGKTAFALNIAQNVAT--KTNE---NVAIFSLEMSA--QQLVMRML  252 (454)
T ss_dssp             CCCCSBCCSCHHHHHHH-SSBCTTCEEEEECCTTSCHHHHHHHHHHHHHH--HSSC---CEEEEESSSCH--HHHHHHHH
T ss_pred             CCCCCCCCCcHHHHhhc-CCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH--hCCC---cEEEEECCCCH--HHHHHHHH
Confidence            34678999999999998 89999999999999999999999999999852  1344   79999998653  2221 11 


Q ss_pred             HHHhCC---------CCCC-----------CCCCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155           93 SHTFRP---------SNDH-----------NPCDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus        93 ~~~~~~---------~~~~-----------~~l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      ......         ....           ....++++....  +..++.   ..+..+...     .++++||||+++.
T Consensus       253 ~~~~~~~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~i~---~~~~~l~~~-----~~~~livID~l~~  324 (454)
T 2r6a_A          253 CAEGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDIR---AKCRRLKQE-----SGLGMIVIDYLQL  324 (454)
T ss_dssp             HHHHTCCHHHHHTSCCCHHHHHHHHHHHHHHHSSCEEEECCTTCCHHHHH---HHHHHHHTT-----TCCCEEEEECGGG
T ss_pred             HHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHH---HHHHHHHHH-----cCCCEEEEccHHH
Confidence            111110         0000           001245555442  444443   444444433     4679999999999


Q ss_pred             hhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCC---
Q 022155          151 LFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALG---  227 (302)
Q Consensus       151 ~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG---  227 (302)
                      +.......     ..|.+.+..+++.|+.+|++++++||+++|+.......                  ....|.++   
T Consensus       325 ~~~~~~~~-----~~~~~~i~~i~~~Lk~lAke~~i~vi~~sql~r~~e~~------------------~~~~p~lsdlr  381 (454)
T 2r6a_A          325 IQGSGRSK-----ENRQQEVSEISRSLKALARELEVPVIALSQLSRSVEQR------------------QDKRPMMSDIR  381 (454)
T ss_dssp             SCCSCC---------CHHHHHHHHHHHHHHHHHHTCCEEEEECCCTTSTTC---------------------CCCTHHHH
T ss_pred             hccCCCCC-----CCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccC------------------CCCCCcHHHhh
Confidence            76432110     12344578999999999999999999999997654421                  12234432   


Q ss_pred             --chhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEE
Q 022155          228 --IAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFE  291 (302)
Q Consensus       228 --~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~  291 (302)
                        ..+.+.++..++|.+.+... .+.                .....|.+.|.|.++.|...+.+.
T Consensus       382 ~Sg~ie~~aD~vi~l~r~~~~~-~~~----------------~~~~~~~l~i~K~R~G~~g~v~l~  430 (454)
T 2r6a_A          382 ESGSIEQDADIVAFLYRDDYYN-KDS----------------ENKNIIEIIIAKQRNGPVGTVQLA  430 (454)
T ss_dssp             TTCSHHHHCSEEEEEEETTC------------------------CCEEEEEEEEESSSCCEEEEEE
T ss_pred             ccchhHhhCCEEEEEecccccC-ccc----------------CCCCeEEEEEecccCCCCeEEEEE
Confidence              35788999999999865410 000                002578999999998876654443

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=99.82  E-value=6.6e-20  Score=164.74  Aligned_cols=194  Identities=18%  Similarity=0.199  Sum_probs=129.8

Q ss_pred             CCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--HHHH
Q 022155           13 NPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--RRLH   90 (302)
Q Consensus        13 ~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--~rl~   90 (302)
                      .......++||++.||+++ ||+++|+++.|+|+||+|||+|++++|.+++   ..|.   +|+||+.|.+...  .|+.
T Consensus        22 ~~~~~~gi~TG~~~LD~~~-gGl~~G~LiiIaG~pG~GKTt~al~ia~~~a---~~g~---~Vl~fSlEms~~ql~~Rll   94 (338)
T 4a1f_A           22 GSLEVTGIPTGFVQLDNYT-SGFNKGSLVIIGARPSMGKTSLMMNMVLSAL---NDDR---GVAVFSLEMSAEQLALRAL   94 (338)
T ss_dssp             TTTCCCSBCCSCHHHHHHH-CSBCTTCEEEEEECTTSCHHHHHHHHHHHHH---HTTC---EEEEEESSSCHHHHHHHHH
T ss_pred             CCCCcCcccCCChHHHHHh-cCCCCCcEEEEEeCCCCCHHHHHHHHHHHHH---HcCC---eEEEEeCCCCHHHHHHHHH
Confidence            3445789999999999998 6999999999999999999999999999986   3455   8999999965322  2221


Q ss_pred             HHHHHh-------CCCCCC---------C--CCCcEEEEeCC--CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155           91 QLSHTF-------RPSNDH---------N--PCDYIFVQSVH--SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus        91 ~i~~~~-------~~~~~~---------~--~l~~i~~~~~~--~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      ......       ......         .  .-.++++....  +..++.   ..+..+...    ..++++||||+|+.
T Consensus        95 s~~~~v~~~~l~~g~Ls~~e~~~l~~a~~~l~~~~l~I~d~~~~si~~i~---~~ir~l~~~----~gg~~lIVIDyLql  167 (338)
T 4a1f_A           95 SDLTSINMHDLESGRLDDDQWENLAKCFDHLSQKKLFFYDKSYVRIEQIR---LQLRKLKSQ----HKELGIAFIDYLQL  167 (338)
T ss_dssp             HHHHCCCHHHHHHTCCCHHHHHHHHHHHHHHHHSCEEEECCTTCCHHHHH---HHHHHHHHH----CTTEEEEEEEEEEC
T ss_pred             HHhhCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCcHHHHH---HHHHHHHHh----cCCCCEEEEechHH
Confidence            111000       000000         0  00246665443  444444   444444443    22689999999998


Q ss_pred             hhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC----
Q 022155          151 LFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL----  226 (302)
Q Consensus       151 ~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l----  226 (302)
                      +.....      ...|.+.+..+++.|+.||++++|+||+++|+........                  ...|.+    
T Consensus       168 m~~~~~------~~~r~~ei~~isr~LK~lAkel~vpVi~lsQl~R~~e~r~------------------dkrP~lsDLr  223 (338)
T 4a1f_A          168 MSGSKA------TKERHEQIAEISRELKTLARELEIPIIALVQLNRSLENRD------------------DKRPILSDIK  223 (338)
T ss_dssp             CCTHHH------HHHCCCCHHHHHHHHHHHHHHHTSCEEEEEECCGGGGGSS------------------SCSCCGGGSE
T ss_pred             hcCCCC------CCChHHHHHHHHHHHHHHHHHcCCeEEEEEecCccccccc------------------cCCCChHhcc
Confidence            754221      1234444789999999999999999999999987654321                  112221    


Q ss_pred             -CchhhhhcceEEEEEEec
Q 022155          227 -GIAWANCVNSRLFLSRNE  244 (302)
Q Consensus       227 -G~~w~~~~~~rl~l~~~~  244 (302)
                       .-++.+-++..++|.|.+
T Consensus       224 eSg~IeqdAD~Vl~l~R~~  242 (338)
T 4a1f_A          224 DSGGIEQDADIVLFLYRGY  242 (338)
T ss_dssp             ETTEECCCCSEEEEEECHH
T ss_pred             cchhhhhhCcEEEEEecch
Confidence             234667789999999975

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=99.81  E-value=1.8e-18  Score=153.54  Aligned_cols=229  Identities=14%  Similarity=0.118  Sum_probs=138.2

Q ss_pred             CCCCcccc-CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHH
Q 022155           15 LTTEKCTV-GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQL   92 (302)
Q Consensus        15 ~~~~~i~t-G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i   92 (302)
                      .....++| |++.||.++ +|+++|+++.|+|+||+|||||+++++.....  ..|+   +|+|++.+.+  ...+ ..+
T Consensus        12 ~~~~~i~t~g~~~Ld~i~-~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~--~~G~---~v~~~~~e~~--~~~~~~r~   83 (296)
T 1cr0_A           12 EESVGLLFSGCTGINDKT-LGARGGEVIMVTSGSGMGKSTFVRQQALQWGT--AMGK---KVGLAMLEES--VEETAEDL   83 (296)
T ss_dssp             CCCCCBCCCSCTTHHHHH-CSBCTTCEEEEEESTTSSHHHHHHHHHHHHHH--TSCC---CEEEEESSSC--HHHHHHHH
T ss_pred             CCcCCcccCCHHHHHHHh-cCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHH--HcCC---eEEEEeCcCC--HHHHHHHH
Confidence            34678999 999999997 89999999999999999999999999998741  2354   7999998853  3222 222


Q ss_pred             HHHhCCCCCC--------------------CC--CCcEEEEeC---CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEec
Q 022155           93 SHTFRPSNDH--------------------NP--CDYIFVQSV---HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDS  147 (302)
Q Consensus        93 ~~~~~~~~~~--------------------~~--l~~i~~~~~---~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDs  147 (302)
                      ..........                    ..  ..++.+...   .+..++.+   .+.....     ..++++||||+
T Consensus        84 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~l~i~~~~~~~~~~~l~~---~~~a~~~-----~~~p~llilDe  155 (296)
T 1cr0_A           84 IGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLA---KLAYMRS-----GLGCDVIILDH  155 (296)
T ss_dssp             HHHHTTCCGGGCHHHHHHHHHHTHHHHHHHHHHSSSCEEEECCCCSCCHHHHHH---HHHHHHH-----TTCCSEEEEEE
T ss_pred             HHHHcCCChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHH---HHHHHHH-----hcCCCEEEEcC
Confidence            2221111100                    01  124555433   34555433   3332222     13569999999


Q ss_pred             hhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCC
Q 022155          148 IAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALG  227 (302)
Q Consensus       148 i~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG  227 (302)
                      ++.+.... .    . ..+...+..+++.|++++++++++||+++|... ......              ......|.++
T Consensus       156 pt~~~~~~-~----~-~d~~~~~~~i~~~L~~la~~~~~~vi~vsh~~r-~~~~~~--------------~~~~~~p~l~  214 (296)
T 1cr0_A          156 ISIVVSAS-G----E-SDERKMIDNLMTKLKGFAKSTGVVLVVICHLKN-PDKGKA--------------HEEGRPVSIT  214 (296)
T ss_dssp             EC-----------------CHHHHHHHHHHHHHHHHHCCEEEEEEECC--------------------------------
T ss_pred             ccccCCCC-C----C-CCHHHHHHHHHHHHHHHHHHhCCeEEEEEecCc-cccccc--------------cccCCCCCHH
Confidence            99976321 0    0 111122568889999999999999999999863 110000              0011223332


Q ss_pred             c-----hhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCC-CCCce---eeEEEecCccc
Q 022155          228 I-----AWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPH-LADTS---CEFEITREGVF  298 (302)
Q Consensus       228 ~-----~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~-~~~~~---~~F~I~~~Gi~  298 (302)
                      .     .+.+.++..++|.+....   +     +             ...|.+.|.|.++ .+...   +.|.+...|+.
T Consensus       215 dl~~s~~i~~~aD~vi~L~~~~~~---~-----~-------------~~~~~l~i~K~R~~g~~g~~~~~~f~~~~~~f~  273 (296)
T 1cr0_A          215 DLRGSGALRQLSDTIIALERNQQG---D-----M-------------PNLVLVRILKCRFTGDTGIAGYMEYNKETGWLE  273 (296)
T ss_dssp             CCC---CHHHHCSEEEEEEEC----------------------------CEEEEEEEETTTCCCEEEEEEEECTTTCCEE
T ss_pred             HhcccHHhHhhCcEEEEEecCccc---C-----C-------------CCeEEEEEEccccCCCCCceEEEEEEcCccEEe
Confidence            2     677889999999886430   0     0             2479999999995 66543   57888889998


Q ss_pred             ccC
Q 022155          299 GVE  301 (302)
Q Consensus       299 ~~~  301 (302)
                      +++
T Consensus       274 ~~~  276 (296)
T 1cr0_A          274 PSS  276 (296)
T ss_dssp             ECC
T ss_pred             cCC
Confidence            764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=99.79  E-value=4.4e-19  Score=156.18  Aligned_cols=158  Identities=20%  Similarity=0.309  Sum_probs=101.4

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCC--------CCCeEEEEeCCCCCCH--
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGG--------LSASSLYLHTEFPFPM--   86 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg--------~~~~vlyid~e~~~~~--   86 (302)
                      .+.++||++.||.++ ||+++|++++|+||||+|||||+++++..++    .|.        ...+|+|++.|.....  
T Consensus        10 ~~~i~tg~~~ld~~l-ggl~~G~i~~i~G~~GsGKTtl~~~l~~~~~----~g~~~~g~~~~~~~~v~~~~~e~~~~~~~   84 (279)
T 1nlf_A           10 LEAFAAAPPPLDYVL-PNMVAGTVGALVSPGGAGKSMLALQLAAQIA----GGPDLLEVGELPTGPVIYLPAEDPPTAIH   84 (279)
T ss_dssp             HHHHHSCCCCCCEEE-TTEETTSEEEEEESTTSSHHHHHHHHHHHHH----TCCCTTCCCCCCCCCEEEEESSSCHHHHH
T ss_pred             HHHhcCCCCChheeE-CCccCCCEEEEEcCCCCCHHHHHHHHHHHHh----cCCCcCCCccCCCccEEEEECCCCHHHHH
Confidence            567899999999999 5999999999999999999999999998764    120        0137999999976432  


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEEeC-------CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCC
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQSV-------HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNT  159 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~~~-------~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~  159 (302)
                      .|+..+...+........++++.+...       .+..+    +..+..++.       ++++||||++++++..+. + 
T Consensus        85 ~r~~~~g~~~~~~~~~~~~~~l~l~~~~~~~~~~ls~g~----~~~i~~l~~-------~~~livlDe~~~~~~~d~-~-  151 (279)
T 1nlf_A           85 HRLHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEW----FDGLKRAAE-------GRRLMVLDTLRRFHIEEE-N-  151 (279)
T ss_dssp             HHHHHHHTTSCHHHHHHHHHHEEECCCTTSCCCTTSHHH----HHHHHHHHT-------TCSEEEEECGGGGCCSCT-T-
T ss_pred             HHHHHHHhhcChhhhhhccCceEEeecCCCCcccCCHHH----HHHHHHhcC-------CCCEEEECCHHHhcCCCc-C-
Confidence            234333321110000011234444322       12222    233344442       369999999999764321 1 


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccC
Q 022155          160 MDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM  198 (302)
Q Consensus       160 ~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~  198 (302)
                        ..    ..+..+++.|+.++++.+++||+++|.....
T Consensus       152 --~~----~~~~~~~~~L~~l~~~~g~tvi~i~H~~~~~  184 (279)
T 1nlf_A          152 --AS----GPMAQVIGRMEAIAADTGCSIVFLHHASKGA  184 (279)
T ss_dssp             --CH----HHHHHHHHHHHHHHHHHCCEEEEEEEC----
T ss_pred             --ch----HHHHHHHHHHHHHHHHcCCEEEEEecCCCcc
Confidence              11    1246778999999999999999999987543

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=99.77  E-value=8.3e-18  Score=160.70  Aligned_cols=213  Identities=18%  Similarity=0.184  Sum_probs=135.9

Q ss_pred             CCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      ....++||++.||.+|+||+++|+++.|+|+||+|||||+++++....   ..|+   +++|+..+.+  ...+......
T Consensus       259 ~~~~l~~g~~~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~---~~G~---~vi~~~~ee~--~~~l~~~~~~  330 (525)
T 1tf7_A          259 SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENAC---ANKE---RAILFAYEES--RAQLLRNAYS  330 (525)
T ss_dssp             CCCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHH---TTTC---CEEEEESSSC--HHHHHHHHHT
T ss_pred             ccceeecChHHHHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHH---hCCC---CEEEEEEeCC--HHHHHHHHHH
Confidence            467889999999999999999999999999999999999999998864   3455   7899998865  3333332222


Q ss_pred             hCCCCCCC--CCCcEEEEeC----CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHH
Q 022155           96 FRPSNDHN--PCDYIFVQSV----HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFL  169 (302)
Q Consensus        96 ~~~~~~~~--~l~~i~~~~~----~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~  169 (302)
                      +... ...  ....+.+...    .+..+....+.  ...+.      .+++++|||+++.+... .+    +.+.|   
T Consensus       331 ~g~~-~~~~~~~g~~~~~~~~p~~LS~g~~q~~~~--a~~l~------~~p~llilDp~~~Ld~~-~~----~~~~~---  393 (525)
T 1tf7_A          331 WGMD-FEEMERQNLLKIVCAYPESAGLEDHLQIIK--SEIND------FKPARIAIDSLSALARG-VS----NNAFR---  393 (525)
T ss_dssp             TSCC-HHHHHHTTSEEECCCCGGGSCHHHHHHHHH--HHHHT------TCCSEEEEECHHHHTSS-SC----HHHHH---
T ss_pred             cCCC-HHHHHhCCCEEEEEeccccCCHHHHHHHHH--HHHHh------hCCCEEEEcChHHHHhh-CC----hHHHH---
Confidence            2110 000  0112222211    13333222211  12221      35699999988887643 11    11112   


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccC-CchhhhhcceEEEEEEecCchh
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPAL-GIAWANCVNSRLFLSRNEDFVV  248 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~l-G~~w~~~~~~rl~l~~~~~~~~  248 (302)
                       ..+...++.+ ++.+++||+++|........                       +. +....++++..++|.+.+.   
T Consensus       394 -~~i~~ll~~l-~~~g~tvilvsh~~~~~~~~-----------------------~~~~~~l~~~~D~vi~L~~ge~---  445 (525)
T 1tf7_A          394 -QFVIGVTGYA-KQEEITGLFTNTSDQFMGAH-----------------------SITDSHISTITDTIILLQYVEI---  445 (525)
T ss_dssp             -HHHHHHHHHH-HHTTCEEEEEEECSSSSCCC-----------------------SSCSSCCTTTCSEEEEEEEEEE---
T ss_pred             -HHHHHHHHHH-HhCCCEEEEEECcccccCcc-----------------------cccCcccceeeeEEEEEEEEEe---
Confidence             2333444443 46799999999986432210                       00 1334577888998877653   


Q ss_pred             cccccccCCCCCCCCCCcccccceEEEEEEECCCCCC--ceeeEEEecCccccc
Q 022155          249 RENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLAD--TSCEFEITREGVFGV  300 (302)
Q Consensus       249 ~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~--~~~~F~I~~~Gi~~~  300 (302)
                       +     +             ...|.++|+|.++.+.  ...+|+|+++||+..
T Consensus       446 -~-----~-------------~~~R~l~v~K~R~~~~~~~~~~f~i~~~Gi~v~  480 (525)
T 1tf7_A          446 -R-----G-------------EMSRAINVFKMRGSWHDKAIREFMISDKGPDIK  480 (525)
T ss_dssp             -T-----T-------------EEEEEEEEEEESSSCCCCBCEEEEECSSCEEEE
T ss_pred             -C-----C-------------EEEEEEEEEECCCCCCCCCEEEEEEcCCCEEEe
Confidence             1     1             4789999999998864  578999999999843

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=99.69  E-value=1.4e-15  Score=131.54  Aligned_cols=69  Identities=9%  Similarity=0.051  Sum_probs=58.6

Q ss_pred             ccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        19 ~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      .++||++.||.+|+||+++|.++.|.|.||+|||+|++|++.+.+   ..|.   +|+|+..+.+  +..+..-+..
T Consensus         2 ~i~tGi~~LD~~l~GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~---~~Ge---~~~~~~~~e~--~~~l~~~~~~   70 (260)
T 3bs4_A            2 SLSWEIEELDREIGKIKKHSLILIHEEDASSRGKDILFYILSRKL---KSDN---LVGMFSISYP--LQLIIRILSR   70 (260)
T ss_dssp             CBCCSSHHHHHHHCCBCTTCEEEEEECSGGGCHHHHHHHHHHHHH---HTTC---EEEEEECSSC--HHHHHHHHHH
T ss_pred             cCccCcHHHHHHhCCCCCCCcEEEEEeCCCccHHHHHHHHHHHHH---HCCC---cEEEEEEeCC--HHHHHHHHHH
Confidence            579999999999999999999999999999999999999999876   6677   9999998865  3444333333

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=99.61  E-value=3.7e-14  Score=135.43  Aligned_cols=225  Identities=17%  Similarity=0.225  Sum_probs=134.2

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      |...++. ....++++|++.||.+..|++++|+++.|+||||||||||+.+++.+..++  .+.   +++||+.+..  .
T Consensus         9 ~~~~~~~-~~~~~~~~g~~~Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~--~~~---g~i~v~g~~~--~   80 (525)
T 1tf7_A            9 PNNNSEH-QAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIE--FDE---PGVFVTFEET--P   80 (525)
T ss_dssp             -----CC-SSCCEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHH--HCC---CEEEEESSSC--H
T ss_pred             CCCCccc-cccccccCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHh--CCC---CEEEEEEeCC--H
Confidence            3444444 346789999999999987899999999999999999999999964332222  132   5899998762  3


Q ss_pred             HHHHHHHHHhCCCCCC-CCCCcEEEEeCC---------CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhcc
Q 022155           87 RRLHQLSHTFRPSNDH-NPCDYIFVQSVH---------SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDF  156 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~-~~l~~i~~~~~~---------~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~  156 (302)
                      ..+.+....+.....+ ....++......         ....+.+.+.++...+..     ...++|+||++++..... 
T Consensus        81 ~~~~~~~~~~g~~~q~~~~~~~l~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LS~-----g~~~~lilDe~t~~~~~~-  154 (525)
T 1tf7_A           81 QDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQK-----YRARRVSIDSVTSVFQQY-  154 (525)
T ss_dssp             HHHHHHHGGGTCCHHHHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHH-----HTCSEEEEECSTTTSTTT-
T ss_pred             HHHHHHHHHcCCChHHhhccCcEEEEecCcccchhhhhcccCHHHHHHHHHHHHHH-----cCCCEEEECCHHHHHHhc-
Confidence            3333333332211000 000123332211         122344555555555543     345999999999865431 


Q ss_pred             CCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchh-hhhcc
Q 022155          157 DNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAW-ANCVN  235 (302)
Q Consensus       157 ~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w-~~~~~  235 (302)
                         ..+...|    ..+...++.+.+ .++|||+++|..+.....                        ....+ .+++|
T Consensus       155 ---~lD~~~~----~~l~~ll~~l~~-~g~tvl~itH~~~~~~~~------------------------~~~~i~~~laD  202 (525)
T 1tf7_A          155 ---DASSVVR----RELFRLVARLKQ-IGATTVMTTERIEEYGPI------------------------ARYGVEEFVSD  202 (525)
T ss_dssp             ---CCHHHHH----HHHHHHHHHHHH-HTCEEEEEEECSSSSSCS------------------------STTSCHHHHCS
T ss_pred             ---CCHHHHH----HHHHHHHHHHHH-CCCEEEEEecCCCCcccc------------------------ccccceeeeee
Confidence               0122332    244455555554 699999999986533210                        01111 34467


Q ss_pred             eEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCcccc
Q 022155          236 SRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFG  299 (302)
Q Consensus       236 ~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~  299 (302)
                      ..++|.....    +     |             ...|.+.+.|.+..+  ....+|.|++.|+..
T Consensus       203 ~vi~L~~~~~----~-----G-------------~~~r~l~~~k~r~~~~~~~~~~~~i~~~gi~v  246 (525)
T 1tf7_A          203 NVVILRNVLE----G-----E-------------RRRRTLEILKLRGTSHMKGEYPFTITDHGINI  246 (525)
T ss_dssp             EEEEEEEECS----T-----T-------------CCEEEEEEEEETTSCCCCSEEEEEEETTEEEE
T ss_pred             EEEEEEEEcc----C-----C-------------ceeEEEEEEECCCCCCCCceEEEEEcCCCEEE
Confidence            8888876543    1     2             467889998866553  456899999988864

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=99.55  E-value=3.7e-15  Score=131.93  Aligned_cols=133  Identities=22%  Similarity=0.243  Sum_probs=89.6

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      ...++||++.||.+| ||+++|.+++|+||||+|||+||++++..      .|+   +|+|++.+...+          +
T Consensus       103 ~~~i~TGi~~LD~lL-GGi~~gsviLI~GpPGsGKTtLAlqlA~~------~G~---~VlyIs~~~eE~----------v  162 (331)
T 2vhj_A          103 TGELVGCSPVVAEFG-GHRYASGMVIVTGKGNSGKTPLVHALGEA------LGG---KDKYATVRFGEP----------L  162 (331)
T ss_dssp             STTCCSBCCEEEEET-TEEEESEEEEEECSCSSSHHHHHHHHHHH------HHT---TSCCEEEEBSCS----------S
T ss_pred             hhccccCcHHHHHHh-CCCCCCcEEEEEcCCCCCHHHHHHHHHHh------CCC---CEEEEEecchhh----------h
Confidence            345789999999999 99999999999999999999999999876      233   789999831111          0


Q ss_pred             CCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHH
Q 022155           97 RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM  176 (302)
Q Consensus        97 ~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~  176 (302)
                            ...+       .+.+   ..+..+.+.+.+     .  ++||||+++++........  ......+.+++++..
T Consensus       163 ------~~~~-------~~le---~~l~~i~~~l~~-----~--~LLVIDsI~aL~~~~~~~s--~~G~v~~~lrqlL~~  217 (331)
T 2vhj_A          163 ------SGYN-------TDFN---VFVDDIARAMLQ-----H--RVIVIDSLKNVIGAAGGNT--TSGGISRGAFDLLSD  217 (331)
T ss_dssp             ------TTCB-------CCHH---HHHHHHHHHHHH-----C--SEEEEECCTTTC-------------CCHHHHHHHHH
T ss_pred             ------hhhh-------cCHH---HHHHHHHHHHhh-----C--CEEEEeccccccccccccc--ccchHHHHHHHHHHH
Confidence                  0111       2333   344445555554     2  3999999999764321100  001112346788888


Q ss_pred             HHHHHHHcCcEEEEEecc
Q 022155          177 LKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       177 L~~la~~~~~~viv~n~~  194 (302)
                      |..++++.++++|++++.
T Consensus       218 L~~~~k~~gvtVIlttnp  235 (331)
T 2vhj_A          218 IGAMAASRGCVVIASLNP  235 (331)
T ss_dssp             HHHHHHHHTCEEEEECCC
T ss_pred             HHHHHhhCCCEEEEEeCC
Confidence            999999999999997663

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=98.71  E-value=1.3e-08  Score=92.05  Aligned_cols=165  Identities=14%  Similarity=0.235  Sum_probs=89.4

Q ss_pred             cccCCCCCCccccC---ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CC
Q 022155           10 LLDNPLTTEKCTVG---CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PF   84 (302)
Q Consensus        10 l~~~~~~~~~i~tG---~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~   84 (302)
                      +++.+.....+..+   ...|+.+ +--+++|+++.|.||+|||||||+..++...  ++..     .-++++...  ..
T Consensus        24 mi~v~~ls~~y~~~~~~~~aL~~v-sl~i~~Gei~~IiGpnGaGKSTLlr~i~GL~--~p~~-----G~I~i~G~~i~~~   95 (366)
T 3tui_C           24 MIKLSNITKVFHQGTRTIQALNNV-SLHVPAGQIYGVIGASGAGKSTLIRCVNLLE--RPTE-----GSVLVDGQELTTL   95 (366)
T ss_dssp             CEEEEEEEEEEECSSSEEEEEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHHTSS--CCSE-----EEEEETTEECSSC
T ss_pred             eEEEEeEEEEeCCCCCCeEEEEee-EEEEcCCCEEEEEcCCCchHHHHHHHHhcCC--CCCc-----eEEEECCEECCcC
Confidence            45544444444432   3456665 5578999999999999999999998887653  2222     356776553  23


Q ss_pred             CHHHHHHHHHH----hCCCC---CCCCCCcEEEE---eCCCHHHH----HHHHHHH--HHHHHhc---------------
Q 022155           85 PMRRLHQLSHT----FRPSN---DHNPCDYIFVQ---SVHSVDQL----LDIMPKI--ESFIKNS---------------  133 (302)
Q Consensus        85 ~~~rl~~i~~~----~~~~~---~~~~l~~i~~~---~~~~~~~l----~~~l~~l--~~~l~~~---------------  133 (302)
                      +...+..+...    ++...   ..++.+|+.+.   ......+.    .+++..+  .......               
T Consensus        96 ~~~~~~~~r~~Ig~v~Q~~~l~~~~TV~env~~~~~~~~~~~~~~~~~v~~lL~~vgL~~~~~~~~~~LSGGqkQRVaIA  175 (366)
T 3tui_C           96 SESELTKARRQIGMIFQHFNLLSSRTVFGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIA  175 (366)
T ss_dssp             CHHHHHHHHTTEEEECSSCCCCTTSCHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCCTTTSCHHHHHHHHHH
T ss_pred             CHHHHHHHhCcEEEEeCCCccCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHH
Confidence            44433333222    22111   11223333221   00111111    1122111  0000000               


Q ss_pred             -cCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          134 -SNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       134 -~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                       +... +++++++|+.++-+         |...+    ..+...|+++.++.++|||+++|-..
T Consensus       176 rAL~~-~P~lLLlDEPTs~L---------D~~~~----~~i~~lL~~l~~~~g~Tii~vTHdl~  225 (366)
T 3tui_C          176 RALAS-NPKVLLCDQATSAL---------DPATT----RSILELLKDINRRLGLTILLITHEMD  225 (366)
T ss_dssp             HHTTT-CCSEEEEESTTTTS---------CHHHH----HHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             HHHhc-CCCEEEEECCCccC---------CHHHH----HHHHHHHHHHHHhCCCEEEEEecCHH
Confidence             1222 45999999998854         22222    36677888888889999999999643

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=98.67  E-value=4.4e-08  Score=79.72  Aligned_cols=130  Identities=16%  Similarity=0.078  Sum_probs=70.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEE-eCCCHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQ-SVHSVDQ  118 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~-~~~~~~~  118 (302)
                      ++.|.|++|||||+||.+++..       |.   +++|++|...++.+..+++...... .+    ...... .+.+..+
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~~-------~~---~~~yiaT~~~~d~e~~~rI~~h~~~-R~----~~w~tiE~p~~l~~   65 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIGD-------AP---QVLYIATSQILDDEMAARIQHHKDG-RP----AHWRTAECWRHLDT   65 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS-------CS---SEEEEECCCC------CHHHHHHHT-SC----TTEEEECCSSCGGG
T ss_pred             CEEEECCCCCcHHHHHHHHHhc-------CC---CeEEEecCCCCCHHHHHHHHHHHhc-CC----CCcEEEEcHhhHHH
Confidence            4789999999999999998632       33   7999999887777665555544221 11    122222 2233222


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCC-----Ch--hhHHH-HHHHHHHHHHHHHHHHHHcCcEEEE
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDN-----TM--DDLKK-RSFLFFKISGMLKAMAVGFGLAVLV  190 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~-----~~--~~~~~-r~~~l~~l~~~L~~la~~~~~~viv  190 (302)
                         .+..    .      ..+.+.|+||+++..+...+..     ..  .+... ...+..++...+..+.+...-.|+|
T Consensus        66 ---~l~~----~------~~~~~~VLvDclt~wl~n~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~vlV  132 (180)
T 1c9k_A           66 ---LITA----D------LAPDDAILLECITTMVTNLLFALGGENDPEQWDYAAMERAIDDEIQILIAACQRCPAKVVLV  132 (180)
T ss_dssp             ---TSCT----T------SCTTCEEEEECHHHHHHHHHHHC----CTTSCCHHHHHHHHHHHHHHHHHHHHHCCSEEEEE
T ss_pred             ---HHHh----h------cccCCeEEEcCHHHHHHHHHhhcccccccccccchhhHHHHHHHHHHHHHHHHccCCCEEEE
Confidence               2111    1      1123799999999988654421     10  01110 1112234445566666666678888


Q ss_pred             Eeccccc
Q 022155          191 TNQVVDL  197 (302)
Q Consensus       191 ~n~~~~~  197 (302)
                      +|++...
T Consensus       133 sNEVG~G  139 (180)
T 1c9k_A          133 TNEVGMG  139 (180)
T ss_dssp             CCCCCSS
T ss_pred             EccccCC
Confidence            8888543

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=98.65  E-value=2.9e-09  Score=93.05  Aligned_cols=65  Identities=12%  Similarity=0.155  Sum_probs=43.3

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +++.+.....+..+...|+.+ +--+++|+++.|.||+|||||||+..++...  ++..     ..++++...
T Consensus         7 ~l~i~~ls~~y~~~~~~L~~i-sl~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~--~p~~-----G~I~~~G~~   71 (275)
T 3gfo_A            7 ILKVEELNYNYSDGTHALKGI-NMNIKRGEVTAILGGNGVGKSTLFQNFNGIL--KPSS-----GRILFDNKP   71 (275)
T ss_dssp             EEEEEEEEEECTTSCEEEEEE-EEEEETTSEEEEECCTTSSHHHHHHHHTTSS--CCSE-----EEEEETTEE
T ss_pred             EEEEEEEEEEECCCCeEEEee-EEEEcCCCEEEEECCCCCCHHHHHHHHHcCC--CCCC-----eEEEECCEE
Confidence            344444433443333466665 5578999999999999999999998887653  3222     357777553

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=98.63  E-value=6.9e-08  Score=82.34  Aligned_cols=48  Identities=15%  Similarity=0.238  Sum_probs=35.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...  ++..     ..++++..
T Consensus        20 ~L~~i-sl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~--~p~~-----G~I~~~g~   67 (235)
T 3tif_A           20 ALKNV-NLNIKEGEFVSIMGPSGSGKSTMLNIIGCLD--KPTE-----GEVYIDNI   67 (235)
T ss_dssp             EEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTE
T ss_pred             eEEee-eEEEcCCCEEEEECCCCCcHHHHHHHHhcCC--CCCc-----eEEEECCE
Confidence            45554 4568999999999999999999998887653  3222     34677654

>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=98.59  E-value=5e-08  Score=82.41  Aligned_cols=119  Identities=14%  Similarity=0.093  Sum_probs=70.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH-HHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL-HQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl-~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      .+|.++.++|++|+||||++++++.++.   ..|.   +|+++.....  . |. .++...+.     .....+.   ..
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~---~~g~---kVli~~~~~d--~-r~~~~i~srlG-----~~~~~~~---~~   72 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLE---YADV---KYLVFKPKID--T-RSIRNIQSRTG-----TSLPSVE---VE   72 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHH---HTTC---CEEEEEECCC--G-GGCSSCCCCCC-----CSSCCEE---ES
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHH---hcCC---EEEEEEeccC--c-hHHHHHHHhcC-----CCccccc---cC
Confidence            5689999999999999999999999875   4454   7888864432  1 11 01111111     1112222   12


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      ...++   +..+.+.+.     ..++++|+||+++.+..                  .++..|+.++. .+++||++.+.
T Consensus        73 ~~~~i---~~~i~~~~~-----~~~~dvViIDEaQ~l~~------------------~~ve~l~~L~~-~gi~Vil~Gl~  125 (223)
T 2b8t_A           73 SAPEI---LNYIMSNSF-----NDETKVIGIDEVQFFDD------------------RICEVANILAE-NGFVVIISGLD  125 (223)
T ss_dssp             STHHH---HHHHHSTTS-----CTTCCEEEECSGGGSCT------------------HHHHHHHHHHH-TTCEEEEECCS
T ss_pred             CHHHH---HHHHHHHhh-----CCCCCEEEEecCccCcH------------------HHHHHHHHHHh-CCCeEEEEecc
Confidence            32333   233332222     24579999999987321                  12344455565 49999999998


Q ss_pred             cccC
Q 022155          195 VDLM  198 (302)
Q Consensus       195 ~~~~  198 (302)
                      .+-.
T Consensus       126 ~df~  129 (223)
T 2b8t_A          126 KNFK  129 (223)
T ss_dssp             BCTT
T ss_pred             cccc
Confidence            7543

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=98.57  E-value=2e-07  Score=75.36  Aligned_cols=24  Identities=42%  Similarity=0.620  Sum_probs=21.9

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQ   57 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~   57 (302)
                      -+++|+++.|+||||||||||+..
T Consensus         5 ~i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            5 TIPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEESSEEEEEECCTTSCHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHH
Confidence            367899999999999999999984

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.57  E-value=2.6e-07  Score=78.21  Aligned_cols=35  Identities=23%  Similarity=0.337  Sum_probs=29.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++..
T Consensus        19 ~l~~v-sl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           19 ILKGI-SLSVKKGEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEE-EEEEETTCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             eEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45544 456899999999999999999999887765

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=98.48  E-value=3.9e-07  Score=79.10  Aligned_cols=63  Identities=21%  Similarity=0.262  Sum_probs=41.2

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +++.+.....+. +.+.|+.+ +--+++|+++.|+||+|||||||+..++...  ++..|     .++++..
T Consensus        11 ~l~~~~l~~~~~-~~~vL~~v-sl~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~--~p~~G-----~I~~~g~   73 (266)
T 4g1u_C           11 LLEASHLHYHVQ-QQALINDV-SLHIASGEMVAIIGPNGAGKSTLLRLLTGYL--SPSHG-----ECHLLGQ   73 (266)
T ss_dssp             EEEEEEEEEEET-TEEEEEEE-EEEEETTCEEEEECCTTSCHHHHHHHHTSSS--CCSSC-----EEEETTE
T ss_pred             eEEEEeEEEEeC-CeeEEEee-EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC--CCCCc-----EEEECCE
Confidence            444444333332 23456655 4568999999999999999999998887653  32333     4666654

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=98.45  E-value=1.9e-08  Score=90.74  Aligned_cols=37  Identities=22%  Similarity=0.272  Sum_probs=30.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        18 ~~L~~v-sl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           18 PVLNDI-SLSLDPGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEE-EEEECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEee-EEEEcCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            346555 4578999999999999999999998888764

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=98.45  E-value=6.1e-08  Score=88.11  Aligned_cols=37  Identities=16%  Similarity=0.129  Sum_probs=30.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        17 ~~L~~v-sl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           17 VVSKDI-NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEeee-EEEECCCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            345554 4568999999999999999999999888764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=98.44  E-value=4.6e-07  Score=78.06  Aligned_cols=36  Identities=14%  Similarity=0.169  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        20 vl~~i-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           20 LFQQL-NFDLNKGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEE-EEEEETTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEE-EEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998887653

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=98.44  E-value=3.4e-07  Score=79.30  Aligned_cols=36  Identities=25%  Similarity=0.338  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        39 vL~~v-sl~i~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           39 VLKGI-NVHIREGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEee-EEEEcCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            45554 4568999999999999999999998887653

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=98.41  E-value=6.2e-08  Score=87.60  Aligned_cols=36  Identities=25%  Similarity=0.222  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        18 vl~~v-sl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           18 AVDGV-SFEVKDGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEeee-EEEEcCCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            45544 4468999999999999999999998887754

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.40  E-value=5.5e-06  Score=65.33  Aligned_cols=40  Identities=18%  Similarity=0.277  Sum_probs=33.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +|+.+.|+||+|+|||+|+..++....   ..|.   +++|++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~---~~g~---~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL---EAGK---NAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH---TTTC---CEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH---hcCC---cEEEEcHHH
Confidence            899999999999999999999988764   2343   689998764

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=98.40  E-value=2.8e-07  Score=79.64  Aligned_cols=49  Identities=16%  Similarity=0.274  Sum_probs=36.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.|+.+ +--+++|+++.|.||+|||||||+..++...  ++..     ..++++..
T Consensus        21 ~vl~~v-sl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~--~p~~-----G~i~~~g~   69 (257)
T 1g6h_A           21 KALDGV-SISVNKGDVTLIIGPNGSGKSTLINVITGFL--KADE-----GRVYFENK   69 (257)
T ss_dssp             EEEEEE-CCEEETTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTE
T ss_pred             eeEeee-EEEEeCCCEEEEECCCCCCHHHHHHHHhCCC--CCCC-----cEEEECCE
Confidence            346655 5678999999999999999999998887653  3222     34666654

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=98.39  E-value=4.4e-07  Score=81.67  Aligned_cols=36  Identities=17%  Similarity=0.177  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        15 ~l~~v-sl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           15 SLDNL-SLKVESGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEE-EEEECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEeee-EEEEcCCCEEEEECCCCccHHHHHHHHHcCC
Confidence            44444 4468999999999999999999998887754

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=98.39  E-value=2.2e-07  Score=79.82  Aligned_cols=36  Identities=19%  Similarity=0.344  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        15 vl~~v-sl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           15 RLGPL-SGEVRAGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TEEEE-EEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45544 4468999999999999999999998887653

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=98.39  E-value=6.4e-08  Score=87.60  Aligned_cols=36  Identities=19%  Similarity=0.216  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        18 vl~~v-sl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           18 ALNNI-NLKIKDGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEee-EEEECCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45554 4568999999999999999999998887764

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=98.39  E-value=5.5e-08  Score=88.37  Aligned_cols=36  Identities=19%  Similarity=0.152  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        26 vl~~v-sl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           26 AVNKL-NLTIKDGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEeee-EEEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45554 4568999999999999999999998887754

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=98.37  E-value=5.3e-08  Score=87.87  Aligned_cols=37  Identities=22%  Similarity=0.159  Sum_probs=30.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        29 ~vl~~v-sl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           29 RSVRGV-SFQIREGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TCEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEeee-EEEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            345554 4568999999999999999999998887754

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=98.33  E-value=1.1e-06  Score=75.77  Aligned_cols=36  Identities=22%  Similarity=0.206  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        30 vl~~v-sl~i~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           30 ILKGI-SFEIEEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEee-EEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45554 4568999999999999999999998887653

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=2.6e-06  Score=77.72  Aligned_cols=123  Identities=10%  Similarity=0.140  Sum_probs=70.1

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |+++..=++|+||||+|||.+|..+|..+..         ..+.++...-+.                          ..
T Consensus       178 gi~~prGvLL~GPPGTGKTllAkAiA~e~~~---------~f~~v~~s~l~s--------------------------k~  222 (405)
T 4b4t_J          178 GIAQPKGVILYGPPGTGKTLLARAVAHHTDC---------KFIRVSGAELVQ--------------------------KY  222 (405)
T ss_dssp             TCCCCCCEEEESCSSSSHHHHHHHHHHHHTC---------EEEEEEGGGGSC--------------------------SS
T ss_pred             CCCCCCceEEeCCCCCCHHHHHHHHHHhhCC---------CceEEEhHHhhc--------------------------cc
Confidence            6766666999999999999999999987631         556666442110                          00


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      ..  +-...+..+-.....     ..+.+|+||.+.++......+..+........+..++..|..+....++.||.++.
T Consensus       223 vG--ese~~vr~lF~~Ar~-----~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATN  295 (405)
T 4b4t_J          223 IG--EGSRMVRELFVMARE-----HAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATN  295 (405)
T ss_dssp             TT--HHHHHHHHHHHHHHH-----TCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEES
T ss_pred             cc--hHHHHHHHHHHHHHH-----hCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccC
Confidence            01  111122222222222     23499999999998754322221111223344567777776666566766666655


Q ss_pred             ccccC
Q 022155          194 VVDLM  198 (302)
Q Consensus       194 ~~~~~  198 (302)
                      --+.+
T Consensus       296 rpd~L  300 (405)
T 4b4t_J          296 RLDIL  300 (405)
T ss_dssp             CSSSS
T ss_pred             ChhhC
Confidence            43333

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=98.31  E-value=4.3e-08  Score=88.54  Aligned_cols=36  Identities=22%  Similarity=0.239  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        20 vl~~v-sl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           20 ALDNV-NINIENGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEE-EEEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             eEece-EEEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            44544 4468999999999999999999998887753

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=98.31  E-value=1.4e-06  Score=75.45  Aligned_cols=36  Identities=17%  Similarity=0.333  Sum_probs=29.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        21 vl~~v-sl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           21 VLKGV-SLQARAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45554 4568999999999999999999998887653

>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=98.31  E-value=1.5e-06  Score=70.48  Aligned_cols=44  Identities=16%  Similarity=0.161  Sum_probs=34.1

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -.++.|..+.|+||+|+|||+|+..++.... + ..|.   .++|++..
T Consensus        33 ~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~-~-~~g~---~~~~~~~~   76 (180)
T 3ec2_A           33 FNPEEGKGLTFVGSPGVGKTHLAVATLKAIY-E-KKGI---RGYFFDTK   76 (180)
T ss_dssp             CCGGGCCEEEECCSSSSSHHHHHHHHHHHHH-H-HSCC---CCCEEEHH
T ss_pred             ccccCCCEEEEECCCCCCHHHHHHHHHHHHH-H-HcCC---eEEEEEHH
Confidence            3567899999999999999999999988763 1 2343   67787744

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=98.30  E-value=3.9e-07  Score=77.89  Aligned_cols=36  Identities=22%  Similarity=0.267  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        21 vl~~v-sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           21 AIKGI-DLKVPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45554 4468999999999999999999998887653

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=98.29  E-value=2e-07  Score=81.02  Aligned_cols=36  Identities=14%  Similarity=0.097  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        22 vl~~v-sl~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           22 ALENV-SLVINEGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45554 4568999999999999999999998887653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.27  E-value=6.4e-06  Score=71.67  Aligned_cols=39  Identities=18%  Similarity=0.192  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |+..+.-+.|+||||+|||+++..++....      .   .+++++..
T Consensus        47 ~~~~~~~~ll~G~~GtGKT~la~~la~~~~------~---~~~~v~~~   85 (285)
T 3h4m_A           47 GIEPPKGILLYGPPGTGKTLLAKAVATETN------A---TFIRVVGS   85 (285)
T ss_dssp             CCCCCSEEEEESSSSSSHHHHHHHHHHHTT------C---EEEEEEGG
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHhC------C---CEEEEehH
Confidence            567788899999999999999999987642      1   67777754

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.26  E-value=4.4e-06  Score=77.12  Aligned_cols=122  Identities=13%  Similarity=0.183  Sum_probs=70.5

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |+++..=+.|+||||+|||.+|..+|..+..         ..+.++...-+.                     .    ..
T Consensus       202 g~~~prGiLL~GPPGtGKT~lakAiA~~~~~---------~~~~v~~~~l~~---------------------~----~~  247 (428)
T 4b4t_K          202 GIDPPRGVLLYGPPGTGKTMLVKAVANSTKA---------AFIRVNGSEFVH---------------------K----YL  247 (428)
T ss_dssp             CCCCCCEEEEESCTTTTHHHHHHHHHHHHTC---------EEEEEEGGGTCC---------------------S----SC
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHhCC---------CeEEEecchhhc---------------------c----cc
Confidence            7777777999999999999999999987621         566676542111                     0    00


Q ss_pred             C-CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEe
Q 022155          114 H-SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTN  192 (302)
Q Consensus       114 ~-~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n  192 (302)
                      . +...+.+++.    ....     ..+.+|+||.+.+++..-.....+......+.+..++..|..+....++.||.++
T Consensus       248 Ge~e~~ir~lF~----~A~~-----~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aT  318 (428)
T 4b4t_K          248 GEGPRMVRDVFR----LARE-----NAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMAT  318 (428)
T ss_dssp             SHHHHHHHHHHH----HHHH-----TCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEE
T ss_pred             chhHHHHHHHHH----HHHH-----cCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEec
Confidence            0 1111222222    2222     2349999999999875321111111112233466777777776666677777665


Q ss_pred             cccccC
Q 022155          193 QVVDLM  198 (302)
Q Consensus       193 ~~~~~~  198 (302)
                      +-.+.+
T Consensus       319 N~~~~L  324 (428)
T 4b4t_K          319 NRADTL  324 (428)
T ss_dssp             SCSSSC
T ss_pred             CChhhc
Confidence            543333

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=98.26  E-value=3.1e-07  Score=83.46  Aligned_cols=36  Identities=17%  Similarity=0.107  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        18 vl~~v-sl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           18 AVREM-SLEVKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEeee-EEEEcCCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            45544 4468899999999999999999998887754

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=98.25  E-value=8.4e-06  Score=76.25  Aligned_cols=45  Identities=20%  Similarity=0.200  Sum_probs=34.3

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      -+..|.++.|+|++||||||++..|+....   ..+|   +|++.+.+ .+.
T Consensus       289 ~i~~GeVI~LVGpNGSGKTTLl~~LAgll~---~~~G---~V~l~g~D-~~r  333 (503)
T 2yhs_A          289 EGKAPFVILMVGVNGVGKTTTIGKLARQFE---QQGK---SVMLAAGD-TFR  333 (503)
T ss_dssp             CSCTTEEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEECCC-TTC
T ss_pred             eccCCeEEEEECCCcccHHHHHHHHHHHhh---hcCC---eEEEecCc-ccc
Confidence            367899999999999999999999988763   3444   56555543 454

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.24  E-value=1.2e-06  Score=76.63  Aligned_cols=48  Identities=21%  Similarity=0.232  Sum_probs=35.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...  ++..     ..++++..
T Consensus        36 vL~~i-sl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~--~p~~-----G~I~~~g~   83 (279)
T 2ihy_A           36 ILKKI-SWQIAKGDKWILYGLNGAGKTTLLNILNAYE--PATS-----GTVNLFGK   83 (279)
T ss_dssp             EEEEE-EEEEETTCEEEEECCTTSSHHHHHHHHTTSS--CCSE-----EEEEETTB
T ss_pred             EEEee-eEEEcCCCEEEEECCCCCcHHHHHHHHhCCC--CCCC-----eEEEECCE
Confidence            45554 4568999999999999999999998887653  3222     34666654

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.23  E-value=3.5e-06  Score=77.83  Aligned_cols=124  Identities=16%  Similarity=0.199  Sum_probs=68.7

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |+++..=++|+||||+|||.+|..+|..+..         ..+.++...-.                     +.    ..
T Consensus       211 g~~~prGvLLyGPPGTGKTllAkAiA~e~~~---------~f~~v~~s~l~---------------------~~----~v  256 (434)
T 4b4t_M          211 GIRAPKGALMYGPPGTGKTLLARACAAQTNA---------TFLKLAAPQLV---------------------QM----YI  256 (434)
T ss_dssp             CCCCCCEEEEESCTTSSHHHHHHHHHHHHTC---------EEEEEEGGGGC---------------------SS----CS
T ss_pred             CCCCCCeeEEECcCCCCHHHHHHHHHHHhCC---------CEEEEehhhhh---------------------hc----cc
Confidence            7777777999999999999999999987621         45666644211                     00    00


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      ...+   ..+..+......     ..+.+|+||.+.+++..-.....+........+..++..|..+....++.||.++.
T Consensus       257 Gese---~~ir~lF~~A~~-----~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTN  328 (434)
T 4b4t_M          257 GEGA---KLVRDAFALAKE-----KAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATN  328 (434)
T ss_dssp             SHHH---HHHHHHHHHHHH-----HCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECS
T ss_pred             chHH---HHHHHHHHHHHh-----cCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCC
Confidence            1111   112222222211     23499999999998753222211111222334556666665555555677775544


Q ss_pred             ccccCC
Q 022155          194 VVDLME  199 (302)
Q Consensus       194 ~~~~~~  199 (302)
                      -.+.++
T Consensus       329 rp~~LD  334 (434)
T 4b4t_M          329 RVDVLD  334 (434)
T ss_dssp             SCCCCC
T ss_pred             CchhcC
Confidence            334343

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=98.21  E-value=1e-05  Score=69.10  Aligned_cols=36  Identities=25%  Similarity=0.193  Sum_probs=29.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        17 vl~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           17 ILRDI-SFEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             SEEEE-EEEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEEe-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45544 4468999999999999999999998887653

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.21  E-value=6e-06  Score=76.37  Aligned_cols=124  Identities=11%  Similarity=0.118  Sum_probs=67.7

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |+++-.=++|+||||+|||.+|..+|..+..         ..++++...-++                     .    ..
T Consensus       211 g~~~prGvLL~GPPGtGKTllAkAiA~e~~~---------~~~~v~~s~l~s---------------------k----~~  256 (437)
T 4b4t_L          211 GIKPPKGVLLYGPPGTGKTLLAKAVAATIGA---------NFIFSPASGIVD---------------------K----YI  256 (437)
T ss_dssp             CCCCCCEEEEESCTTSSHHHHHHHHHHHHTC---------EEEEEEGGGTCC---------------------S----SS
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHhCC---------CEEEEehhhhcc---------------------c----cc
Confidence            7777777999999999999999999987631         566676542111                     0    00


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      ...   ...+..+......     ..+.+|+||.+.+++..-...+..........+..++..|..+....++.||.++.
T Consensus       257 Ges---e~~ir~~F~~A~~-----~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATN  328 (437)
T 4b4t_L          257 GES---ARIIREMFAYAKE-----HEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATN  328 (437)
T ss_dssp             SHH---HHHHHHHHHHHHH-----SCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEES
T ss_pred             hHH---HHHHHHHHHHHHh-----cCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecC
Confidence            111   1122222222222     34599999999998743222111111122333455555555444444566665544


Q ss_pred             ccccCC
Q 022155          194 VVDLME  199 (302)
Q Consensus       194 ~~~~~~  199 (302)
                      --+.++
T Consensus       329 rp~~LD  334 (437)
T 4b4t_L          329 RPDTLD  334 (437)
T ss_dssp             STTSSC
T ss_pred             CchhhC
Confidence            333343

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=98.20  E-value=6.3e-07  Score=76.60  Aligned_cols=34  Identities=15%  Similarity=0.074  Sum_probs=28.0

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+ +--+++ +++.|.||+|||||||+..++...
T Consensus        15 l~~i-sl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           15 RLNV-DFEMGR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEE-EEEECS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             Eeee-EEEECC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            4444 446889 999999999999999998887653

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=98.17  E-value=3.5e-06  Score=81.22  Aligned_cols=49  Identities=29%  Similarity=0.366  Sum_probs=36.3

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.|+.+ +--+++|+++.|+||+|||||||+..++...  ++..|     .++++..
T Consensus       357 ~~l~~i-~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~--~p~~G-----~i~~~g~  405 (582)
T 3b5x_A          357 PALSHV-SFSIPQGKTVALVGRSGSGKSTIANLFTRFY--DVDSG-----SICLDGH  405 (582)
T ss_pred             cccccc-eEEECCCCEEEEECCCCCCHHHHHHHHhcCC--CCCCC-----EEEECCE
Confidence            345554 4568999999999999999999998888764  22333     4666654

>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=98.17  E-value=2.9e-06  Score=71.13  Aligned_cols=37  Identities=19%  Similarity=0.329  Sum_probs=30.0

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        23 ~il~~v-sl~i~~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           23 PVLERI-TMTIEKGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             EEEEEE-EEEEETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345554 4468899999999999999999998887653

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=98.17  E-value=1.7e-05  Score=76.63  Aligned_cols=138  Identities=17%  Similarity=0.208  Sum_probs=73.0

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCC--CCeEEEEeCCCCC----CHH-HHHHH-HHHhCC-------
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL--SASSLYLHTEFPF----PMR-RLHQL-SHTFRP-------   98 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~--~~~vlyid~e~~~----~~~-rl~~i-~~~~~~-------   98 (302)
                      -+++|+++.|.||+|||||||+..++...  ++..|..  ...+-|+.-+...    +.. .+... ...+..       
T Consensus       378 ~v~~Gei~~i~G~NGsGKSTLlk~l~Gl~--~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~  455 (607)
T 3bk7_A          378 EIRKGEVIGIVGPNGIGKTTFVKMLAGVE--EPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTEL  455 (607)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHHTSS--CCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHT
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHhcCC--CCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHH
Confidence            36799999999999999999999887753  3334432  1245566543221    221 11111 000000       


Q ss_pred             ---CCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHH
Q 022155           99 ---SNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISG  175 (302)
Q Consensus        99 ---~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~  175 (302)
                         .......++ .+.. -+.-+. ..+.-...++       .+++++++|+.++.+         |...+    ..+.+
T Consensus       456 l~~~~l~~~~~~-~~~~-LSGGe~-QRv~iAraL~-------~~p~lLlLDEPt~~L---------D~~~~----~~l~~  512 (607)
T 3bk7_A          456 LKPLGIIDLYDR-NVED-LSGGEL-QRVAIAATLL-------RDADIYLLDEPSAYL---------DVEQR----LAVSR  512 (607)
T ss_dssp             HHHHTCTTTTTS-BGGG-CCHHHH-HHHHHHHHHT-------SCCSEEEEECTTTTC---------CHHHH----HHHHH
T ss_pred             HHHcCCchHhcC-Chhh-CCHHHH-HHHHHHHHHH-------hCCCEEEEeCCccCC---------CHHHH----HHHHH
Confidence               000000100 0001 111111 1111112222       245999999999854         22333    35667


Q ss_pred             HHHHHHHHcCcEEEEEecccc
Q 022155          176 MLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       176 ~L~~la~~~~~~viv~n~~~~  196 (302)
                      .|++++++.+.+||++.|...
T Consensus       513 ~l~~l~~~~g~tvi~vsHd~~  533 (607)
T 3bk7_A          513 AIRHLMEKNEKTALVVEHDVL  533 (607)
T ss_dssp             HHHHHHHHTTCEEEEECSCHH
T ss_pred             HHHHHHHhCCCEEEEEeCCHH
Confidence            788888788999999999643

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=98.16  E-value=6.6e-07  Score=79.15  Aligned_cols=50  Identities=16%  Similarity=0.097  Sum_probs=36.2

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -+.|+.+ +--+++|+++.|+||+|||||||+..++...  ++..     ..++++..
T Consensus        67 ~~vL~~i-sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~--~p~~-----G~I~i~G~  116 (306)
T 3nh6_A           67 RETLQDV-SFTVMPGQTLALVGPSGAGKSTILRLLFRFY--DISS-----GCIRIDGQ  116 (306)
T ss_dssp             CEEEEEE-EEEECTTCEEEEESSSCHHHHHHHHHHTTSS--CCSE-----EEEEETTE
T ss_pred             Cceeeee-eEEEcCCCEEEEECCCCchHHHHHHHHHcCC--CCCC-----cEEEECCE
Confidence            3445554 4468999999999999999999998887654  2222     35677654

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=98.16  E-value=3.8e-05  Score=68.48  Aligned_cols=40  Identities=25%  Similarity=0.225  Sum_probs=32.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++|+++.|+||+|+||||++..++....   ..++   +|.+.+.+
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~---~~~g---~V~l~g~D  166 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLK---NHGF---SVVIAASD  166 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEEEEC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH---hcCC---EEEEEeec
Confidence            5799999999999999999999998764   4455   67777655

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.16  E-value=7.6e-06  Score=75.09  Aligned_cols=125  Identities=13%  Similarity=0.127  Sum_probs=68.3

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEe
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQS  112 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~  112 (302)
                      .|+++..=++|+||||+|||.+|..+|..+..         ..+.++...-+                     +.    .
T Consensus       211 ~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~---------~fi~v~~s~l~---------------------sk----~  256 (437)
T 4b4t_I          211 MGIKPPKGVILYGAPGTGKTLLAKAVANQTSA---------TFLRIVGSELI---------------------QK----Y  256 (437)
T ss_dssp             HTCCCCSEEEEESSTTTTHHHHHHHHHHHHTC---------EEEEEESGGGC---------------------CS----S
T ss_pred             CCCCCCCCCceECCCCchHHHHHHHHHHHhCC---------CEEEEEHHHhh---------------------hc----c
Confidence            37777777999999999999999999988631         45666644211                     00    0


Q ss_pred             CCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEe
Q 022155          113 VHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTN  192 (302)
Q Consensus       113 ~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n  192 (302)
                      ....+   ..+..+......     ..+.+|+||.+.+++..-..............+..++..+..+....++.||.++
T Consensus       257 vGese---k~ir~lF~~Ar~-----~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaAT  328 (437)
T 4b4t_I          257 LGDGP---RLCRQIFKVAGE-----NAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMAT  328 (437)
T ss_dssp             SSHHH---HHHHHHHHHHHH-----TCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEE
T ss_pred             CchHH---HHHHHHHHHHHh-----cCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeC
Confidence            11111   122222222222     2349999999999875322111111112223345556655554444566666655


Q ss_pred             cccccCC
Q 022155          193 QVVDLME  199 (302)
Q Consensus       193 ~~~~~~~  199 (302)
                      .-.+.++
T Consensus       329 Nrpd~LD  335 (437)
T 4b4t_I          329 NKIETLD  335 (437)
T ss_dssp             SCSTTCC
T ss_pred             CChhhcC
Confidence            4444444

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.15  E-value=4.9e-05  Score=68.70  Aligned_cols=120  Identities=15%  Similarity=0.164  Sum_probs=68.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH-HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM-RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ  118 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~-~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~  118 (302)
                      .+.|+||+|+|||+++..++....   ...  ...++|+++....+. .-+..+...+....+.         ...+..+
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~---~~~--~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~---------~~~~~~~  111 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYK---DKT--TARFVYINGFIYRNFTAIIGEIARSLNIPFPR---------RGLSRDE  111 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT---TSC--CCEEEEEETTTCCSHHHHHHHHHHHTTCCCCS---------SCCCHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHh---hhc--CeeEEEEeCccCCCHHHHHHHHHHHhCccCCC---------CCCCHHH
Confidence            899999999999999999988753   221  127899997655444 3345555554321110         0113333


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHH--cCcEEEEEecc
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG--FGLAVLVTNQV  194 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~--~~~~viv~n~~  194 (302)
                      +.   ..+...+..    ..+..+|+||.+..+-       . +      .+..+.+.+..+...  .++.+|++.+.
T Consensus       112 ~~---~~l~~~l~~----~~~~~vlilDE~~~l~-------~-~------~~~~L~~~~~~~~~~~~~~~~iI~~~~~  168 (389)
T 1fnn_A          112 FL---ALLVEHLRE----RDLYMFLVLDDAFNLA-------P-D------ILSTFIRLGQEADKLGAFRIALVIVGHN  168 (389)
T ss_dssp             HH---HHHHHHHHH----TTCCEEEEEETGGGSC-------H-H------HHHHHHHHTTCHHHHSSCCEEEEEEESS
T ss_pred             HH---HHHHHHHhh----cCCeEEEEEECccccc-------h-H------HHHHHHHHHHhCCCCCcCCEEEEEEECC
Confidence            33   333444433    2345899999998851       0 1      123334444333321  58888887653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.11  E-value=1.1e-05  Score=76.91  Aligned_cols=139  Identities=17%  Similarity=0.206  Sum_probs=73.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCC--CCeEEEEeCCCC----CCH-HHHHHH-HHHhCCC-CCCCCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL--SASSLYLHTEFP----FPM-RRLHQL-SHTFRPS-NDHNPC  105 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~--~~~vlyid~e~~----~~~-~rl~~i-~~~~~~~-~~~~~l  105 (302)
                      +++|+++.|+||+|||||||+..++...  ++..|..  ...+-|+.-+..    ++. +.+... ...+... .....+
T Consensus       309 i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~--~p~~G~i~~~~~i~~v~Q~~~~~~~~tv~~~~~~~~~~~~~~~~~~~~~l  386 (538)
T 1yqt_A          309 IKKGEVIGIVGPNGIGKTTFVKMLAGVE--EPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDASKLNSNFYKTELL  386 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHTSS--CCSBCCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHTCHHHHHHTT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCC--CCCCeEEEECceEEEEecCCcCCCCCcHHHHHHhhhccCCCHHHHHHHHH
Confidence            5799999999999999999999887753  3334432  124566654432    122 111111 0001000 000111


Q ss_pred             CcEEEE-----eC--CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHH
Q 022155          106 DYIFVQ-----SV--HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK  178 (302)
Q Consensus       106 ~~i~~~-----~~--~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~  178 (302)
                      +.+-+.     .+  -+.-+. ..+. |...+.      .+++++++|+.++-.         |...+    ..+...|+
T Consensus       387 ~~~~l~~~~~~~~~~LSGGe~-qrv~-lAraL~------~~p~lLlLDEPt~~L---------D~~~~----~~i~~~l~  445 (538)
T 1yqt_A          387 KPLGIIDLYDREVNELSGGEL-QRVA-IAATLL------RDADIYLLDEPSAYL---------DVEQR----LAVSRAIR  445 (538)
T ss_dssp             TTTTCGGGTTSBGGGCCHHHH-HHHH-HHHHHT------SCCSEEEEECTTTTC---------CHHHH----HHHHHHHH
T ss_pred             HHcCChhhhcCChhhCCHHHH-HHHH-HHHHHH------hCCCEEEEeCCcccC---------CHHHH----HHHHHHHH
Confidence            111110     00  111111 1111 122232      245999999999854         22332    35677788


Q ss_pred             HHHHHcCcEEEEEecccc
Q 022155          179 AMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       179 ~la~~~~~~viv~n~~~~  196 (302)
                      +++++++.+||++.|...
T Consensus       446 ~l~~~~g~tvi~vsHd~~  463 (538)
T 1yqt_A          446 HLMEKNEKTALVVEHDVL  463 (538)
T ss_dssp             HHHHHHTCEEEEECSCHH
T ss_pred             HHHHhCCCEEEEEeCCHH
Confidence            888778999999999643

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=98.09  E-value=6.7e-05  Score=66.19  Aligned_cols=39  Identities=21%  Similarity=0.236  Sum_probs=31.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +|+++.|+||+||||||++..++....   ..+|   +|.+.+.+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~---~~~g---~V~l~g~D  139 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQ---NLGK---KVMFCAGD  139 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHH---TTTC---CEEEECCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH---hcCC---EEEEEeec
Confidence            689999999999999999999998764   3454   66666544

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.08  E-value=1.4e-05  Score=74.04  Aligned_cols=29  Identities=24%  Similarity=0.201  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+++-.=++|+||||+|||.+|..+|..+
T Consensus       239 Gi~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          239 GIDPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             TCCCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            77777779999999999999999999876

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.08  E-value=1e-05  Score=66.13  Aligned_cols=39  Identities=15%  Similarity=0.057  Sum_probs=31.6

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +|.+..++|++|+||||++++++..+.   ..|.   +++++...
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~~---~~g~---~v~~~~~~   40 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIYK---LGKK---KVAVFKPK   40 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHH---HTTC---EEEEEEEC
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHHH---HCCC---eEEEEeec
Confidence            478999999999999999999998874   3444   78887644

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.08  E-value=4.6e-05  Score=70.40  Aligned_cols=43  Identities=23%  Similarity=0.175  Sum_probs=35.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ++.++.++|++|+||||++..++....   ..|+   +|++++++ .+.+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~---~~G~---kVllv~~D-~~r~  138 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYK---KRGY---KVGLVAAD-VYRP  138 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHH---HTTC---CEEEEEEC-CSCH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEEecC-ccch
Confidence            478999999999999999999998875   4565   89999977 4444

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.08  E-value=4.6e-05  Score=70.44  Aligned_cols=43  Identities=23%  Similarity=0.188  Sum_probs=35.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ++.++.++|++|+||||++..+|..+.   ..|.   +|+.++++ ++.+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~---~~G~---kVllv~~D-~~R~  141 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQ---KRGY---KVGVVCSD-TWRP  141 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH---TTTC---CEEEEECC-CSST
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHH---HCCC---eEEEEeCC-Ccch
Confidence            367999999999999999999998875   4555   89999977 4444

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.07  E-value=1.2e-05  Score=76.64  Aligned_cols=45  Identities=13%  Similarity=0.299  Sum_probs=34.0

Q ss_pred             CeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       139 ~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +++++++|..++-.         |...+    ..+.+.|++++++.+.+||++.|...
T Consensus       403 ~p~lLlLDEPT~gL---------D~~~~----~~i~~~l~~l~~~~g~tvi~vsHdl~  447 (538)
T 3ozx_A          403 EADLYVLDQPSSYL---------DVEER----YIVAKAIKRVTRERKAVTFIIDHDLS  447 (538)
T ss_dssp             CCSEEEEESTTTTC---------CHHHH----HHHHHHHHHHHHHTTCEEEEECSCHH
T ss_pred             CCCEEEEeCCccCC---------CHHHH----HHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            45999999999854         22333    35677888888889999999999643

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=98.02  E-value=1.1e-05  Score=72.63  Aligned_cols=53  Identities=21%  Similarity=0.192  Sum_probs=46.7

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++++.......+.||...||.++  -+.+|+++.|+||+|+|||||+..++...
T Consensus        43 ~~~i~~~~l~~~~~tg~~ald~ll--~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           43 PDPLLRQVIDQPFILGVRAIDGLL--TCGIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             SCSTTCCCCCSEECCSCHHHHHHS--CEETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCeeecccceecCCCCEEEEeee--eecCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            346777777888889999999985  68999999999999999999998888875

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=98.01  E-value=3.8e-06  Score=80.95  Aligned_cols=48  Identities=21%  Similarity=0.267  Sum_probs=35.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...  ++..     +.++++..
T Consensus       358 ~l~~v-~~~i~~G~~~~ivG~sGsGKSTLl~~l~g~~--~p~~-----G~i~~~g~  405 (582)
T 3b60_A          358 ALRNI-NLKIPAGKTVALVGRSGSGKSTIASLITRFY--DIDE-----GHILMDGH  405 (582)
T ss_dssp             SEEEE-EEEECTTCEEEEEECTTSSHHHHHHHHTTTT--CCSE-----EEEEETTE
T ss_pred             cccce-eEEEcCCCEEEEECCCCCCHHHHHHHHhhcc--CCCC-----CeEEECCE
Confidence            45544 4468999999999999999999998887764  2222     35677654

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=98.01  E-value=6.9e-05  Score=66.18  Aligned_cols=45  Identities=22%  Similarity=0.261  Sum_probs=36.5

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ..+++++.|+|++|+||||++..+|....   ..|+   +|++++.+ .+..
T Consensus       101 ~~~~~vi~ivG~~GsGKTTl~~~LA~~l~---~~g~---kV~lv~~D-~~r~  145 (306)
T 1vma_A          101 PEPPFVIMVVGVNGTGKTTSCGKLAKMFV---DEGK---SVVLAAAD-TFRA  145 (306)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEEEEC-TTCH
T ss_pred             CCCCeEEEEEcCCCChHHHHHHHHHHHHH---hcCC---EEEEEccc-cccH
Confidence            35789999999999999999999998864   4455   89998876 4444

>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A

Probab=98.01  E-value=1.5e-05  Score=71.21  Aligned_cols=94  Identities=16%  Similarity=0.145  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHc--CcEEEEEeccc
Q 022155          118 QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF--GLAVLVTNQVV  195 (302)
Q Consensus       118 ~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~--~~~viv~n~~~  195 (302)
                      .+..++.+|++.+..   ...++-.|+|=|+....+......      ....+..++..||.|.+.+  ++++++|-...
T Consensus       199 ~y~~lL~~I~~~i~~---~~~~ilRIvI~SLgSP~wy~~~~~------~~~~ll~FL~~LRaLlR~~~~~~v~~iTlP~~  269 (361)
T 4a8j_A          199 PVSTILSQIEQTIKR---NDKKLIRIVIPSLLHPAMYPPKMF------ESSEIIGLMHGVRSLVKKYYERVVLFASISID  269 (361)
T ss_dssp             CHHHHHHHHHHHHHH---TTTSEEEEEETTTTCTTTSCGGGG------BHHHHHHHHHHHHHHHHHTTTTEEEEEEEECT
T ss_pred             hHHHHHHHHHHHHhc---CCCceEEEEecCCCCcccCCCccc------CHHHHHHHHHHHHHHHhhcCCceEEEEEEChH
Confidence            345677788777754   246789999999988765331110      1123678999999999987  55777763321


Q ss_pred             ccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          196 DLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                                         .+      -+.+-..|.+++|+.|.|+.-..
T Consensus       270 -------------------l~------~~~l~~rle~l~D~vi~L~pF~~  294 (361)
T 4a8j_A          270 -------------------II------TPPLLVLLRNMFDSVINLEPFNQ  294 (361)
T ss_dssp             -------------------TS------CHHHHHHHHHHCSEEEEEEECCH
T ss_pred             -------------------Hc------ChHHHHHHHHhCcEEEEeeecCC
Confidence                               11      11344678999999999988543

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=98.01  E-value=5.2e-06  Score=75.82  Aligned_cols=50  Identities=14%  Similarity=0.157  Sum_probs=37.5

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...|+.+ +--+++|+++.|.||+|||||||+..++...  + ..     .-++++...
T Consensus        34 ~~~L~~v-sl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~--~-~~-----G~I~i~G~~   83 (390)
T 3gd7_A           34 NAILENI-SFSISPGQRVGLLGRTGSGKSTLLSAFLRLL--N-TE-----GEIQIDGVS   83 (390)
T ss_dssp             CCSEEEE-EEEECTTCEEEEEESTTSSHHHHHHHHHTCS--E-EE-----EEEEESSCB
T ss_pred             eEEeece-eEEEcCCCEEEEECCCCChHHHHHHHHhCCC--C-CC-----eEEEECCEE
Confidence            3456665 4578999999999999999999998887653  2 22     357777653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.00  E-value=1.9e-05  Score=75.24  Aligned_cols=35  Identities=17%  Similarity=0.208  Sum_probs=29.6

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ . -+.+|+++.|+||+|||||||+..++...
T Consensus        37 ~l~~v-s-~i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           37 VLYRL-P-VVKEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEECC-C-CCCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cccCc-C-cCCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            46654 5 68999999999999999999998887753

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=98.00  E-value=6.1e-05  Score=68.14  Aligned_cols=115  Identities=16%  Similarity=0.145  Sum_probs=71.0

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhC
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFR   97 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~   97 (302)
                      +.+.||+..+|-++  -+.+|+-+.|+||+|+|||+|+.+++.....  ..  .+..|+|+-...  ..+...++...+ 
T Consensus       156 ~~~~tGiraID~~~--pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~--~~--~~v~~I~~lIGE--R~~Ev~~~~~~~-  226 (422)
T 3ice_A          156 STEDLTARVLDLAS--PIGRGQRGLIVAPPKAGKTMLLQNIAQSIAY--NH--PDCVLMVLLIDE--RPEEVTEMQRLV-  226 (422)
T ss_dssp             CTTHHHHHHHHHHS--CCBTTCEEEEECCSSSSHHHHHHHHHHHHHH--HC--TTSEEEEEEESS--CHHHHHHHHTTC-
T ss_pred             Ccccccceeeeeee--eecCCcEEEEecCCCCChhHHHHHHHHHHhh--cC--CCeeEEEEEecC--ChHHHHHHHHHh-
Confidence            67899999999886  6889999999999999999999999887531  11  123577765332  234444444322 


Q ss_pred             CCCCCCCCCcEEEEeCCC-HH--HHH--HHHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           98 PSNDHNPCDYIFVQSVHS-VD--QLL--DIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        98 ~~~~~~~l~~i~~~~~~~-~~--~l~--~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                              ..+.+....+ ..  ...  .....+.+++.+    .+.--+|++||++.+..
T Consensus       227 --------~~~vV~atadep~~~r~~~a~~alt~AEyfrd----~G~dVLil~DslTR~A~  275 (422)
T 3ice_A          227 --------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVE----HKKDVIILLDSITRLAR  275 (422)
T ss_dssp             --------SSEEEEECTTSCHHHHHHHHHHHHHHHHHHHH----TSCEEEEEEECHHHHHH
T ss_pred             --------CeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHh----cCCCEEEEEeCchHHHH
Confidence                    2344443322 11  111  111122333433    34558889999998753

>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=97.98  E-value=2.5e-05  Score=68.72  Aligned_cols=56  Identities=18%  Similarity=0.175  Sum_probs=43.1

Q ss_pred             ccCChhhHhhhCCCCCC-------CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           21 TVGCPIIDRCLGGGIPC-------NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        21 ~tG~~~LD~~L~GGl~~-------G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ......|+..++++...       +.++.++|++|+||||++..++....   ..|+   +|++++.+-
T Consensus        74 ~~~~~~l~~~~~~~~~~~i~~~~~~~vi~i~G~~G~GKTT~~~~la~~~~---~~g~---~v~l~~~D~  136 (297)
T 1j8m_F           74 KIVYDELSNLFGGDKEPKVIPDKIPYVIMLVGVQGTGKTTTAGKLAYFYK---KKGF---KVGLVGADV  136 (297)
T ss_dssp             HHHHHHHHHHTTCSCCCCCSCSSSSEEEEEECSSCSSTTHHHHHHHHHHH---HTTC---CEEEEECCC
T ss_pred             HHHHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHH---HCCC---eEEEEecCC
Confidence            34555677776554322       88999999999999999999998875   4565   899999874

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.97  E-value=4.6e-05  Score=73.50  Aligned_cols=30  Identities=27%  Similarity=0.368  Sum_probs=26.2

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |-+..|+++.|+||+|||||||+..++...
T Consensus       373 G~~~~GEiv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          373 GEFSDSEILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EECCTTCEEEEESCTTSSHHHHHHHHHTSS
T ss_pred             CccccceEEEEECCCCCcHHHHHHHHhcCC
Confidence            457788999999999999999998887753

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=97.96  E-value=8.8e-05  Score=69.05  Aligned_cols=128  Identities=13%  Similarity=0.241  Sum_probs=79.7

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .+..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||++++....+..   ..+   ..|+|+-....  .+
T Consensus       134 p~~~~R~~v~epl~TGikaID~l~--PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~---~~d---v~~V~~~IGeR--~~  203 (513)
T 3oaa_A          134 PGVIERQSVDQPVQTGYKAVDSMI--PIGRGQRELIIGDRQTGKTALAIDAIINQR---DSG---IKCIYVAIGQK--AS  203 (513)
T ss_dssp             CCSSSCCCCCCBCCCSCHHHHHHS--CCBTTCBCEEEESSSSSHHHHHHHHHHTTS---SSS---CEEEEEEESCC--HH
T ss_pred             CCccccCCcCcccccceeeecccc--ccccCCEEEeecCCCCCcchHHHHHHHhhc---cCC---ceEEEEEecCC--hH
Confidence            357788888999999999999987  577999999999999999999876665542   222   26788775543  22


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEE-EEeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIF-VQSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~-~~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...++...+..   ...+++.. +....+..   .+...  -..+.+++.+    .+.--||++||++.+.
T Consensus       204 ev~e~~~~l~~---~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd----~G~dVLli~Dsltr~A  267 (513)
T 3oaa_A          204 TISNVVRKLEE---HGALANTIVVVATASESAALQYLAPYAGCAMGEYFRD----RGEDALIIYDDLSKQA  267 (513)
T ss_dssp             HHHHHHHHHHH---HSCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHH----TTCEEEEEEETHHHHH
T ss_pred             HHHHHHHHHhh---cCcccceEEEEECCCCChHHHHHHHHHHHHHHHHHHh----cCCCEEEEecChHHHH
Confidence            23333322211   13445533 33332211   11111  1133444444    3455899999999864

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=97.96  E-value=7.6e-05  Score=69.60  Aligned_cols=127  Identities=17%  Similarity=0.244  Sum_probs=79.8

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      +..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||++++....+..   ..+   ..|+|.-....  .+.
T Consensus       135 ~~~~R~~v~epl~TGiraID~l~--PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~---~~d---v~~V~~~iGeR--~~E  204 (502)
T 2qe7_A          135 GVMDRKSVHEPLQTGIKAIDSMI--PIGRGQRELIIGDRQTGKTTIAIDTIINQK---GQD---VICIYVAIGQK--QST  204 (502)
T ss_dssp             CTTSBCCCCSBCCCSCHHHHHSS--CCBTTCBCEEEECSSSCHHHHHHHHHHGGG---SCS---EEEEEEEESCC--HHH
T ss_pred             CcccccCCCCccccceeeccccc--ccccCCEEEEECCCCCCchHHHHHHHHHhh---cCC---cEEEEEECCCc--chH
Confidence            46777888999999999999987  577999999999999999999886666553   222   25788775433  333


Q ss_pred             HHHHHHHhCCCCCCCCCCcEEE-EeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           89 LHQLSHTFRPSNDHNPCDYIFV-QSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        89 l~~i~~~~~~~~~~~~l~~i~~-~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..++...+..   ...+++..+ ....+..   .+...  -..+.+++.+    .+.--||++||++.+.
T Consensus       205 v~~~~~~~~~---~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd----~G~dVLl~~Dsltr~A  267 (502)
T 2qe7_A          205 VAGVVETLRQ---HDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMY----KGKHALVVYDDLSKQA  267 (502)
T ss_dssp             HHHHHHHHHH---TTCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHT----TTCEEEEEEECHHHHH
T ss_pred             HHHHHHHHhh---CCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCcEEEEEecHHHHH
Confidence            3333333211   134555443 3332221   11111  1233445544    3455899999999865

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.94  E-value=5.8e-05  Score=68.05  Aligned_cols=101  Identities=17%  Similarity=0.136  Sum_probs=58.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH-HHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR-RLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~-rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      ..+..+.|+||+|+|||+++..++....-.....+....++|+++....+.. -+..+...+....+.         ...
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~---------~~~  112 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPF---------TGL  112 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCCS---------SCC
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCCC---------CCC
Confidence            4567899999999999999999987752000000112378999977544443 345555554321110         111


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      +..+   ++..+...+..    .....+|+||.+..+.
T Consensus       113 ~~~~---~~~~l~~~l~~----~~~~~vlilDEi~~l~  143 (387)
T 2v1u_A          113 SVGE---VYERLVKRLSR----LRGIYIIVLDEIDFLP  143 (387)
T ss_dssp             CHHH---HHHHHHHHHTT----SCSEEEEEEETTTHHH
T ss_pred             CHHH---HHHHHHHHHhc----cCCeEEEEEccHhhhc
Confidence            2333   23334444432    2345799999999865

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.94  E-value=2e-05  Score=73.15  Aligned_cols=64  Identities=20%  Similarity=0.135  Sum_probs=51.6

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++++.......+.||...||.+|  -+.+|+++.|+||+|+|||||+..++.... + . .    .++.+..+
T Consensus       130 ~~l~~~~v~~~~~tg~~vld~vl--~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~-~-~-~----G~i~~~G~  193 (438)
T 2dpy_A          130 NPLQRTPIEHVLDTGVRAINALL--TVGRGQRMGLFAGSGVGKSVLLGMMARYTR-A-D-V----IVVGLIGE  193 (438)
T ss_dssp             CTTTSCCCCSBCCCSCHHHHHHS--CCBTTCEEEEEECTTSSHHHHHHHHHHHSC-C-S-E----EEEEEESC
T ss_pred             CceEEeccceecCCCceEEeeeE--EecCCCEEEEECCCCCCHHHHHHHHhcccC-C-C-e----EEEEEece
Confidence            46777777788888999999985  699999999999999999999988888752 1 1 1    46677765

>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=97.93  E-value=6.7e-06  Score=74.24  Aligned_cols=99  Identities=15%  Similarity=0.133  Sum_probs=55.6

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH-HHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR-RLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~-rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      ..+..+.|+||+|+|||+++..++.... + ..+. ...++|+++....... -+..+...+....+         ....
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~-~-~~~~-~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~  110 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLH-K-KFLG-KFKHVYINTRQIDTPYRVLADLLESLDVKVP---------FTGL  110 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHH-H-HTCS-SCEEEEEEHHHHCSHHHHHHHHTTTTSCCCC---------SSSC
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHH-H-HhcC-CceEEEEECCCCCCHHHHHHHHHHHhCCCCC---------CCCC
Confidence            3577899999999999999999987752 1 1110 1278999865322322 23333322211000         0111


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +..+   .+..+...+..    .....+||||.+..+..
T Consensus       111 ~~~~---~~~~l~~~l~~----~~~~~vlilDE~~~l~~  142 (386)
T 2qby_A          111 SIAE---LYRRLVKAVRD----YGSQVVIVLDEIDAFVK  142 (386)
T ss_dssp             CHHH---HHHHHHHHHHT----CCSCEEEEEETHHHHHH
T ss_pred             CHHH---HHHHHHHHHhc----cCCeEEEEEcChhhhhc
Confidence            2333   33344444443    23358999999998753

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.91  E-value=5.8e-05  Score=70.65  Aligned_cols=120  Identities=15%  Similarity=0.121  Sum_probs=63.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      ++.|  +.|+||||+|||+++..++....      .   ..++++...-..                 ....       .
T Consensus        48 ~p~g--vLL~GppGtGKT~Laraia~~~~------~---~f~~is~~~~~~-----------------~~~g-------~   92 (476)
T 2ce7_A           48 MPKG--ILLVGPPGTGKTLLARAVAGEAN------V---PFFHISGSDFVE-----------------LFVG-------V   92 (476)
T ss_dssp             CCSE--EEEECCTTSSHHHHHHHHHHHHT------C---CEEEEEGGGTTT-----------------CCTT-------H
T ss_pred             CCCe--EEEECCCCCCHHHHHHHHHHHcC------C---CeeeCCHHHHHH-----------------HHhc-------c
Confidence            4455  88999999999999999987652      1   567776542110                 0000       0


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      ....+..++..   ...      ..+.+|+||.+..+....-....+....+.+.+.+++..+..+....++.||.+.+.
T Consensus        93 ~~~~~r~lf~~---A~~------~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~  163 (476)
T 2ce7_A           93 GAARVRDLFAQ---AKA------HAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNR  163 (476)
T ss_dssp             HHHHHHHHHHH---HHH------TCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESC
T ss_pred             cHHHHHHHHHH---HHh------cCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCC
Confidence            11112222221   111      235899999999975421100000112233445566666554444567888887776


Q ss_pred             cccC
Q 022155          195 VDLM  198 (302)
Q Consensus       195 ~~~~  198 (302)
                      .+..
T Consensus       164 ~~~L  167 (476)
T 2ce7_A          164 PDIL  167 (476)
T ss_dssp             GGGS
T ss_pred             hhhh
Confidence            5443

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.91  E-value=7.1e-05  Score=64.03  Aligned_cols=34  Identities=18%  Similarity=0.175  Sum_probs=26.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .-+.|+||||+|||+++..++....      .   .+++++..
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~~~------~---~~~~i~~~   79 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGEAK------V---PFFTISGS   79 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHT------C---CEEEECSC
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHcC------C---CEEEEeHH
Confidence            3488999999999999999987642      1   46777754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.88  E-value=2.1e-05  Score=69.11  Aligned_cols=38  Identities=16%  Similarity=0.187  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      +++....+.|+||||+|||++|..+|....      .   .+++++.
T Consensus        32 ~~~~p~~lLl~GppGtGKT~la~aiA~~l~------~---~~i~v~~   69 (293)
T 3t15_A           32 NIKVPLILGIWGGKGQGKSFQCELVFRKMG------I---NPIMMSA   69 (293)
T ss_dssp             TCCCCSEEEEEECTTSCHHHHHHHHHHHHT------C---CCEEEEH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhC------C---CEEEEeH
Confidence            566667899999999999999999988752      1   5778874

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=97.88  E-value=2.8e-05  Score=75.09  Aligned_cols=35  Identities=20%  Similarity=0.204  Sum_probs=29.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ . -+++|+++.|.||+|||||||+..++...
T Consensus       107 ~l~~v-s-~i~~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          107 VLYRL-P-IVKDGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEECC-C-CCCTTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eeCCC-C-CCCCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45554 4 68999999999999999999998887653

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=97.87  E-value=8.8e-05  Score=69.24  Aligned_cols=127  Identities=13%  Similarity=0.185  Sum_probs=79.5

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      +..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||++++....+..   ..+   ..|+|+-....  .+.
T Consensus       148 ~~~~R~~v~epl~TGiraID~l~--PigrGQR~~I~g~~g~GKT~Lal~~I~~~~---~~d---v~~V~~~IGeR--~~E  217 (515)
T 2r9v_A          148 GVIYRKPVDTPLQTGIKAIDSMI--PIGRGQRELIIGDRQTGKTAIAIDTIINQK---GQG---VYCIYVAIGQK--KSA  217 (515)
T ss_dssp             CGGGBCCCCSEECCSCHHHHHHS--CEETTCBEEEEEETTSSHHHHHHHHHHTTT---TTT---EEEEEEEESCC--HHH
T ss_pred             CcccccCCCcchhcCcccccccc--ccccCCEEEEEcCCCCCccHHHHHHHHHhh---cCC---cEEEEEEcCCC--cHH
Confidence            46777778899999999999987  577999999999999999999876655543   222   25788765433  233


Q ss_pred             HHHHHHHhCCCCCCCCCCcEEE-EeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           89 LHQLSHTFRPSNDHNPCDYIFV-QSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        89 l~~i~~~~~~~~~~~~l~~i~~-~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..++...+..   ...+++..+ ....+..   .+...  -..+.+++.+    .+.--||++||++.+.
T Consensus       218 v~e~~~~~~~---~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd----~G~dVLli~DslTr~A  280 (515)
T 2r9v_A          218 IARIIDKLRQ---YGAMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAY----SGRDALVVYDDLSKHA  280 (515)
T ss_dssp             HHHHHHHHHH---TTGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHT----TTCEEEEEEETHHHHH
T ss_pred             HHHHHHHHHh---CCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCcEEEEeccHHHHH
Confidence            3333333211   134555443 3332211   11111  1233444544    3455899999999865

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=97.86  E-value=0.00015  Score=67.41  Aligned_cols=64  Identities=20%  Similarity=0.237  Sum_probs=51.2

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      ++.++....+.+.||+..+|.+.  -+-+|+.+.|+|++|+|||+|+..++.+...  ..+.   -++|..
T Consensus       124 ~~~~r~~~~e~l~TGir~ID~L~--pi~kGq~~~i~G~sGvGKTtL~~~l~~~~~~--~~~~---i~V~~~  187 (473)
T 1sky_E          124 KFEELATEVEILETGIKVVDLLA--PYIKGGKIGLFGGAGVGKTVLIQELIHNIAQ--EHGG---ISVFAG  187 (473)
T ss_dssp             CGGGBCCSCCEECCSCHHHHHHS--CEETTCEEEEECCSSSCHHHHHHHHHHHHHH--HTCC---CEEEEE
T ss_pred             chhhhcccCccccccchHHHHHh--hhccCCEEEEECCCCCCccHHHHHHHhhhhh--ccCc---EEEEee
Confidence            46777778899999999999986  5678999999999999999999999887542  1233   456654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.86  E-value=9.7e-05  Score=65.67  Aligned_cols=42  Identities=14%  Similarity=0.145  Sum_probs=32.7

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+..+..-+.|+||||+|||++|..++....     +.   ..++++..
T Consensus        39 ~~~~~~~~~iLL~GppGtGKT~la~ala~~~~-----~~---~~~~i~~~   80 (322)
T 1xwi_A           39 TGKRTPWRGILLFGPPGTGKSYLAKAVATEAN-----NS---TFFSISSS   80 (322)
T ss_dssp             CTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT-----SC---EEEEEECC
T ss_pred             hCCCCCCceEEEECCCCccHHHHHHHHHHHcC-----CC---cEEEEEhH
Confidence            35566778899999999999999999988751     21   57777765

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.85  E-value=9.4e-05  Score=65.74  Aligned_cols=45  Identities=22%  Similarity=0.160  Sum_probs=37.0

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ..+++++.|+|++|+||||++..+|....   ..|+   +|++++.+ .+..
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~---~~g~---kVllid~D-~~r~  146 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYA---ELGY---KVLIAAAD-TFRA  146 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECC-CSCH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH---HCCC---eEEEEeCC-Ccch
Confidence            46789999999999999999999998865   4565   89999977 3443

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=97.85  E-value=0.00014  Score=67.99  Aligned_cols=130  Identities=14%  Similarity=0.180  Sum_probs=79.3

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCC-----CcCCCCCCeEEEEeCCCC
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLP-----SSHGGLSASSLYLHTEFP   83 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~-----~~~gg~~~~vlyid~e~~   83 (302)
                      +..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|++....+..-.     ...+   ..|+|+-....
T Consensus       135 ~~~~R~~v~epl~TGiraID~l~--PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d---~~~V~~~IGeR  209 (510)
T 2ck3_A          135 GIIPRISVREPMQTGIKAVDSLV--PIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKK---LYCIYVAIGQK  209 (510)
T ss_dssp             CSTTBCCCCSBCCCSCHHHHHHS--CCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTC---CEEEEEEESCC
T ss_pred             CcccccccCccccccceeecccc--ccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCC---eEEEEEECCCC
Confidence            46677777899999999999987  57799999999999999999977555554310     0022   26888765433


Q ss_pred             CCHHHHHHHHHHhCCCCCCCCCCcEEE-EeCCCH---HHHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           84 FPMRRLHQLSHTFRPSNDHNPCDYIFV-QSVHSV---DQLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        84 ~~~~rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~---~~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                        .+...++...+..   ...+++..+ ....+.   ..+...  -..+.+++.+    .+.--||++||++.+.
T Consensus       210 --~~Ev~~~~~~~~~---~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd----~G~dVLli~Dsltr~A  275 (510)
T 2ck3_A          210 --RSTVAQLVKRLTD---ADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRD----NGKHALIIYDDLSKQA  275 (510)
T ss_dssp             --HHHHHHHHHHHHH---TTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHT----TTCEEEEEEETHHHHH
T ss_pred             --cHHHHHHHHHHHh---cCCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCcEEEEEcCHHHHH
Confidence              2333333333211   134555443 333221   112111  1233444544    3455899999999865

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.85  E-value=4.5e-05  Score=73.60  Aligned_cols=29  Identities=21%  Similarity=0.129  Sum_probs=25.6

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+++|+++.|.||+|+|||||+..++...
T Consensus        99 ~~~~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B           99 TPRPGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             CCCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            46799999999999999999998887753

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.85  E-value=7.3e-06  Score=79.02  Aligned_cols=49  Identities=12%  Similarity=0.165  Sum_probs=36.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+++ +--+++|+++.|+||+|||||||+..++...  ++..     ..++++...
T Consensus       358 ~l~~i-sl~i~~Ge~~~ivG~sGsGKSTll~~l~g~~--~~~~-----G~i~i~g~~  406 (587)
T 3qf4_A          358 VLSGV-NFSVKPGSLVAVLGETGSGKSTLMNLIPRLI--DPER-----GRVEVDELD  406 (587)
T ss_dssp             SEEEE-EEEECTTCEEEEECSSSSSHHHHHHTTTTSS--CCSE-----EEEEESSSB
T ss_pred             ceece-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCc--cCCC-----cEEEECCEE
Confidence            45554 3468999999999999999999998777654  2222     357777653

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=97.84  E-value=7.5e-05  Score=69.70  Aligned_cols=127  Identities=16%  Similarity=0.209  Sum_probs=79.8

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      +..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||++++....+..   ..+.   .|+|.-....  .+.
T Consensus       136 ~~~~R~~v~epl~TGiraID~l~--PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~---~~dv---~~V~~~iGeR--~~E  205 (507)
T 1fx0_A          136 GIMSRRSVYEPLQTGLIAIDAMI--PVGRGQRELIIGDRQTGKTAVATDTILNQQ---GQNV---ICVYVAIGQK--ASS  205 (507)
T ss_dssp             CSSSBCCCCSBCCCSCTTTTTTS--CCBTTCBCBEEESSSSSHHHHHHHHHHTCC---TTTC---EEEEEEESCC--HHH
T ss_pred             CcccccccCCcccccceeccccc--ccccCCEEEEecCCCCCccHHHHHHHHHhh---cCCc---EEEEEEcCCC--chH
Confidence            46677777899999999999987  577999999999999999999886666543   2232   6788775432  334


Q ss_pred             HHHHHHHhCCCCCCCCCCcEEE-EeCCCH---HHHH--HHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           89 LHQLSHTFRPSNDHNPCDYIFV-QSVHSV---DQLL--DIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        89 l~~i~~~~~~~~~~~~l~~i~~-~~~~~~---~~l~--~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..++...+..   ...+++..+ ....+.   ..+.  ..-..+.+++.+    .+.--||++||++.+.
T Consensus       206 v~~~~~~~~~---~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd----~G~dVLli~Dsltr~A  268 (507)
T 1fx0_A          206 VAQVVTNFQE---RGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMY----RERHTLIIYDDLSKQA  268 (507)
T ss_dssp             HHHHHHHTGG---GTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHH----TTCEEEEEEECHHHHH
T ss_pred             HHHHHHHHHh---cCccccceEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCcEEEEEecHHHHH
Confidence            4444444321   134455433 332221   1111  111233344443    3455899999999854

>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=97.84  E-value=2.7e-05  Score=68.57  Aligned_cols=29  Identities=17%  Similarity=0.229  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |++++..+.|+||||+|||++|..++...
T Consensus        45 ~~~~~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           45 GMTPSKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             CCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             CCCCCceEEEECCCCcCHHHHHHHHHHHh
Confidence            68899999999999999999999998764

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.84  E-value=5.7e-05  Score=60.73  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+..+.|+||+|+|||+++..++...
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999998875

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.82  E-value=6.7e-06  Score=79.47  Aligned_cols=48  Identities=19%  Similarity=0.140  Sum_probs=34.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+++.|+||+|||||||+..++...  ++..     +.++++..
T Consensus       370 ~l~~i-sl~i~~G~~~~ivG~sGsGKSTll~~l~g~~--~p~~-----G~i~~~g~  417 (598)
T 3qf4_B          370 VLKDI-TFHIKPGQKVALVGPTGSGKTTIVNLLMRFY--DVDR-----GQILVDGI  417 (598)
T ss_dssp             SCCSE-EEECCTTCEEEEECCTTSSTTHHHHHHTTSS--CCSE-----EEEEETTE
T ss_pred             cccce-EEEEcCCCEEEEECCCCCcHHHHHHHHhcCc--CCCC-----eEEEECCE
Confidence            44443 3468999999999999999999998887654  2222     34666654

>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=97.82  E-value=8.3e-05  Score=62.33  Aligned_cols=39  Identities=18%  Similarity=0.114  Sum_probs=32.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+..+.|+||+|+|||+++..++....   ..+.   .++|++..
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~---~~~~~~~~   89 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARAN---ELER---RSFYIPLG   89 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEEGG
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEEEHH
Confidence            678999999999999999999988764   2233   78898865

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=97.80  E-value=0.00042  Score=64.29  Aligned_cols=66  Identities=20%  Similarity=0.308  Sum_probs=52.9

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++.++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.+.+.  ..++   -++|.-..
T Consensus       126 ~~~~r~~~~e~l~TGir~ID~l~--pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~--~~~~---v~V~~~iG  191 (482)
T 2ck3_D          126 EFVEMSVEQEILVTGIKVVDLLA--PYAKGGKIGLFGGAGVGKTVLIMELINNVAK--AHGG---YSVFAGVG  191 (482)
T ss_dssp             CGGGCCCCCCEECCSCHHHHHHS--CEETTCEEEEEECTTSSHHHHHHHHHHHTTT--TCSS---EEEEEEES
T ss_pred             chHHhcccCcCCccceEEEeccc--ccccCCeeeeecCCCCChHHHHHHHHHhhHh--hCCC---EEEEEECC
Confidence            45666777889999999999987  5779999999999999999999999998631  1223   57776543

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=97.80  E-value=5.5e-05  Score=68.23  Aligned_cols=28  Identities=14%  Similarity=0.058  Sum_probs=24.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+|+++.|+||+||||||++..++...
T Consensus       120 ~~~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          120 DVPRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             HCSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            4677899999999999999999888775

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=97.79  E-value=0.0003  Score=65.49  Aligned_cols=67  Identities=16%  Similarity=0.196  Sum_probs=54.3

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+..++....+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+.+.  ..++   .++|.-..
T Consensus       137 p~~~~r~~~~e~l~TGirvID~l~--pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~--~~~~---v~V~~~iG  203 (498)
T 1fx0_B          137 PAFTQLDTKLSIFETGIKVVNLLA--PYRRGGKIGLFGGAGVGKTVLIMELINNIAK--AHGG---VSVFGGVG  203 (498)
T ss_dssp             CCGGGCCCCCCCCCCSCTTHHHHS--CCCTTCCEEEEECSSSSHHHHHHHHHHHTTT--TCSS---CEEEEEES
T ss_pred             CchhhhcccccccccceeEeeeec--ccccCCeEEeecCCCCCchHHHHHHHHHHHh--hCCC---EEEEEEcc
Confidence            356777777899999999999987  5789999999999999999999999998631  1233   67777544

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=97.75  E-value=1.2e-05  Score=77.40  Aligned_cols=48  Identities=15%  Similarity=0.175  Sum_probs=35.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+++.|+||+|||||||+..++...  ++..     +.++++..
T Consensus       356 ~l~~i-sl~i~~G~~~~ivG~sGsGKSTll~~l~g~~--~p~~-----G~i~~~g~  403 (578)
T 4a82_A          356 ILKDI-NLSIEKGETVAFVGMSGGGKSTLINLIPRFY--DVTS-----GQILIDGH  403 (578)
T ss_dssp             SEEEE-EEEECTTCEEEEECSTTSSHHHHHTTTTTSS--CCSE-----EEEEETTE
T ss_pred             ceeee-EEEECCCCEEEEECCCCChHHHHHHHHhcCC--CCCC-----cEEEECCE
Confidence            45554 4468999999999999999999998777654  2222     35677654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.75  E-value=5.5e-05  Score=71.98  Aligned_cols=28  Identities=25%  Similarity=0.246  Sum_probs=24.7

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++|+++.|+||+|||||||+..++...
T Consensus        22 ~~~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           22 PKNNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             CCTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4589999999999999999998887753

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=97.74  E-value=0.00042  Score=63.84  Aligned_cols=43  Identities=26%  Similarity=0.263  Sum_probs=35.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ++.++.|+|++|+||||++..++....   ..|+   +|++++.+ .+.+
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~---~~g~---~Vllvd~D-~~r~  139 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK---GKGR---RPLLVAAD-TQRP  139 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH---TTTC---CEEEEECC-SSCH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEeecc-ccCc
Confidence            688999999999999999999998875   4465   89999976 4444

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.74  E-value=0.00019  Score=61.22  Aligned_cols=40  Identities=23%  Similarity=0.177  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      |++...-+.|+||||+|||+++..++....      .   ..++++...
T Consensus        35 g~~~~~~vll~G~~GtGKT~la~~la~~~~------~---~~~~~~~~~   74 (262)
T 2qz4_A           35 GAKVPKGALLLGPPGCGKTLLAKAVATEAQ------V---PFLAMAGAE   74 (262)
T ss_dssp             -CCCCCEEEEESCTTSSHHHHHHHHHHHHT------C---CEEEEETTT
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHhC------C---CEEEechHH
Confidence            556667789999999999999999987652      1   577787653

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.74  E-value=4e-05  Score=61.56  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=22.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ....+.|+||+|+|||+++..++...
T Consensus        42 ~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            45577999999999999999998875

>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=97.73  E-value=7e-05  Score=74.22  Aligned_cols=122  Identities=11%  Similarity=0.114  Sum_probs=70.1

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEe
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQS  112 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~  112 (302)
                      .|+.+-.=++|+||||+|||+|+..+|..+      |-   ..+++++..         +...                 
T Consensus       233 ~g~~~p~GILL~GPPGTGKT~LAraiA~el------g~---~~~~v~~~~---------l~sk-----------------  277 (806)
T 3cf2_A          233 IGVKPPRGILLYGPPGTGKTLIARAVANET------GA---FFFLINGPE---------IMSK-----------------  277 (806)
T ss_dssp             CCCCCCCEEEEECCTTSCHHHHHHHHHTTT------TC---EEEEEEHHH---------HHSS-----------------
T ss_pred             cCCCCCCeEEEECCCCCCHHHHHHHHHHHh------CC---eEEEEEhHH---------hhcc-----------------
Confidence            367666779999999999999999887654      21   566676431         1100                 


Q ss_pred             CCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEe
Q 022155          113 VHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTN  192 (302)
Q Consensus       113 ~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n  192 (302)
                      ...  +-...+..+-+...     .....+|+||.+.+++...-... ++..  ..++.+++..+..+....++.||.++
T Consensus       278 ~~g--ese~~lr~lF~~A~-----~~~PsIIfIDEiDal~~~r~~~~-~~~~--~riv~~LL~~mdg~~~~~~V~VIaaT  347 (806)
T 3cf2_A          278 LAG--ESESNLRKAFEEAE-----KNAPAIIFIDELDAIAPKREKTH-GEVE--RRIVSQLLTLMDGLKQRAHVIVMAAT  347 (806)
T ss_dssp             CTT--HHHHHHHHHHHHHT-----TSCSEEEEEESGGGTCCTTTTCC-CTTH--HHHHHHHHTHHHHCCGGGCEEEEEEC
T ss_pred             cch--HHHHHHHHHHHHHH-----HcCCeEEEEehhcccccccCCCC-ChHH--HHHHHHHHHHHhcccccCCEEEEEec
Confidence            001  11112222222221     13459999999999875322221 1222  23456677777776667788877765


Q ss_pred             cccccCC
Q 022155          193 QVVDLME  199 (302)
Q Consensus       193 ~~~~~~~  199 (302)
                      .-.+.++
T Consensus       348 N~~d~LD  354 (806)
T 3cf2_A          348 NRPNSID  354 (806)
T ss_dssp             SSTTTSC
T ss_pred             CChhhcC
Confidence            5444433

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.71  E-value=0.00015  Score=65.44  Aligned_cols=30  Identities=23%  Similarity=0.231  Sum_probs=24.8

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++..+..-+.|+||||+|||++|..++...
T Consensus        79 ~~~~~~~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           79 GNRKPTSGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             SSCCCCCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            344555668999999999999999998875

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=97.70  E-value=0.00014  Score=65.66  Aligned_cols=59  Identities=19%  Similarity=0.155  Sum_probs=46.4

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.+...  ...  +..|+|+-..
T Consensus       156 ~e~~~tGiraID~l~--PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~--~~~--dv~~V~~lIG  214 (427)
T 3l0o_A          156 TDPKIYSTRLIDLFA--PIGKGQRGMIVAPPKAGKTTILKEIANGIAE--NHP--DTIRIILLID  214 (427)
T ss_dssp             CSTTCHHHHHHHHHS--CCBTTCEEEEEECTTCCHHHHHHHHHHHHHH--HCT--TSEEEEEECS
T ss_pred             ccchhccchhhhhcc--cccCCceEEEecCCCCChhHHHHHHHHHHhh--cCC--CeEEEEEEec
Confidence            378899999999987  5779999999999999999999999887531  111  2267776644

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=97.70  E-value=0.00035  Score=66.06  Aligned_cols=128  Identities=12%  Similarity=0.079  Sum_probs=80.0

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      ++.++....+.+.||+..+|-++  -+-+|+-..|.|++|+|||+|+.+++.+..     .+   -|+|+-....  .+.
T Consensus       205 p~~~R~~~~epl~TGirvID~l~--PigrGqr~~Ifgg~g~GKT~L~~~ia~~~~-----~~---v~V~~~iGER--~~E  272 (600)
T 3vr4_A          205 PIKQKLNPDVPMITGQRVIDTFF--PVTKGGAAAVPGPFGAGKTVVQHQIAKWSD-----VD---LVVYVGCGER--GNE  272 (600)
T ss_dssp             CCSEEECCCSBCCCCCHHHHHHS--CCBTTCEEEEECCTTSCHHHHHHHHHHHSS-----CS---EEEEEEEEEC--HHH
T ss_pred             chhhccCCCceecccchhhhccC--CccCCCEEeeecCCCccHHHHHHHHHhccC-----CC---EEEEEEeccc--HHH
Confidence            35566677899999999999987  578999999999999999999999987742     22   5777664432  344


Q ss_pred             HHHHHHHhCCC----CCCCCCCcEEE-EeCCC-H--HHHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           89 LHQLSHTFRPS----NDHNPCDYIFV-QSVHS-V--DQLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        89 l~~i~~~~~~~----~~~~~l~~i~~-~~~~~-~--~~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..++...+...    .-...+++..+ ....+ .  ......  -..+.+++.+    .+.--|+++||++.+.
T Consensus       273 v~e~~~~~~el~d~~~G~~~m~rtvvV~~tsd~p~~~R~~~~~~altiAEyfrd----~G~dVLl~~Ds~tR~A  342 (600)
T 3vr4_A          273 MTDVVNEFPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTGITIAEYFRD----MGYDVAIMADSTSRWA  342 (600)
T ss_dssp             HHHHHHHTTTCBCTTTCSBGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHT----TTCEEEEEEECHHHHH
T ss_pred             HHHHHHHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEEecchHHHH
Confidence            55555554321    11234555433 33222 1  111111  1133444544    2344678999999654

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.67  E-value=0.00014  Score=59.52  Aligned_cols=110  Identities=16%  Similarity=0.100  Sum_probs=66.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC--CCHHHHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP--FPMRRLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~--~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      .|++..|+|+.|+|||+.+++.+.+..   ..+.   +|+|+..+-.  +...-...+...         .+.+   ...
T Consensus        19 ~g~l~fiyG~MgsGKTt~Ll~~i~n~~---~~~~---kvl~~kp~~D~R~~~~i~S~~g~~---------~~A~---~~~   80 (195)
T 1w4r_A           19 RGQIQVILGPMFSGKSTELMRRVRRFQ---IAQY---KCLVIKYAKDTRYSSSFCTHDRNT---------MEAL---PAC   80 (195)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHH---HTTC---CEEEEEETTCCCGGGSCCHHHHHH---------SEEE---EES
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHH---HcCC---eEEEEccccCccchhhhhhccCCc---------ccce---ecC
Confidence            589999999999999999999998875   3343   8999986522  111000111111         0111   223


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      +..++.+   .    .       .++++|+||.++.+  .+        +         ...+..++ +.++.||+...-
T Consensus        81 ~~~d~~~---~----~-------~~~DvIlIDEaQFf--k~--------~---------ve~~~~L~-~~gk~VI~~GL~  126 (195)
T 1w4r_A           81 LLRDVAQ---E----A-------LGVAVIGIDEGQFF--PD--------I---------VEFCEAMA-NAGKTVIVAALD  126 (195)
T ss_dssp             SGGGGHH---H----H-------HTCSEEEESSGGGC--TT--------H---------HHHHHHHH-HTTCEEEEEEES
T ss_pred             CHHHHHH---h----c-------cCCCEEEEEchhhh--HH--------H---------HHHHHHHH-HCCCeEEEEecc
Confidence            3333322   1    2       14699999999985  21        1         12235555 679999999876


Q ss_pred             cccC
Q 022155          195 VDLM  198 (302)
Q Consensus       195 ~~~~  198 (302)
                      .+-.
T Consensus       127 ~DF~  130 (195)
T 1w4r_A          127 GTFQ  130 (195)
T ss_dssp             BCTT
T ss_pred             cccc
Confidence            6533

>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=97.67  E-value=0.0001  Score=65.51  Aligned_cols=39  Identities=18%  Similarity=0.203  Sum_probs=30.2

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      ++..+..-+.|+||||+|||++|..++....      .   .+++++.
T Consensus        46 ~~~~~~~~vLl~GppGtGKT~la~aia~~~~------~---~~~~v~~   84 (322)
T 3eie_A           46 GNRKPTSGILLYGPPGTGKSYLAKAVATEAN------S---TFFSVSS   84 (322)
T ss_dssp             TTCCCCCEEEEECSSSSCHHHHHHHHHHHHT------C---EEEEEEH
T ss_pred             cCCCCCCeEEEECCCCCcHHHHHHHHHHHHC------C---CEEEEch
Confidence            4555667799999999999999999987642      1   5677764

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.67  E-value=0.0001  Score=64.84  Aligned_cols=42  Identities=19%  Similarity=0.228  Sum_probs=34.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+|+++.|+|++|+||||++..++.....  ..|.   +|++++.+.
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~--~~G~---~V~lv~~D~  144 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISML--EKHK---KIAFITTDT  144 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHH--TTCC---CEEEEECCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHH--hcCC---EEEEEecCc
Confidence            36899999999999999999999988641  2454   799999764

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=97.65  E-value=0.00022  Score=66.18  Aligned_cols=132  Identities=11%  Similarity=0.146  Sum_probs=78.5

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      +..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.++|.......+ + .+..|+|.-....  .+.
T Consensus       125 ~p~~R~~~~e~l~TGir~ID~l~--pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~-~-~~~~~V~~~iGER--~~E  198 (469)
T 2c61_A          125 NPYARLPPKDFIQTGISTIDGTN--TLVRGQKLPIFSASGLPHNEIALQIARQASVPGS-E-SAFAVVFAAMGIT--NEE  198 (469)
T ss_dssp             CCBCSCCCCSBCBCSCHHHHTTS--CCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTC-S-SCEEEEEEEEEEC--HHH
T ss_pred             CcccccccccccceeeEeeeeee--ccccCCEEEEECCCCCCHHHHHHHHHHHHhhccC-C-CCcEEEEEEccCC--cHH
Confidence            45567777899999999999987  5779999999999999999999999998753111 1 1125777654432  222


Q ss_pred             HHHHHHHhCCCCCCCCCCcEEE-EeCCCH---HHHHHH--HHHHHHHHH-hccCCCCCeeEEEEechhhhhh
Q 022155           89 LHQLSHTFRPSNDHNPCDYIFV-QSVHSV---DQLLDI--MPKIESFIK-NSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        89 l~~i~~~~~~~~~~~~l~~i~~-~~~~~~---~~l~~~--l~~l~~~l~-~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      ..++...+..   ...+++..+ ....+.   ..+...  -..+.+++. +    .+.--|+++||++.+..
T Consensus       199 v~e~~~~~~~---~g~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd----~G~dVLl~~DsltR~A~  263 (469)
T 2c61_A          199 AQYFMSDFEK---TGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYE----HGMHVLVILTDITNYAE  263 (469)
T ss_dssp             HHHHHHHHHH---HSGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHH----HCCEEEEEEECHHHHHH
T ss_pred             HHHHHHHHHh---ccCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHh----cCCeEEEEEeCHHHHHH
Confidence            3333322211   124455433 332221   111111  112333443 2    23448999999998753

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=97.62  E-value=0.00016  Score=60.13  Aligned_cols=39  Identities=13%  Similarity=0.057  Sum_probs=32.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .+|.+..++|+.|+||||.++.++.++.   ..|.   +|+++..
T Consensus        26 ~~G~l~vitG~MgsGKTT~lL~~a~r~~---~~g~---kVli~k~   64 (214)
T 2j9r_A           26 QNGWIEVICGSMFSGKSEELIRRVRRTQ---FAKQ---HAIVFKP   64 (214)
T ss_dssp             CSCEEEEEECSTTSCHHHHHHHHHHHHH---HTTC---CEEEEEC
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHH---HCCC---EEEEEEe
Confidence            4689999999999999999999999985   4454   7888763

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=97.62  E-value=8.8e-05  Score=60.87  Aligned_cols=38  Identities=13%  Similarity=0.031  Sum_probs=31.7

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      ..|.+..++|+.|+||||.++.++.++.   ..|.   +|+.+.
T Consensus         6 ~~g~i~v~~G~mgsGKTT~ll~~a~r~~---~~g~---kV~v~k   43 (191)
T 1xx6_A            6 DHGWVEVIVGPMYSGKSEELIRRIRRAK---IAKQ---KIQVFK   43 (191)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEE
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHH---HCCC---EEEEEE
Confidence            4588999999999999999999999985   3444   777775

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=97.61  E-value=0.00015  Score=63.64  Aligned_cols=40  Identities=28%  Similarity=0.312  Sum_probs=34.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +|+++.|+|++|+||||++..+|....   ..|+   +|++++.+-
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~---~~~~---~v~l~~~d~  136 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK---GKGR---RPLLVAADT  136 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH---HTTC---CEEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEecCCc
Confidence            689999999999999999999998874   4565   899999763

>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=97.61  E-value=0.00021  Score=63.23  Aligned_cols=40  Identities=18%  Similarity=0.214  Sum_probs=31.5

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+..+.|+||||+|||+++..++....   ..+.   .++|++.+
T Consensus        35 ~~~~~lll~G~~GtGKT~la~~i~~~~~---~~~~---~~~~i~~~   74 (324)
T 1l8q_A           35 SLYNPIFIYGSVGTGKTHLLQAAGNEAK---KRGY---RVIYSSAD   74 (324)
T ss_dssp             TSCSSEEEECSSSSSHHHHHHHHHHHHH---HTTC---CEEEEEHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHH---HCCC---EEEEEEHH
Confidence            3567899999999999999999988763   2233   78999855

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=97.61  E-value=0.00025  Score=66.72  Aligned_cols=128  Identities=13%  Similarity=0.082  Sum_probs=79.2

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      ++.++....+.+.||+..+|-++  -+-+|+-..|.|++|+|||+|+.+++...    . .+   .|+|+-....-  +.
T Consensus       200 p~~~R~~~~epl~TGirvID~l~--PigkGqr~~I~g~~g~GKT~L~~~ia~~~----~-~~---~~V~~~iGER~--~E  267 (588)
T 3mfy_A          200 PYKEKLPPEVPLITGQRVIDTFF--PQAKGGTAAIPGPAGSGKTVTQHQLAKWS----D-AQ---VVIYIGCGERG--NE  267 (588)
T ss_dssp             CCSEEECSCSEECCSCHHHHHHS--CEETTCEEEECSCCSHHHHHHHHHHHHHS----S-CS---EEEEEECCSSS--SH
T ss_pred             chhhhccCCcccccCcchhhccC--CcccCCeEEeecCCCCCHHHHHHHHHhcc----C-CC---EEEEEEecccH--HH
Confidence            35566667889999999999987  57799999999999999999999987764    2 22   68887765433  23


Q ss_pred             HHHHHHHhCCC----CCCCCCCcEEE-EeCCCHH---HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           89 LHQLSHTFRPS----NDHNPCDYIFV-QSVHSVD---QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        89 l~~i~~~~~~~----~~~~~l~~i~~-~~~~~~~---~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..++...+...    .-...+++..+ ....+..   .....  -..+.+++.+    .+.--|+++||++.+.
T Consensus       268 v~e~~~~~~el~d~~~g~~~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd----~G~dVLl~~DsltR~A  337 (588)
T 3mfy_A          268 MTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRD----MGYDVALMADSTSRWA  337 (588)
T ss_dssp             HHHHHHHTTTCEETTTTEEGGGGEEEEECCTTSCHHHHHHHHHHHHHHHHHHHH----TTCEEEEEEECTTTCC
T ss_pred             HHHHHHHHHHhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEeecchHHHH
Confidence            44444443221    11123455433 3332211   11111  1123344444    2444788999999754

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=97.59  E-value=0.00027  Score=65.21  Aligned_cols=70  Identities=13%  Similarity=0.104  Sum_probs=52.8

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++......  .++.+..|+|.-..
T Consensus       123 p~p~~R~~~~e~l~TGiraID~l~--pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~--~d~~~~~~V~~~iG  192 (465)
T 3vr4_D          123 INPIARDYPDEFIQTGISAIDHLN--TLVRGQKLPVFSGSGLPHKELAAQIARQATVL--DSSDDFAVVFAAIG  192 (465)
T ss_dssp             BCTTTEECCCCBCBCSCHHHHTTS--CCBTTCBCCEEECTTSCHHHHHHHHHHHCBCS--SCSSCEEEEEEEEE
T ss_pred             cCchhccCcccccccCceEEeccc--ccccCCEEEEeCCCCcChHHHHHHHHHHHHhc--cCCCceEEEEEEec
Confidence            345666677889999999999987  57789999999999999999999998876420  11222356776543

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.57  E-value=1.9e-05  Score=82.84  Aligned_cols=57  Identities=16%  Similarity=0.197  Sum_probs=40.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLH   90 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~   90 (302)
                      .|+.+ +--+++|+.+.|+|++||||||++..+.+.+.   ...    +.++||+.+  .++.+.++
T Consensus      1094 VL~~i-sl~I~~Ge~vaIVG~SGsGKSTL~~lL~rl~~---p~~----G~I~iDG~di~~i~~~~lR 1152 (1321)
T 4f4c_A         1094 ILKGL-SFSVEPGQTLALVGPSGCGKSTVVALLERFYD---TLG----GEIFIDGSEIKTLNPEHTR 1152 (1321)
T ss_dssp             SEEEE-EEEECTTCEEEEECSTTSSTTSHHHHHTTSSC---CSS----SEEEETTEETTTBCHHHHH
T ss_pred             cccce-eEEECCCCEEEEECCCCChHHHHHHHHhcCcc---CCC----CEEEECCEEhhhCCHHHHH
Confidence            45544 44789999999999999999999988877652   223    357887653  34444443

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.56  E-value=4.5e-05  Score=62.06  Aligned_cols=39  Identities=21%  Similarity=0.229  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++++|+++.|+|||||||||++..++...    ..     ..++++++
T Consensus         5 ~i~~g~~i~l~G~~GsGKSTl~~~La~~~----~~-----g~i~i~~d   43 (191)
T 1zp6_A            5 DDLGGNILLLSGHPGSGKSTIAEALANLP----GV-----PKVHFHSD   43 (191)
T ss_dssp             -CCTTEEEEEEECTTSCHHHHHHHHHTCS----SS-----CEEEECTT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHhcc----CC-----CeEEEccc
Confidence            57899999999999999999998887641    22     46788765

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.54  E-value=0.00077  Score=63.45  Aligned_cols=39  Identities=26%  Similarity=0.373  Sum_probs=31.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ...++.|+|++|+||||++..++..+.   ..|.   +|+.++.+
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~---~~G~---kVllVd~D  138 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQ---RKGW---KTCLICAD  138 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCC---eEEEEecc
Confidence            356899999999999999999998764   4454   78898876

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.53  E-value=6.1e-05  Score=78.82  Aligned_cols=48  Identities=15%  Similarity=0.161  Sum_probs=35.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++ +--+++|+++.|+||+|||||||+..++...  ++..     +.+++|..
T Consensus       405 vL~~i-sl~i~~G~~~~ivG~sGsGKSTl~~ll~g~~--~~~~-----G~i~i~g~  452 (1284)
T 3g5u_A          405 ILKGL-NLKVKSGQTVALVGNSGCGKSTTVQLMQRLY--DPLD-----GMVSIDGQ  452 (1284)
T ss_dssp             SEEEE-EEEECTTCEEEEECCSSSSHHHHHHHTTTSS--CCSE-----EEEEETTE
T ss_pred             ceecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC--CCCC-----eEEEECCE
Confidence            45554 4578999999999999999999998887654  2222     35777754

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=97.52  E-value=0.00037  Score=64.29  Aligned_cols=55  Identities=16%  Similarity=0.141  Sum_probs=47.6

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      |.+..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++....
T Consensus       118 ~p~p~~R~~~~e~l~TGiraID~l~--pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~  172 (464)
T 3gqb_B          118 PLNPVARRKPEQFIQTGISTIDVMN--TLVRGQKLPIFSGSGLPANEIAAQIARQAT  172 (464)
T ss_dssp             CBCGGGBCCCCCBCBCSCHHHHTTS--CCBTTCBCCEEEETTSCHHHHHHHHHHHCB
T ss_pred             CCChhhccCccccccCcceeeeccc--ccccCCEEEEecCCCCCchHHHHHHHHHHH
Confidence            3446677778899999999999987  577999999999999999999999988764

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.52  E-value=0.00031  Score=73.73  Aligned_cols=151  Identities=12%  Similarity=0.130  Sum_probs=82.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCCCCC-
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPSNDH-  102 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~~~~-  102 (302)
                      .|+++ +--+++|+.+.|+||+|||||||+..+++.+.   ...    +.+++|...  .++.+.+++-.. +..+++. 
T Consensus       433 vL~~i-sl~i~~G~~vaivG~sGsGKSTll~ll~~~~~---~~~----G~I~idG~~i~~~~~~~lr~~i~-~v~Q~~~L  503 (1321)
T 4f4c_A          433 ILRGM-NLRVNAGQTVALVGSSGCGKSTIISLLLRYYD---VLK----GKITIDGVDVRDINLEFLRKNVA-VVSQEPAL  503 (1321)
T ss_dssp             SEEEE-EEEECTTCEEEEEECSSSCHHHHHHHHTTSSC---CSE----EEEEETTEETTTSCHHHHHHHEE-EECSSCCC
T ss_pred             eeece-EEeecCCcEEEEEecCCCcHHHHHHHhccccc---ccc----CcccCCCccchhccHHHHhhccc-ccCCccee
Confidence            45554 45789999999999999999999988877652   222    457777642  345555443211 1112221 


Q ss_pred             ---CCCCcEEEEeC-CCHHHHHHHHHH--HHHHHHhc---------------------------cCCCCCeeEEEEechh
Q 022155          103 ---NPCDYIFVQSV-HSVDQLLDIMPK--IESFIKNS---------------------------SNSRLPIRLIVIDSIA  149 (302)
Q Consensus       103 ---~~l~~i~~~~~-~~~~~l~~~l~~--l~~~l~~~---------------------------~~~~~~~~lvVIDsi~  149 (302)
                         .+.+||.+... .+.+++.+.+..  +.+.+..-                           +. -.+.+++++|+.+
T Consensus       504 f~~TI~eNI~~g~~~~~~~~v~~a~~~a~l~~~i~~lp~G~~T~vGe~G~~LSGGQkQRiaiARAl-~~~~~IliLDE~t  582 (1321)
T 4f4c_A          504 FNCTIEENISLGKEGITREEMVAACKMANAEKFIKTLPNGYNTLVGDRGTQLSGGQKQRIAIARAL-VRNPKILLLDEAT  582 (1321)
T ss_dssp             CSEEHHHHHHTTCTTCCHHHHHHHHHHTTCHHHHHHSTTTTSSEESSSSCCCCHHHHHHHHHHHHH-TTCCSEEEEESTT
T ss_pred             eCCchhHHHhhhcccchHHHHHHHHHHccchhHHHcCCCCCccEecCCCCCCCHHHHHHHHHHHHH-ccCCCEEEEeccc
Confidence               23345544332 344454444322  11121110                           00 1245999999988


Q ss_pred             hhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCC
Q 022155          150 ALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPN  201 (302)
Q Consensus       150 ~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~  201 (302)
                      +....+        .++     .+.+.|+++.  .+.|+|++.|-.+.+...
T Consensus       583 SaLD~~--------te~-----~i~~~l~~~~--~~~T~iiiaHrls~i~~a  619 (1321)
T 4f4c_A          583 SALDAE--------SEG-----IVQQALDKAA--KGRTTIIIAHRLSTIRNA  619 (1321)
T ss_dssp             TTSCTT--------THH-----HHHHHHHHHH--TTSEEEEECSCTTTTTTC
T ss_pred             ccCCHH--------HHH-----HHHHHHHHHh--CCCEEEEEcccHHHHHhC
Confidence            865322        111     2334445544  378888888865555443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.51  E-value=0.00094  Score=60.77  Aligned_cols=37  Identities=14%  Similarity=0.132  Sum_probs=29.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +..-+.|+||||+|||++|..++...      +.   .++++++..
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~~~------~~---~~~~v~~~~  183 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAAES------NA---TFFNISAAS  183 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHHT------TC---EEEEECSCC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhh------cC---cEEEeeHHH
Confidence            46789999999999999999997663      22   677887653

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=97.50  E-value=0.00029  Score=70.93  Aligned_cols=29  Identities=14%  Similarity=0.226  Sum_probs=25.7

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|+++.|.||+|+||||++.+++...
T Consensus       669 ~~~~g~i~~ItGPNGaGKSTlLr~i~~i~  697 (918)
T 3thx_B          669 SEDSERVMIITGPNMGGKSSYIKQVALIT  697 (918)
T ss_dssp             CTTSCCEEEEESCCCHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCchHHHHHHHHHHH
Confidence            46789999999999999999999887654

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.50  E-value=0.00053  Score=64.46  Aligned_cols=117  Identities=12%  Similarity=0.152  Sum_probs=64.5

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |+++..-+.|+||||+|||++|..++...      +.   ..+++++..         +...        ...       
T Consensus       234 g~~~~~~vLL~GppGtGKT~lAraia~~~------~~---~fv~vn~~~---------l~~~--------~~g-------  280 (489)
T 3hu3_A          234 GVKPPRGILLYGPPGTGKTLIARAVANET------GA---FFFLINGPE---------IMSK--------LAG-------  280 (489)
T ss_dssp             TCCCCCEEEEECSTTSSHHHHHHHHHHHC------SS---EEEEEEHHH---------HHTS--------CTT-------
T ss_pred             CCCCCCcEEEECcCCCCHHHHHHHHHHHh------CC---CEEEEEchH---------hhhh--------hcc-------
Confidence            46677779999999999999999987664      22   677787431         1100        000       


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      .....+..++..    ...     ....+|+||.+..+....-... ++...  .++..+++.|..+....++.||.+++
T Consensus       281 ~~~~~~~~~f~~----A~~-----~~p~iLfLDEId~l~~~~~~~~-~~~~~--~~~~~LL~~ld~~~~~~~v~vIaaTn  348 (489)
T 3hu3_A          281 ESESNLRKAFEE----AEK-----NAPAIIFIDELDAIAPKREKTH-GEVER--RIVSQLLTLMDGLKQRAHVIVMAATN  348 (489)
T ss_dssp             HHHHHHHHHHHH----HHH-----TCSEEEEEESHHHHCBCTTSCC-CHHHH--HHHHHHHHHHHHSCTTSCEEEEEEES
T ss_pred             hhHHHHHHHHHH----HHh-----cCCcEEEecchhhhcccccccc-chHHH--HHHHHHHHHhhccccCCceEEEEecC
Confidence            001111222221    122     2348999999999764321111 12222  23445666665554455667776655


Q ss_pred             cc
Q 022155          194 VV  195 (302)
Q Consensus       194 ~~  195 (302)
                      ..
T Consensus       349 ~~  350 (489)
T 3hu3_A          349 RP  350 (489)
T ss_dssp             CG
T ss_pred             Cc
Confidence            43

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.50  E-value=0.00012  Score=63.23  Aligned_cols=35  Identities=11%  Similarity=0.003  Sum_probs=30.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+.   +++|+++.|+||+||||||++..++...
T Consensus        15 ~vl~~i~---i~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           15 DKVLELC---HRKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             THHHHGG---GCSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             HHHHHHh---hCCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            4677763   8999999999999999999999888875

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.50  E-value=0.00032  Score=59.82  Aligned_cols=27  Identities=33%  Similarity=0.409  Sum_probs=23.1

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+++|  +.|+||||+|||+++..++...
T Consensus        47 ~~~~g--~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           47 RIPKG--VLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHh
Confidence            45666  8999999999999999988764

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.50  E-value=0.00072  Score=58.91  Aligned_cols=37  Identities=16%  Similarity=0.166  Sum_probs=29.1

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .++..+.|+||||+|||+++..++....      .   ..+++++.
T Consensus        52 ~~~~~vll~Gp~GtGKT~la~~la~~~~------~---~~~~i~~~   88 (297)
T 3b9p_A           52 APAKGLLLFGPPGNGKTLLARAVATECS------A---TFLNISAA   88 (297)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHHHTT------C---EEEEEEST
T ss_pred             CCCCeEEEECcCCCCHHHHHHHHHHHhC------C---CeEEeeHH
Confidence            3567899999999999999999987641      1   56777754

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.50  E-value=0.00024  Score=69.53  Aligned_cols=29  Identities=28%  Similarity=0.383  Sum_probs=24.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFC   55 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~   55 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+
T Consensus        33 ~L~~v-sl~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           33 NLKNI-DVEIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             TCCSE-EEEEETTSEEEEECSTTSSHHHHH
T ss_pred             ceecc-EEEECCCCEEEEECCCCCCHHHHh
Confidence            45554 446899999999999999999996

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=97.49  E-value=0.00076  Score=68.02  Aligned_cols=29  Identities=10%  Similarity=0.060  Sum_probs=25.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+..|+++.|.||+|+||||++.+++...
T Consensus       658 ~~~~g~i~~ItGpNGsGKSTlLr~ial~~  686 (934)
T 3thx_A          658 EKDKQMFHIITGPNMGGKSTYIRQTGVIV  686 (934)
T ss_dssp             ETTTBCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ecCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999999986554

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.48  E-value=7.1e-05  Score=62.03  Aligned_cols=29  Identities=17%  Similarity=0.126  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+++|+++.|+||+|||||||+..++...
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            47899999999999999999999988764

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.46  E-value=8.6e-05  Score=60.10  Aligned_cols=29  Identities=17%  Similarity=0.209  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |-.+|+++.|+||+|||||||+..++...
T Consensus         1 ~~~~g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            1 GSHMRKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             --CCCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34578999999999999999999988764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.46  E-value=6.7e-05  Score=62.83  Aligned_cols=36  Identities=17%  Similarity=-0.024  Sum_probs=24.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        12 ~l~~i-sl~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           12 SGLVP-RGSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -----------CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cccCC-ceecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45554 4568899999999999999999999888764

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.46  E-value=0.00011  Score=64.73  Aligned_cols=45  Identities=20%  Similarity=0.198  Sum_probs=34.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      +.+|+++.|+||+||||||++..++....   ..+|   +|.+.+ ...+..
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~---~~~g---~V~l~g-~d~~r~  141 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLK---NEGT---KVLMAA-GDTFRA  141 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHH---HTTC---CEEEEC-CCCSCH
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHH---HcCC---eEEEEe-ecccch
Confidence            56899999999999999999999998864   3344   555554 445543

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=97.45  E-value=0.00082  Score=60.47  Aligned_cols=37  Identities=16%  Similarity=0.149  Sum_probs=29.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+..-+.|+||||+|||++|..++...      +.   .++++++.
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~~~------~~---~~~~i~~~  151 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIASQS------GA---TFFSISAS  151 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHHHT------TC---EEEEEEGG
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHc------CC---eEEEEehH
Confidence            456679999999999999999998764      22   67778764

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.44  E-value=0.00039  Score=62.16  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+||+|+||||++..++...
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999998864

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.44  E-value=0.00078  Score=58.35  Aligned_cols=37  Identities=16%  Similarity=0.196  Sum_probs=28.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -++.|  +.|+||||+|||+|+..++....    .     ..++++..
T Consensus        42 ~~~~G--vlL~Gp~GtGKTtLakala~~~~----~-----~~i~i~g~   78 (274)
T 2x8a_A           42 VTPAG--VLLAGPPGCGKTLLAKAVANESG----L-----NFISVKGP   78 (274)
T ss_dssp             CCCSE--EEEESSTTSCHHHHHHHHHHHTT----C-----EEEEEETT
T ss_pred             CCCCe--EEEECCCCCcHHHHHHHHHHHcC----C-----CEEEEEcH
Confidence            45566  99999999999999999987642    1     46777754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.44  E-value=0.0001  Score=60.69  Aligned_cols=38  Identities=16%  Similarity=0.074  Sum_probs=30.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      .++|.++.|.|++||||||++..++...           ..++++++.-
T Consensus        26 ~~~g~~i~l~G~~GsGKSTl~~~L~~~~-----------g~~~i~~d~~   63 (200)
T 4eun_A           26 GEPTRHVVVMGVSGSGKTTIAHGVADET-----------GLEFAEADAF   63 (200)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH-----------CCEEEEGGGG
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHhh-----------CCeEEccccc
Confidence            3579999999999999999999887754           2578887653

>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=97.44  E-value=0.00038  Score=65.49  Aligned_cols=128  Identities=11%  Similarity=0.066  Sum_probs=78.4

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHH
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRR   88 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~r   88 (302)
                      ++.++....+.+.||+..+|-++  -+-+|+-..|.|++|+|||+++.+++.+..     .+   -|+|.-....  .+.
T Consensus       194 p~~~R~~~~epl~TGirvID~l~--PigrGqr~~Ifg~~g~GKT~l~~~ia~~~~-----~~---v~V~~~iGER--~~E  261 (578)
T 3gqb_A          194 PVQRKLDPNTPFLTGMRILDVLF--PVAMGGTAAIPGPFGSGKSVTQQSLAKWSN-----AD---VVVYVGSGER--GNE  261 (578)
T ss_dssp             CCSEEECSCSEECCSCHHHHTTS--CEETTCEEEECCCTTSCHHHHHHHHHHHSS-----CS---EEEEEEEEEC--HHH
T ss_pred             ChHHhccCCCcccccchhhhhcc--cccCCCEEeeeCCCCccHHHHHHHHHhccC-----CC---EEEEEEeccc--HHH
Confidence            35566677899999999999886  577999999999999999999999987742     22   5777664432  334


Q ss_pred             HHHHHHHhCCC----CCCCCCCcEEE-EeC-CCHH--HHHHH--HHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           89 LHQLSHTFRPS----NDHNPCDYIFV-QSV-HSVD--QLLDI--MPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        89 l~~i~~~~~~~----~~~~~l~~i~~-~~~-~~~~--~l~~~--l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ..++...+...    .-...+++..+ ... +...  .....  -..+.+++.+    .+.--|+++||++.+.
T Consensus       262 v~e~~~~~~el~d~~~G~~~~~rtvvv~~tsd~p~~~R~~~~~~altiAEyfrd----~G~dVLl~~Ds~tR~A  331 (578)
T 3gqb_A          262 MTDVLVEFPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRD----QGFSVALMADSTSRWA  331 (578)
T ss_dssp             HHHHHTTGGGCBCTTTSSBSGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHH----TTCEEEECCSCHHHHH
T ss_pred             HHHHHHHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCCEEEEecChHHHH
Confidence            44444443210    11234555433 322 2211  11111  1133444444    2344678899999654

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.43  E-value=9.6e-05  Score=58.72  Aligned_cols=30  Identities=17%  Similarity=0.099  Sum_probs=27.1

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      --+++|+++.|.||+|+|||||+..++...
T Consensus        28 l~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           28 LHTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             HCCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            367999999999999999999999988874

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=97.40  E-value=0.00037  Score=64.76  Aligned_cols=41  Identities=15%  Similarity=0.157  Sum_probs=30.9

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++..+..-+.|+||||+|||++|..++....     +.   .+++++..
T Consensus       162 ~~~~~~~~vLL~GppGtGKT~lA~aia~~~~-----~~---~~~~v~~~  202 (444)
T 2zan_A          162 GKRTPWRGILLFGPPGTGKSYLAKAVATEAN-----NS---TFFSISSS  202 (444)
T ss_dssp             GGGCCCSEEEEECSTTSSHHHHHHHHHHHCC-----SS---EEEEECCC
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHHHcC-----CC---CEEEEeHH
Confidence            3455667899999999999999999988751     21   56677654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.39  E-value=0.00011  Score=60.31  Aligned_cols=28  Identities=25%  Similarity=0.297  Sum_probs=24.5

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.+|+++.|+||+||||||++..++...
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            4679999999999999999999888763

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.38  E-value=0.00017  Score=59.34  Aligned_cols=52  Identities=19%  Similarity=0.128  Sum_probs=36.3

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++...|+.- --.++|.++.|.|++||||||++..++....   ..|.   .++|+|++
T Consensus        11 ~~~~~~~~~-~~~~~g~~i~l~G~sGsGKSTl~~~La~~l~---~~G~---~~~~~d~d   62 (200)
T 3uie_A           11 SVEKVDRQR-LLDQKGCVIWVTGLSGSGKSTLACALNQMLY---QKGK---LCYILDGD   62 (200)
T ss_dssp             CCCHHHHHH-HHTSCCEEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEEHH
T ss_pred             ccCHHHHHH-hcCCCCeEEEEECCCCCCHHHHHHHHHHHHH---hcCc---eEEEecCc
Confidence            344455431 1246899999999999999999999988752   2342   34688854

>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=97.37  E-value=0.0018  Score=54.42  Aligned_cols=113  Identities=13%  Similarity=0.070  Sum_probs=64.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSV  116 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~  116 (302)
                      .|.+..++|+.|+||||.+++.+.++.   ..|.   +|+++.........  ..+......     ....+   ...+.
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~~---~~g~---kvli~kp~~D~Ryg--~~i~sr~G~-----~~~a~---~i~~~   81 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRFQ---IAQY---KCLVIKYAKDTRYS--SSFCTHDRN-----TMEAL---PACLL   81 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH---TTTC---CEEEEEETTCCCC------------------CEEE---EESSG
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHH---HCCC---eEEEEeecCCccch--HHHHhhcCC-----eeEEE---ecCCH
Confidence            589999999999999999999999985   3444   78877643221111  122222110     01111   12232


Q ss_pred             HHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          117 DQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       117 ~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +++.   ..    +       .++++|+||+++.+.         +       +.++++.|.    ..++.||++..-.+
T Consensus        82 ~di~---~~----~-------~~~dvViIDEaQF~~---------~-------v~el~~~l~----~~gi~VI~~GL~~D  127 (234)
T 2orv_A           82 RDVA---QE----A-------LGVAVIGIDEGQFFP---------D-------IVEFCEAMA----NAGKTVIVAALDGT  127 (234)
T ss_dssp             GGGH---HH----H-------TTCSEEEESSGGGCT---------T-------HHHHHHHHH----HTTCEEEEECCSBC
T ss_pred             HHHH---HH----h-------ccCCEEEEEchhhhh---------h-------HHHHHHHHH----hCCCEEEEEecccc
Confidence            3322   21    1       146999999999852         1       123344332    37999999988765


Q ss_pred             cCC
Q 022155          197 LME  199 (302)
Q Consensus       197 ~~~  199 (302)
                      -..
T Consensus       128 F~~  130 (234)
T 2orv_A          128 FQR  130 (234)
T ss_dssp             TTS
T ss_pred             ccc
Confidence            333

>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=97.37  E-value=6.5e-05  Score=64.27  Aligned_cols=48  Identities=19%  Similarity=0.261  Sum_probs=35.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...  ++..     ..++++..
T Consensus        24 vl~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~--~p~~-----G~I~i~g~   71 (247)
T 2ff7_A           24 ILDNI-NLSIKQGEVIGIVGRSGSGKSTLTKLIQRFY--IPEN-----GQVLIDGH   71 (247)
T ss_dssp             EEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTE
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCC-----cEEEECCE
Confidence            45554 4568999999999999999999998887753  2222     34666654

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=97.36  E-value=0.00011  Score=64.81  Aligned_cols=37  Identities=19%  Similarity=0.303  Sum_probs=31.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ .-.+++|+++.|+||+|||||||+..|+...
T Consensus       114 ~vL~~v-sl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          114 NALKLW-LKGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHHHHH-HHTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hhhccc-eEEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            345554 3579999999999999999999999988874

>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=97.35  E-value=0.00048  Score=63.90  Aligned_cols=40  Identities=15%  Similarity=0.145  Sum_probs=30.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +..+.|+||||+|||+|+..++.... ....+.   .++|++++
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~-~~~~~~---~v~~v~~~  169 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVV-QNEPDL---RVMYITSE  169 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHH-HHCCSS---CEEEEEHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-HhCCCC---eEEEeeHH
Confidence            56799999999999999998887652 101132   78999865

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.34  E-value=0.00051  Score=65.06  Aligned_cols=42  Identities=17%  Similarity=0.016  Sum_probs=32.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      ....+.|+||||+|||++|..++...      +.   .++++++.......
T Consensus        76 ~~~~lLL~GppGtGKTtla~~la~~l------~~---~~i~in~s~~~~~~  117 (516)
T 1sxj_A           76 VFRAAMLYGPPGIGKTTAAHLVAQEL------GY---DILEQNASDVRSKT  117 (516)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHT------TC---EEEEECTTSCCCHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc------CC---CEEEEeCCCcchHH
Confidence            45789999999999999999998764      22   78888876544433

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.34  E-value=6.4e-05  Score=63.87  Aligned_cols=37  Identities=22%  Similarity=0.368  Sum_probs=30.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        19 ~vl~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           19 PTLNGI-TFSIPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CSEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             ceeeee-EEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345554 4578999999999999999999998887654

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=97.34  E-value=0.0018  Score=66.00  Aligned_cols=23  Identities=17%  Similarity=0.119  Sum_probs=21.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      |+++.|.||+|+||||++.++..
T Consensus       789 g~i~~ItGpNgsGKSTlLr~iGl  811 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQAGL  811 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHH
Confidence            89999999999999999999843

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.33  E-value=0.00018  Score=64.80  Aligned_cols=45  Identities=20%  Similarity=0.198  Sum_probs=34.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      +.+|+++.|+||+||||||++..++....   ..+|   +|.+.. ...+..
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~---~~~G---~V~l~g-~D~~r~  198 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLK---NEGT---KVLMAA-GDTFRA  198 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHH---HTTC---CEEEEC-CCCSCH
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhcc---ccCC---EEEEec-cccccc
Confidence            56899999999999999999999998763   3344   555554 445543

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.33  E-value=0.0013  Score=58.19  Aligned_cols=33  Identities=12%  Similarity=0.169  Sum_probs=27.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |.++.|+||+|+|||+|+.+++...           +++|++..
T Consensus        31 ~~~v~i~G~~G~GKT~Ll~~~~~~~-----------~~~~~~~~   63 (350)
T 2qen_A           31 YPLTLLLGIRRVGKSSLLRAFLNER-----------PGILIDCR   63 (350)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHS-----------SEEEEEHH
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHHc-----------CcEEEEee
Confidence            4799999999999999999987653           27899865

>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=97.33  E-value=7.8e-05  Score=63.00  Aligned_cols=37  Identities=16%  Similarity=0.303  Sum_probs=30.3

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        22 ~il~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           22 PVLKDI-NFKIERGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CSEEEE-EEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eeeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345554 4568999999999999999999998887653

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.32  E-value=0.00069  Score=61.08  Aligned_cols=98  Identities=13%  Similarity=0.119  Sum_probs=52.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCc-CCCC-CCeEEEEeCCCCC-CH-HHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSS-HGGL-SASSLYLHTEFPF-PM-RRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~-~gg~-~~~vlyid~e~~~-~~-~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      +..+.|+||+|+|||+++..++....-... ..+. ...++|+++.... +. .-+.++...+......        ...
T Consensus        45 ~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~--------~~~  116 (384)
T 2qby_B           45 KFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVP--------KHG  116 (384)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCC--------SSS
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHhcCCCCC--------CCC
Confidence            458999999999999999999876520000 0001 1278999865422 33 2234444433111100        001


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      .+..+   ++..+...+..     .+. +||||.+..+.
T Consensus       117 ~~~~~---~~~~l~~~l~~-----~~~-vlilDEi~~l~  146 (384)
T 2qby_B          117 INLGE---YIDKIKNGTRN-----IRA-IIYLDEVDTLV  146 (384)
T ss_dssp             SCTHH---HHHHHHHHHSS-----SCE-EEEEETTHHHH
T ss_pred             CCHHH---HHHHHHHHhcc-----CCC-EEEEECHHHhc
Confidence            11222   33344444432     333 99999999865

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.32  E-value=9.1e-05  Score=64.24  Aligned_cols=36  Identities=22%  Similarity=0.210  Sum_probs=30.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        34 vl~~v-sl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           34 VLQGL-TFTLYPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eeEee-EEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45554 4568999999999999999999998887754

>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=97.31  E-value=0.00048  Score=68.31  Aligned_cols=30  Identities=17%  Similarity=0.164  Sum_probs=25.5

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+..=++|+||||+|||.+|..+|..+
T Consensus       506 ~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~  535 (806)
T 3cf2_A          506 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC  535 (806)
T ss_dssp             SCCCCCSCCEEESSTTSSHHHHHHHHHHTT
T ss_pred             cCCCCCceEEEecCCCCCchHHHHHHHHHh
Confidence            467666668999999999999999998765

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.31  E-value=0.0052  Score=50.29  Aligned_cols=130  Identities=13%  Similarity=0.128  Sum_probs=69.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC-CCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCC-
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP-FPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHS-  115 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~-~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~-  115 (302)
                      ...+.|++.+|.||||.|.-++..++   ..|.   +|+++..-.. ...... .+...+. ......-..+ ...... 
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~---g~G~---rV~~vQF~Kg~~~~gE~-~~l~~L~-v~~~~~g~gf-~~~~~~~   98 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAV---GHGK---NVGVVQFIKGTWPNGER-NLLEPHG-VEFQVMATGF-TWETQNR   98 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHH---HTTC---CEEEEESSCCSSCCHHH-HHHGGGT-CEEEECCTTC-CCCGGGH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH---HCCC---eEEEEEeeCCCCCccHH-HHHHhCC-cEEEEccccc-ccCCCCc
Confidence            34788888899999999999999886   5665   8999965432 221111 1222221 0000000010 011111 


Q ss_pred             ---HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEe
Q 022155          116 ---VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTN  192 (302)
Q Consensus       116 ---~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n  192 (302)
                         .......+..+.+.+.     ...+++||+|.+.......+-.           ...++..|..  +-.+..||+|.
T Consensus        99 ~~~~~~a~~~l~~a~~~l~-----~~~yDlvILDEi~~al~~g~l~-----------~~ev~~~l~~--Rp~~~~vIlTG  160 (196)
T 1g5t_A           99 EADTAACMAVWQHGKRMLA-----DPLLDMVVLDELTYMVAYDYLP-----------LEEVISALNA--RPGHQTVIITG  160 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-----CTTCSEEEEETHHHHHHTTSSC-----------HHHHHHHHHT--SCTTCEEEEEC
T ss_pred             HHHHHHHHHHHHHHHHHHh-----cCCCCEEEEeCCCccccCCCCC-----------HHHHHHHHHh--CcCCCEEEEEC
Confidence               1122334444555554     3678999999999865433221           1234444432  33467888886


Q ss_pred             cc
Q 022155          193 QV  194 (302)
Q Consensus       193 ~~  194 (302)
                      ..
T Consensus       161 r~  162 (196)
T 1g5t_A          161 RG  162 (196)
T ss_dssp             SS
T ss_pred             CC
Confidence            64

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.31  E-value=0.0003  Score=57.92  Aligned_cols=42  Identities=24%  Similarity=0.234  Sum_probs=32.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -.++|.++.|.|++||||||++..++....   ..++   .+++++.+
T Consensus        18 ~~~~~~~i~i~G~~GsGKstl~~~l~~~~~---~~~~---~v~~~~~d   59 (201)
T 1rz3_A           18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLR---EQGI---SVCVFHMD   59 (201)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHH---HTTC---CEEEEEGG
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHHh---hcCC---eEEEeccC
Confidence            356789999999999999999998887652   2344   67777654

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.30  E-value=7.7e-05  Score=78.07  Aligned_cols=49  Identities=18%  Similarity=0.188  Sum_probs=35.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...  ++..     +.+++|...
T Consensus      1048 ~l~~v-sl~i~~Ge~v~ivG~sGsGKSTl~~~l~g~~--~p~~-----G~I~i~g~~ 1096 (1284)
T 3g5u_A         1048 VLQGL-SLEVKKGQTLALVGSSGCGKSTVVQLLERFY--DPMA-----GSVFLDGKE 1096 (1284)
T ss_dssp             SBSSC-CEEECSSSEEEEECSSSTTHHHHHHHHTTSS--CCSE-----EEEESSSSC
T ss_pred             eecce-eEEEcCCCEEEEECCCCCCHHHHHHHHhcCc--CCCC-----CEEEECCEE
Confidence            34443 3468999999999999999999998887754  2222     356776553

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.30  E-value=0.00015  Score=59.49  Aligned_cols=28  Identities=18%  Similarity=0.096  Sum_probs=24.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +++|.++.|+||+||||||++..++...
T Consensus         3 i~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            3 NEKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             -CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            5789999999999999999998887654

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.29  E-value=0.00017  Score=57.73  Aligned_cols=36  Identities=25%  Similarity=0.378  Sum_probs=29.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+|.++.|+|++||||||++..++...           ..++++++.
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~~-----------g~~~i~~d~   41 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQL-----------HAAFLDGDF   41 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH-----------TCEEEEGGG
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHhh-----------CcEEEeCcc
Confidence            458899999999999999999887653           247788764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.29  E-value=0.00048  Score=64.81  Aligned_cols=37  Identities=24%  Similarity=0.279  Sum_probs=29.0

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -+++|  +.|+||||+|||+|+..++....         ...++++..
T Consensus        62 ~ip~G--vLL~GppGtGKTtLaraIa~~~~---------~~~i~i~g~   98 (499)
T 2dhr_A           62 RIPKG--VLLVGPPGVGKTHLARAVAGEAR---------VPFITASGS   98 (499)
T ss_dssp             CCCSE--EEEECSSSSSHHHHHHHHHHHTT---------CCEEEEEGG
T ss_pred             CCCce--EEEECCCCCCHHHHHHHHHHHhC---------CCEEEEehh
Confidence            35566  89999999999999999887642         157888764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.28  E-value=0.00084  Score=62.07  Aligned_cols=39  Identities=15%  Similarity=0.169  Sum_probs=33.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-CCCCCeEEEEeCCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSH-GGLSASSLYLHTEF   82 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-gg~~~~vlyid~e~   82 (302)
                      ..++.++|++|+||||++..+|..+.   .. |.   +|+.+|++-
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~---~~~G~---kVllvd~D~  139 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLR---EKHKK---KVLVVSADV  139 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHH---HTSCC---CEEEEECCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HhcCC---eEEEEecCC
Confidence            46899999999999999999998875   44 55   899999884

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.28  E-value=0.00017  Score=60.46  Aligned_cols=29  Identities=21%  Similarity=0.280  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -.++|+++.|+||+|||||||+..++...
T Consensus        12 ~~~~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           12 HMAQGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            57899999999999999999999888764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.27  E-value=0.00014  Score=60.23  Aligned_cols=28  Identities=25%  Similarity=0.396  Sum_probs=25.7

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++|+++.|+||+|||||||+..++...
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999999998875

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.26  E-value=0.00016  Score=61.49  Aligned_cols=36  Identities=11%  Similarity=-0.009  Sum_probs=24.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ..|+.+ +--+++|.++.|.||+||||||++..++..
T Consensus        13 ~~l~~i-sl~i~~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           13 LGTENL-YFQSMRPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             -----------CCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eeecce-eccCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            456665 557889999999999999999999988775

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.25  E-value=0.00024  Score=58.68  Aligned_cols=27  Identities=22%  Similarity=0.314  Sum_probs=23.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++|.++.|.||+||||||++..++...
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999999888764

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.24  E-value=0.0032  Score=55.63  Aligned_cols=108  Identities=16%  Similarity=0.074  Sum_probs=60.4

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCC-CCeEEEEeCCCCCCH-HHHHHHHHHhCCCCCCCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGL-SASSLYLHTEFPFPM-RRLHQLSHTFRPSNDHNP  104 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~-~~~vlyid~e~~~~~-~rl~~i~~~~~~~~~~~~  104 (302)
                      |...+.++  .+..+.|+||||+|||+++..++....-....++. .-.++||++....++ ..+..+...+....    
T Consensus        36 L~~~i~~~--~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~----  109 (318)
T 3te6_A           36 IYDSLMSS--QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKEN----  109 (318)
T ss_dssp             HHHHHHTT--CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC----
T ss_pred             HHHHhcCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCC----
Confidence            33444443  56778999999999999999998876311111211 126789998764444 44566666653221    


Q ss_pred             CCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          105 CDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       105 l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                         +  ......+.+...+..+   ...    ....-+|++|.+..+.
T Consensus       110 ---~--~~~~~~~~L~~~f~~~---~~~----~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          110 ---L--CGDISLEALNFYITNV---PKA----KKRKTLILIQNPENLL  145 (318)
T ss_dssp             -------CCCCHHHHHHHHHHS---CGG----GSCEEEEEEECCSSSC
T ss_pred             ---C--CchHHHHHHHHHHHHh---hhc----cCCceEEEEecHHHhh
Confidence               0  1112222232222221   011    2356899999998865

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=97.22  E-value=0.00099  Score=60.56  Aligned_cols=100  Identities=10%  Similarity=0.091  Sum_probs=55.9

Q ss_pred             CCcEEEE--EeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH-HHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           37 CNSITEL--VAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR-RLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        37 ~G~i~ei--~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~-rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      .+..+.|  +||+|+|||+++..++....-.....+....++|+++....... -+.++...+....+.         ..
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~---------~~  119 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQV---------RG  119 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCC---------TT
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHhCCCCCC---------CC
Confidence            4568888  99999999999999987652100000011268999975444443 345555554321110         01


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      .+..++   +..+...+..    .....+||||.+..+.
T Consensus       120 ~~~~~~---~~~l~~~l~~----~~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          120 APALDI---LKALVDNLYV----ENHYLLVILDEFQSML  151 (412)
T ss_dssp             CCHHHH---HHHHHHHHHH----HTCEEEEEEESTHHHH
T ss_pred             CCHHHH---HHHHHHHHHh----cCCeEEEEEeCHHHHh
Confidence            123333   3333334432    1345899999999865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.22  E-value=0.00034  Score=56.64  Aligned_cols=48  Identities=23%  Similarity=0.170  Sum_probs=33.4

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .||.-+.  ..+|.++.|.|++||||||++..++....   ..|+   .+.+++++
T Consensus         3 ~~~~~~~--~~~~~~i~l~G~~GsGKsT~~~~L~~~l~---~~~~---~~~~~~~d   50 (186)
T 2yvu_A            3 ALTTYKC--IEKGIVVWLTGLPGSGKTTIATRLADLLQ---KEGY---RVEVLDGD   50 (186)
T ss_dssp             -----CC--CSCCEEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEEEHH
T ss_pred             ccccccc--cCCCcEEEEEcCCCCCHHHHHHHHHHHHH---hcCC---eEEEeeHH
Confidence            3555332  35789999999999999999999988753   3344   67888743

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.21  E-value=0.00016  Score=59.47  Aligned_cols=27  Identities=22%  Similarity=0.204  Sum_probs=22.1

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++|+++.|+||+|||||||+..++...
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999999888764

>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=97.20  E-value=0.00019  Score=62.03  Aligned_cols=35  Identities=17%  Similarity=0.275  Sum_probs=29.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++..
T Consensus        35 vl~~v-sl~i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           35 ILRGL-SLDVHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEee-EEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45554 456899999999999999999999888774

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.20  E-value=0.00021  Score=56.98  Aligned_cols=26  Identities=27%  Similarity=0.217  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.++.|+|++||||||++..++...
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999887764

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=97.18  E-value=0.00018  Score=61.53  Aligned_cols=35  Identities=20%  Similarity=0.311  Sum_probs=29.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++..
T Consensus        18 vl~~v-sl~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           18 ILKGV-NLVVPKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEece-EEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45544 446889999999999999999999888774

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.17  E-value=0.00038  Score=55.95  Aligned_cols=39  Identities=26%  Similarity=0.210  Sum_probs=29.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .+|.++.|.|++||||||++..++....   ..|-   .++++|.
T Consensus         3 ~~g~~i~l~G~~GsGKST~~~~L~~~l~---~~g~---~~i~~d~   41 (179)
T 2pez_A            3 MRGCTVWLTGLSGAGKTTVSMALEEYLV---CHGI---PCYTLDG   41 (179)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHh---hCCC---cEEEECC
Confidence            6799999999999999999998887642   2232   5677773

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.16  E-value=0.00027  Score=58.02  Aligned_cols=30  Identities=17%  Similarity=-0.010  Sum_probs=24.2

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -.+++|.++.|+|++||||||++..++...
T Consensus        20 ~~~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           20 FQSNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             ----CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EecCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            457789999999999999999999998764

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=97.15  E-value=0.0011  Score=55.12  Aligned_cols=115  Identities=11%  Similarity=0.096  Sum_probs=63.7

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      -..|.+..|+|+-|+||||.++..+.++.   ..|.   +|+.+.....-.. -...+.....     ...+   .....
T Consensus        25 ~~~G~I~vitG~M~sGKTT~Llr~~~r~~---~~g~---kvli~kp~~D~R~-~~~~I~Sr~G-----~~~~---a~~v~   89 (219)
T 3e2i_A           25 YHSGWIECITGSMFSGKSEELIRRLRRGI---YAKQ---KVVVFKPAIDDRY-HKEKVVSHNG-----NAIE---AINIS   89 (219)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHHHHH---HTTC---CEEEEEEC------------CBTT-----BCCE---EEEES
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHH---HcCC---ceEEEEeccCCcc-hhhhHHHhcC-----Ccee---eEEeC
Confidence            35689999999999999998888887774   3343   6776654321100 0112222111     0111   11222


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      +..++.+.       +.      .+++.|+||+.+.+-.                  .++..|..++ ..|+.||+..-.
T Consensus        90 ~~~di~~~-------i~------~~~dvV~IDEaQFf~~------------------~~v~~l~~la-~~gi~Vi~~GLd  137 (219)
T 3e2i_A           90 KASEIMTH-------DL------TNVDVIGIDEVQFFDD------------------EIVSIVEKLS-ADGHRVIVAGLD  137 (219)
T ss_dssp             SGGGGGGS-------CC------TTCSEEEECCGGGSCT------------------HHHHHHHHHH-HTTCEEEEEEES
T ss_pred             CHHHHHHH-------Hh------cCCCEEEEechhcCCH------------------HHHHHHHHHH-HCCCEEEEeecc
Confidence            32333221       11      2569999999887421                  2345666777 579999998765


Q ss_pred             cc
Q 022155          195 VD  196 (302)
Q Consensus       195 ~~  196 (302)
                      .+
T Consensus       138 ~D  139 (219)
T 3e2i_A          138 MD  139 (219)
T ss_dssp             BC
T ss_pred             cc
Confidence            44

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=97.14  E-value=0.00019  Score=61.76  Aligned_cols=36  Identities=25%  Similarity=0.247  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        35 vl~~v-sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           35 TLKSI-NFFIPSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             SEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eeEee-EEEECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45554 4568999999999999999999998887753

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.14  E-value=0.00029  Score=58.36  Aligned_cols=27  Identities=19%  Similarity=0.108  Sum_probs=24.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++|.++.|+||+||||||++..++...
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            579999999999999999999888763

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.14  E-value=0.001  Score=54.45  Aligned_cols=25  Identities=20%  Similarity=0.229  Sum_probs=22.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|+|++||||||++..++...
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            4689999999999999999888764

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.13  E-value=0.00034  Score=56.70  Aligned_cols=29  Identities=17%  Similarity=0.327  Sum_probs=25.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |++.+.++.|+|+|||||||++..++...
T Consensus         1 ~~~~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            1 GMQTPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCSCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            46678899999999999999999988754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.11  E-value=0.00026  Score=58.47  Aligned_cols=38  Identities=16%  Similarity=0.247  Sum_probs=30.8

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..|...+. ++|....+.|+||||+|||++|+.++..+
T Consensus        45 ~~~l~~~~~-~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           45 LGALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-cCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            344555554 68888889999999999999999998764

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=97.10  E-value=0.00035  Score=57.56  Aligned_cols=39  Identities=15%  Similarity=0.081  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      -+++|.++.|+|++||||||++..++....          .+.+++.+.
T Consensus        17 ~~~~~~~i~i~G~~GsGKSTl~~~L~~~~~----------~~~~i~~D~   55 (207)
T 2qt1_A           17 RGSKTFIIGISGVTNSGKTTLAKNLQKHLP----------NCSVISQDD   55 (207)
T ss_dssp             CSCCCEEEEEEESTTSSHHHHHHHHHTTST----------TEEEEEGGG
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHhcC----------CcEEEeCCc
Confidence            467899999999999999999988866431          367777664

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=97.08  E-value=0.0017  Score=64.49  Aligned_cols=27  Identities=22%  Similarity=0.301  Sum_probs=25.0

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+++.|.||+|+||||++.+++...
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl~  631 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALIA  631 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            689999999999999999999998765

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=97.06  E-value=0.0065  Score=57.82  Aligned_cols=99  Identities=14%  Similarity=0.069  Sum_probs=55.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH--ccCCCcCCCCCCeEEEEeCCCCC--CHH-HHHHHHHHhCCCCCCCCCCcEEEE
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS--AQLPSSHGGLSASSLYLHTEFPF--PMR-RLHQLSHTFRPSNDHNPCDYIFVQ  111 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~--~~l~~~~gg~~~~vlyid~e~~~--~~~-rl~~i~~~~~~~~~~~~l~~i~~~  111 (302)
                      ...++.|+|++|.||||||.+++..  .......    ..++|++.....  +.. -+..+...+..........+   .
T Consensus       151 ~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F----~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~---~  223 (549)
T 2a5y_B          151 DSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY----DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPS---V  223 (549)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTB----SEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCC---C
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccC----CcEEEEEECCCCCCCHHHHHHHHHHHHhcCcccccccc---c
Confidence            4579999999999999999988851  1122122    268999876643  343 34566665543211000000   0


Q ss_pred             eCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155          112 SVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus       112 ~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      ...+..   .+...+.+.+..     .+--|||+|++..
T Consensus       224 ~~~~~~---~l~~~l~~~L~~-----~kr~LlVLDdv~~  254 (549)
T 2a5y_B          224 EHVTSV---VLKRMICNALID-----RPNTLFVFDDVVQ  254 (549)
T ss_dssp             TTCCHH---HHHHHHHHHHTT-----STTEEEEEEEECC
T ss_pred             ccccHH---HHHHHHHHHHcC-----CCcEEEEEECCCC
Confidence            111222   233455566643     2138999999765

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.06  E-value=0.00014  Score=60.47  Aligned_cols=27  Identities=30%  Similarity=0.393  Sum_probs=24.9

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +++|+++.|.||+|||||||+..++..
T Consensus        19 i~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           19 IDTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HHHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            478999999999999999999988876

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.05  E-value=0.00045  Score=55.98  Aligned_cols=23  Identities=22%  Similarity=0.465  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      |+++.|+||+||||||++..++.
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            67899999999999999998875

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.05  E-value=0.00019  Score=60.40  Aligned_cols=28  Identities=29%  Similarity=0.226  Sum_probs=20.1

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHH-HH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLT-LS   61 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la-~~   61 (302)
                      -+++|+++.|+||+||||||++..++ ..
T Consensus        23 ~v~~G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           23 LKSVGVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEECCCEEEEECSCC----CHHHHHHC--
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            46889999999999999999998887 55

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=97.04  E-value=0.00038  Score=61.60  Aligned_cols=44  Identities=14%  Similarity=0.006  Sum_probs=33.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.+|.++.|+||+|||||||+..++.... + ..|.  ..+.|+..+.
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~-~-~~G~--~~v~~v~qd~  130 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLA-R-WDHH--PRVDLVTTDG  130 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHH-T-STTC--CCEEEEEGGG
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhcc-c-cCCC--CeEEEEecCc
Confidence            68899999999999999999998887753 2 2231  2567777654

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=97.00  E-value=0.0043  Score=58.41  Aligned_cols=46  Identities=11%  Similarity=0.099  Sum_probs=32.3

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +..+.-+.|+|.+|||||+++..++.........+.  ..++.+|...
T Consensus       164 L~~~pHlLIaG~TGSGKSt~L~~li~sLl~~~~p~~--v~l~liDpK~  209 (512)
T 2ius_A          164 LAKMPHLLVAGTTGSGASVGVNAMILSMLYKAQPED--VRFIMIDPKM  209 (512)
T ss_dssp             GGGSCSEEEECCTTSSHHHHHHHHHHHHHTTCCTTT--EEEEEECCSS
T ss_pred             cccCceEEEECCCCCCHHHHHHHHHHHHHHhCCCce--EEEEEECCch
Confidence            556789999999999999999998876533212222  2556677553

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=97.00  E-value=0.00063  Score=59.97  Aligned_cols=42  Identities=14%  Similarity=0.079  Sum_probs=31.9

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHcc-CCCcCCCCCCeEEEEeCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQ-LPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~-l~~~~gg~~~~vlyid~e~   82 (302)
                      ..|.++.|+|++|||||||+..++.... .| . +|   .+.+++.++
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~-~-~G---~i~vi~~d~  120 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLSRWP-E-HR---RVELITTDG  120 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTST-T-CC---CEEEEEGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhCC-C-CC---eEEEEecCC
Confidence            7899999999999999999998887641 02 2 23   577777664

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.98  E-value=0.00035  Score=61.17  Aligned_cols=31  Identities=16%  Similarity=0.226  Sum_probs=26.9

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +--+++|+++.|.||+|||||||+..++...
T Consensus        58 sl~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           58 NFKIERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEECTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3468899999999999999999998887653

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.97  E-value=0.00085  Score=54.91  Aligned_cols=37  Identities=22%  Similarity=0.098  Sum_probs=30.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+.|+||+|+|||+++..++....   ..+.   .++|++..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~---~~~~---~~~~~~~~   91 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELA---KRNV---SSLIVYVP   91 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH---TTTC---CEEEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEEEhH
Confidence            6899999999999999999988764   3343   78888754

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.95  E-value=0.00054  Score=56.41  Aligned_cols=28  Identities=14%  Similarity=0.089  Sum_probs=25.0

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+|.++.|+|||||||||++..++...
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            5678999999999999999999988764

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.94  E-value=0.00064  Score=61.65  Aligned_cols=41  Identities=10%  Similarity=0.066  Sum_probs=31.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      +++|+++.|+||+||||||++..++....  ....|   .+++++.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~--~~~~g---~I~~~e~  173 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYIN--QTKSY---HIITIED  173 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHH--HHSCC---EEEEEES
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcC--cCCCc---EEEEecc
Confidence            67899999999999999999999988753  12133   6667663

>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=96.92  E-value=0.00063  Score=53.91  Aligned_cols=23  Identities=13%  Similarity=0.046  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++||||||++..++...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999988764

>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=96.88  E-value=0.0044  Score=53.19  Aligned_cols=28  Identities=18%  Similarity=0.075  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++..-+.|+||||+|||++|..++...
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4566789999999999999999998764

>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=96.87  E-value=0.0065  Score=54.10  Aligned_cols=49  Identities=20%  Similarity=0.154  Sum_probs=37.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+.++..  +.-.++.+.|..|+||||++.++|...+   ..|.   +|+.||++.
T Consensus         6 ~l~~~l~~--~~~~i~~~sgkGGvGKTt~a~~lA~~la---~~g~---~vllid~D~   54 (334)
T 3iqw_A            6 TLQSILDQ--RSLRWIFVGGKGGVGKTTTSCSLAIQLA---KVRR---SVLLLSTDP   54 (334)
T ss_dssp             SSHHHHHC--TTCCEEEEECSTTSSHHHHHHHHHHHHT---TSSS---CEEEEECCS
T ss_pred             cHHHHhcC--CCeEEEEEeCCCCccHHHHHHHHHHHHH---hCCC---cEEEEECCC
Confidence            34555532  2346888999999999999999998875   4565   999999984

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=96.85  E-value=0.0028  Score=62.63  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=23.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+++.|.||+|+||||++.+++...
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhh
Confidence            9999999999999999999998865

>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=96.85  E-value=0.00081  Score=53.75  Aligned_cols=25  Identities=20%  Similarity=0.150  Sum_probs=22.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++.|+|+|||||||++..++...
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.85  E-value=0.0005  Score=59.28  Aligned_cols=34  Identities=15%  Similarity=0.184  Sum_probs=27.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|+.+ +--++ |+++.|.||+|||||||+..++..
T Consensus        20 il~~v-sl~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           20 SLENI-NLEVN-GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEE-EEEEC-SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEee-eEEEC-CEEEEEECCCCCCHHHHHHHHhCC
Confidence            34443 44689 999999999999999999888765

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.85  E-value=0.00075  Score=56.41  Aligned_cols=30  Identities=20%  Similarity=0.286  Sum_probs=26.4

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .-+....++.|.|||||||+|.|..|+..+
T Consensus        24 ~~~~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           24 QKLAKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             CCTTSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             hhccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            346788899999999999999999998875

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.84  E-value=0.0008  Score=57.48  Aligned_cols=27  Identities=26%  Similarity=0.411  Sum_probs=24.2

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+|.++.|.||+||||||++..++...
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            678999999999999999999888653

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.84  E-value=0.00056  Score=55.14  Aligned_cols=26  Identities=15%  Similarity=0.220  Sum_probs=23.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|.++.|.|++||||||++..++...
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999988653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.82  E-value=0.0011  Score=59.30  Aligned_cols=47  Identities=17%  Similarity=0.062  Sum_probs=34.7

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      .|+.+ .--+..|.++.|+|+||+|||||+..++....   ..++   ++.++.
T Consensus        44 ~l~~i-~~~~~~g~~v~i~G~~GaGKSTLl~~l~g~~~---~~~g---~v~i~~   90 (337)
T 2qm8_A           44 LIDAV-LPQTGRAIRVGITGVPGVGKSTTIDALGSLLT---AAGH---KVAVLA   90 (337)
T ss_dssp             HHHHH-GGGCCCSEEEEEECCTTSCHHHHHHHHHHHHH---HTTC---CEEEEE
T ss_pred             HHHhC-CcccCCCeEEEEECCCCCCHHHHHHHHHHhhh---hCCC---EEEEEE
Confidence            45544 33578899999999999999999999887653   3344   565554

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.82  E-value=0.0013  Score=53.14  Aligned_cols=27  Identities=19%  Similarity=0.251  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .+.+.++.|+|++||||||++..++..
T Consensus         7 ~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            7 QPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            456889999999999999999988876

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.80  E-value=0.0012  Score=60.65  Aligned_cols=45  Identities=20%  Similarity=0.123  Sum_probs=33.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      .|+.++   ..+|+++.|+||+||||||++..++...  +.. .|   .++++.
T Consensus       158 ~L~~l~---~~~ggii~I~GpnGSGKTTlL~allg~l--~~~-~g---~I~~~e  202 (418)
T 1p9r_A          158 NFRRLI---KRPHGIILVTGPTGSGKSTTLYAGLQEL--NSS-ER---NILTVE  202 (418)
T ss_dssp             HHHHHH---TSSSEEEEEECSTTSCHHHHHHHHHHHH--CCT-TS---CEEEEE
T ss_pred             HHHHHH---HhcCCeEEEECCCCCCHHHHHHHHHhhc--CCC-CC---EEEEec
Confidence            455554   3689999999999999999999888765  222 33   566665

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.80  E-value=0.00067  Score=61.24  Aligned_cols=41  Identities=20%  Similarity=0.301  Sum_probs=31.6

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      --+++|+++.|+||+|||||||+..++...  +. ..    ..+.++.
T Consensus       170 ~~i~~G~~i~ivG~sGsGKSTll~~l~~~~--~~-~~----g~I~ie~  210 (361)
T 2gza_A          170 RAVQLERVIVVAGETGSGKTTLMKALMQEI--PF-DQ----RLITIED  210 (361)
T ss_dssp             HHHHTTCCEEEEESSSSCHHHHHHHHHTTS--CT-TS----CEEEEES
T ss_pred             HHHhcCCEEEEECCCCCCHHHHHHHHHhcC--CC-Cc----eEEEECC
Confidence            346799999999999999999998887764  32 22    4677764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.80  E-value=0.0077  Score=55.85  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.|+||||+|||+++..++...
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~   74 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYA   74 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHh
Confidence            469999999999999999888764

>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=96.79  E-value=0.0044  Score=50.49  Aligned_cols=38  Identities=18%  Similarity=0.311  Sum_probs=30.3

Q ss_pred             EEEEE-eCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           40 ITELV-AESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        40 i~ei~-G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      ++.|+ +..|+||||++.++|..++   ..|.   +|++||.+..
T Consensus         3 vi~v~s~kgG~GKTt~a~~la~~la---~~g~---~vlliD~D~~   41 (206)
T 4dzz_A            3 VISFLNPKGGSGKTTAVINIATALS---RSGY---NIAVVDTDPQ   41 (206)
T ss_dssp             EEEECCSSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCTT
T ss_pred             EEEEEeCCCCccHHHHHHHHHHHHH---HCCC---eEEEEECCCC
Confidence            45555 6788999999999999876   4565   8999998843

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.79  E-value=0.00086  Score=57.35  Aligned_cols=23  Identities=22%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|+||+||||||++..++...
T Consensus         3 li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhcC
Confidence            68999999999999999998764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.78  E-value=0.003  Score=52.89  Aligned_cols=41  Identities=24%  Similarity=0.120  Sum_probs=32.7

Q ss_pred             CCcE-EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           37 CNSI-TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        37 ~G~i-~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      +|++ +.+.|++|+||||++++++...+   ..|.   +|++++.+..
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~l~---~~G~---~V~v~d~D~q   45 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHAQL---RQGV---RVMAGVVETH   45 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCCT
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHH---HCCC---CEEEEEeCCC
Confidence            4555 77799999999999999999875   5565   7888887753

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.78  E-value=0.00032  Score=62.55  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=21.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.|+||||+|||||+..++...
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Confidence            679999999999999999998875

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.77  E-value=0.00097  Score=54.84  Aligned_cols=27  Identities=19%  Similarity=0.215  Sum_probs=24.1

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+|+++.|+||+|+|||||+..++...
T Consensus        17 ~~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           17 QGRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            368999999999999999999988764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.77  E-value=0.0011  Score=57.77  Aligned_cols=47  Identities=17%  Similarity=0.259  Sum_probs=33.5

Q ss_pred             hhHhhhCCCC--CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGI--PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl--~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .++.+|++..  ..+.++.|+|||||||||++..++...  +   +    ..++|+++
T Consensus        19 ~~~~~l~~~~~~~~~~livl~G~sGsGKSTla~~L~~~~--~---~----~~~~Is~D   67 (287)
T 1gvn_B           19 NLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET--Q---G----NVIVIDND   67 (287)
T ss_dssp             HHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT--T---T----CCEEECTH
T ss_pred             HHHHHhccccCCCCCeEEEEECCCCCCHHHHHHHHHHHh--C---C----CeEEEech
Confidence            3455554433  357899999999999999999987753  1   1    35778763

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.77  E-value=0.00091  Score=60.65  Aligned_cols=29  Identities=24%  Similarity=0.126  Sum_probs=26.6

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -++++|+++.|+||||+|||||+..++..
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            37999999999999999999999988865

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.75  E-value=0.00066  Score=54.72  Aligned_cols=25  Identities=28%  Similarity=0.211  Sum_probs=22.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++.|+|++||||||++..++...
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999999998764

>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=96.74  E-value=0.0012  Score=54.52  Aligned_cols=41  Identities=17%  Similarity=0.084  Sum_probs=31.6

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      +++|.++.|.|++||||||++..++....  ...|.   .+++++.
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l~--~~~g~---~~~~~~~   62 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQLV--RDRRV---HAYRLDG   62 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHH--HHHCC---CEEEECH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHhc--cccCC---cEEEECC
Confidence            67899999999999999999999887641  11232   4788873

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.74  E-value=0.00098  Score=55.24  Aligned_cols=32  Identities=19%  Similarity=0.189  Sum_probs=26.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++.|.|||||||+|.|..|+...           .+.+|++..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~-----------g~~~istGd   33 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK-----------GFVHISTGD   33 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----------CCEEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH-----------CCeEEcHHH
Confidence            67899999999999999998875           467888653

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.74  E-value=0.00056  Score=58.50  Aligned_cols=39  Identities=23%  Similarity=0.165  Sum_probs=31.5

Q ss_pred             CChhhHhhhCCCCCC---CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           23 GCPIIDRCLGGGIPC---NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        23 G~~~LD~~L~GGl~~---G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +...|+.+ .--+.+   |.++.|+|++||||||++..++...
T Consensus        31 ~~~~l~~~-~~~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           31 EQQILKKK-AEEVKPYLNGRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             -CHHHHHH-HHTTHHHHTTCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             cchhhhhh-hhhhhhhcCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            45567766 346777   9999999999999999999888764

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=96.73  E-value=0.01  Score=52.57  Aligned_cols=38  Identities=21%  Similarity=0.269  Sum_probs=33.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .++.+.|..|+||||++.++|...+   ..|.   +|+.||++-
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA---~~G~---rVLlvD~D~   52 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMA---RSGK---KTLVISTDP   52 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCS
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHH---HCCC---cEEEEeCCC
Confidence            6888899999999999999999876   5565   899999885

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.72  E-value=0.00069  Score=54.20  Aligned_cols=31  Identities=19%  Similarity=0.334  Sum_probs=25.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++.|+|+|||||||++..++...           ...|+|++
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l-----------~~~~~d~d   36 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL-----------DLVFLDSD   36 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH-----------TCEEEEHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc-----------CCCEEccc
Confidence            58899999999999999998764           34677754

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.70  E-value=0.001  Score=53.72  Aligned_cols=23  Identities=22%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.||+|||||||+..++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998875

>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=96.69  E-value=0.0011  Score=53.45  Aligned_cols=25  Identities=16%  Similarity=0.118  Sum_probs=22.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.++.|.|+|||||||++..++...
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.69  E-value=0.00093  Score=54.58  Aligned_cols=25  Identities=20%  Similarity=0.155  Sum_probs=22.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+++.|+||+|+||||++..++...
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhc
Confidence            6789999999999999999988875

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.69  E-value=0.0012  Score=56.56  Aligned_cols=39  Identities=18%  Similarity=0.187  Sum_probs=28.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+.++.|+|+|||||||++..++....   ..|-   .+++++.+
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~---~~g~---~~i~~~~D   41 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILS---KNNI---DVIVLGSD   41 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEECTH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH---hCCC---EEEEECch
Confidence            467899999999999999999987642   2232   45556643

>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=96.68  E-value=0.00092  Score=61.80  Aligned_cols=49  Identities=24%  Similarity=0.310  Sum_probs=37.4

Q ss_pred             hHhhhCCC---C--CCC--cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           27 IDRCLGGG---I--PCN--SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        27 LD~~L~GG---l--~~G--~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |..++++.   +  ..+  .++.|+|++|+||||++..++..+.   ..|.   +|++++++
T Consensus        81 l~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTla~~La~~l~---~~G~---kVllv~~D  136 (432)
T 2v3c_C           81 LVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQ---KRGL---KPALIAAD  136 (432)
T ss_dssp             HHHHHCCSCCCCCCCSSSCCCEEEECCSSSSTTHHHHHHHHHHH---HHHC---CEEEECCS
T ss_pred             HHHHhCCCCcCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCC---eEEEEecc
Confidence            44556554   3  223  5999999999999999999998875   4454   89999876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.67  E-value=0.0017  Score=52.58  Aligned_cols=27  Identities=26%  Similarity=0.335  Sum_probs=23.6

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.++.|.|++||||||++..++...
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            7 KKTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TTSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            357799999999999999999998754

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.66  E-value=0.0011  Score=56.22  Aligned_cols=26  Identities=19%  Similarity=0.294  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.++.|+||+||||||++..++...
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999988543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.66  E-value=0.0011  Score=52.89  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      .++.|+|+|||||||++..++.
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            4789999999999999998876

>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=96.65  E-value=0.0016  Score=52.28  Aligned_cols=27  Identities=22%  Similarity=0.166  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.++.|+|+|||||||++..++...
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999888764

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.64  E-value=0.0021  Score=51.73  Aligned_cols=34  Identities=15%  Similarity=0.200  Sum_probs=26.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      ++.|.|+|||||||++..++....   ..|-   .+.+++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~---~~g~---~~~~~~   36 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD---NQGI---NNKIIN   36 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH---TTTC---CEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---hcCc---eEEEEE
Confidence            689999999999999999988752   2232   477775

>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=96.64  E-value=0.015  Score=47.36  Aligned_cols=47  Identities=11%  Similarity=0.071  Sum_probs=31.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQ   91 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~   91 (302)
                      +.|+||+|+|||+++..++....-   .+ .....+.++.........+..
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~~   87 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARDLFG---EN-WRDNFIEMNASDERGIDVVRH   87 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHG---GG-GGGGEEEEETTCTTCHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhc---cc-cccceEEeccccccChHHHHH
Confidence            899999999999999999876521   11 112467777665444444443

>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=96.62  E-value=0.031  Score=48.98  Aligned_cols=45  Identities=16%  Similarity=0.160  Sum_probs=33.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      .++.+.||||+|||+++..++...      +   ..+++++... .....++...
T Consensus        49 ~~~L~~G~~G~GKT~la~~la~~l------~---~~~~~i~~~~-~~~~~i~~~~   93 (324)
T 3u61_B           49 HIILHSPSPGTGKTTVAKALCHDV------N---ADMMFVNGSD-CKIDFVRGPL   93 (324)
T ss_dssp             SEEEECSSTTSSHHHHHHHHHHHT------T---EEEEEEETTT-CCHHHHHTHH
T ss_pred             eEEEeeCcCCCCHHHHHHHHHHHh------C---CCEEEEcccc-cCHHHHHHHH
Confidence            578999999999999999998764      1   2788999764 3355554433

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.62  E-value=0.00078  Score=60.02  Aligned_cols=41  Identities=20%  Similarity=0.293  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -+++|+++.|+||+|||||||+..++...  ++. .    +.+.++..
T Consensus       167 ~i~~g~~v~i~G~~GsGKTTll~~l~g~~--~~~-~----g~i~i~~~  207 (330)
T 2pt7_A          167 GIAIGKNVIVCGGTGSGKTTYIKSIMEFI--PKE-E----RIISIEDT  207 (330)
T ss_dssp             HHHHTCCEEEEESTTSCHHHHHHHGGGGS--CTT-S----CEEEEESS
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHhCCC--cCC-C----cEEEECCe
Confidence            35689999999999999999998887664  322 2    35667644

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.61  E-value=0.0016  Score=52.50  Aligned_cols=25  Identities=16%  Similarity=0.314  Sum_probs=22.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++.|.|+|||||||++..++...
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            5689999999999999999887754

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.61  E-value=0.0015  Score=54.43  Aligned_cols=25  Identities=20%  Similarity=0.437  Sum_probs=22.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++.|.|++||||||++..++...
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999888764

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.60  E-value=0.012  Score=52.69  Aligned_cols=40  Identities=15%  Similarity=0.117  Sum_probs=31.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...++.|+|+||+|||||+.+++....   ..|.   +|..++.+-
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~---~~g~---kV~vi~~Dp  117 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLI---ERGH---RVAVLAVDP  117 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHH---TTTC---CEEEEEEC-
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHH---hCCC---ceEEEecCC
Confidence            456899999999999999999998864   3454   788888663

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=96.60  E-value=0.0012  Score=63.16  Aligned_cols=54  Identities=11%  Similarity=0.073  Sum_probs=33.9

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccC-CCcCCCCCCeEEEEeCCCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL-PSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l-~~~~gg~~~~vlyid~e~~   83 (302)
                      |...|...-....++.|+|++|+|||+|+.+++..... .....   ..++|++....
T Consensus       136 L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~---~~v~wv~~~~~  190 (591)
T 1z6t_A          136 IQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFP---GGVHWVSVGKQ  190 (591)
T ss_dssp             HHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCT---TCEEEEEEESC
T ss_pred             HHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCC---CceEEEECCCC
Confidence            44445322234679999999999999999988643210 00111   15889886543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.59  E-value=0.001  Score=59.72  Aligned_cols=31  Identities=16%  Similarity=0.302  Sum_probs=27.2

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|..++..+.|+||||+|||+++..++...
T Consensus        64 ~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           64 REGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             HTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3566678899999999999999999998876

>1oft_A SULA, hypothetical protein PA3008; bacterial cell division inhibitor, FTSZ, SULA protein; 2.9A {Pseudomonas aeruginosa} SCOP: c.37.1.22

Probab=96.59  E-value=0.044  Score=43.12  Aligned_cols=140  Identities=8%  Similarity=-0.077  Sum_probs=70.2

Q ss_pred             cCCCCCCccccCChhhHhhh-CCCCCCCcEEEEEe-CCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           12 DNPLTTEKCTVGCPIIDRCL-GGGIPCNSITELVA-ESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L-~GGl~~G~i~ei~G-~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      +-.-....+|.|.+.+|.-+ +||++.|.++||.. .+|.|=..|+.-++....- ...++   .++||..........+
T Consensus        17 ~~~~~~~~~p~~~~~~~~~~~~~~~~~G~l~Ell~~~~g~gel~LL~P~La~l~~-~~~~r---~vlwI~Pp~~l~~~~L   92 (161)
T 1oft_A           17 EAFWASNGAPLLDDVIDSPSSASIEEPAAFSELSLSGLPGHCLTLLAPILRELSE-EQDAR---WLTLIAPPASLTHEWL   92 (161)
T ss_dssp             --------------------------CCSEEEEEEESCHHHHHHHHHHHHHHHHT-CSSSS---EEEEESCCTTSCHHHH
T ss_pred             HHHhhCccCCCCcccccccCCCCCCCCcceEEEccCCCcHHHHHHHHHHHHHhcc-cccCc---cEEEECCCCCCCHHHH
Confidence            55566888899999999988 57899999999974 5777766666655555320 01233   8999998776666666


Q ss_pred             HHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHH
Q 022155           90 HQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFL  169 (302)
Q Consensus        90 ~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~  169 (302)
                      .+.+         -..+++.+.+..+..+....   +++.+..     .....||.. +..     +     +..     
T Consensus        93 ~~~G---------l~~~rll~v~~~~~~daLwa---~EqALrs-----G~~~aVl~W-l~~-----l-----~~~-----  139 (161)
T 1oft_A           93 RRAG---------LNRERILLLQAKDNAAALAL---SCEALRL-----GRSHTVVSW-LEP-----L-----SRA-----  139 (161)
T ss_dssp             HHTT---------CCGGGEEEECCSSTTHHHHH---HHHHHHT-----TCEEEEEEC-CSS-----C-----CHH-----
T ss_pred             HHcC---------CCHHHEEEEECCChHHHHHH---HHHHHhc-----CCccEEEEC-CCc-----C-----ChH-----
Confidence            5544         34578988888776554433   3455543     566777654 221     1     111     


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEE
Q 022155          170 FFKISGMLKAMAVGFGLAVLVT  191 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~  191 (302)
                         -.++|+--|++-++..++.
T Consensus       140 ---~~RRLqlAAe~g~~~~fll  158 (161)
T 1oft_A          140 ---ARKQLSRAAQLGQAQSLNI  158 (161)
T ss_dssp             ---HHHHHHHHHHHTTCEEEEE
T ss_pred             ---HHHHHHHHHHhCCCeEEEe
Confidence               1366666677767766654

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.59  E-value=0.0016  Score=54.12  Aligned_cols=26  Identities=19%  Similarity=0.132  Sum_probs=23.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.++.|.|+|||||||++..++...
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.58  E-value=0.00076  Score=54.32  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|+|+|||||||++..++...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999999999999998764

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=96.57  E-value=0.017  Score=51.72  Aligned_cols=42  Identities=14%  Similarity=0.112  Sum_probs=35.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      -+...++.+.|..|+||||++.++|...+   ..|.   +|+.||++-
T Consensus        23 ~~~~~i~v~sgKGGvGKTTvA~~LA~~lA---~~G~---rVLlvD~D~   64 (349)
T 3ug7_A           23 KDGTKYIMFGGKGGVGKTTMSAATGVYLA---EKGL---KVVIVSTDP   64 (349)
T ss_dssp             SCSCEEEEEECSSSTTHHHHHHHHHHHHH---HSSC---CEEEEECCT
T ss_pred             cCCCEEEEEeCCCCccHHHHHHHHHHHHH---HCCC---eEEEEeCCC
Confidence            34566778889999999999999999876   5565   899999885

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.57  E-value=0.0069  Score=60.82  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=21.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..-+.|+||||+|||+++..++...
T Consensus       191 ~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHH
Confidence            3457899999999999999998875

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.55  E-value=0.0017  Score=54.29  Aligned_cols=28  Identities=18%  Similarity=0.138  Sum_probs=22.5

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...+.++.|.|++||||||++..++...
T Consensus         4 ~~~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            4 SARLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             ---CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3456789999999999999999988764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.52  E-value=0.002  Score=55.69  Aligned_cols=27  Identities=33%  Similarity=0.409  Sum_probs=22.9

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+++|  +.|+||||+|||+|+..++...
T Consensus        71 ~~~~g--vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           71 RIPKG--VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             CCCCE--EEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCe--EEEECCCcChHHHHHHHHHHHc
Confidence            34556  8999999999999999988764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.51  E-value=0.0016  Score=53.31  Aligned_cols=26  Identities=19%  Similarity=0.111  Sum_probs=23.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +|.++.|.|++||||||++..++...
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999998875

>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=96.51  E-value=0.0014  Score=51.72  Aligned_cols=20  Identities=30%  Similarity=0.519  Sum_probs=18.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQL   58 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~l   58 (302)
                      .++.|+|+|||||||++..+
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            47899999999999999888

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.50  E-value=0.0022  Score=52.08  Aligned_cols=27  Identities=26%  Similarity=0.302  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.+.++.|.|++||||||++..++...
T Consensus        10 ~~~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           10 RKCKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             HHSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            346799999999999999999998764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.50  E-value=0.0015  Score=60.86  Aligned_cols=29  Identities=24%  Similarity=0.119  Sum_probs=26.1

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+++|+++.|.||+|||||||+..++...
T Consensus       134 ~i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          134 SNFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             HSSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            47899999999999999999998887764

>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=96.50  E-value=0.0021  Score=51.56  Aligned_cols=28  Identities=21%  Similarity=0.304  Sum_probs=23.3

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.+| ++.|+||+||||||++..++...
T Consensus        23 ~~~~g-~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           23 PFSKG-FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             ECCSS-EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             ecCCC-cEEEECCCCCCHHHHHHHHHHHH
Confidence            34566 99999999999999998887653

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.46  E-value=0.0028  Score=56.10  Aligned_cols=39  Identities=13%  Similarity=0.009  Sum_probs=28.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++.|.||+|||||||+..++..... ...++   .+.+++.+.
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~~-~~~~~---~v~~i~~D~  132 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLSR-WPDHP---NVEVITTDG  132 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTT-STTCC---CEEEEEGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc-cCCCC---eEEEEeecc
Confidence            9999999999999999988776421 01222   677777665

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=96.45  E-value=0.0012  Score=62.79  Aligned_cols=43  Identities=16%  Similarity=0.112  Sum_probs=32.9

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -+.+|+++.|+|++||||||++..++.... + ..|+   .+.|+|++
T Consensus       365 ~~~~G~iI~LiG~sGSGKSTLar~La~~L~-~-~~G~---~i~~lDgD  407 (552)
T 3cr8_A          365 RERQGFTVFFTGLSGAGKSTLARALAARLM-E-MGGR---CVTLLDGD  407 (552)
T ss_dssp             GGGSCEEEEEEESSCHHHHHHHHHHHHHHH-T-TCSS---CEEEESSH
T ss_pred             ccccceEEEEECCCCChHHHHHHHHHHhhc-c-cCCc---eEEEECCc
Confidence            356899999999999999999999988752 1 2222   46678865

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=96.45  E-value=0.003  Score=54.27  Aligned_cols=36  Identities=11%  Similarity=0.030  Sum_probs=29.0

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |...|.|..++...+.|+||||+|||.|+..+|..+
T Consensus        93 l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            444555555777789999999999999999998764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.41  E-value=0.0025  Score=55.63  Aligned_cols=39  Identities=13%  Similarity=0.131  Sum_probs=30.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...+.|+||||+|||+++..++....   ..++   .++++++..
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~~~---~~~~---~~~~~~~~~   85 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAATLF---DTEE---AMIRIDMTE   85 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHHHH---SCGG---GEEEEEGGG
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHHHc---CCCc---ceEEeeccc
Confidence            35899999999999999999988753   2222   688888764

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.38  E-value=0.0025  Score=52.30  Aligned_cols=28  Identities=14%  Similarity=-0.043  Sum_probs=24.6

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...|.++.|.|++||||||++..++...
T Consensus         7 ~~~~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A            7 KKKGKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             CBCSCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhcCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999999998764

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.37  E-value=0.0026  Score=52.32  Aligned_cols=27  Identities=15%  Similarity=0.116  Sum_probs=24.0

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+|.++.|.|++||||||++..++...
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999998764

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.35  E-value=0.0027  Score=51.75  Aligned_cols=25  Identities=24%  Similarity=0.339  Sum_probs=22.6

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +|.++.|.|++||||||++..++..
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            5789999999999999999988765

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.35  E-value=0.0027  Score=53.86  Aligned_cols=27  Identities=26%  Similarity=0.245  Sum_probs=23.7

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.++.|.|+|||||||+|..++...
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            467799999999999999999998654

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.35  E-value=0.0028  Score=51.83  Aligned_cols=26  Identities=19%  Similarity=0.248  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.++.|.|+|||||||++..++...
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999988764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.34  E-value=0.0033  Score=51.32  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=21.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|.|++||||||++..++...
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4589999999999999999888653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.34  E-value=0.0032  Score=48.79  Aligned_cols=27  Identities=15%  Similarity=0.078  Sum_probs=22.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.-+.|+||||+|||++|..++...
T Consensus        22 ~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           22 ETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             TCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            345568999999999999998887654

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.33  E-value=0.0015  Score=54.83  Aligned_cols=27  Identities=19%  Similarity=0.107  Sum_probs=23.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      ..++|.++.|.|++||||||++..++.
T Consensus        16 ~~~~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           16 EGTQPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHh
Confidence            457899999999999999999976654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.32  E-value=0.0016  Score=51.54  Aligned_cols=24  Identities=29%  Similarity=0.373  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +++.|.|++||||||++..++...
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999888764

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.30  E-value=0.0046  Score=49.48  Aligned_cols=37  Identities=19%  Similarity=0.147  Sum_probs=27.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .++.|+|++||||||++..++....   ..|-   +|..|..+
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~---~~g~---~v~~ik~~   41 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAV---REGW---RVGTVKHH   41 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhH---hcCC---eeeEEEeC
Confidence            4789999999999999999988753   3343   55555533

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.29  E-value=0.0026  Score=55.59  Aligned_cols=29  Identities=24%  Similarity=0.309  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .-..+.++.|+|++|||||||+..++...
T Consensus        27 ~~~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           27 GNKCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34578899999999999999999888775

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.28  E-value=0.0019  Score=51.70  Aligned_cols=26  Identities=23%  Similarity=0.143  Sum_probs=18.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.++.|.|++||||||++..++...
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999987654

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.27  E-value=0.0036  Score=50.36  Aligned_cols=25  Identities=20%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|.|++||||||++..++...
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999887753

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.27  E-value=0.0023  Score=60.35  Aligned_cols=39  Identities=21%  Similarity=0.239  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      ++.|.++.|+||+||||||++..++...  +.. .    +++.|..
T Consensus       257 v~~g~~i~I~GptGSGKTTlL~aL~~~i--~~~-~----giitied  295 (511)
T 2oap_1          257 IEHKFSAIVVGETASGKTTTLNAIMMFI--PPD-A----KVVSIED  295 (511)
T ss_dssp             HHTTCCEEEEESTTSSHHHHHHHHGGGS--CTT-C----CEEEEES
T ss_pred             HhCCCEEEEECCCCCCHHHHHHHHHhhC--CCC-C----CEEEEcC
Confidence            4689999999999999999998876653  322 2    4666654

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.25  E-value=0.0027  Score=53.56  Aligned_cols=25  Identities=16%  Similarity=0.279  Sum_probs=22.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|.||+||||||++..++...
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999888764

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.24  E-value=0.0052  Score=51.65  Aligned_cols=29  Identities=17%  Similarity=0.174  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ....|.++.|.|++||||||++..++...
T Consensus        22 ~~~~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           22 SNAMSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCCCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999999888775

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.21  E-value=0.0034  Score=52.09  Aligned_cols=26  Identities=23%  Similarity=0.243  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++..+.|.|+|||||||++..++...
T Consensus         4 ~~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            4 KKHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             GCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999888764

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.20  E-value=0.0057  Score=49.15  Aligned_cols=27  Identities=26%  Similarity=0.273  Sum_probs=22.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..-.++.|+|++|||||||+..++...
T Consensus         4 ~~~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            4 TMIPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            345689999999999999999998764

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.19  E-value=0.0033  Score=49.76  Aligned_cols=24  Identities=21%  Similarity=0.195  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|.|++||||||++..++...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999888764

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.19  E-value=0.0021  Score=54.84  Aligned_cols=38  Identities=21%  Similarity=0.151  Sum_probs=30.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ...+.++.|+|+|||||||++..++....      .   .+++++++
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~~l~------~---~~~~~~~D   66 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQKEFQ------G---NIVIIDGD   66 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHHHTT------T---CCEEECGG
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHhcC------C---CcEEEecH
Confidence            45578999999999999999999987641      1   46778866

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.18  E-value=0.012  Score=53.93  Aligned_cols=36  Identities=22%  Similarity=0.326  Sum_probs=28.0

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +...++.|+|+|||||||++..++...           ...+|+.+.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~-----------~~~~i~~D~  291 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA-----------GYVHVNRDT  291 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG-----------TCEECCGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc-----------CcEEEccch
Confidence            356899999999999999998886542           356777654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.17  E-value=0.0048  Score=54.95  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|+||+|||||+|+..++...
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            489999999999999999998764

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=96.17  E-value=0.0024  Score=58.71  Aligned_cols=34  Identities=18%  Similarity=0.095  Sum_probs=28.2

Q ss_pred             hHhhhCCCCCCCcE--EEEEeCCCCcHHHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSI--TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        27 LD~~L~GGl~~G~i--~ei~G~~GsGKT~l~l~la~~   61 (302)
                      |+.+ +--+++|.+  +.|+||+|+|||||+..++..
T Consensus        30 L~~v-sl~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           30 DQLV-NKSVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             HHHH-HHSCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             cCCC-ceEecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            6655 446899999  999999999999999888765

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.16  E-value=0.0029  Score=51.90  Aligned_cols=21  Identities=38%  Similarity=0.376  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~   60 (302)
                      ++.|.|++||||||++..++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988854

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.16  E-value=0.0043  Score=55.20  Aligned_cols=27  Identities=19%  Similarity=0.398  Sum_probs=23.5

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.++.|+||+|||||+|+..+|...
T Consensus        38 ~~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           38 RKEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             cCCceEEEECCCCCCHHHHHHHHHHHC
Confidence            356799999999999999999998764

>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=96.15  E-value=0.0052  Score=54.87  Aligned_cols=42  Identities=12%  Similarity=0.098  Sum_probs=33.6

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...+.++.|+|++|+||||++..++....   ..|+   ++..++.+-
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~---~~~~---~v~v~~~d~   94 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLI---REGL---KVAVIAVDP   94 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHH---HTTC---CEEEEEECC
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHH---hcCC---eEEEEeecC
Confidence            56789999999999999999999988763   3454   677777553

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.14  E-value=0.004  Score=52.24  Aligned_cols=26  Identities=19%  Similarity=0.178  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+..+.|.|++||||||++..++...
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998764

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.13  E-value=0.0029  Score=57.00  Aligned_cols=32  Identities=13%  Similarity=0.119  Sum_probs=27.8

Q ss_pred             hCCCCCC--CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           31 LGGGIPC--NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        31 L~GGl~~--G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.--+.+  |+.+.|+|++|||||||+..++...
T Consensus       161 v~~~v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          161 IPKEARPFFAKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             SCTTTGGGTCEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             CCHHHHHhhhCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3445677  9999999999999999999998875

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.12  E-value=0.0036  Score=50.92  Aligned_cols=23  Identities=13%  Similarity=0.310  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++||||||++..++...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68899999999999999998764

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.12  E-value=0.0052  Score=54.38  Aligned_cols=24  Identities=21%  Similarity=0.315  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|+||+|||||+++..++...
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            489999999999999999998764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.11  E-value=0.0035  Score=52.09  Aligned_cols=26  Identities=15%  Similarity=0.102  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.++.|.|+|||||||++..++...
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.10  E-value=0.0045  Score=52.06  Aligned_cols=28  Identities=11%  Similarity=0.001  Sum_probs=23.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -++|.++.|.|++||||||++..++...
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3578899999999999999998887653

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.09  E-value=0.0037  Score=51.09  Aligned_cols=21  Identities=19%  Similarity=0.237  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~   60 (302)
                      ++.|+|++||||||++..++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999988876

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=96.09  E-value=0.0075  Score=54.77  Aligned_cols=40  Identities=25%  Similarity=0.317  Sum_probs=30.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+.-+.|+|++|+|||+++..++....   ..|+   .++++|-+
T Consensus        33 ~~~~~~~i~G~~G~GKs~~~~~~~~~~~---~~~~---~~~~~D~~   72 (392)
T 4ag6_A           33 RTNSNWTILAKPGAGKSFTAKMLLLREY---MQGS---RVIIIDPE   72 (392)
T ss_dssp             BCCCCEEEECCTTSSHHHHHHHHHHHHH---TTTC---CEEEEESS
T ss_pred             cccCceEEEcCCCCCHHHHHHHHHHHHH---HCCC---EEEEEeCC
Confidence            3566789999999999999999888764   3344   56666644

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=96.06  E-value=0.0062  Score=52.05  Aligned_cols=37  Identities=16%  Similarity=0.224  Sum_probs=31.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++.|.|..|+||||++.++|...+   ..|.   +|+.||.+-
T Consensus         3 vI~vs~KGGvGKTT~a~nLA~~la---~~G~---~VlliD~D~   39 (269)
T 1cp2_A            3 QVAIYGKGGIGKSTTTQNLTSGLH---AMGK---TIMVVGCDP   39 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH---TTTC---CEEEEEECT
T ss_pred             EEEEecCCCCcHHHHHHHHHHHHH---HCCC---cEEEEcCCC
Confidence            567789999999999999999876   4565   899999884

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=96.06  E-value=0.0034  Score=55.10  Aligned_cols=32  Identities=31%  Similarity=0.274  Sum_probs=26.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la   59 (302)
                      ++|.++  -+..|+++.|.||||+|||||+..++
T Consensus       155 gi~~L~--~~l~G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          155 GIDELV--DYLEGFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             THHHHH--HHTTTCEEEEECSTTSSHHHHHHHHH
T ss_pred             CHHHHH--hhccCcEEEEECCCCCCHHHHHHHHH
Confidence            355544  24568999999999999999999888

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.05  E-value=0.0045  Score=54.01  Aligned_cols=43  Identities=14%  Similarity=0.161  Sum_probs=29.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCC-CCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGG-LSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg-~~~~vlyid~e   81 (302)
                      +.+.-+.|+||||+|||+++..++..+.   ..+. ....+++++..
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~~l~---~~~~~~~~~~~~~~~~  108 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAGLLH---RLGYVRKGHLVSVTRD  108 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHHHH---HTTSSSSCCEEEECGG
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHH---hcCCcCCCcEEEEcHH
Confidence            3455799999999999999998887753   1111 01256777644

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.05  E-value=0.0063  Score=48.98  Aligned_cols=23  Identities=26%  Similarity=0.222  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998764

>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=96.05  E-value=0.0026  Score=56.62  Aligned_cols=27  Identities=19%  Similarity=0.218  Sum_probs=22.9

Q ss_pred             CCCcE--EEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSI--TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i--~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|++  +.|+||||+|||+++..++...
T Consensus        42 ~~g~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           42 DEGKLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             HTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            34444  9999999999999999998875

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.05  E-value=0.0064  Score=51.88  Aligned_cols=40  Identities=18%  Similarity=0.258  Sum_probs=30.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+.-+.|+||+|+|||++|..++....   ..+.   ..+++++..
T Consensus        28 ~~~~vll~G~~GtGKt~la~~i~~~~~---~~~~---~~~~v~~~~   67 (265)
T 2bjv_A           28 LDKPVLIIGERGTGKELIASRLHYLSS---RWQG---PFISLNCAA   67 (265)
T ss_dssp             SCSCEEEECCTTSCHHHHHHHHHHTST---TTTS---CEEEEEGGG
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHhcC---ccCC---CeEEEecCC
Confidence            346789999999999999988876542   2222   688998764

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=96.05  E-value=0.038  Score=52.53  Aligned_cols=44  Identities=18%  Similarity=0.167  Sum_probs=31.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...-+.|+|.+|||||+++..++..++......  ..+++.||...
T Consensus       213 k~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~--ev~lilIDpKg  256 (574)
T 2iut_A          213 KMPHLLVAGTTGSGKSVGVNAMLLSILFKSTPS--EARLIMIDPKM  256 (574)
T ss_dssp             GSCCEEEECCTTSSHHHHHHHHHHHHHTTCCTT--TEEEEEECSSS
T ss_pred             hCCeeEEECCCCCCHHHHHHHHHHHHHHhCCCc--ceEEEEeCCCh
Confidence            455789999999999999999888764321111  23667788664

>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=0.0058  Score=53.93  Aligned_cols=43  Identities=16%  Similarity=0.181  Sum_probs=36.0

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+..-+++.|+|.-|+||||++.+++...+   ..|.   +|+.||.+-
T Consensus        44 ~i~~aKVIAIaGKGGVGKTTtavNLA~aLA---~~Gk---kVllID~Dp   86 (314)
T 3fwy_A           44 KITGAKVFAVYGKGGIGKSTTSSNLSAAFS---ILGK---RVLQIGCDP   86 (314)
T ss_dssp             ---CCEEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEEESS
T ss_pred             CCCCceEEEEECCCccCHHHHHHHHHHHHH---HCCC---eEEEEecCC
Confidence            456678999999999999999999999986   6676   999999883

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.01  E-value=0.0046  Score=55.56  Aligned_cols=27  Identities=22%  Similarity=0.213  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|+++.|+|+||+|||||+..|+...
T Consensus       213 ~~G~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          213 LTGRISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             HTTSEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             cCCCEEEEECCCCccHHHHHHHHhccc
Confidence            368999999999999999998887643

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.00  E-value=0.0025  Score=51.09  Aligned_cols=39  Identities=23%  Similarity=0.268  Sum_probs=26.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +++.|+|++|||||||+..++....   ..|. ....+.++..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~---~~g~-~~G~I~~dg~   41 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR---ERGL-RVAVVKRHAH   41 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH---HTTC-CEEEEEC---
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh---hcCC-ceEEEEEcCc
Confidence            4789999999999999999988763   2221 1246676654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=95.97  E-value=0.022  Score=57.96  Aligned_cols=50  Identities=18%  Similarity=0.113  Sum_probs=35.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      ...++.|+|++|.||||||.+++....+.....   ..++|++....++...+
T Consensus       149 ~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd---~gV~WVsVs~~~d~~~I  198 (1221)
T 1vt4_I          149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD---FKIFWLNLKNCNSPETV  198 (1221)
T ss_dssp             SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHS---SCEEEEECCCSSSHHHH
T ss_pred             CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCC---CcEEEEEeCCCCCHHHH
Confidence            357999999999999999998875321111112   25899998777666443

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=95.95  E-value=0.012  Score=51.09  Aligned_cols=38  Identities=13%  Similarity=0.284  Sum_probs=30.6

Q ss_pred             cEEEEE-eCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           39 SITELV-AESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei~-G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .++.|+ +..|+||||++.++|..++   ..|.   +|+.||.+-
T Consensus         5 kvI~v~s~KGGvGKTT~a~nLA~~La---~~G~---~VlliD~D~   43 (286)
T 2xj4_A            5 RVIVVGNEKGGAGKSTIAVHLVTALL---YGGA---KVAVIDLDL   43 (286)
T ss_dssp             EEEEECCSSSCTTHHHHHHHHHHHHH---HTTC---CEEEEECCT
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHHHHH---HCCC---cEEEEECCC
Confidence            355554 6789999999999999876   4565   899999886

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.95  E-value=0.0046  Score=50.99  Aligned_cols=23  Identities=22%  Similarity=0.146  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|+|||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887764

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.94  E-value=0.0037  Score=51.28  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|..+.|.||+|+|||++++.++...
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            47789999999999999999997653

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=95.94  E-value=0.0044  Score=50.42  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+||+|+|||||+..+....
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            57899999999999999887663

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.91  E-value=0.0041  Score=58.11  Aligned_cols=35  Identities=14%  Similarity=0.018  Sum_probs=28.1

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ .--+++ +++.|.||+|||||||+..++...
T Consensus        19 ~l~~v-sl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           19 GFFAR-TFDFDE-LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             TEEEE-EEECCS-SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cccce-EEEEcc-ceEEEECCCCCcHHHHHHHHhcCC
Confidence            34433 335788 999999999999999999888764

>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=95.91  E-value=0.0055  Score=50.67  Aligned_cols=24  Identities=21%  Similarity=0.183  Sum_probs=21.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.|+||+|+|||+++..++...
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            489999999999999999998775

>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=95.89  E-value=0.0053  Score=50.65  Aligned_cols=23  Identities=17%  Similarity=0.091  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|+|||||||++..++...
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            47899999999999999887654

>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=95.89  E-value=0.0044  Score=50.63  Aligned_cols=33  Identities=15%  Similarity=0.332  Sum_probs=26.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..++.|+|++||||||++..++...           ++.+||++
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~l-----------g~~vid~D   44 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNKY-----------GAHVVNVD   44 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH-----------CCEEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc-----------CCEEEECc
Confidence            4689999999999999998887652           25677765

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=95.89  E-value=0.016  Score=59.94  Aligned_cols=100  Identities=11%  Similarity=0.187  Sum_probs=54.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEEe
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQS  112 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~~  112 (302)
                      ....++.|+|++|.||||||.+++.....  ........++|++.......   ..+..+...+......  ...    .
T Consensus       145 ~~~~~v~i~G~gG~GKTtLa~~~~~~~~~--~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~----~  216 (1249)
T 3sfz_A          145 GEPGWVTIYGMAGCGKSVLAAEAVRDHSL--LEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESF--SQR----L  216 (1249)
T ss_dssp             TSCEEEEEECSTTSSHHHHHHHHTCCHHH--HTTTSTTCEEEEECCSCCHHHHHHHHHHHHHHHTTTCTT--CSS----C
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHhcChhH--HHhhCCCeEEEEEECCcCchHHHHHHHHHHHHhhhhccc--ccC----C
Confidence            34578999999999999999888654210  01111226889997654332   2234444443321110  000    1


Q ss_pred             CCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155          113 VHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus       113 ~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      ..+.++   +...+...+..    ..+--|||+|++..
T Consensus       217 ~~~~~~---~~~~l~~~l~~----~~~~~LlvlDd~~~  247 (1249)
T 3sfz_A          217 PLNIEE---AKDRLRVLMLR----KHPRSLLILDDVWD  247 (1249)
T ss_dssp             CSSHHH---HHHHHHHHTSS----SSCSCEEEEESCCC
T ss_pred             CCCHHH---HHHHHHHHHhc----cCCCEEEEEecCCC
Confidence            123333   34445555543    11237999999754

>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=95.88  E-value=0.0024  Score=54.60  Aligned_cols=24  Identities=29%  Similarity=0.282  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .-+.|+||||+|||++|..++...
T Consensus        45 ~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           45 KGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             SCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHHh
Confidence            337899999999999999998875

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.87  E-value=0.0034  Score=51.29  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++||||||++..++...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999888764

>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=95.84  E-value=0.0063  Score=49.42  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      ..++.|+|++||||||++..++.
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999988865

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=95.82  E-value=0.0017  Score=57.19  Aligned_cols=28  Identities=18%  Similarity=0.190  Sum_probs=23.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.+|+++.|+|+||+|||||+..++...
T Consensus       170 ~~~G~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          170 HFQDKTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             GGTTSEEEEEESHHHHHHHHHHHHCC--
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHhcccc
Confidence            5579999999999999999998886553

>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=95.81  E-value=0.0029  Score=52.05  Aligned_cols=23  Identities=17%  Similarity=0.293  Sum_probs=21.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++||||||++..++...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998775

>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=95.81  E-value=0.008  Score=52.07  Aligned_cols=39  Identities=13%  Similarity=0.173  Sum_probs=32.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      .++.|.|..|+||||++.++|...+   ..|.   +|+.||.+-.
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La---~~G~---rVlliD~D~q   41 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALA---EMGK---KVMIVGCDPK   41 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH---HTTC---CEEEEEECSS
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHH---HCCC---eEEEEecCCC
Confidence            3567789999999999999999876   4565   8999998853

>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=95.80  E-value=0.0064  Score=56.48  Aligned_cols=30  Identities=20%  Similarity=0.265  Sum_probs=25.5

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|..++.-+.|+||||+|||++|..++...
T Consensus        58 ~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           58 SKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            456666678999999999999999998875

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=95.78  E-value=0.0054  Score=58.33  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=24.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +|.++.|+||||+|||+++..++...
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            78999999999999999999998764

>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=95.77  E-value=0.0067  Score=50.16  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=20.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      .+.++.|.|++||||||++..++.
T Consensus         3 ~~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            3 LRYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999988865

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.76  E-value=0.0068  Score=47.72  Aligned_cols=23  Identities=26%  Similarity=0.101  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|++||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999887754

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.76  E-value=0.0087  Score=52.60  Aligned_cols=39  Identities=21%  Similarity=0.191  Sum_probs=30.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.-+.|+||+|+|||+|+..++..+..  ..|.   .|+|++..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~--~~g~---~v~~~~~~  190 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSE--KKGV---STTLLHFP  190 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHH--HSCC---CEEEEEHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHH--hcCC---cEEEEEHH
Confidence            678999999999999999988876530  1233   78888753

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=95.74  E-value=0.012  Score=50.69  Aligned_cols=42  Identities=17%  Similarity=0.311  Sum_probs=34.4

Q ss_pred             CCCcEEEEEeC-CCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           36 PCNSITELVAE-SGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        36 ~~G~i~ei~G~-~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      ....++.|+++ +|+||||++.++|...+   ..|.   +|++||.+..
T Consensus        80 ~~~kvI~vts~kgG~GKTt~a~nLA~~lA---~~G~---rVLLID~D~~  122 (271)
T 3bfv_A           80 SAVQSIVITSEAPGAGKSTIAANLAVAYA---QAGY---KTLIVDGDMR  122 (271)
T ss_dssp             CCCCEEEEECSSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCSS
T ss_pred             CCCeEEEEECCCCCCcHHHHHHHHHHHHH---hCCC---eEEEEeCCCC
Confidence            34678888876 89999999999999886   4565   8999998843

>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=95.72  E-value=0.0079  Score=50.47  Aligned_cols=37  Identities=16%  Similarity=0.108  Sum_probs=31.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      +.|.|..|+||||++.++|...+   ..|.   +|+.||.+..
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la---~~g~---~VlliD~D~~   39 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMA---SDYD---KIYAVDGDPD   39 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHT---TTCS---CEEEEEECTT
T ss_pred             EEEecCCCCCHHHHHHHHHHHHH---HCCC---eEEEEeCCCC
Confidence            45699999999999999999876   5565   8999998853

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=95.72  E-value=0.012  Score=51.48  Aligned_cols=40  Identities=20%  Similarity=0.280  Sum_probs=33.9

Q ss_pred             CCcEEEEEeC-CCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAE-SGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~-~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...++.|+++ +|+||||++.++|..++   ..|.   +|+.||.+.
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA---~~G~---rVLLID~D~  143 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIA---QSDQ---KVLFIDADL  143 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHH---HTTC---CEEEEECCT
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHH---hCCC---cEEEEECCC
Confidence            4678888886 79999999999999876   4565   899999885

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.72  E-value=0.0065  Score=52.43  Aligned_cols=23  Identities=30%  Similarity=0.302  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+||+|+|||||+..++...
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            47899999999999999988875

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.71  E-value=0.011  Score=52.90  Aligned_cols=27  Identities=22%  Similarity=0.246  Sum_probs=24.0

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.+.++.|+|+||+|||||+..++...
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            447899999999999999999998765

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.69  E-value=0.01  Score=52.20  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=21.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++.|+||+|||||+|+..++...
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            4588999999999999999998753

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=95.65  E-value=0.0033  Score=51.36  Aligned_cols=33  Identities=24%  Similarity=0.187  Sum_probs=27.4

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.++. +  .+.+|..+.|+|++|+|||||+..++.
T Consensus        16 ~~l~~-~--~~~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           16 PDIRH-L--PSDTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SSGGG-S--SCSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCHhH-C--CCCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            45665 3  578899999999999999999987764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=95.64  E-value=0.27  Score=37.60  Aligned_cols=23  Identities=17%  Similarity=0.365  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
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            37899999999999999988654

>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=95.61  E-value=0.59  Score=36.43  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus        20 ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           20 KVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999999998654

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.60  E-value=0.0042  Score=54.43  Aligned_cols=35  Identities=17%  Similarity=0.152  Sum_probs=27.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+|.++  -+..|+++.|.||||+|||||+..++...
T Consensus       159 gv~~lf--~~l~geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          159 GIEELK--EYLKGKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             THHHHH--HHHSSSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CHHHHH--HHhcCCeEEEECCCCCcHHHHHHHhcccc
Confidence            355544  24468999999999999999998887653

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.58  E-value=0.016  Score=50.91  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=22.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|+||+|||||+|+..++...
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            4589999999999999999998764

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=95.57  E-value=0.0058  Score=61.73  Aligned_cols=33  Identities=9%  Similarity=0.164  Sum_probs=27.8

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      |+.+ +--+++|+++.|+||+|||||||+..++.
T Consensus       451 L~~v-sl~I~~Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          451 LNKT-QLRLKRARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             EEEE-EEEEETTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             Eecc-eEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            4443 34688999999999999999999998885

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.57  E-value=0.0043  Score=54.11  Aligned_cols=40  Identities=13%  Similarity=0.196  Sum_probs=26.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...++.|.|++||||||++..++....   ..+.   .+.+|+++.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg---~~~~---~~~vI~~D~   43 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR---REGV---KAVSIEGDA   43 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH---HHTC---CEEEEEGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh---hcCC---CeeEeecch
Confidence            356899999999999999998887531   1121   477888775

>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=95.57  E-value=0.008  Score=51.05  Aligned_cols=41  Identities=12%  Similarity=0.186  Sum_probs=29.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCC--cCCCCCCeEEEEeCCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPS--SHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~--~~gg~~~~vlyid~e~   82 (302)
                      .++.|.|++||||||++..|+...-.+.  ..+   ..+++++++.
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~---~~~~~i~~D~   65 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQ---KQVVILSQDS   65 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGG---CSEEEEEGGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhhcccccC---CceEEEecCc
Confidence            5899999999999999998887542210  011   2577888775

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=95.57  E-value=0.0048  Score=60.24  Aligned_cols=31  Identities=23%  Similarity=0.408  Sum_probs=25.2

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQL   58 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~l   58 (302)
                      |+.+ +--|++|+++.|+||+|||||||+..+
T Consensus       338 L~~v-sl~I~~Ge~vaIiGpnGsGKSTLl~~i  368 (670)
T 3ux8_A          338 LKNV-SVKIPLGTFVAVTGVSGSGKSTLVNEV  368 (670)
T ss_dssp             CCSE-EEEEETTSEEEEECSTTSSHHHHHTTT
T ss_pred             cccc-eeEecCCCEEEEEeeCCCCHHHHHHHH
Confidence            4443 346889999999999999999998544

>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=95.56  E-value=0.012  Score=52.11  Aligned_cols=22  Identities=32%  Similarity=0.341  Sum_probs=20.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+||||+|||+++..++...
T Consensus        61 ~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999998875

>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=95.55  E-value=0.0078  Score=52.26  Aligned_cols=35  Identities=17%  Similarity=0.247  Sum_probs=27.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.-+.|+||||+|||+++..++....      .   .++++++.
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~~l~------~---~~~~i~~~   84 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAKLAN------A---PFIKVEAT   84 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHT------C---CEEEEEGG
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhC------C---CEEEEcch
Confidence            45688999999999999999987641      1   57778765

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.55  E-value=0.018  Score=48.84  Aligned_cols=40  Identities=20%  Similarity=0.239  Sum_probs=32.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+..++.+.|.+|+||||++.+++....    .|.   +++.+|.+.
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~----~g~---~v~vvd~D~   51 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLE----DNY---KVAYVNLDT   51 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHT----TTS---CEEEEECCS
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHH----CCC---eEEEEeCCC
Confidence            3457899999999999999999998753    233   788898764

>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=95.54  E-value=0.0082  Score=53.89  Aligned_cols=26  Identities=31%  Similarity=0.280  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.-+.|+||||+|||++|..++...
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            45678999999999999999998764

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.53  E-value=0.0085  Score=49.89  Aligned_cols=23  Identities=17%  Similarity=0.027  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++||||||++..++...
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            58899999999999999887754

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=95.50  E-value=0.0032  Score=63.57  Aligned_cols=35  Identities=20%  Similarity=0.164  Sum_probs=28.9

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |+.+ +--+.+|+++.|.||+|||||||+..++...
T Consensus       689 L~dV-Sl~I~~GeivaIiGpNGSGKSTLLklLaGll  723 (986)
T 2iw3_A          689 ITDI-NFQCSLSSRIAVIGPNGAGKSTLINVLTGEL  723 (986)
T ss_dssp             EEEE-EEEEETTCEEEECSCCCHHHHHHHHHHTTSS
T ss_pred             eecc-EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4443 3458899999999999999999999887754

>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=95.50  E-value=0.013  Score=51.12  Aligned_cols=46  Identities=17%  Similarity=0.015  Sum_probs=29.8

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLH   90 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~   90 (302)
                      +.|+||+|+|||+++..++....-+ ...   ..+++++.........++
T Consensus        45 ~ll~G~~G~GKt~la~~l~~~l~~~-~~~---~~~~~~~~~~~~~~~~i~   90 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAHELLGR-SYA---DGVLELNASDDRGIDVVR   90 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGG-GHH---HHEEEECTTSCCSHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhcCC-ccc---CCEEEecCccccChHHHH
Confidence            8999999999999999998875210 001   146777655433333333

>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=95.49  E-value=0.0051  Score=56.38  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ++.|+||+|+|||||+..++..
T Consensus        71 ~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            9999999999999999888764

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=95.45  E-value=0.015  Score=50.64  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+||+|+|||+++..++...
T Consensus        41 ~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           41 LLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             EEEESSSSSSHHHHHHHHHHHH
T ss_pred             EEEECcCCcCHHHHHHHHHHHh
Confidence            8999999999999999998874

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=95.44  E-value=0.02  Score=49.68  Aligned_cols=41  Identities=15%  Similarity=0.234  Sum_probs=33.2

Q ss_pred             CCcEEEEEeC-CCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           37 CNSITELVAE-SGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        37 ~G~i~ei~G~-~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      ...++.|+++ +|+||||++.++|..++   ..|.   +|++||++..
T Consensus        91 ~~kvI~vts~kgG~GKTtva~nLA~~lA---~~G~---rVLLID~D~~  132 (286)
T 3la6_A           91 QNNVLMMTGVSPSIGMTFVCANLAAVIS---QTNK---RVLLIDCDMR  132 (286)
T ss_dssp             TCCEEEEEESSSSSSHHHHHHHHHHHHH---TTTC---CEEEEECCTT
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHH---hCCC---CEEEEeccCC
Confidence            4567777765 89999999999999886   4565   8999998854

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.44  E-value=0.0099  Score=49.02  Aligned_cols=23  Identities=13%  Similarity=-0.019  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|+|||||||++..++...
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            47899999999999999888754

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.34  E-value=0.0092  Score=51.89  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.|.|+|||||||++..++..
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            47899999999999999998864

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=95.34  E-value=0.014  Score=51.23  Aligned_cols=47  Identities=17%  Similarity=0.227  Sum_probs=33.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      +...-+.|+||||+|||++|..++....   ..+.   ..+++++.. ++...+
T Consensus        23 ~~~~~vLi~Ge~GtGKt~lAr~i~~~~~---~~~~---~~v~v~~~~-~~~~l~   69 (304)
T 1ojl_A           23 PSDATVLIHGDSGTGKELVARALHACSA---RSDR---PLVTLNCAA-LNESLL   69 (304)
T ss_dssp             STTSCEEEESCTTSCHHHHHHHHHHHSS---CSSS---CCCEEECSS-CCHHHH
T ss_pred             CCCCcEEEECCCCchHHHHHHHHHHhCc---ccCC---CeEEEeCCC-CChHHH
Confidence            3456789999999999999998887642   2232   678888763 444333

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.32  E-value=0.012  Score=47.17  Aligned_cols=25  Identities=20%  Similarity=0.183  Sum_probs=21.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|.-+.|.|+||+||||+++.++..
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            3667999999999999999988764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.30  E-value=0.013  Score=56.40  Aligned_cols=29  Identities=17%  Similarity=0.203  Sum_probs=25.6

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+..|..+.|+||||+||||++..++...
T Consensus        56 ~i~~g~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           56 AANQKRHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHHTTCCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cccCCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            35678999999999999999999998864

>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=95.30  E-value=0.13  Score=44.99  Aligned_cols=57  Identities=11%  Similarity=0.023  Sum_probs=39.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC-CCCHHHHHHHHHHhC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF-PFPMRRLHQLSHTFR   97 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~-~~~~~rl~~i~~~~~   97 (302)
                      ...+.|+||+|+|||+++..++..+... ..  ....+++++.++ ....+.++++...+.
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~-~~--~~~d~~~l~~~~~~~~id~ir~li~~~~   75 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKF-PP--KASDVLEIDPEGENIGIDDIRTIKDFLN   75 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTS-CC--CTTTEEEECCSSSCBCHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchh-hc--cCCCEEEEcCCcCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998763211 00  112578888764 455666777766654

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.29  E-value=0.013  Score=48.08  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=21.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|.|+||||||++|..++...
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~   29 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMAND   29 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4589999999999999998876554

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.29  E-value=0.02  Score=47.47  Aligned_cols=27  Identities=19%  Similarity=0.089  Sum_probs=23.6

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+|.++.|.|++||||||++..++...
T Consensus         4 m~g~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            4 MTGLFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHHHHH
Confidence            368899999999999999999888765

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=95.28  E-value=0.018  Score=55.15  Aligned_cols=40  Identities=18%  Similarity=0.229  Sum_probs=35.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...++.+.|.+|+||||++.++|...+   ..|.   +|++||++-
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA---~~G~---rVLlvd~D~   46 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLA---EQGK---RVLLVSTDP   46 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCT
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHH---HCCC---cEEEEECCC
Confidence            467899999999999999999999886   5565   899999884

>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=95.28  E-value=0.021  Score=50.28  Aligned_cols=35  Identities=17%  Similarity=0.095  Sum_probs=28.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .++.|+||+|+|||+|+.+++....      .   .++|++...
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~~------~---~~~~~~~~~   65 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINELN------L---PYIYLDLRK   65 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHT------C---CEEEEEGGG
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhcC------C---CEEEEEchh
Confidence            5999999999999999999987642      1   478998763

>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=95.27  E-value=0.012  Score=51.03  Aligned_cols=22  Identities=32%  Similarity=0.380  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la   59 (302)
                      ..++.|+|++||||||++..++
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999887

>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=95.19  E-value=0.024  Score=49.52  Aligned_cols=26  Identities=19%  Similarity=0.114  Sum_probs=22.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ....+.|+||+|+|||+++..++...
T Consensus        37 ~~~~vll~G~~GtGKT~la~~i~~~~   62 (324)
T 1hqc_A           37 PLEHLLLFGPPGLGKTTLAHVIAHEL   62 (324)
T ss_dssp             CCCCCEEECCTTCCCHHHHHHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHh
Confidence            34568999999999999999998764

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=95.18  E-value=0.012  Score=52.92  Aligned_cols=36  Identities=22%  Similarity=0.166  Sum_probs=27.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ....+.|+||||+|||++|..++...      +.   .+++++..
T Consensus        71 ~~~~ill~Gp~GtGKT~la~~la~~l------~~---~~~~~~~~  106 (376)
T 1um8_A           71 SKSNILLIGPTGSGKTLMAQTLAKHL------DI---PIAISDAT  106 (376)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT------TC---CEEEEEGG
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHh------CC---CEEEecch
Confidence            45568999999999999999998764      21   56777754

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.17  E-value=0.01  Score=48.90  Aligned_cols=25  Identities=12%  Similarity=0.133  Sum_probs=21.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++.|.|++||||||++..++...
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3578999999999999998887653

>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=95.16  E-value=0.12  Score=45.63  Aligned_cols=60  Identities=12%  Similarity=0.140  Sum_probs=37.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCC---------------CCCeEEEEeCC---CCCCHHHHHHHHHHhC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGG---------------LSASSLYLHTE---FPFPMRRLHQLSHTFR   97 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg---------------~~~~vlyid~e---~~~~~~rl~~i~~~~~   97 (302)
                      ...+.|+||+|+|||+++..++....-....++               ....+.+++.+   .....+.++++...+.
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~  101 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLN  101 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTT
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHh
Confidence            346999999999999999999987631111000               01235677765   2345566667666543

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=95.16  E-value=0.017  Score=50.13  Aligned_cols=41  Identities=12%  Similarity=0.237  Sum_probs=33.6

Q ss_pred             CCcEEEEEe---CCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           37 CNSITELVA---ESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        37 ~G~i~ei~G---~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      .+.++.|++   ..|+||||++.++|...+   ..|.   +|+.||.+-.
T Consensus        33 ~~~~i~v~~~s~KGGvGKTT~a~nLA~~la---~~G~---rVlliD~D~q   76 (298)
T 2oze_A           33 KNEAIVILNNYFKGGVGKSKLSTMFAYLTD---KLNL---KVLMIDKDLQ   76 (298)
T ss_dssp             HCSCEEEEECCSSSSSSHHHHHHHHHHHHH---HTTC---CEEEEEECTT
T ss_pred             CCcEEEEEeccCCCCchHHHHHHHHHHHHH---hCCC---eEEEEeCCCC
Confidence            466788876   899999999999998875   4565   8999998853

>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=95.16  E-value=0.013  Score=45.65  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.|+||+|+|||+++..+...
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~~   46 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILVG   46 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            49999999999999998777653

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.13  E-value=0.014  Score=47.09  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+|++|+|||||+..++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            68999999999999999988764

>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=95.12  E-value=0.36  Score=38.54  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999988654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.09  E-value=0.17  Score=40.16  Aligned_cols=23  Identities=39%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999998763

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.09  E-value=0.0055  Score=47.29  Aligned_cols=24  Identities=21%  Similarity=0.048  Sum_probs=19.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      .+.-+.|+||||+|||++|..++.
T Consensus        26 ~~~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           26 RTSPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             CSSCEEEEEETTCCHHHHHGGGCC
T ss_pred             CCCcEEEECCCCccHHHHHHHHHH
Confidence            345589999999999999976643

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=95.09  E-value=0.027  Score=47.07  Aligned_cols=41  Identities=12%  Similarity=0.285  Sum_probs=32.0

Q ss_pred             CCcEEEEEe-CCCCcHHHHHHHHHHHccCCCcC-CCCCCeEEEEeCCCC
Q 022155           37 CNSITELVA-ESGSGKTQFCLQLTLSAQLPSSH-GGLSASSLYLHTEFP   83 (302)
Q Consensus        37 ~G~i~ei~G-~~GsGKT~l~l~la~~~~l~~~~-gg~~~~vlyid~e~~   83 (302)
                      .+.++.|++ ..|+||||++.++|...+   .. |.   +|++||.+..
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la---~~~g~---~VlliD~D~~   45 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALS---QEPDI---HVLAVDISLP   45 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHT---TSTTC---CEEEEECCTT
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHH---hCcCC---CEEEEECCCC
Confidence            356666664 588999999999999875   44 65   9999998743

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=95.09  E-value=0.082  Score=51.76  Aligned_cols=51  Identities=25%  Similarity=0.353  Sum_probs=35.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      +.--.++.-++..|+.+.|+||.|||||+.+...+.....  ..|+   +++|+.-
T Consensus        33 ~~Q~~~i~~~~~~~~~~lv~apTGsGKT~~~~l~il~~~~--~~~~---~il~i~P   83 (715)
T 2va8_A           33 PPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLL--KNGG---KAIYVTP   83 (715)
T ss_dssp             HHHHHHHHTTTTTTCCEEEECCTTSCHHHHHHHHHHHHHH--HSCS---EEEEECS
T ss_pred             HHHHHHHHHHhcCCCcEEEEcCCCCcHHHHHHHHHHHHHH--HCCC---eEEEEeC
Confidence            3334444445677999999999999999999776655422  2344   8898873

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.08  E-value=0.014  Score=51.56  Aligned_cols=24  Identities=17%  Similarity=0.213  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.|+||||+|||+++..++...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~~   79 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYEM   79 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHh
Confidence            458999999999999999998764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.07  E-value=0.014  Score=52.17  Aligned_cols=28  Identities=32%  Similarity=0.304  Sum_probs=23.9

Q ss_pred             CCCCcE--EEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSI--TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i--~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..|+.  +.|+|++|+||||++..++...
T Consensus        19 i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           19 IEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             TTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            456666  9999999999999999888764

>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=95.06  E-value=0.019  Score=51.75  Aligned_cols=40  Identities=18%  Similarity=0.316  Sum_probs=33.1

Q ss_pred             CCCcEEEEEe-CCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVA-ESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G-~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+.++.|++ ..|+||||++.++|...+   ..|.   +|++||.+
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La---~~g~---rVlliD~D  181 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHA---NMGK---KVFYLNIE  181 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHH---HHTC---CEEEEECC
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHH---hCCC---CEEEEECC
Confidence            3567788875 899999999999999876   4455   89999988

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=95.05  E-value=0.029  Score=50.61  Aligned_cols=36  Identities=19%  Similarity=0.249  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .++.+.|..|+||||++.++|...+   ..|.   +|+.||+
T Consensus         3 ~i~~~~gkGG~GKTt~a~~la~~la---~~g~---~vllvd~   38 (374)
T 3igf_A            3 LILTFLGKSGVARTKIAIAAAKLLA---SQGK---RVLLAGL   38 (374)
T ss_dssp             EEEEEECSBHHHHHHHHHHHHHHHH---HTTC---CEEEEEC
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHH---HCCC---CeEEEeC
Confidence            4678899999999999999998876   5565   8999998

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=95.03  E-value=0.017  Score=53.17  Aligned_cols=28  Identities=18%  Similarity=0.360  Sum_probs=24.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..|+++.|+||+|+|||+++..++...
T Consensus        23 ~~~~~~~~i~G~nG~GKstll~ai~~~~   50 (430)
T 1w1w_A           23 FGESNFTSIIGPNGSGKSNMMDAISFVL   50 (430)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhhh
Confidence            4568999999999999999998887654

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.03  E-value=0.014  Score=52.57  Aligned_cols=26  Identities=19%  Similarity=0.405  Sum_probs=21.4

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ++.| ++.|+||+||||||+.-.++..
T Consensus        21 ~~~g-~~~i~G~NGaGKTTll~ai~~a   46 (365)
T 3qf7_A           21 FQSG-ITVVEGPNGAGKSSLFEAISFA   46 (365)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCC-eEEEECCCCCCHHHHHHHHHHH
Confidence            4566 8999999999999998776644

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.98  E-value=0.5  Score=36.04  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            36899999999999999998654

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=94.98  E-value=0.025  Score=48.00  Aligned_cols=37  Identities=16%  Similarity=0.307  Sum_probs=29.9

Q ss_pred             EEEE-EeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITEL-VAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei-~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++.| .+..|+||||++.++|..++   ..|.   +|++||.+.
T Consensus         4 ~I~v~s~kgGvGKTt~a~~LA~~la---~~g~---~VlliD~D~   41 (263)
T 1hyq_A            4 TITVASGKGGTGKTTITANLGVALA---QLGH---DVTIVDADI   41 (263)
T ss_dssp             EEEEEESSSCSCHHHHHHHHHHHHH---HTTC---CEEEEECCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHH---hCCC---cEEEEECCC
Confidence            4444 67789999999999999876   4565   899999875

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=94.95  E-value=0.023  Score=55.19  Aligned_cols=37  Identities=22%  Similarity=0.302  Sum_probs=28.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      ...+..|.||||+|||+.+.+++....   ..+.   +|+...
T Consensus       204 ~~~~~lI~GPPGTGKT~ti~~~I~~l~---~~~~---~ILv~a  240 (646)
T 4b3f_X          204 QKELAIIHGPPGTGKTTTVVEIILQAV---KQGL---KVLCCA  240 (646)
T ss_dssp             CSSEEEEECCTTSCHHHHHHHHHHHHH---HTTC---CEEEEE
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHH---hCCC---eEEEEc
Confidence            456999999999999999988887764   3443   555554

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.95  E-value=0.026  Score=51.31  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|+||+|||||+|+..++...
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            478999999999999999998764

>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=94.93  E-value=0.015  Score=47.20  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|+|++|+|||||+..++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4789999999999999999875

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=94.93  E-value=0.015  Score=52.30  Aligned_cols=26  Identities=31%  Similarity=0.475  Sum_probs=22.8

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      -+.+| ++.|+||+|+|||+++..++.
T Consensus        23 ~~~~g-~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           23 NFPEG-VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             ECCSE-EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEcCC-eEEEECCCCCChhHHHHHHHH
Confidence            35677 999999999999999988875

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.91  E-value=0.011  Score=52.13  Aligned_cols=25  Identities=20%  Similarity=0.041  Sum_probs=22.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.-+.|+||||+|||+++..++...
T Consensus        46 ~~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           46 GGHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TCCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHh
Confidence            5579999999999999999998754

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=94.91  E-value=0.033  Score=49.30  Aligned_cols=41  Identities=20%  Similarity=0.165  Sum_probs=34.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      ...++.+.|..|+||||++.++|...+   ..|.   +|+.+|++-.
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA---~~G~---rVllvD~D~~   58 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMS---KVRS---SVLLISTDPA   58 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHH---TSSS---CEEEEECCTT
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHH---HCCC---eEEEEECCCC
Confidence            356788899999999999999999876   5565   8999998854

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=94.91  E-value=0.0072  Score=55.19  Aligned_cols=35  Identities=20%  Similarity=0.217  Sum_probs=27.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ .--+.+| ++.|+||+|+|||||+..+....
T Consensus        50 ~l~~v-~l~~~~G-~~~lvG~NGaGKStLl~aI~~l~   84 (415)
T 4aby_A           50 TITQL-ELELGGG-FCAFTGETGAGKSIIVDALGLLL   84 (415)
T ss_dssp             TEEEE-EEECCSS-EEEEEESHHHHHHHHTHHHHHHT
T ss_pred             ceeeE-EEecCCC-cEEEECCCCCCHHHHHHHHHHHh
Confidence            34443 3367899 99999999999999997776543

>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=94.90  E-value=0.011  Score=52.06  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.|.|++||||||++..++..
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cEEEEEecCCCCHHHHHHHHHhh
Confidence            58999999999999999998875

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=94.90  E-value=0.019  Score=48.80  Aligned_cols=40  Identities=20%  Similarity=0.194  Sum_probs=32.3

Q ss_pred             CCcEEEEE-eCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELV-AESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~-G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+.++.|+ +..|+||||++.++|..++   ..|.   +|++||.+.
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la---~~g~---~VlliD~D~   45 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLA---RLGK---RVLLVDLDP   45 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHH---HTTC---CEEEEECCT
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHH---HCCC---CEEEEECCC
Confidence            35677776 6779999999999999876   4565   899999884

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=94.88  E-value=0.47  Score=38.11  Aligned_cols=39  Identities=15%  Similarity=0.072  Sum_probs=24.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      |.-+.+.+|.|+|||..++..+.........+   .+++|+.
T Consensus        40 ~~~~lv~apTGsGKT~~~~~~~~~~~~~~~~~---~~~lil~   78 (206)
T 1vec_A           40 GRDILARAKNGTGKSGAYLIPLLERLDLKKDN---IQAMVIV   78 (206)
T ss_dssp             TCCEEEECCSSSTTHHHHHHHHHHHCCTTSCS---CCEEEEC
T ss_pred             CCCEEEECCCCCchHHHHHHHHHHHhcccCCC---eeEEEEe
Confidence            45689999999999976554443332111122   2678877

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.86  E-value=0.018  Score=45.60  Aligned_cols=25  Identities=12%  Similarity=0.111  Sum_probs=21.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +|.-+.|+|++|+|||+|+..++..
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            5677899999999999999988754

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.79  E-value=0.022  Score=47.88  Aligned_cols=26  Identities=19%  Similarity=0.152  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +|.++.|.|.+||||||++..++...
T Consensus         1 ~~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            36789999999999999999988764

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=94.75  E-value=0.026  Score=47.00  Aligned_cols=38  Identities=24%  Similarity=0.447  Sum_probs=30.2

Q ss_pred             cEEEEE-eCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           39 SITELV-AESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei~-G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .++.|+ +..|+||||++.++|..++   ..|.   +|++||.+.
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~~la---~~g~---~VlliD~D~   41 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSVALG---DRGR---KVLAVDGDL   41 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCT
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHH---hcCC---eEEEEeCCC
Confidence            455554 5689999999999999876   4565   899999875

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=94.73  E-value=0.28  Score=39.45  Aligned_cols=42  Identities=24%  Similarity=0.148  Sum_probs=25.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      |.-+.+.+|+|+|||..+...+..........+...+++|+.
T Consensus        38 ~~~~li~~~TGsGKT~~~~~~~~~~l~~~~~~~~~~~~lil~   79 (207)
T 2gxq_A           38 GKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLT   79 (207)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHCCCCCCTTCCCSEEEEC
T ss_pred             CCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCcEEEEE
Confidence            456899999999999875554444322111011123678776

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=94.71  E-value=0.026  Score=48.06  Aligned_cols=41  Identities=20%  Similarity=0.230  Sum_probs=32.0

Q ss_pred             CcEEEE-EeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCC
Q 022155           38 NSITEL-VAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPF   84 (302)
Q Consensus        38 G~i~ei-~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~   84 (302)
                      +.++.| .+..|+||||++.++|..++   ..|.   +|++||.+-..
T Consensus        18 ~~vI~v~s~kGGvGKTT~a~nLA~~la---~~G~---~VlliD~D~~~   59 (262)
T 2ph1_A           18 KSRIAVMSGKGGVGKSTVTALLAVHYA---RQGK---KVGILDADFLG   59 (262)
T ss_dssp             SCEEEEECSSSCTTHHHHHHHHHHHHH---HTTC---CEEEEECCSSC
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHHHHH---HCCC---eEEEEeCCCCC
Confidence            455665 46778999999999999876   4565   89999988544

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=94.70  E-value=0.022  Score=54.58  Aligned_cols=52  Identities=13%  Similarity=0.206  Sum_probs=40.3

Q ss_pred             hhhHhhhCC-CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           25 PIIDRCLGG-GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        25 ~~LD~~L~G-Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.||.++.+ +-....++.+.|.+|+||||++.++|..++   ..|.   +|+++|++-
T Consensus       313 ~~l~~~~~~~~~~~~~~~~~~~~~g~Gktt~a~~lA~~l~---~~g~---~vllvD~Dp  365 (589)
T 1ihu_A          313 PSLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLA---DMGF---DVHLTTSDP  365 (589)
T ss_dssp             CCHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEESCC
T ss_pred             chhhhhhhhhhccCCeEEEEecCCCCChhhHHHHHHHHHH---HCCC---cEEEEeCCC
Confidence            567777643 233456778899999999999999999876   5565   899999883

>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=94.68  E-value=0.035  Score=46.78  Aligned_cols=29  Identities=10%  Similarity=0.052  Sum_probs=23.7

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .--+|.++.|.|++||||||++..++...
T Consensus        23 ~~~~~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           23 NAMNAKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             ---CCCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34468899999999999999999888765

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.66  E-value=0.017  Score=48.36  Aligned_cols=30  Identities=17%  Similarity=0.191  Sum_probs=21.6

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |-..+|.++.|.|++||||||++..++...
T Consensus        20 ~~m~~g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           20 GSMARGKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             ---CCCCEEEEECCC---CHHHHHHHHHHH
T ss_pred             ccccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445689999999999999999999888765

>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=94.63  E-value=0.027  Score=51.99  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+||||+|||+++..+|...
T Consensus        52 ~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           52 NILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHc
Confidence            48899999999999999998875

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.61  E-value=0.015  Score=51.39  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=21.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.+| ++.|+||+|+|||+++..+..
T Consensus        22 ~~~g-~~~i~G~NGsGKS~ll~ai~~   46 (322)
T 1e69_A           22 FSDR-VTAIVGPNGSGKSNIIDAIKW   46 (322)
T ss_dssp             CCSS-EEEEECCTTTCSTHHHHHHHH
T ss_pred             cCCC-cEEEECCCCCcHHHHHHHHHH
Confidence            4566 999999999999999988764

>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=94.52  E-value=0.021  Score=44.71  Aligned_cols=22  Identities=23%  Similarity=0.238  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .+.|+|++|+|||+|+..++..
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999988753

>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=94.51  E-value=0.026  Score=50.33  Aligned_cols=24  Identities=21%  Similarity=0.183  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.|+||+|+|||+++..++...
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~l   62 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKGL   62 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999998775

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=94.48  E-value=0.032  Score=47.08  Aligned_cols=38  Identities=16%  Similarity=0.262  Sum_probs=30.5

Q ss_pred             cEEEE-EeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           39 SITEL-VAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei-~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .++.| .+..|+||||++.++|...+   ..|.   +|++||.+-
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la---~~g~---~VlliD~D~   41 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLA---QKGK---KTVVIDFAI   41 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH---hCCC---cEEEEECCC
Confidence            45566 45688999999999999876   5565   899999885

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.40  E-value=0.033  Score=46.30  Aligned_cols=27  Identities=19%  Similarity=0.137  Sum_probs=24.2

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+|.++.|.|++||||||.+..++...
T Consensus         3 ~~g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            3 GRGKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCCCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999888765

>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=94.38  E-value=0.024  Score=49.47  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+||+|+|||+++..++...
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHHh
Confidence            38999999999999999998875

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=94.37  E-value=0.012  Score=52.03  Aligned_cols=23  Identities=17%  Similarity=0.182  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+||||+|||+++..++...
T Consensus        47 ~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           47 GVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             CEEEECCGGGCTTHHHHHHHHHS
T ss_pred             eEEEECCCCccHHHHHHHHHHhC
Confidence            39999999999999999998764

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=94.35  E-value=0.04  Score=52.68  Aligned_cols=38  Identities=18%  Similarity=0.124  Sum_probs=29.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .+.++.|.|+||+|||+++..++..+.   ..|.   +|++...
T Consensus       203 ~~~~~~I~G~pGTGKTt~i~~l~~~l~---~~g~---~Vl~~Ap  240 (574)
T 3e1s_A          203 GHRLVVLTGGPGTGKSTTTKAVADLAE---SLGL---EVGLCAP  240 (574)
T ss_dssp             TCSEEEEECCTTSCHHHHHHHHHHHHH---HTTC---CEEEEES
T ss_pred             hCCEEEEEcCCCCCHHHHHHHHHHHHH---hcCC---eEEEecC
Confidence            367999999999999999999887764   3443   6776653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=94.34  E-value=0.26  Score=39.04  Aligned_cols=21  Identities=19%  Similarity=-0.089  Sum_probs=17.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~   60 (302)
                      -+.|+|++|+|||+|+..+..
T Consensus        16 ki~vvG~~~~GKssL~~~l~~   36 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIYS   36 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999954443

>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=94.32  E-value=0.02  Score=45.72  Aligned_cols=21  Identities=38%  Similarity=0.441  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~   60 (302)
                      -+.|+|++|+|||+|+..++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            378999999999999988865

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=94.31  E-value=0.11  Score=50.74  Aligned_cols=38  Identities=24%  Similarity=0.306  Sum_probs=29.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .|+.+.+++|.|||||+.+...+....   ..++   +++|+.-
T Consensus        39 ~~~~~lv~apTGsGKT~~~~l~il~~~---~~~~---~~l~i~P   76 (702)
T 2p6r_A           39 SGKNLLLAMPTAAGKTLLAEMAMVREA---IKGG---KSLYVVP   76 (702)
T ss_dssp             TCSCEEEECSSHHHHHHHHHHHHHHHH---HTTC---CEEEEES
T ss_pred             CCCcEEEEcCCccHHHHHHHHHHHHHH---HhCC---cEEEEeC
Confidence            478899999999999999876665542   2244   8999883

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.30  E-value=0.035  Score=46.03  Aligned_cols=26  Identities=15%  Similarity=0.063  Sum_probs=23.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +|.++.|.|++||||||.+..++...
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998887765

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=94.30  E-value=0.036  Score=50.38  Aligned_cols=30  Identities=30%  Similarity=0.245  Sum_probs=26.6

Q ss_pred             CCCCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           32 GGGIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        32 ~GGl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -|-+..|..+.|+|+||+|||||...++..
T Consensus        14 lg~v~~g~~vgiVG~pnaGKSTL~n~Ltg~   43 (392)
T 1ni3_A           14 WGRPGNNLKTGIVGMPNVGKSTFFRAITKS   43 (392)
T ss_dssp             CSSSSSCCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             hccccCCCEEEEECCCCCCHHHHHHHHHCC
Confidence            356788999999999999999999998873

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=94.30  E-value=0.04  Score=45.45  Aligned_cols=34  Identities=18%  Similarity=0.091  Sum_probs=27.3

Q ss_pred             EEEEEe-CCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           40 ITELVA-ESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        40 i~ei~G-~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      ++.|++ .+|+||||++.++|...+   ..|.   +|+++|
T Consensus         3 ~I~v~s~kgGvGKTt~a~nLa~~la---~~G~---rVll~d   37 (224)
T 1byi_A            3 RYFVTGTDTEVGKTVASCALLQAAK---AAGY---RTAGYK   37 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHH---HTTC---CEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH---HCCC---CEEEEc
Confidence            455666 589999999999999876   5565   899987

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=94.28  E-value=0.039  Score=50.67  Aligned_cols=39  Identities=13%  Similarity=0.171  Sum_probs=30.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ..-+.|+|++|||||+++..++.++.   ..|.   .++.+|..+
T Consensus        53 ~~h~~i~G~tGsGKs~~~~~li~~~~---~~g~---~viv~Dpkg   91 (437)
T 1e9r_A           53 PRHLLVNGATGTGKSVLLRELAYTGL---LRGD---RMVIVDPNG   91 (437)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHH---HTTC---EEEEEEETT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHHH---HCCC---cEEEEeCCC
Confidence            45789999999999999877777764   3454   777788664

>4eq6_A Chromosome segregation in meiosis protein 2; DNA binding protein; 1.80A {Saccharomyces cerevisiae} PDB: 4dt1_A

Probab=94.26  E-value=0.54  Score=37.82  Aligned_cols=127  Identities=14%  Similarity=0.282  Sum_probs=80.0

Q ss_pred             cHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHH
Q 022155           50 GKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESF  129 (302)
Q Consensus        50 GKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~  129 (302)
                      -|+.+|.-++....    .......+.|||+..+||...+.++.-... .....+.+||.+..|-+..+|..++.++-+.
T Consensus        17 ~~~~laq~i~~~L~----~~~~~~qLyyIDAtNSFPi~qFq~lvP~~~-~~n~~IYEnIRI~tcLDL~EL~~iv~kiiQ~   91 (214)
T 4eq6_A           17 TKNKLCQFIKQNLS----KEHVVTQLFFIDATSSFPLSQFQKLVPPTL-PENVRIYENIRINTCLDLEELSAITVKLLQI   91 (214)
T ss_dssp             CHHHHHHHHHHHHT----CTTSEEEEEEEESSCCCCHHHHHHHSCTTS-GGGHHHHHTEEEEECCSHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHhc----cCCCceEEEEEecCCCCcHHHHHHhcCCCc-ccchhhhhheeeeeeecHHHHHHHHHHHHHH
Confidence            37778866655432    111112578999999999887766542100 1112366899999999999998877766444


Q ss_pred             HHh-----cc----CCCCCe-eEEEEechhhhhhhc-cCCChhhHHHH-HHHHHHHHHHHHHHHHHcC
Q 022155          130 IKN-----SS----NSRLPI-RLIVIDSIAALFRSD-FDNTMDDLKKR-SFLFFKISGMLKAMAVGFG  185 (302)
Q Consensus       130 l~~-----~~----~~~~~~-~lvVIDsi~~~~~~~-~~~~~~~~~~r-~~~l~~l~~~L~~la~~~~  185 (302)
                      +.-     ..    ....++ -+|||-.+..+|+.. +...    .++ ..+|++++-+|+-+|.+.+
T Consensus        92 is~~ki~rq~~~~~~~~~~~~ilviInGLeiMFRnTq~k~~----~e~sH~lLrD~lLRLRv~aN~~~  155 (214)
T 4eq6_A           92 LSMNKINAQRGTEDAVTEPLKIILYINGLEVMFRNSQFKSS----PQRSHELLRDTLLKLRVMGNDEN  155 (214)
T ss_dssp             HHHHHHHHC--------CCEEEEEEEECHHHHHHHHHHHSC----HHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             HhhhHHHHhhccCCCCCCCceEEEEEcCHHHHHhhhhcCCC----hHHHHHHHHHHHHHHHHHhcccC
Confidence            321     00    011222 488899999999753 2211    233 6678999999999998644

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.23  E-value=0.033  Score=45.76  Aligned_cols=38  Identities=13%  Similarity=0.067  Sum_probs=28.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      -..+.|+|++|+|||||+..++....   .. .   ++..++.+.
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~---~~-~---~~~~i~~d~   67 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIG---NE-V---KIGAMLGDV   67 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT---TT-S---CEEEEECSC
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhc---cC-C---eEEEEecCC
Confidence            34799999999999999999988742   11 1   566666553

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=94.19  E-value=0.095  Score=51.39  Aligned_cols=52  Identities=21%  Similarity=0.271  Sum_probs=34.6

Q ss_pred             HhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCC
Q 022155           28 DRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPF   84 (302)
Q Consensus        28 D~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~   84 (302)
                      ..++.-++..|+.+.++||.|||||+.+...+.....  ..|+   +++|+.-...+
T Consensus        29 ~~~i~~~~~~~~~~lv~apTGsGKT~~~~l~il~~~~--~~~~---~~l~i~P~raL   80 (720)
T 2zj8_A           29 AEALKSGILEGKNALISIPTASGKTLIAEIAMVHRIL--TQGG---KAVYIVPLKAL   80 (720)
T ss_dssp             HHHHTTTGGGTCEEEEECCGGGCHHHHHHHHHHHHHH--HHCS---EEEEECSSGGG
T ss_pred             HHHHHHHhcCCCcEEEEcCCccHHHHHHHHHHHHHHH--hCCC---EEEEEcCcHHH
Confidence            3344434566899999999999999988555543321  1244   89998854333

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.17  E-value=0.032  Score=46.78  Aligned_cols=23  Identities=17%  Similarity=0.102  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -..|.|+|||||||+|..++...
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceeeECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999988765

>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=94.14  E-value=0.028  Score=43.53  Aligned_cols=23  Identities=13%  Similarity=0.159  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            36899999999999999988753

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=94.12  E-value=0.032  Score=45.73  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.|+||+|+|||+++-.+...
T Consensus        24 ~~~~I~G~NgsGKStil~ai~~~   46 (203)
T 3qks_A           24 GINLIIGQNGSGKSSLLDAILVG   46 (203)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHH
Confidence            59999999999999998776544

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.11  E-value=0.03  Score=43.12  Aligned_cols=22  Identities=18%  Similarity=0.226  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|+|++|+|||+|+..++..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3689999999999999998764

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.10  E-value=0.035  Score=45.74  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=22.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -..+.|+|.+|+|||||+..++...
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3578899999999999999998875

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.04  E-value=0.039  Score=46.10  Aligned_cols=27  Identities=26%  Similarity=0.219  Sum_probs=24.0

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+|.++.|.|++||||||++..++...
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            368899999999999999998888765

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=94.03  E-value=0.022  Score=53.50  Aligned_cols=28  Identities=14%  Similarity=0.147  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..|.-+.|+||||+|||++|..++...
T Consensus        38 l~~~~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           38 ALSGESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             HHHTCEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             HhcCCeeEeecCchHHHHHHHHHHHHHH
Confidence            4456789999999999999999887654

>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=94.02  E-value=0.062  Score=44.17  Aligned_cols=35  Identities=14%  Similarity=0.146  Sum_probs=26.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      |.++.|-|..||||||.+..++...    ..|.   +|++..
T Consensus         2 ~kFI~~EG~dGsGKsTq~~~L~~~L----~~~~---~v~~~~   36 (205)
T 4hlc_A            2 SAFITFEGPEGSGKTTVINEVYHRL----VKDY---DVIMTR   36 (205)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH----TTTS---CEEEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHH----HCCC---CEEEee
Confidence            5789999999999999998887765    2343   566554

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.01  E-value=0.03  Score=44.48  Aligned_cols=22  Identities=23%  Similarity=0.238  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .+.|+|++|+|||+|+..++..
T Consensus         9 ~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999864

>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=94.00  E-value=0.035  Score=42.69  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++|++|+|||+|+..++...
T Consensus         6 i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999998654

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=93.99  E-value=0.36  Score=39.44  Aligned_cols=41  Identities=24%  Similarity=0.122  Sum_probs=25.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .|.-+.+.+|.|+|||......+.........+   .+++++.-
T Consensus        50 ~~~~~lv~~pTGsGKT~~~~~~~l~~l~~~~~~---~~~lil~P   90 (224)
T 1qde_A           50 EGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKA---PQALMLAP   90 (224)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHHCCTTCCS---CCEEEECS
T ss_pred             cCCCEEEECCCCCcHHHHHHHHHHHHHhccCCC---ceEEEEEC
Confidence            345689999999999977443333332211122   36788763

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=93.97  E-value=0.053  Score=53.56  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=21.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+||||+|||++|..++...
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999998875

>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=93.97  E-value=0.081  Score=47.35  Aligned_cols=53  Identities=15%  Similarity=0.200  Sum_probs=38.2

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      +.|+.++..  +.-.++...|..|+||||++.++|...+.. ..|.   +|+.||++-.
T Consensus         7 ~~l~~l~~~--~~~~i~v~sgKGGvGKTTvaanLA~~lA~~-~~G~---rVLLvD~D~~   59 (354)
T 2woj_A            7 PNLHSLITS--TTHKWIFVGGKGGVGKTTSSCSIAIQMALS-QPNK---QFLLISTDPA   59 (354)
T ss_dssp             SSCHHHHTC--SSCCEEEEEESTTSSHHHHHHHHHHHHHHH-CTTS---CEEEEECCSS
T ss_pred             ccHHHHhcC--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHh-cCCC---eEEEEECCCC
Confidence            346666642  234678888999999999999999886400 1344   8999999854

>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, at cassette, DNA damage, DNA excision; HET: ADP; 3.20A {Geobacillus stearothermophilus} PDB: 3uwx_A

Probab=93.91  E-value=0.012  Score=59.16  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=23.9

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la   59 (302)
                      -|+.|+++.|+|++|||||||+..++
T Consensus       646 ~I~~Geiv~I~G~nGSGKSTLl~~ll  671 (972)
T 2r6f_A          646 KIPLGTFVAVTGVSGSGKSTLVNEVL  671 (972)
T ss_dssp             EEESSSEEECCBCTTSSHHHHHTTTH
T ss_pred             EEcCCCEEEEEcCCCCCHHHHHHHHH
Confidence            68999999999999999999998754

>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein, nucleotide-binding, zinc-binding domain, SOS response, metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans} PDB: 2vf8_A*

Probab=93.90  E-value=0.018  Score=57.42  Aligned_cols=27  Identities=33%  Similarity=0.454  Sum_probs=24.1

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHH-HH
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQ-LT   59 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~-la   59 (302)
                      --|+.|+++.|+|++|||||||+.. ++
T Consensus       518 l~i~~Geiv~I~G~nGSGKSTLl~~~L~  545 (842)
T 2vf7_A          518 VRFPLGVMTSVTGVSGSGKSTLVSQALV  545 (842)
T ss_dssp             EEEESSSEEEEECCTTSSHHHHCCCCCH
T ss_pred             EEEcCCCEEEEEcCCCcCHHHHHHHHHH
Confidence            4689999999999999999999975 44

>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=93.89  E-value=0.032  Score=53.38  Aligned_cols=40  Identities=23%  Similarity=0.214  Sum_probs=30.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+.++.|.|.+||||||++..++....   ..|+  ..++++|++
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~---~~G~--~~~~~lD~D  434 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLN---QQGG--RSVSLLLGD  434 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH---HHCS--SCEEEEEHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhc---ccCC--ceEEEECcH
Confidence            478999999999999999999987752   2221  157888854

>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=93.87  E-value=0.018  Score=49.10  Aligned_cols=26  Identities=15%  Similarity=0.112  Sum_probs=22.2

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.++.|.|++||||||++..++..
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHh
Confidence            46789999999999999999877654

>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=93.87  E-value=0.047  Score=52.62  Aligned_cols=26  Identities=27%  Similarity=0.234  Sum_probs=23.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|.++.|.|.+||||||++..++...
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            67899999999999999999998764

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.86  E-value=0.043  Score=51.82  Aligned_cols=26  Identities=23%  Similarity=0.235  Sum_probs=22.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...++.++|.|||||||++..++...
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998764

>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair, nucleotide excision repai hydrolase-DNA complex; HET: DNA; 2.90A {Thermotoga maritima}

Probab=93.80  E-value=0.024  Score=57.01  Aligned_cols=24  Identities=29%  Similarity=0.433  Sum_probs=21.8

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHH
Q 022155           33 GGIPCNSITELVAESGSGKTQFCL   56 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l   56 (302)
                      --++.|+++.|+|++|||||||+.
T Consensus       605 l~I~~Geiv~I~G~SGSGKSTLl~  628 (916)
T 3pih_A          605 VEIPLGVFVCVTGVSGSGKSSLVM  628 (916)
T ss_dssp             EEEESSSEEEEECSTTSSHHHHHH
T ss_pred             eEEcCCcEEEEEccCCCChhhhHH
Confidence            468999999999999999999973

>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=93.78  E-value=0.037  Score=43.24  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|+|++|+|||+|+..++..
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            3789999999999999888644

>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=93.78  E-value=0.038  Score=42.88  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++...
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            6 ILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHHhCC
Confidence            6899999999999999987543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.78  E-value=0.039  Score=44.11  Aligned_cols=27  Identities=22%  Similarity=0.230  Sum_probs=22.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...--+.|+|++|+|||+|+..++...
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344578999999999999999987653

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=93.73  E-value=0.0051  Score=51.69  Aligned_cols=24  Identities=21%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +++.|+||+|||||||+..++...
T Consensus        28 ~~~~i~GpnGsGKSTll~~i~g~~   51 (227)
T 1qhl_A           28 LVTTLSGGNGAGKSTTMAAFVTAL   51 (227)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhccc
Confidence            577899999999999998888764

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=93.73  E-value=0.048  Score=45.55  Aligned_cols=45  Identities=18%  Similarity=0.237  Sum_probs=28.6

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..|+.+.+.||+|||||+++..++......... +....++++...
T Consensus        74 ~~g~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~-~~~~~~l~~~p~  118 (235)
T 3llm_A           74 SQNSVVIIRGATGCGKTTQVPQFILDDFIQNDR-AAECNIVVTQPR  118 (235)
T ss_dssp             HHCSEEEEECCTTSSHHHHHHHHHHHHHHHTTC-GGGCEEEEEESS
T ss_pred             hcCCEEEEEeCCCCCcHHhHHHHHhcchhhcCC-CCceEEEEeccc
Confidence            358999999999999998776665543211111 112267777643

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.71  E-value=0.033  Score=52.93  Aligned_cols=39  Identities=18%  Similarity=0.119  Sum_probs=30.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+.++.|.|++||||||++..++....   ..|.   .+.++|.+
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~L~---~~G~---~~~~ld~D  409 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATMLQ---ARGR---KVTLLDGD  409 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEECHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHHhh---hcCC---eEEEECch
Confidence            378999999999999999999887642   2343   57788754

>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=93.70  E-value=0.038  Score=42.92  Aligned_cols=19  Identities=37%  Similarity=0.485  Sum_probs=17.5

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la   59 (302)
                      +.|+|++|+|||+|+..++
T Consensus         5 i~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            5 VMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6799999999999999885

>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=93.70  E-value=0.041  Score=42.60  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++...
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999988654

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=93.70  E-value=0.095  Score=46.78  Aligned_cols=51  Identities=14%  Similarity=0.127  Sum_probs=38.0

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .|+.++..  +.-.++.+.|..|+||||++.++|...+.. ..|.   +|+.||++.
T Consensus         8 ~L~~~l~~--~~~~i~~~~gkGGvGKTt~a~~lA~~la~~-~~g~---~vllid~D~   58 (348)
T 3io3_A            8 TLESIVQH--DSLKWIFVGGKGGVGKTTTSSSVAVQLALA-QPNE---QFLLISTDP   58 (348)
T ss_dssp             SSHHHHTC--TTCSEEEEECSTTSSHHHHHHHHHHHHHHH-CTTS---CEEEEECCS
T ss_pred             hHHHHhcC--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHh-cCCC---eEEEEECCC
Confidence            45666642  234799999999999999999999886410 1344   899999983

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.69  E-value=0.039  Score=42.80  Aligned_cols=22  Identities=18%  Similarity=0.385  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|+|++|+|||+|+..++..
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            3789999999999999998764

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=93.68  E-value=0.69  Score=41.24  Aligned_cols=39  Identities=23%  Similarity=0.190  Sum_probs=25.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      |.-+.+.+|.|+|||..++..+.........+   .+++|+.
T Consensus        58 ~~~~li~a~TGsGKT~~~~~~~~~~~~~~~~~---~~~lil~   96 (400)
T 1s2m_A           58 GRDILARAKNGTGKTAAFVIPTLEKVKPKLNK---IQALIMV   96 (400)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHCCTTSCS---CCEEEEC
T ss_pred             CCCEEEECCCCcHHHHHHHHHHHHHHhhccCC---ccEEEEc
Confidence            45689999999999987665555442221122   2678876

>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=93.66  E-value=0.04  Score=43.30  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus        10 ~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A           10 KVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999887653

>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=93.65  E-value=0.043  Score=42.60  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            47899999999999999988653

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=93.65  E-value=1  Score=36.59  Aligned_cols=40  Identities=30%  Similarity=0.263  Sum_probs=26.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      |.-+.+.+|.|+|||..++..+...... ..+  ..+++++.-
T Consensus        51 ~~~~li~~~TGsGKT~~~~~~~~~~~~~-~~~--~~~~lil~P   90 (220)
T 1t6n_A           51 GMDVLCQAKSGMGKTAVFVLATLQQLEP-VTG--QVSVLVMCH   90 (220)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHCCC-CTT--CCCEEEECS
T ss_pred             CCCEEEECCCCCchhhhhhHHHHHhhhc-cCC--CEEEEEEeC
Confidence            4558999999999998776665554221 111  126788763

>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=93.64  E-value=0.04  Score=43.16  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36899999999999999987653

>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=93.59  E-value=0.045  Score=42.43  Aligned_cols=23  Identities=17%  Similarity=0.352  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
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            37899999999999999987664

>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=93.56  E-value=0.048  Score=42.11  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++...
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            6799999999999999997664

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=93.55  E-value=0.055  Score=50.87  Aligned_cols=42  Identities=12%  Similarity=0.003  Sum_probs=32.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCc-CCCCCCeEEEEeCCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSS-HGGLSASSLYLHTEF   82 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~-~gg~~~~vlyid~e~   82 (302)
                      ..|.++.|.|.+||||||++..++....   . .|+  ..+-|+|++.
T Consensus       393 ~~~~~I~l~GlsGsGKSTIa~~La~~L~---~~~g~--r~~~~lDgD~  435 (511)
T 1g8f_A          393 KQGFSIVLGNSLTVSREQLSIALLSTFL---QFGGG--RYYKIFEHNN  435 (511)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHHHHT---TSCSC--CCEEECCCTT
T ss_pred             ccceEEEecccCCCCHHHHHHHHHHHHH---HhhcC--cceEEecCCC
Confidence            3678999999999999999999998863   2 333  2567888775

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=93.54  E-value=0.043  Score=51.08  Aligned_cols=26  Identities=27%  Similarity=0.335  Sum_probs=22.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...-+.|+||||+|||+++..++...
T Consensus       200 ~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          200 TKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             SSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            44567899999999999999998875

>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=0.043  Score=42.41  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++...
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6899999999999999987653

>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=93.48  E-value=0.045  Score=44.77  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=20.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      --+.|+|++|+|||+|+..++...
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358899999999999999998764

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=93.46  E-value=0.74  Score=40.24  Aligned_cols=38  Identities=21%  Similarity=0.118  Sum_probs=26.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .-+.+.+|+|+|||..++..+...... ..+.   +++++.-
T Consensus        45 ~~~l~~~~TGsGKT~~~~~~~~~~~~~-~~~~---~~lil~P   82 (367)
T 1hv8_A           45 YNIVAQARTGSGKTASFAIPLIELVNE-NNGI---EAIILTP   82 (367)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHHHHSCS-SSSC---CEEEECS
T ss_pred             CCEEEECCCCChHHHHHHHHHHHHhcc-cCCC---cEEEEcC
Confidence            678999999999999877666654221 1232   6788763

>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=93.46  E-value=0.043  Score=42.45  Aligned_cols=19  Identities=21%  Similarity=0.350  Sum_probs=17.3

Q ss_pred             EEEEeCCCCcHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la   59 (302)
                      +.|+|++|+|||+|+..++
T Consensus         5 i~~vG~~~~GKSsli~~l~   23 (166)
T 3q72_A            5 VLLLGAPGVGKSALARIFG   23 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHc
Confidence            6899999999999998875

>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=93.43  E-value=0.049  Score=42.17  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36899999999999999988653

>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=93.39  E-value=0.048  Score=42.68  Aligned_cols=23  Identities=17%  Similarity=0.274  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus        16 ~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           16 KLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999988653

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=93.39  E-value=0.052  Score=47.71  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=22.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|.-+.|.|+||+|||++++.++..
T Consensus       143 ~g~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          143 YGVGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHhc
Confidence            3778999999999999999999764

>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=93.37  E-value=0.053  Score=42.51  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
T Consensus        11 ~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A           11 KLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999988763

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.37  E-value=0.085  Score=43.28  Aligned_cols=36  Identities=19%  Similarity=0.221  Sum_probs=28.3

Q ss_pred             EEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCC
Q 022155           42 ELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPF   84 (302)
Q Consensus        42 ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~   84 (302)
                      ...+..|+||||++.++|...+   ..|    +|+.||.+...
T Consensus         5 v~s~KGGvGKTT~a~~LA~~la---~~g----~VlliD~D~q~   40 (209)
T 3cwq_A            5 VASFKGGVGKTTTAVHLSAYLA---LQG----ETLLIDGDPNR   40 (209)
T ss_dssp             EEESSTTSSHHHHHHHHHHHHH---TTS----CEEEEEECTTC
T ss_pred             EEcCCCCCcHHHHHHHHHHHHH---hcC----CEEEEECCCCC
Confidence            3457889999999999998875   333    79999988543

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.35  E-value=0.048  Score=42.74  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|+|++|+|||+|+..++..
T Consensus         8 ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            3789999999999999988754

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=93.32  E-value=0.049  Score=48.34  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.|+||+|+|||+++-.++..
T Consensus        24 ~~~~i~G~NGsGKS~lleAi~~~   46 (339)
T 3qkt_A           24 GINLIIGQNGSGKSSLLDAILVG   46 (339)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            59999999999999998876543

>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=93.32  E-value=0.05  Score=43.28  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++|+|||+|+..++...
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            47899999999999999998764

>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=93.26  E-value=0.053  Score=42.09  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=21.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..--+.|+|++|+|||+|+..++...
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC
Confidence            34458999999999999999987643

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=93.25  E-value=0.025  Score=51.90  Aligned_cols=28  Identities=18%  Similarity=0.165  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -++.+..+.|+|+||+|||||+..++..
T Consensus       153 elk~g~~VgLVG~~gAGKSTLL~~Lsg~  180 (416)
T 1udx_A          153 ELMLIADVGLVGYPNAGKSSLLAAMTRA  180 (416)
T ss_dssp             EECCSCSEEEECCGGGCHHHHHHHHCSS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            4677899999999999999999888654

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.24  E-value=0.057  Score=44.17  Aligned_cols=25  Identities=24%  Similarity=0.186  Sum_probs=22.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|.|++|||||+++..+|...
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~l   30 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHY   30 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998875

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.23  E-value=0.068  Score=41.85  Aligned_cols=25  Identities=16%  Similarity=0.215  Sum_probs=21.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ..-.+.|+|++|+|||+|+..++..
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            4557899999999999999988764

>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=93.22  E-value=0.048  Score=43.58  Aligned_cols=23  Identities=26%  Similarity=0.270  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      --+.|+|++|+|||+|+..++..
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           24 PEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999988654

>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=93.22  E-value=0.048  Score=43.25  Aligned_cols=21  Identities=24%  Similarity=0.275  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||+|+..++..
T Consensus         4 i~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            4 IIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            679999999999999988754

>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=93.21  E-value=0.041  Score=48.08  Aligned_cols=21  Identities=38%  Similarity=0.468  Sum_probs=17.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||||+..++..
T Consensus        21 I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            489999999999999987654

>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=93.20  E-value=0.052  Score=50.29  Aligned_cols=24  Identities=13%  Similarity=0.147  Sum_probs=22.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      .+.|.|+||||||+++..++..+.
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~   70 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALI   70 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHH
Confidence            999999999999999999888764

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=93.19  E-value=0.41  Score=39.72  Aligned_cols=40  Identities=23%  Similarity=0.056  Sum_probs=25.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      .|.-+.+++|.|+|||...+..+.........+   .+++++.
T Consensus        66 ~~~~~li~apTGsGKT~~~~l~~l~~l~~~~~~---~~~lil~  105 (237)
T 3bor_A           66 KGYDVIAQAQSGTGKTATFAISILQQLEIEFKE---TQALVLA  105 (237)
T ss_dssp             TTCCEEECCCSSHHHHHHHHHHHHHHCCTTSCS---CCEEEEC
T ss_pred             CCCCEEEECCCCCcHHHHHHHHHHHHHHhcCCC---ceEEEEE
Confidence            355689999999999977554444432111122   2678876

---

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	302
d1v5wa_	258	c.37.1.11 (A:) Meiotic recombination protein DMC1/	6e-34
d1pzna2	254	c.37.1.11 (A:96-349) DNA repair protein Rad51, cat	6e-33
d1szpa2	251	c.37.1.11 (A:145-395) DNA repair protein Rad51, ca	1e-30
d1n0wa_	242	c.37.1.11 (A:) DNA repair protein Rad51, catalytic	2e-28
d2i1qa2	258	c.37.1.11 (A:65-322) DNA repair protein Rad51, cat	3e-28
d1xp8a1	268	c.37.1.11 (A:15-282) RecA protein, ATPase-domain {	3e-20
d1u94a1	263	c.37.1.11 (A:6-268) RecA protein, ATPase-domain {E	7e-20
d1mo6a1	269	c.37.1.11 (A:1-269) RecA protein, ATPase-domain {M	1e-16
d1tf7a2	242	c.37.1.11 (A:256-497) Circadian clock protein KaiC	1e-11
d1tf7a1	242	c.37.1.11 (A:14-255) Circadian clock protein KaiC	5e-10
d1nlfa_	274	c.37.1.11 (A:) Hexameric replicative helicase repA	1e-06
d1cr2a_	277	c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase),	0.003

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  122 bits (306), Expect = 6e-34
 Identities = 62/297 (20%), Positives = 110/297 (37%), Gaps = 43/297 (14%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           +T     +        T G    D+ LGGGI   +ITE   E  +GKTQ    L ++AQL
Sbjct: 4   LTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQL 63

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMP 124
           P + G      +++ TE  F   RL  ++      +     D +     ++ +  ++++ 
Sbjct: 64  PGAGGYPGGKIIFIDTENTFRPDRLRDIAD-RFNVDHDAVLDNVLYARAYTSEHQMELLD 122

Query: 125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
            + +     +      +L++IDSI ALFR DF     +L +R     ++   L+ ++  +
Sbjct: 123 YVAAKFHEEAG---IFKLLIIDSIMALFRVDFSG-RGELAERQQKLAQMLSRLQKISEEY 178

Query: 185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNE 244
            +AV VTNQ+                          P  P  G   A+   +R+ L +  
Sbjct: 179 NVAVFVTNQMTADPGATMT-------------FQADPKKPIGGHILAHASTTRISLRKG- 224

Query: 245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                                   R   R   +  +P + +    F IT  G+   +
Sbjct: 225 ------------------------RGELRIAKIYDSPEMPENEATFAITAGGIGDAK 257

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 254

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score =  119 bits (299), Expect = 6e-33
 Identities = 72/293 (24%), Positives = 120/293 (40%), Gaps = 43/293 (14%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           M     L    T  + + G   +D+ LGGGI   +ITE+  E GSGKTQ    L +  QL
Sbjct: 3   MRADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQL 62

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMP 124
           P   GGL+ S +++ TE  F   R+ +++       D         ++ +S  Q+L +  
Sbjct: 63  PPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQMLLVQQ 122

Query: 125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
             +   +  +  R P++L+++DS+ + FRS++      L +R     K    L  +A  +
Sbjct: 123 AEDKIKELLNTDR-PVKLLIVDSLTSHFRSEYIG-RGALAERQQKLAKHLADLHRLANLY 180

Query: 185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNE 244
            +AV VTNQV    +                   G P  P  G   A+    R++L + +
Sbjct: 181 DIAVFVTNQVQARPDAF----------------FGDPTRPIGGHILAHSATLRVYLRKGK 224

Query: 245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
                                      +R   ++ APHL +    F IT +G+
Sbjct: 225 G-------------------------GKRIARLIDAPHLPEGEAVFSITEKGI 252

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 251

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  114 bits (284), Expect = 1e-30
 Identities = 75/293 (25%), Positives = 117/293 (39%), Gaps = 45/293 (15%)

Query: 5   MTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQL 64
           +T  +           T G   +D  LGGG+   SITEL  E  +GK+Q C  L ++ Q+
Sbjct: 1   VTAADFHMRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQI 60

Query: 65  PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMP 124
           P   GG     LY+ TE  F   RL  ++  F   +  +  + +     ++ D  L ++ 
Sbjct: 61  PLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRF-GLDPDDALNNVAYARAYNADHQLRLLD 119

Query: 125 KIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGF 184
                +  S        LIV+DS+ AL+R+DF    +    R     K    L+ +A  F
Sbjct: 120 AAAQMMSES-----RFSLIVVDSVMALYRTDFSGRGEL-SARQMHLAKFMRALQRLADQF 173

Query: 185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNE 244
           G+AV+VTNQVV  ++             G +  +  P  P  G   A+   +RL   + +
Sbjct: 174 GVAVVVTNQVVAQVD-------------GGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGK 220

Query: 245 DFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
                                      +R   VV +P L +  C F I  +GV
Sbjct: 221 G-------------------------CQRLCKVVDSPCLPEAECVFAIYEDGV 248

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Length = 242

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  107 bits (266), Expect = 2e-28
 Identities = 69/284 (24%), Positives = 113/284 (39%), Gaps = 45/284 (15%)

Query: 18  EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLY 77
            + T G   +D+ L GGI   SITE+  E  +GKTQ C  L ++ QLP   GG    ++Y
Sbjct: 3   IQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMY 62

Query: 78  LHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSR 137
           + TE  F   RL  ++  +  S      D +      + D    ++ +  + +  S    
Sbjct: 63  IDTEGTFRPERLLAVAERYGLSGSDV-LDNVAYARAFNTDHQTQLLYQASAMMVES---- 117

Query: 138 LPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL 197
               L+++DS  AL+R+D+     +L  R     +   ML  +A  FG+AV++TNQVV  
Sbjct: 118 -RYALLIVDSATALYRTDYSG-RGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQ 175

Query: 198 MEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGG 257
           ++                  +  P  P  G   A+   +RL+L +               
Sbjct: 176 VDGAA-------------MFAADPKKPIGGNIIAHASTTRLYLRKG-------------- 208

Query: 258 VGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
                      R   R   +  +P L +    F I  +GV   +
Sbjct: 209 -----------RGETRICKIYDSPCLPEAEAMFAINADGVGDAK 241

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

 Score =  107 bits (267), Expect = 3e-28
 Identities = 65/298 (21%), Positives = 103/298 (34%), Gaps = 57/298 (19%)

Query: 10  LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHG 69
           LL    T  K +     +D  LGGG+   S+TE     GSGKTQ   Q  ++ Q P    
Sbjct: 6   LLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLF 65

Query: 70  GLSASS----------LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQL 119
               +           +Y+ TE  F   R+ Q++            +    +  ++ D  
Sbjct: 66  YDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVAR-AYNSDMQ 124

Query: 120 LDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKA 179
           +    KIE  I+        I+L+VIDS+ + FR+++      L +R     +    L  
Sbjct: 125 MLFAEKIEDLIQ----EGNNIKLVVIDSLTSTFRNEYTG-RGKLAERQQKLGRHMATLNK 179

Query: 180 MAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLF 239
           +A  F   VLVTNQV    +                   G       G    +    R F
Sbjct: 180 LADLFNCVVLVTNQVSAKPD----------------AFFGMAEQAIGGHIVGHAATFRFF 223

Query: 240 LSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
           + + +                           +R   +  +PHL D    F IT +G+
Sbjct: 224 VRKGKG-------------------------DKRVAKLYDSPHLPDAEAIFRITEKGI 256

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]} Length = 268

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

 Score = 85.7 bits (212), Expect = 3e-20
 Identities = 57/238 (23%), Positives = 91/238 (38%), Gaps = 49/238 (20%)

Query: 12  DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGG 70
           ++ L  +  + G   +D  LG GGIP   ITE+      GKT   L +   AQ     GG
Sbjct: 30  ESKLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKA---GG 86

Query: 71  LSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHN---PCDYIFVQSVHSVDQLLDIMPKIE 127
             A   ++  E            H   P          D + V    + +Q L+IM   E
Sbjct: 87  TCA---FIDAE------------HALDPVYARALGVNTDELLVSQPDNGEQALEIM---E 128

Query: 128 SFIKNSSNSRLPIRLIVIDSIAALF-RSDFDNTMDD--LKKRSFLFFKISGMLKAMAVGF 184
             +++       I ++V+DS+AAL  R++ +  M D     ++ L  +    L A+    
Sbjct: 129 LLVRSG-----AIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKT 183

Query: 185 GLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
           G A +  NQV +               +G +Y  G P     G A     + RL + +
Sbjct: 184 GTAAIFINQVRE--------------KIGVMY--GNPETTTGGRALKFYASVRLDVRK 225

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]} Length = 263

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

 Score = 85.0 bits (210), Expect = 7e-20
 Identities = 46/235 (19%), Positives = 83/235 (35%), Gaps = 43/235 (18%)

Query: 12  DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGG 70
           D  +  E  + G   +D  LG GG+P   I E+     SGKT   LQ+  +AQ      G
Sbjct: 27  DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE----G 82

Query: 71  LSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFI 130
            +    ++  E         +L             D +      + +Q L+I    ++  
Sbjct: 83  KTC--AFIDAEHALDPIYARKLG---------VDIDNLLCSQPDTGEQALEI---CDALA 128

Query: 131 KNSSNSRLPIRLIVIDSIAALF-RSDFDNTMDD--LKKRSFLFFKISGMLKAMAVGFGLA 187
           ++       + +IV+DS+AAL  +++ +  + D  +   + +  +    L          
Sbjct: 129 RSG-----AVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTL 183

Query: 188 VLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
           ++  NQ+        GV              G P     G A     + RL + R
Sbjct: 184 LIFINQIRM----KIGVMF------------GNPETTTGGNALKFYASVRLDIRR 222

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]} Length = 269

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 76.1 bits (187), Expect = 1e-16
 Identities = 58/287 (20%), Positives = 97/287 (33%), Gaps = 70/287 (24%)

Query: 17  TEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
                 G   +D  LG GG+P   + E+     SGKT   L    +AQ     GG++A  
Sbjct: 38  ISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAA---GGVAA-- 92

Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHN---PCDYIFVQSVHSVDQLLDIMPKIESFIKN 132
            ++  E            H   P          D + V    + +Q L+I    +  I++
Sbjct: 93  -FIDAE------------HALDPDYAKKLGVDTDSLLVSQPDTGEQALEI---ADMLIRS 136

Query: 133 SSNSRLPIRLIVIDSIAALF-RSDFDNTMDD--LKKRSFLFFKISGMLKAMAVGFGLAVL 189
                  + ++VIDS+AAL  R++ +  M D  +  ++ L  +    +       G   +
Sbjct: 137 G-----ALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAI 191

Query: 190 VTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR 249
             NQ+ D +       G+  G+         P     G A     + R+ + R E     
Sbjct: 192 FINQLRDKI-------GVMFGS---------PETTTGGKALKFYASVRMDVRRVETLKDG 235

Query: 250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVV---FAPHLADTSCEFEIT 293
            N + N                R  + VV             EF+I 
Sbjct: 236 TNAVGN----------------RTRVKVVKNKCLA--PFKQAEFDIL 264

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

 Score = 61.1 bits (147), Expect = 1e-11
 Identities = 33/188 (17%), Positives = 53/188 (28%), Gaps = 21/188 (11%)

Query: 16  TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
           +  + + G   +D   GGG   +SI      +G+GKT    +   +A             
Sbjct: 4   SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAI----- 58

Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
                E        +  S                V +      L D +  I+S I     
Sbjct: 59  -LFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDHLQIIKSEIN---- 113

Query: 136 SRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
                  I IDS++AL R             +  F +    +   A    +  L TN   
Sbjct: 114 -DFKPARIAIDSLSALARGV----------SNNAFRQFVIGVTGYAKQEEITGLFTNTSD 162

Query: 196 DLMEPNEG 203
             M  +  
Sbjct: 163 QFMGAHSI 170

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

 Score = 56.6 bits (135), Expect = 5e-10
 Identities = 21/148 (14%), Positives = 49/148 (33%), Gaps = 8/148 (5%)

Query: 16  TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
              K        D    GG+P    T +   SG+GKT F +Q   +  +           
Sbjct: 4   AIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDE-----PG 58

Query: 76  LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKN--- 132
           +++  E        +  S  +  +   +      + +    +    +     S +     
Sbjct: 59  VFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERIN 118

Query: 133 SSNSRLPIRLIVIDSIAALFRSDFDNTM 160
            +  +   R + IDS+ ++F+    +++
Sbjct: 119 YAIQKYRARRVSIDSVTSVFQQYDASSV 146

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]} Length = 274

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

 Score = 46.6 bits (109), Expect = 1e-06
 Identities = 41/282 (14%), Positives = 78/282 (27%), Gaps = 47/282 (16%)

Query: 25  PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPF 84
           P +D  L   +   ++  LV+  G+GK+   LQL              A    L      
Sbjct: 17  PPLDYVLPNMVA-GTVGALVSPGGAGKSMLALQLAAQI----------AGGPDLLEVGEL 65

Query: 85  PMRRLHQLSHTFRPSNDHNPCDYIF----VQSVHSVDQLLDIMPKIESFIKNSSNSRLPI 140
           P   +  L     P+  H+    +      +   +V   L I P I S     +      
Sbjct: 66  PTGPVIYLPAEDPPTAIHHRLHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDG 125

Query: 141 RLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLV---TNQVVDL 197
                +    +          + +  S    ++ G ++A+A   G +++     ++   +
Sbjct: 126 LKRAAEGRRLMVLDTLRRFHIEEENASGPMAQVIGRMEAIAADTGCSIVFLHHASKGAAM 185

Query: 198 MEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGG 257
           M   +     R  +                    + +  + +LS                
Sbjct: 186 MGAGDQQQASRGSS-----------------VLVDNIRWQSYLSSMTS--------AEAE 220

Query: 258 VGGSGSEDFVCRRTRRSLHVVFAPHLAD-TSCEFEITREGVF 298
             G   +    RR      V  A + A      F     GV 
Sbjct: 221 EWGVDDDQ---RRFFVRFGVSKANYGAPFADRWFRRHDGGVL 259

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

 Score = 36.5 bits (83), Expect = 0.003
 Identities = 32/240 (13%), Positives = 64/240 (26%), Gaps = 10/240 (4%)

Query: 8   QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSS 67
           +  L +  +      GC  I+    G      +  + + SG GK+ F  Q  L       
Sbjct: 6   REHLSSEESVGLLFSGCTGINDKTLGARG-GEVIMVTSGSGMGKSTFVRQQALQWGTAMG 64

Query: 68  HGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIE 127
                A       E    +  LH      +  +                +   +    + 
Sbjct: 65  KKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLY 124

Query: 128 SFIKNSSNSRLPIRLIVIDSI--AALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
                +   RL  +L  + S     +   D  + +      S     I  ++  +     
Sbjct: 125 DSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASGESDERKMIDNLMTKLKGFAK 184

Query: 186 LAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED 245
              +V   +  L  P++G        +      G         A     ++ + L RN+ 
Sbjct: 185 STGVVLVVICHLKNPDKGKAHEEGRPVSITDLRG-------SGALRQLSDTIIALERNQQ 237

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	302
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	100.0
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	100.0
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	100.0
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	100.0
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	100.0
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	100.0
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	100.0
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	99.97
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	99.95
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	99.94
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	99.87
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	99.82
d2awna2	232	Maltose transport protein MalK, N-terminal domain	99.0
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	98.97
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.97
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.8
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	98.8
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.8
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	98.71
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	98.69
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.67
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.55
d1okkd2	207	GTPase domain of the signal recognition particle r	98.54
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.52
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.5
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.48
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.46
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.46
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	98.46
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.45
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	98.43
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.41
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.39
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.39
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.38
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.34
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	98.3
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.29
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.28
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.12
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	98.11
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.05
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	98.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.95
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.87
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.81
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.81
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.71
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	97.7
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.59
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.57
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	97.54
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.5
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.49
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.43
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.41
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.38
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.37
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.35
d1xpua3	289	Transcription termination factor Rho, ATPase domai	97.33
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.32
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.3
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.29
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.29
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.28
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.27
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.25
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.22
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.22
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.21
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.21
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.2
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.2
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.14
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.14
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.14
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.13
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.12
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.04
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.03
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.0
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.98
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.96
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.94
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.91
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.91
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.9
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.89
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.87
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.83
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.82
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.8
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.75
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.73
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.73
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.71
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.69
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.63
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.6
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.59
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.57
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.56
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.54
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.49
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.47
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.45
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.45
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.44
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.4
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.4
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.38
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.32
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	96.3
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.29
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.28
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.25
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.21
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	96.18
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.16
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.14
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.11
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	96.1
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.05
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.05
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.99
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.91
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.9
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.87
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.85
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.83
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.82
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.81
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.8
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	95.75
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.7
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.67
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.65
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.63
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.61
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	95.57
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.52
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	95.43
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.36
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.34
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.24
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.23
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	95.22
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.19
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.15
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.11
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.1
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.03
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.98
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.97
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.96
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	94.9
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.88
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.87
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.82
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.82
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.78
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.77
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.73
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	94.69
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.62
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.58
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.58
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.46
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.43
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.41
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.41
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.4
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.39
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.38
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.36
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.27
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.25
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.2
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	94.18
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	94.16
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.12
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.11
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.11
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.09
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.09
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.04
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.99
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.98
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.96
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.93
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.9
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.89
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.87
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.85
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	93.83
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.83
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.79
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.79
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.76
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.73
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.72
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.71
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.67
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.67
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.65
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.64
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.6
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.54
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.51
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.51
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.51
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.51
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.45
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.44
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.41
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.34
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.34
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.3
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.26
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.24
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.18
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.1
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.09
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	93.07
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.05
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.05
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.0
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.95
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	92.93
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.79
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.79
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.77
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.7
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.66
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.44
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.41
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.32
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.26
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.23
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	92.21
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.17
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	92.05
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.0
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.75
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	91.64
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	91.4
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.38
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.23
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.19
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	90.87
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.8
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	90.71
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.44
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	89.99
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	89.69
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.23
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	89.05
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.77
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	88.7
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	88.18
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	87.86
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	87.27
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	87.07
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	86.17
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	85.83
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	85.16
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	84.56
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	84.05
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	83.93
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.78
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	82.39

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.4e-38  Score=275.14  Aligned_cols=230  Identities=23%  Similarity=0.292  Sum_probs=173.4

Q ss_pred             CCCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHH
Q 022155           13 NPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQ   91 (302)
Q Consensus        13 ~~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~   91 (302)
                      .....++||||++.||.+|+ ||||+|.+++|+||||+||||||++++++++   ..|+   .|+|||+|++++++|++.
T Consensus        28 ~~~~~~~isTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q---~~g~---~~vyidtE~~~~~~~a~~  101 (263)
T d1u94a1          28 RSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGK---TCAFIDAEHALDPIYARK  101 (263)
T ss_dssp             CBCCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEESSCCCCHHHHHH
T ss_pred             cCCCCCeEccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHH---cCCC---EEEEEccccccCHHHHHH
Confidence            44457899999999999997 9999999999999999999999999999998   5566   899999999999998877


Q ss_pred             HHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh-hccCCChh--hHHHHHH
Q 022155           92 LSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR-SDFDNTMD--DLKKRSF  168 (302)
Q Consensus        92 i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~-~~~~~~~~--~~~~r~~  168 (302)
                      ++.         .++++++.++.+.++..+.+..   ++.+     .++++|||||++++++ .++..+.+  ....+.+
T Consensus       102 ~Gv---------d~d~v~~~~~~~~E~~~~~i~~---l~~~-----~~~~liViDSi~al~~~~e~~~~~~~~~~~~~a~  164 (263)
T d1u94a1         102 LGV---------DIDNLLCSQPDTGEQALEICDA---LARS-----GAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAAR  164 (263)
T ss_dssp             TTC---------CGGGCEEECCSSHHHHHHHHHH---HHHH-----TCCSEEEEECGGGCCCHHHHTTC------CHHHH
T ss_pred             hCC---------CHHHEEEecCCCHHHHHHHHHH---HHhc-----CCCCEEEEECccccccchhcccccccchHHHHHH
Confidence            752         3578999999988887666544   4443     5679999999999984 23322211  2334566


Q ss_pred             HHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchh
Q 022155          169 LFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVV  248 (302)
Q Consensus       169 ~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~  248 (302)
                      .+..+++.|..++.++++++|++||++.++...+                +.+.+|++|.+|.|++++||.|.|....+ 
T Consensus       165 ~l~~~~~~l~~~~~~~~~~vi~~NQv~~~~~~~~----------------g~~~~~~GG~al~~~~~~rl~l~k~~~~k-  227 (263)
T d1u94a1         165 MMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMF----------------GNPETTTGGNALKFYASVRLDIRRIGAVK-  227 (263)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEEC------------------------------CTTCSHHHHHCSEEEEEEEEEEEE-
T ss_pred             HHHHHHHHHHHhhhccCceEEEEEEEEecccccc----------------CCCccccccchhheeeEEEEEEEeccccc-
Confidence            7889999999999999999999999998776432                23568999999999999999998865421 


Q ss_pred             cccccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEe-cCcc
Q 022155          249 RENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEIT-REGV  297 (302)
Q Consensus       249 ~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~-~~Gi  297 (302)
                       ++....              ..+++++++|++..| ...+.|.|+ ++||
T Consensus       228 -~g~~~i--------------G~~~r~~v~Knr~~~p~~~~~f~i~~~~GI  263 (263)
T d1u94a1         228 -EGENVV--------------GSETRVKVVKNKIAAPFKQAEFQILYGEGI  263 (263)
T ss_dssp             -SSSSEE--------------EEEEEEEEEEESSBCSCCEEEEEEETTTEE
T ss_pred             -cCCcee--------------eeEEEEEEEeCCCCCCCCEEEEEEEcCCCC
Confidence             111122              256678999998774 568999999 8887

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=100.00  E-value=4.4e-37  Score=265.70  Aligned_cols=231  Identities=24%  Similarity=0.344  Sum_probs=179.4

Q ss_pred             cCCCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHH
Q 022155           12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLH   90 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~   90 (302)
                      +.+...++||||++.||.+|+ ||+|.|.+++|+||+|+|||+||++++++++   ..|+   .|+|||+|++++++|++
T Consensus        33 ~~~~~~~~i~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q---~~g~---~~vyIDtE~~~~~e~a~  106 (269)
T d1mo6a1          33 EARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGG---VAAFIDAEHALDPDYAK  106 (269)
T ss_dssp             CCCCCSCCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHH---HTTC---EEEEEESSCCCCHHHHH
T ss_pred             ccCCccceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHh---cCCC---EEEEEECCccCCHHHHH
Confidence            345567899999999999997 9999999999999999999999999999987   6676   99999999999999998


Q ss_pred             HHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh-hhccCCChh--hHHHHH
Q 022155           91 QLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF-RSDFDNTMD--DLKKRS  167 (302)
Q Consensus        91 ~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~-~~~~~~~~~--~~~~r~  167 (302)
                      +++.         ..+++++..+.+.++..++++   .++.+     .++++|||||+++++ +.+++...+  ....++
T Consensus       107 ~~Gv---------D~d~il~~~~~~~E~~~~~~~---~l~~~-----~~~~liIiDSi~al~~~~E~e~~~~~~~~~~~a  169 (269)
T d1mo6a1         107 KLGV---------DTDSLLVSQPDTGEQALEIAD---MLIRS-----GALDIVVIDSVAALVPRAELEGEMGDSHVGLQA  169 (269)
T ss_dssp             HHTC---------CGGGCEEECCSSHHHHHHHHH---HHHHT-----TCEEEEEEECSTTCCCHHHHC-------CCHHH
T ss_pred             HhCC---------CHHHeEEecCCCHHHHHHHHH---HHHhc-----CCCCEEEEecccccccHHHhccccccchHHHHH
Confidence            8862         357889999999888776655   34543     678999999999999 567654322  223467


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                      +++..+++.|..++.++++++|+|||++++++..+                +.+.+|.+|..|.|.+++||.|.|....+
T Consensus       170 ~~l~~~l~~l~~~~~~~~~~vi~~NQv~~~~~~~~----------------g~~~~~~GG~al~~~ss~rl~l~k~~~~k  233 (269)
T d1mo6a1         170 RLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMF----------------GSPETTTGGKALKFYASVRMDVRRVETLK  233 (269)
T ss_dssp             HHHHHHHHHHHHHHHHHTCEEEEEECC-----------------------------CTTHHHHHHHCSEEEEEEEEECCB
T ss_pred             HHHHHHHHHHHHHHhhcCchhhhhheeeccCcccc----------------CCceecccccceeeeeeEEEEEEecceec
Confidence            78899999999999999999999999998776432                23567889999999999999998865422


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCCCC-ceeeEEEe-cCcc
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLAD-TSCEFEIT-REGV  297 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~-~~~~F~I~-~~Gi  297 (302)
                        ++..+.              ..+++++++|+|..|+ ..+.|.|+ ++||
T Consensus       234 --dg~~~i--------------G~~~~~kv~Knr~~~p~~~a~f~I~~~~GI  269 (269)
T d1mo6a1         234 --DGTNAV--------------GNRTRVKVVKNKCLAPFKQAEFDILYGKGI  269 (269)
T ss_dssp             --CSSSBC--------------EEEEEEEEEEESSSCSCEEEEEEEETTTEE
T ss_pred             --cCCceE--------------EEEEEEEEEECCCCCCCCEEEEEEEeCCcC
Confidence              222222              2566799999999865 78999999 8886

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=2.8e-37  Score=267.29  Aligned_cols=232  Identities=24%  Similarity=0.319  Sum_probs=173.8

Q ss_pred             cCCCCCCccccCChhhHhhhC-CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHH
Q 022155           12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLH   90 (302)
Q Consensus        12 ~~~~~~~~i~tG~~~LD~~L~-GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~   90 (302)
                      +.+...++||||++.||.+|+ ||||.|.++||+||+|||||+||++++++++   ..|+   .|+|||+|++|++++++
T Consensus        30 ~~~~~~~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aq---k~g~---~v~yiDtE~~~~~~~a~  103 (268)
T d1xp8a1          30 ESKLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ---KAGG---TCAFIDAEHALDPVYAR  103 (268)
T ss_dssp             CCCCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH---HTTC---CEEEEESSCCCCHHHHH
T ss_pred             cCCCCCCeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHH---hCCC---EEEEEECCccCCHHHHH
Confidence            455567899999999999997 9999999999999999999999999999997   5666   89999999999999887


Q ss_pred             HHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh-hhccCCChhh--HHHHH
Q 022155           91 QLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF-RSDFDNTMDD--LKKRS  167 (302)
Q Consensus        91 ~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~-~~~~~~~~~~--~~~r~  167 (302)
                      +++.         ..+++++.++.+.++..+++.   .++.+     .++++|||||+++++ +.++.+..++  ...++
T Consensus       104 ~~Gv---------d~d~i~~~~~~~~E~~~~~~~---~l~~~-----~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a  166 (268)
T d1xp8a1         104 ALGV---------NTDELLVSQPDNGEQALEIME---LLVRS-----GAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQA  166 (268)
T ss_dssp             HTTC---------CGGGCEEECCSSHHHHHHHHH---HHHTT-----TCCSEEEEECTTTCCCSTTC--------CCHHH
T ss_pred             HhCC---------CchhEEEEcCCCHHHHHHHHH---HHHhc-----CCCcEEEEecccccccHHHHcccccchhHHHHH
Confidence            7652         357889999999888776554   44543     568999999999999 6676543222  12467


Q ss_pred             HHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCch
Q 022155          168 FLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFV  247 (302)
Q Consensus       168 ~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~  247 (302)
                      +++..+++.|..++.++++++|+|||+++++...+                +.+.+|.+|.+|.|..++||.|+|.....
T Consensus       167 ~~l~~~lr~l~~~~~~~~~~vi~tNQv~~~~g~~~----------------g~~~~~~GG~al~~~ss~rl~l~k~~~~~  230 (268)
T d1xp8a1         167 RLMSQALRKLTAILSKTGTAAIFINQVREKIGVMY----------------GNPETTTGGRALKFYASVRLDVRKIGQPT  230 (268)
T ss_dssp             HHHHHHHHHHHHHHTTTCCEEEEEEEC-------------------------------CHHHHHHHCSEEEEEEEESCCC
T ss_pred             HHHHHHHHHHHhhhhhcCCeEEEEeEEeecccccc----------------CcceeecccchhhhceeEEEEEEecCccc
Confidence            78899999999999999999999999998775432                24567899999999999999998875421


Q ss_pred             hcccccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEe-cCcc
Q 022155          248 VRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEIT-REGV  297 (302)
Q Consensus       248 ~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~-~~Gi  297 (302)
                       +++.+..|              ...+++++|++..| ...++|.|. ++||
T Consensus       231 -k~~~~~iG--------------~~v~~kv~Knr~~~p~~~~~~~i~~~~Gi  267 (268)
T d1xp8a1         231 -KVGNDAVA--------------NTVKIKTVKNKVAAPFKEVELALVYGKGF  267 (268)
T ss_dssp             -------CE--------------EEEEEEEEEESSSCCCCEEEEEEETTTEE
T ss_pred             -ccCCceEE--------------EEEEEEEEECCcCCCCCEEEEEEecCCCC
Confidence             12222222              56678999999885 578999999 7787

>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=100.00  E-value=2.3e-35  Score=253.96  Aligned_cols=252  Identities=24%  Similarity=0.368  Sum_probs=191.0

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      .-+|++++....++|||++.||++|+||||+|++++|+|+||+|||+||+|++.+++.....+.....++|++++..+..
T Consensus         6 ~~~~~~~~~~~~ri~TGi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (258)
T d1v5wa_           6 AFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRP   85 (258)
T ss_dssp             HHHHHHHGGGCCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCH
T ss_pred             HHHHHHhhcCCceecCCCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHH
Confidence            34577788888999999999999999999999999999999999999999999988643333334458999999999999


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHH
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKR  166 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r  166 (302)
                      .+..++....... ....++++.+.++.+.+++.+.+..+...+..   ....++++++|++.+++....... +++..+
T Consensus        86 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~vid~~~~~~~~~~~~~-~~~~~~  160 (258)
T d1v5wa_          86 DRLRDIADRFNVD-HDAVLDNVLYARAYTSEHQMELLDYVAAKFHE---EAGIFKLLIIDSIMALFRVDFSGR-GELAER  160 (258)
T ss_dssp             HHHHHHHHHTTCC-HHHHHHTEEEEECCSTTHHHHHHHHHHHHHHH---SCSSEEEEEEETSGGGHHHHCCGG-GCHHHH
T ss_pred             HHHHHHHhhhccc-chhhhhcccccccCcHHHHHHHHHHHHHHhhh---hccCceEEEeeehhhhhhccccCC-cchhHH
Confidence            8888887664321 11234678888888888877777766555543   245679999999999887654432 244566


Q ss_pred             HHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCc
Q 022155          167 SFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDF  246 (302)
Q Consensus       167 ~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~  246 (302)
                      ...+.+++..|++++.++++++++++|..........           +  ......|++|..|.|.++.|+.|++... 
T Consensus       161 ~~~l~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~--~~~~~~~~~g~~~~~~~~~~l~l~~~~~-  226 (258)
T d1v5wa_         161 QQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMT-----------F--QADPKKPIGGHILAHASTTRISLRKGRG-  226 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCEEEEEECC--------------------------------CCTTTTSSSEEEEEEESST-
T ss_pred             HHHHHHHHHHHHHHHHhcCCEEEEeeeEeeccccccc-----------c--cCCceeecccceehheeEEEEEEEEcCC-
Confidence            6778899999999999999999999999876543211           1  1234578999999999999999987543 


Q ss_pred             hhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          247 VVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       247 ~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                              ..|.++|.|+|+.|++.++|+|+++||+|++
T Consensus       227 ------------------------~~R~l~i~K~r~~~~~~~~F~It~~GI~~~~  257 (258)
T d1v5wa_         227 ------------------------ELRIAKIYDSPEMPENEATFAITAGGIGDAK  257 (258)
T ss_dssp             ------------------------TEEEEEEEECTTCCSSCEEEEEETTEEEECC
T ss_pred             ------------------------CEEEEEEEeCCCCCCcEEEEEEcCCCcccCC
Confidence                                    4899999999999999999999999999986

>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=100.00  E-value=9e-35  Score=248.75  Aligned_cols=249  Identities=30%  Similarity=0.434  Sum_probs=185.8

Q ss_pred             CccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCC
Q 022155            6 TPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFP   85 (302)
Q Consensus         6 ~~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~   85 (302)
                      |+.+|.+++....+||||++.||.+|+||||+|++++|+|+||+|||+||+|++.+++.....+.....++|++++..+.
T Consensus         2 ~~~~~~~~~~~~~~i~TGi~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~   81 (251)
T d1szpa2           2 TAADFHMRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFR   81 (251)
T ss_dssp             CHHHHHHHHHSSCEECCSCHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCC
T ss_pred             CHHHHHHHhcCCCeecCCCHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHH
Confidence            44567778888999999999999999999999999999999999999999999998865433344445999999999998


Q ss_pred             HHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHH
Q 022155           86 MRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKK  165 (302)
Q Consensus        86 ~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~  165 (302)
                      ..++......+.. .......++.+......+.+...+..+...+..     ..+.++++|++..++........ ....
T Consensus        82 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~ds~~~~~~~~~~~~~-~~~~  154 (251)
T d1szpa2          82 PVRLVSIAQRFGL-DPDDALNNVAYARAYNADHQLRLLDAAAQMMSE-----SRFSLIVVDSVMALYRTDFSGRG-ELSA  154 (251)
T ss_dssp             GGGGHHHHHHTCC-CHHHHGGGEEEEECCSTTTHHHHHHHTHHHHHH-----SCEEEEEEETGGGGGSCC------CTHH
T ss_pred             HHHHHHHHHhcCC-chhhhhcceEEEeccchhHHHHHHHHHHHHhhc-----cccceeeehhhhhhhhhhhcccc-chhh
Confidence            8888777666432 222345678887777666666566555666654     56799999999998765433221 2233


Q ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecC
Q 022155          166 RSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNED  245 (302)
Q Consensus       166 r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~  245 (302)
                      +...+..++..|.+++..+++++++++|.+.......             ........|++|..|.|.++.||.|++.+.
T Consensus       155 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~gg~~~~~~~~~~i~l~~~~~  221 (251)
T d1szpa2         155 RQMHLAKFMRALQRLADQFGVAVVVTNQVVAQVDGGM-------------AFNPDPKKPTGGNIMAHSSTTRLGFKKGKG  221 (251)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCEEEEEECC-----------------------------CHHHHHHHHCSEEEEEEECST
T ss_pred             HHHHHHHHHHHHHhhhhhcceEEEEEEEEEeccCccc-------------cccCcceeccCccchhhheeEEEEEEecCC
Confidence            4445678888999999999999999999987654321             011235678999999999999999998543


Q ss_pred             chhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          246 FVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       246 ~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                                               ..|.++|.|+++.|+..+.|+|+++||+|
T Consensus       222 -------------------------~~r~l~i~K~r~~~~~~~~f~It~~Gi~~  250 (251)
T d1szpa2         222 -------------------------CQRLCKVVDSPCLPEAECVFAIYEDGVGD  250 (251)
T ss_dssp             -------------------------TEEEEECCSCSSSCCCCCCEEEETTEEEC
T ss_pred             -------------------------cEEEEEEEECCCCCCeeEEEEEcCCCccC
Confidence                                     58999999999999888999999999987

>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=100.00  E-value=8.3e-34  Score=244.04  Aligned_cols=250  Identities=29%  Similarity=0.449  Sum_probs=183.2

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      ..++++.+...+++|||++.||.+|+||+|+|++++|+||||+|||+||+|++.+++.+....+....++|++++.....
T Consensus         5 ~~~~~~~~~~i~ri~TGi~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (254)
T d1pzna2           5 ADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRP   84 (254)
T ss_dssp             HHHHHHHHHTCCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCH
T ss_pred             HHHHHHhhcCCCeECCCCHHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHH
Confidence            34567788889999999999999999999999999999999999999999999998644333344559999999999988


Q ss_pred             HHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHH
Q 022155           87 RRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKR  166 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r  166 (302)
                      ++++.....+... .+.......+............+...............+++++++|+++.++..+..... .....
T Consensus        85 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viDs~~~~~~~~~~~~~-~~~~~  162 (254)
T d1pzna2          85 ERIREIAQNRGLD-PDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRG-ALAER  162 (254)
T ss_dssp             HHHHHHHHTTTCC-HHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHHHCCSTT-THHHH
T ss_pred             HHHHHHHHhcCCC-hHHhhhhhhhhhhccchhHHHHHHhhhhhhHHHHhhccCceeEeecchhheeehhhcccc-hhhhh
Confidence            8888777654321 122234556666666665554444433333221223457899999999998876654332 23344


Q ss_pred             HHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCc
Q 022155          167 SFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDF  246 (302)
Q Consensus       167 ~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~  246 (302)
                      ...+..+...++.++...++++++++|.........                +....+++|..|+|+++.|+.|++.+. 
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~l~l~~~~~-  225 (254)
T d1pzna2         163 QQKLAKHLADLHRLANLYDIAVFVTNQVQARPDAFF----------------GDPTRPIGGHILAHSATLRVYLRKGKG-  225 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEECC-------------------------------CCCCCTTCSEEEEEEECTT-
T ss_pred             HHHHHHHHHHHHHHhhccceEEEecceEeeccCccc----------------CCceeecCceeehhhceEEEEEEecCC-
Confidence            555678888899999999999999999987654321                134567889999999999999988543 


Q ss_pred             hhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          247 VVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       247 ~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                                              ..|.++|.|+|+.|++.++|+|+++||+|
T Consensus       226 ------------------------~~R~~~v~K~R~~~~~~~~f~It~~Gi~~  254 (254)
T d1pzna2         226 ------------------------GKRIARLIDAPHLPEGEAVFSITEKGIED  254 (254)
T ss_dssp             ------------------------SEEEEEESCSSSSCCSEEEEEEETTEEEC
T ss_pred             ------------------------CeEEEEEEECCCCCCeEEEEEECCCCccC
Confidence                                    58999999999999999999999999986

>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=100.00  E-value=6.9e-32  Score=230.91  Aligned_cols=244  Identities=28%  Similarity=0.355  Sum_probs=188.8

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC----------CCCCCeEEEE
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH----------GGLSASSLYL   78 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~----------gg~~~~vlyi   78 (302)
                      ++++++....++|||++.||++|+|||++|++++|+|+||+|||+||+++|.+++.....          .....+++||
T Consensus         5 ~~~~~~~~~~~i~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   84 (258)
T d2i1qa2           5 DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYI   84 (258)
T ss_dssp             HHHHHHTTCCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEE
T ss_pred             HHHHhhCCCceecCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEE
Confidence            466777888999999999999999999999999999999999999999999998632100          0012379999


Q ss_pred             eCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCC
Q 022155           79 HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDN  158 (302)
Q Consensus        79 d~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~  158 (302)
                      +++..++..++..+...+.... ...+.++.+..+....++.+.+......+..    ...+.++++|++...+......
T Consensus        85 ~~e~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~vid~i~~~~~~~~~~  159 (258)
T d2i1qa2          85 DTEGTFRPERIMQMAEHAGIDG-QTVLDNTFVARAYNSDMQMLFAEKIEDLIQE----GNNIKLVVIDSLTSTFRNEYTG  159 (258)
T ss_dssp             ESSSCCCHHHHHHHHHHHTCCH-HHHHHTEEEEECSSHHHHHHHHHTHHHHHHT----TCEEEEEEEECSSHHHHHHCCC
T ss_pred             EecCCcCHHHHHHHHhhcchhh-hhhhhcceeeccCchhhHHHHHHHHHHHHHH----hcccceeeeeEEEEeechhccc
Confidence            9999888888777776653221 1234577888888877777776665555544    4567999999999987665443


Q ss_pred             ChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEE
Q 022155          159 TMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRL  238 (302)
Q Consensus       159 ~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl  238 (302)
                      .. ....+......++..++.++..+++++++++|.+.......                .....+++|..|++.+++|+
T Consensus       160 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~i  222 (258)
T d2i1qa2         160 RG-KLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDAFF----------------GMAEQAIGGHIVGHAATFRF  222 (258)
T ss_dssp             TT-SHHHHHHHHHHHHHHHHHHHHHTTCEEEEEECEECC-----------------------CCEESSHHHHHHHCSEEE
T ss_pred             cc-cchhhHHHHHHHHHHHHHhhhhcceEEEeecceEecccccc----------------CCcccccCcchhhhhceEEE
Confidence            32 33455666778889999999999999999999877654321                12456789999999999999


Q ss_pred             EEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccc
Q 022155          239 FLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFG  299 (302)
Q Consensus       239 ~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~  299 (302)
                      .|++.+.                         ..|.++|.|+++.|+..++|+|+++||++
T Consensus       223 ~l~~~~~-------------------------~~r~l~v~K~R~~~~~~~~f~I~~~Gi~~  258 (258)
T d2i1qa2         223 FVRKGKG-------------------------DKRVAKLYDSPHLPDAEAIFRITEKGIQD  258 (258)
T ss_dssp             EEEECST-------------------------TEEEEEEEECSSSCCEEEEEEEETTEEEC
T ss_pred             EEEEcCC-------------------------CEEEEEEEECCCCCCceEEEEECCCCccC
Confidence            9988543                         48999999999999999999999999986

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.1e-30  Score=219.00  Aligned_cols=240  Identities=28%  Similarity=0.438  Sum_probs=163.9

Q ss_pred             CCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        17 ~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      ..+||||++.||.+|+|||++|++++|+||||+|||+||+++|.+++.+....+....+.+++........++.......
T Consensus         2 ~~ri~TG~~~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (242)
T d1n0wa_           2 IIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERY   81 (242)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             CCEEcCCCHHHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHHHHHhhc
Confidence            46899999999999999999999999999999999999999999987443333344578889988877777776666553


Q ss_pred             CCCCCCCCCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHH
Q 022155           97 RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGM  176 (302)
Q Consensus        97 ~~~~~~~~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~  176 (302)
                      .... .....++.....................+..     ....++.+|++..+......... ....+......+...
T Consensus        82 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  154 (242)
T d1n0wa_          82 GLSG-SDVLDNVAYARAFNTDHQTQLLYQASAMMVE-----SRYALLIVDSATALYRTDYSGRG-ELSARQMHLARFLRM  154 (242)
T ss_dssp             TCCH-HHHHHTEEEEECCSHHHHHHHHHHHHHHHHH-----SCEEEEEEETSSGGGC--------CHHHHHHHHHHHHHH
T ss_pred             ccch-hhhhhhhhhhhhhchhhhhhhhhhhhhhhhh-----hhheeecccceeeeehhhhhccc-chhhhHHHHHHHHHH
Confidence            3211 1122456666666666655555555555543     45689999999887654433221 234455566788889


Q ss_pred             HHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhcccccccC
Q 022155          177 LKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNG  256 (302)
Q Consensus       177 L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g  256 (302)
                      |++++...++++++++|+.........             .......|++|..|.|.++.|+.|++.+.           
T Consensus       155 l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~~~~~i~l~~~~~-----------  210 (242)
T d1n0wa_         155 LLRLADEFGVAVVITNQVVAQVDGAAM-------------FAADPKKPIGGNIIAHASTTRLYLRKGRG-----------  210 (242)
T ss_dssp             HHHHHHHHCCEEEEEC--------------------------------------CCTTCEEEEEEECST-----------
T ss_pred             HHHhhhhcceeEEEEEEEeccccccce-------------eecccccccchhhHHHhCcEEEEEEEcCC-----------
Confidence            999999999999999999765543211             11234578899999999999999997543           


Q ss_pred             CCCCCCCCCcccccceEEEEEEECCCCCCceeeEEEecCcccccC
Q 022155          257 GVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE  301 (302)
Q Consensus       257 ~~~~~~~~~~~~~~~~R~~~v~ks~~~~~~~~~F~I~~~Gi~~~~  301 (302)
                                    ..|.++|.|+++.|++.++|+|+++||+|++
T Consensus       211 --------------~~r~~~i~K~r~~~~~~~~f~I~~~Gi~~~~  241 (242)
T d1n0wa_         211 --------------ETRICKIYDSPCLPEAEAMFAINADGVGDAK  241 (242)
T ss_dssp             --------------TEEEEEECCBTTBSCEEEEEEEETTEEECCC
T ss_pred             --------------cEEEEEEEeCCCCCCeEEEEEEcCCceEcCC
Confidence                          5899999999999999999999999999986

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=99.95  E-value=1.3e-27  Score=204.03  Aligned_cols=220  Identities=19%  Similarity=0.164  Sum_probs=156.2

Q ss_pred             CCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      +....+++||++.||++|+||||+|.+++|+|+||+|||+||+|+|.+++   ..+.   +|+|+++|.+  ...+.+.+
T Consensus         2 ~~~~~ri~TG~~~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~---~~~~---~~~~is~e~~--~~~~~~~~   73 (242)
T d1tf7a2           2 RSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENAC---ANKE---RAILFAYEES--RAQLLRNA   73 (242)
T ss_dssp             CCCCCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHH---TTTC---CEEEEESSSC--HHHHHHHH
T ss_pred             CCCCCccCCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHH---Hhcc---ccceeeccCC--HHHHHHHH
Confidence            45567899999999999999999999999999999999999999999986   5565   8999999864  44444444


Q ss_pred             HHhCCCCCCCC-CCcEEEEeCC-CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHH
Q 022155           94 HTFRPSNDHNP-CDYIFVQSVH-SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFF  171 (302)
Q Consensus        94 ~~~~~~~~~~~-l~~i~~~~~~-~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~  171 (302)
                      ..+........ ...+.+.... ....+.+.+..+...+.+     .+++++||||++.++...   .  . .+    +.
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~-----~~~~~vviDs~~~~~~~~---~--~-~~----~~  138 (242)
T d1tf7a2          74 YSWGMDFEEMERQNLLKIVCAYPESAGLEDHLQIIKSEIND-----FKPARIAIDSLSALARGV---S--N-NA----FR  138 (242)
T ss_dssp             HTTSCCHHHHHHTTSEEECCCCGGGSCHHHHHHHHHHHHHT-----TCCSEEEEECHHHHTSSS---C--H-HH----HH
T ss_pred             HHcCCChHHHhhcCceEEEEeecchhhHHHHHHHHHHHHHh-----cCCceeeeecchhhhcCC---C--H-HH----HH
Confidence            44321110000 1122222221 122344455666666664     567999999999987432   1  1 11    44


Q ss_pred             HHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhccc
Q 022155          172 KISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVREN  251 (302)
Q Consensus       172 ~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~~~  251 (302)
                      .++..|.++++++++++++++|......                      ..++.+..|.+.++..+.+.+...     +
T Consensus       139 ~~~~~l~~~~~~~~~~~i~~~~~~~~~~----------------------~~~~~~~~~~~~ad~vi~l~~~~~-----~  191 (242)
T d1tf7a2         139 QFVIGVTGYAKQEEITGLFTNTSDQFMG----------------------AHSITDSHISTITDTIILLQYVEI-----R  191 (242)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECSSSSC----------------------CCSSCSSCCTTTCSEEEEEEEEEE-----T
T ss_pred             HHHHHHHHHHHHcCCeEEEEEeeEeecc----------------------ccccCCcceeeecceEEEEEEeec-----C
Confidence            6778888899999999999999754321                      123445667889999999988654     1


Q ss_pred             ccccCCCCCCCCCCcccccceEEEEEEECCCCCC--ceeeEEEecCccccc
Q 022155          252 QMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLAD--TSCEFEITREGVFGV  300 (302)
Q Consensus       252 ~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~~--~~~~F~I~~~Gi~~~  300 (302)
                          +             ...|.++|.|.++.+.  ..++|+|+++||+.-
T Consensus       192 ----~-------------~~~R~i~v~K~R~~~~~~~~~~f~I~~~Gi~i~  225 (242)
T d1tf7a2         192 ----G-------------EMSRAINVFKMRGSWHDKAIREFMISDKGPDIK  225 (242)
T ss_dssp             ----T-------------EEEEEEEEEEESSSCCCCBCEEEEECSSCEEEE
T ss_pred             ----C-------------ceEEEEEEEecCCCCCCCeEEEEEEeCCcEEEc
Confidence                1             4689999999988763  457999999999753

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=99.94  E-value=4.5e-26  Score=193.08  Aligned_cols=221  Identities=18%  Similarity=0.178  Sum_probs=150.3

Q ss_pred             CCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHH
Q 022155           14 PLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLS   93 (302)
Q Consensus        14 ~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~   93 (302)
                      +...++++||++.||++|+||||+|++++|+|+||+|||+||++++.+.+.  ..+.   +++|+++|.+.  +.+....
T Consensus         2 ~~~~~~i~TGi~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~--~~~~---~~~~~s~e~~~--~~~~~~~   74 (242)
T d1tf7a1           2 HQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGII--EFDE---PGVFVTFEETP--QDIIKNA   74 (242)
T ss_dssp             CSSCCEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH--HHCC---CEEEEESSSCH--HHHHHHH
T ss_pred             CCCCCcccCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHH--hcCC---CcccccccCCH--HHHHHHH
Confidence            467889999999999999999999999999999999999999999987653  2233   79999998653  3343333


Q ss_pred             HHhCCCCCC--CCCCcEEE--------EeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhH
Q 022155           94 HTFRPSNDH--NPCDYIFV--------QSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDL  163 (302)
Q Consensus        94 ~~~~~~~~~--~~l~~i~~--------~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~  163 (302)
                      ..+......  ........        .......+..+++..+...+.+     .+++++|||+++.++....     +.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~-----~~~~~viiD~~~~l~~~~~-----~~  144 (242)
T d1tf7a1          75 RSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQK-----YRARRVSIDSVTSVFQQYD-----AS  144 (242)
T ss_dssp             GGGTCCHHHHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHH-----HTCSEEEEECSTTTSTTTC-----CH
T ss_pred             HHcCCChHHHHHhcchhhhhhccchhhhhhhccccHHHHHHHHHHHHHh-----hccchhhhhHHHHHHHhcc-----Ch
Confidence            332211000  00000111        0112223445566677777765     4569999999999774321     11


Q ss_pred             HHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEe
Q 022155          164 KKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRN  243 (302)
Q Consensus       164 ~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~  243 (302)
                      ..    +...+..+.+++++.++++++++|........                       .....|.+.++..+.+...
T Consensus       145 ~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~~~~~~d~i~~~~~~  197 (242)
T d1tf7a1         145 SV----VRRELFRLVARLKQIGATTVMTTERIEEYGPI-----------------------ARYGVEEFVSDNVVILRNV  197 (242)
T ss_dssp             HH----HHHHHHHHHHHHHHHTCEEEEEEECSSSSSCS-----------------------STTSCHHHHCSEEEEEEEE
T ss_pred             hH----HHHHHHHHHHHHHhcCCceEEeeccccccccc-----------------------ccCcceeeeccEEEEEEEe
Confidence            11    33556777778889999999999987654321                       1113466778888888776


Q ss_pred             cCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCCC--CceeeEEEecCccccc
Q 022155          244 EDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA--DTSCEFEITREGVFGV  300 (302)
Q Consensus       244 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~--~~~~~F~I~~~Gi~~~  300 (302)
                      ..     +    +             ..+|+++|.|.++.|  ...++|+|+++||+.+
T Consensus       198 ~~-----~----~-------------~~~r~l~v~K~R~~~~~~~~~~f~I~~~Gi~v~  234 (242)
T d1tf7a1         198 LE-----G----E-------------RRRRTLEILKLRGTSHMKGEYPFTITDHGINIF  234 (242)
T ss_dssp             CS-----T----T-------------CCEEEEEEEEETTSCCCCSEEEEEEETTEEEEC
T ss_pred             ee-----C----C-------------eeEEEEEEEEcCCCCCCCeEEEEEEeCCcEEEe
Confidence            54     1    1             468999999998775  4578999999999853

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=99.87  E-value=2.5e-21  Score=168.13  Aligned_cols=224  Identities=16%  Similarity=0.121  Sum_probs=134.8

Q ss_pred             ccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH--
Q 022155            9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM--   86 (302)
Q Consensus         9 ~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~--   86 (302)
                      +.+..+.....++||++.||+++ ||+.+|+++.|+|+||+|||+|+++++.+++.  ..|.   +|+|++.|.+...  
T Consensus         7 ~~~~~~~~~~~i~TG~~~lD~~~-~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~--~~g~---~v~~~s~E~~~~~~~   80 (277)
T d1cr2a_           7 EHLSSEESVGLLFSGCTGINDKT-LGARGGEVIMVTSGSGMGKSTFVRQQALQWGT--AMGK---KVGLAMLEESVEETA   80 (277)
T ss_dssp             HHHTSCCCSCBCCCSCTTHHHHH-CSBCTTCEEEEECSTTSSHHHHHHHHHHHHHH--TSCC---CEEEEESSSCHHHHH
T ss_pred             HHHhCCCCccccCCCchhHHHHh-cCCCCCeEEEEEeCCCCCHHHHHHHHHHhhhh--hccc---ceeEeeeccchhhHH
Confidence            34566777789999999999998 79999999999999999999999999988642  3455   8999999965322  


Q ss_pred             HHHHHHHHHhCCCCC----------C---------CCCCcEEEEeC---CCHHHHHHHHHHHHHHHHhccCCCCCeeEEE
Q 022155           87 RRLHQLSHTFRPSND----------H---------NPCDYIFVQSV---HSVDQLLDIMPKIESFIKNSSNSRLPIRLIV  144 (302)
Q Consensus        87 ~rl~~i~~~~~~~~~----------~---------~~l~~i~~~~~---~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvV  144 (302)
                      .|+..+.........          .         ...+++++...   .+.+++   +..+......     .++++||
T Consensus        81 ~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~-----~~~~~vv  152 (277)
T d1cr2a_          81 EDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRL---LAKLAYMRSG-----LGCDVII  152 (277)
T ss_dssp             HHHHHHHTTCCGGGCHHHHHHHHHTSHHHHHHHHHHSSSCEEEECCC-CCCHHHH---HHHHHHHHHT-----TCCSEEE
T ss_pred             hHHHHHhhcCCchhhcccccchhhhHHHHHHHHHhhccceeeeeccccchhHHHH---HHHhhhhhhc-----cCcceEE
Confidence            222111111100000          0         01133444332   333333   3344444433     5679999


Q ss_pred             EechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccc
Q 022155          145 IDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICP  224 (302)
Q Consensus       145 IDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  224 (302)
                      ||+++.+....-.      ......+..++..|+.+|++++|+||+++|+........+..+          ........
T Consensus       153 ID~l~~l~~~~~~------~~~~~~~~~~~~~l~~lA~~~~i~vi~~~q~~r~~~~~~~~~~----------~~~~~~~~  216 (277)
T d1cr2a_         153 LDHISIVVSASGE------SDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEG----------RPVSITDL  216 (277)
T ss_dssp             EEEEEC----------------CHHHHHHHHHHHHHHHHHCCEEEEEEECC-----------------------------
T ss_pred             Ecccccccccccc------cchhHHHHHHHHHHHHHhhhccccceeeccccccccccccccc----------ccchhhhc
Confidence            9999876432211      1122336788999999999999999999999765332110000          00001123


Q ss_pred             cCCchhhhhcceEEEEEEecCchhcccccccCCCCCCCCCCcccccceEEEEEEECCCC
Q 022155          225 ALGIAWANCVNSRLFLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHL  283 (302)
Q Consensus       225 ~lG~~w~~~~~~rl~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~  283 (302)
                      .++..|.+.++..+.|.|.+..   +.                  ...+.+.|.|+++.
T Consensus       217 ~gS~~i~~~ad~vl~l~r~~~~---~~------------------~~~~~l~v~KnR~~  254 (277)
T d1cr2a_         217 RGSGALRQLSDTIIALERNQQG---DM------------------PNLVLVRILKCRFT  254 (277)
T ss_dssp             --CHHHHHHCSEEEEEECC---------------------------CEEEEEEEEETTT
T ss_pred             ccccchhhhCcEEEEEEecCcc---CC------------------CCeEEEEEEccCCC
Confidence            4567899999999999886541   11                  24789999999864

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=99.82  E-value=5.6e-21  Score=165.47  Aligned_cols=239  Identities=18%  Similarity=0.161  Sum_probs=136.6

Q ss_pred             ccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcC-C---CCCCeEEEEeCCCCCCH--HHHHHH
Q 022155           19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSH-G---GLSASSLYLHTEFPFPM--RRLHQL   92 (302)
Q Consensus        19 ~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~-g---g~~~~vlyid~e~~~~~--~rl~~i   92 (302)
                      .+..+.|.+|.++.| +.+|.+++|+|++|+|||+|++++|.+++..... +   ....+|+|+++|.....  .|+..+
T Consensus        11 ~~~~~~p~~d~li~G-~~pg~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~~~~~~Rl~~~   89 (274)
T d1nlfa_          11 AFAAAPPPLDYVLPN-MVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHHRLHAL   89 (274)
T ss_dssp             HHHSCCCCCCEEETT-EETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHHHHHHHHHHH
T ss_pred             HhcCCCCCHHHHhCC-ccCCcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchHHHHHHHHHHH
Confidence            355667889999854 5569999999999999999999999886521110 0   01238999999976432  445444


Q ss_pred             HHHhCCCCCCCCCCcEEEEeCCC---HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHH
Q 022155           93 SHTFRPSNDHNPCDYIFVQSVHS---VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFL  169 (302)
Q Consensus        93 ~~~~~~~~~~~~l~~i~~~~~~~---~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~  169 (302)
                      ...+.........+++.+.....   .......+..+...+       .++++||||++..+...+. +   +..    .
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~lvviD~l~~~~~~~~-~---~~~----~  154 (274)
T d1nlfa_          90 GAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRAA-------EGRRLMVLDTLRRFHIEEE-N---ASG----P  154 (274)
T ss_dssp             HTTSCHHHHHHHHHHEEECCCTTSCCCTTSHHHHHHHHHHH-------TTCSEEEEECGGGGCCSCT-T---CHH----H
T ss_pred             hhccChhhhhcccccceeccccCccchhHHHHHHHHHHHhc-------cCccEEecCchhhhccccc-c---chh----h
Confidence            43211000000112233322111   011111222222222       2569999999998764321 1   111    2


Q ss_pred             HHHHHHHHHHHHHHcCcEEEEEecccccCCCCCCCCCccccCCccccCCCCCccccCCchhhhhcceEEEEEEecCchhc
Q 022155          170 FFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVR  249 (302)
Q Consensus       170 l~~l~~~L~~la~~~~~~viv~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~lG~~w~~~~~~rl~l~~~~~~~~~  249 (302)
                      +..++..|+.++++++|+||+++|..........              ........++.+|.+.+++++.|.|....   
T Consensus       155 ~~~~~~~l~~la~~~~~~vi~v~H~~K~~~~~~~--------------~~~~~~~~Gssai~~~a~~v~~l~r~~~~---  217 (274)
T d1nlfa_         155 MAQVIGRMEAIAADTGCSIVFLHHASKGAAMMGA--------------GDQQQASRGSSVLVDNIRWQSYLSSMTSA---  217 (274)
T ss_dssp             HHHHHHHHHHHHHHHCCEEEEEEEC----------------------------------CTGGGCSCEEEEEECCHH---
T ss_pred             HHHHHHHHHHHhhcCCCceehhhhccccccccCC--------------cccccccccHHHHHhhccEEEEEEecchh---
Confidence            4678899999999999999999998753221100              00112345567899999999999996541   


Q ss_pred             ccccccCCCCCCCCCCcccccceEEEEEEECCCCC-CceeeEEEecCccc
Q 022155          250 ENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLA-DTSCEFEITREGVF  298 (302)
Q Consensus       250 ~~~~~~g~~~~~~~~~~~~~~~~R~~~v~ks~~~~-~~~~~F~I~~~Gi~  298 (302)
                      +. ...+       .+.......+.+++.|+++.| .....|+..+.|+-
T Consensus       218 ~~-~~~~-------~~~~~~~~~~~~~v~K~~~~~~~~~~~~~~~~~g~~  259 (274)
T d1nlfa_         218 EA-EEWG-------VDDDQRRFFVRFGVSKANYGAPFADRWFRRHDGGVL  259 (274)
T ss_dssp             HH-HHTT-------CCTTSGGGEEEEEEEECSSSSCCCCEEEEECGGGCE
T ss_pred             hh-hhcc-------CcccccCcEEEEEEEeeCCCCCCceEEEEEeCCcCC
Confidence            10 0000       001112467899999999886 45678888888864

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.00  E-value=2.3e-10  Score=94.95  Aligned_cols=148  Identities=9%  Similarity=0.103  Sum_probs=76.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC--CCHHHHHHHHHHhCCCC---
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP--FPMRRLHQLSHTFRPSN---  100 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~--~~~~rl~~i~~~~~~~~---  100 (302)
                      .||++ +--+++|+++.|.||+|||||||+..++...  ++..     .-++++.+.-  .+..+ +.++.-++...   
T Consensus        15 ~l~~i-sl~i~~Gei~~liGpsGsGKSTLl~~i~Gl~--~p~s-----G~I~i~g~~i~~~~~~~-r~ig~v~Q~~~l~~   85 (232)
T d2awna2          15 VSKDI-NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE--TITS-----GDLFIGEKRMNDTPPAE-RGVGMVFQSYALYP   85 (232)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHHTSS--CCSE-----EEEEESSSCCTTSCGGG-TCEEEECSSCCC--
T ss_pred             EEeee-EEEEcCCCEEEEECCCCChHHHHHHHHhcCC--CCCC-----CEEEECCEECCCCchhh-ceeeeecccccccc
Confidence            45554 4578999999999999999999998776653  3233     3577776642  22222 12222222211   


Q ss_pred             CCCCCCcEEEEeC---CCHHH----HHHHHHH--HHHHHHhc----------------cCCCCCeeEEEEechhhhhhhc
Q 022155          101 DHNPCDYIFVQSV---HSVDQ----LLDIMPK--IESFIKNS----------------SNSRLPIRLIVIDSIAALFRSD  155 (302)
Q Consensus       101 ~~~~l~~i~~~~~---~~~~~----l~~~l~~--l~~~l~~~----------------~~~~~~~~lvVIDsi~~~~~~~  155 (302)
                      ...+.+|+.+...   .+.++    ..+++..  +..+....                +.. .+++++++|+.++-.   
T Consensus        86 ~~tv~eni~~~~~~~~~~~~~~~~~v~~~l~~~~l~~~~~~~~~~LSGGqkQRvaiAraL~-~~P~illlDEPts~L---  161 (232)
T d2awna2          86 HLSVAENMSFGLKLAGAKKEVINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLV-AEPSVFLLDEPLSNL---  161 (232)
T ss_dssp             -------------------CHHHHHHHHHHHHC---------------------CHHHHHH-TCCSEEEEESTTTTS---
T ss_pred             chhHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCChhhhhCChhhCCHHHHHHHHHHHHHh-cCCCEEEEcCCCCCC---
Confidence            1245566544211   11111    1122211  11111000                011 235999999988744   


Q ss_pred             cCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          156 FDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       156 ~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                            |...+    .++.+.|+++.++.++|||+++|...
T Consensus       162 ------D~~~~----~~i~~~l~~l~~~~g~tii~vTHd~~  192 (232)
T d2awna2         162 ------DAALR----VQMRIEISRLHKRLGRTMIYVTHDQV  192 (232)
T ss_dssp             ------CHHHH----HHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             ------CHHHH----HHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence                  22332    36678888999999999999999754

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.97  E-value=4.2e-10  Score=93.31  Aligned_cols=149  Identities=15%  Similarity=0.155  Sum_probs=84.3

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHH-----HHhCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLS-----HTFRP   98 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~-----~~~~~   98 (302)
                      .||.+ +--+++|+++.|+||+|||||||+..++...  ++..     ..++++...  .++...+..+.     .-++.
T Consensus        20 al~~i-sl~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~--~p~s-----G~I~~~g~~i~~~~~~~~~~~r~~~ig~v~Q~   91 (230)
T d1l2ta_          20 ALKNV-NLNIKEGEFVSIMGPSGSGKSTMLNIIGCLD--KPTE-----GEVYIDNIKTNDLDDDELTKIRRDKIGFVFQQ   91 (230)
T ss_dssp             EEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTEECTTCCHHHHHHHHHHHEEEECTT
T ss_pred             EEece-EEEEcCCCEEEEECCCCCCcchhhHhccCCC--CCCc-----ceeEECCEEcCcCChhhcchhhcceEEEEecc
Confidence            46655 4578999999999999999999987665542  2222     357887654  34444443332     22332


Q ss_pred             CC---CCCCCCcEEEE------eCCCHHHHHHHHHHHHHH------H-Hhc----------------cCCCCCeeEEEEe
Q 022155           99 SN---DHNPCDYIFVQ------SVHSVDQLLDIMPKIESF------I-KNS----------------SNSRLPIRLIVID  146 (302)
Q Consensus        99 ~~---~~~~l~~i~~~------~~~~~~~l~~~l~~l~~~------l-~~~----------------~~~~~~~~lvVID  146 (302)
                      ..   ..++.+|+.+.      ...+..+..+.+.++.+.      + ...                +.. ..++++++|
T Consensus        92 ~~l~~~~tv~eni~~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~p~~LSGGqkQRvaIAraL~-~~P~lLllD  170 (230)
T d1l2ta_          92 FNLIPLLTALENVELPLIFKYRGAMSGEERRKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARALA-NNPPIILAD  170 (230)
T ss_dssp             CCCCTTSCHHHHHHHHHHTCCSSCCCHHHHHHHHHHHHHHTTCCGGGTTCCGGGSCHHHHHHHHHHHHHT-TCCSEEEEE
T ss_pred             hhhCcCccHHHHHhHHHHHhccCCCCHHHHHHHHHHHHHhhchhhhhhcCChhhCCHHHHHHHHHHhhhh-cCCCEEEec
Confidence            21   11333443221      112222221111111111      0 000                112 245999999


Q ss_pred             chhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          147 SIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       147 si~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +.++-.         |...+    ..+++.|+++.+++++|||+++|-.+
T Consensus       171 EPTs~L---------D~~~~----~~i~~~l~~l~~~~g~tii~vTHd~~  207 (230)
T d1l2ta_         171 QPTGAL---------DSKTG----EKIMQLLKKLNEEDGKTVVVVTHDIN  207 (230)
T ss_dssp             STTTTS---------CHHHH----HHHHHHHHHHHHTTCCEEEEECSCHH
T ss_pred             CCcccc---------CHHHH----HHHHHHHHHHHHhhCCEEEEECCCHH
Confidence            998744         22332    36788889999999999999999643

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=98.97  E-value=3.8e-11  Score=100.32  Aligned_cols=150  Identities=14%  Similarity=0.244  Sum_probs=84.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHH----hCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHT----FRP   98 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~----~~~   98 (302)
                      ..||++ +--++.|+++.|.||+|||||||+..++...  ++..     ..++++.+.  .++...+..+...    ++.
T Consensus        19 ~al~~v-sl~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~--~p~s-----G~I~~~g~~i~~~~~~~~~~~rr~ig~VfQ~   90 (240)
T d3dhwc1          19 QALNNV-SLHVPAGQIYGVIGASGAGKSTLIRCVNLLE--RPTE-----GSVLVDGQELTTLSESELTKARRQIGMIFQH   90 (240)
T ss_dssp             EEEEEE-EEEECSSCEEEEEESTTSSHHHHHHHHTTSS--CCSE-----EEEEETTEEECTTCHHHHHHHHHHEEECCSS
T ss_pred             EEeece-eEEEcCCCEEEEECCCCCCHHHHHHHHcCCc--cccC-----CceEEcCeEeeeCChhhhhhhhccccccccc
Confidence            356665 4578999999999999999999998886643  3232     357777664  3444444433322    222


Q ss_pred             CC---CCCCCCcEEEE---eCCCHHHH----HHHHHHHH--HHHHhc----------------cCCCCCeeEEEEechhh
Q 022155           99 SN---DHNPCDYIFVQ---SVHSVDQL----LDIMPKIE--SFIKNS----------------SNSRLPIRLIVIDSIAA  150 (302)
Q Consensus        99 ~~---~~~~l~~i~~~---~~~~~~~l----~~~l~~l~--~~l~~~----------------~~~~~~~~lvVIDsi~~  150 (302)
                      ..   ...+.+|+.+.   .-.+..+.    .+++..+.  ......                +.. .+++++++|+.++
T Consensus        91 ~~l~~~~tv~eni~~~l~~~~~~~~~~~~~v~~~L~~vgL~~~~~~~~~~LSGG~~QRvaiAraL~-~~P~lLllDEPt~  169 (240)
T d3dhwc1          91 FNLLSSRTVFGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALA-SNPKVLLCDEATS  169 (240)
T ss_dssp             CCCCTTSBHHHHHHHHHHTTTCCTTHHHHHHHHHHHHHSTTTTTSSCBSCCCHHHHHHHHHHHHHH-TCCSEEEEESGGG
T ss_pred             cccCCCccHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHhhhhc-cCCCeEEeccccc
Confidence            11   11223333221   00111111    12221110  000000                011 2359999999888


Q ss_pred             hhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          151 LFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       151 ~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      -.         |...+    ..+.+.|+++.+++++|||+++|...
T Consensus       170 ~L---------D~~~~----~~i~~~l~~l~~~~g~tvi~vTHdl~  202 (240)
T d3dhwc1         170 AL---------DPATT----RSILELLKDINRRLGLTILLITHEMD  202 (240)
T ss_dssp             SS---------CHHHH----HHHHHHHHHHHHHHCCEEEEEBSCHH
T ss_pred             cC---------CHHHh----hHHHHHHHHHHhccCCEEEEEcCCHH
Confidence            44         22222    36778889999999999999999754

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.80  E-value=2.6e-10  Score=95.03  Aligned_cols=150  Identities=12%  Similarity=0.142  Sum_probs=82.2

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCCC-
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPSN-  100 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~~-  100 (302)
                      ...||.+ +--+++|+++.|.||+|||||||+..++...  ++..     ..++|+...  ..++.+ +.++.-++... 
T Consensus        19 ~~al~~v-sl~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~--~p~s-----G~I~i~g~~i~~~~~~~-r~ig~v~Q~~~l   89 (239)
T d1v43a3          19 FTAVNKL-NLTIKDGEFLVLLGPSGCGKTTTLRMIAGLE--EPTE-----GRIYFGDRDVTYLPPKD-RNISMVFQSYAV   89 (239)
T ss_dssp             EEEEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHHTSS--CCSE-----EEEEETTEECTTSCGGG-GTEEEEEC----
T ss_pred             EEEEcce-eEEECCCCEEEEECCCCChHHHHHHHHHcCC--CCCC-----CEEEEcceecccCCccc-ceEEEEeechhh
Confidence            4456665 4578999999999999999999998887754  2233     357777553  122221 11221122111 


Q ss_pred             --CCCCCCcEEE---EeCCCHHHHHHHHHHHHHHH------Hhc----------------cCCCCCeeEEEEechhhhhh
Q 022155          101 --DHNPCDYIFV---QSVHSVDQLLDIMPKIESFI------KNS----------------SNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus       101 --~~~~l~~i~~---~~~~~~~~l~~~l~~l~~~l------~~~----------------~~~~~~~~lvVIDsi~~~~~  153 (302)
                        ...+.+|+.+   ..-.+..+..+...++.+.+      .+.                +.. ..++++++|+.++-. 
T Consensus        90 ~~~ltv~enl~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~-~~P~iLllDEPts~L-  167 (239)
T d1v43a3          90 WPHMTVYENIAFPLKIKKFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIV-VEPDVLLMDEPLSNL-  167 (239)
T ss_dssp             --CCCHHHHHHTTCC--CCCHHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHT-TCCSEEEEESTTTTS-
T ss_pred             cccchHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHhhhc-cCCCceeecCCcccC-
Confidence              0122233221   11122222222222111111      000                112 245999999988854 


Q ss_pred             hccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          154 SDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       154 ~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                              |...+    .++.+.|+++.+++++|||+++|...
T Consensus       168 --------D~~~~----~~i~~ll~~l~~~~g~tii~vTHd~~  198 (239)
T d1v43a3         168 --------DAKLR----VAMRAEIKKLQQKLKVTTIYVTHDQV  198 (239)
T ss_dssp             --------CHHHH----HHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             --------CHHHH----HHHHHHHHHHHHhcCCeEEEEeCCHH
Confidence                    22222    36678888888999999999999654

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=98.80  E-value=1.9e-10  Score=96.40  Aligned_cols=163  Identities=12%  Similarity=0.147  Sum_probs=86.9

Q ss_pred             cccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHH
Q 022155           10 LLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMR   87 (302)
Q Consensus        10 l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~   87 (302)
                      +++.+.....+. +...|+++ +--+++|+++.|.||+|+|||||+..++...  ++..     .-++++.+.  ..+..
T Consensus         6 ~Lev~~l~k~yg-~~~al~~v-s~~i~~Gei~~liGpnGaGKSTl~~~i~Gl~--~p~~-----G~I~~~G~~i~~~~~~   76 (240)
T d1ji0a_           6 VLEVQSLHVYYG-AIHAIKGI-DLKVPRGQIVTLIGANGAGKTTTLSAIAGLV--RAQK-----GKIIFNGQDITNKPAH   76 (240)
T ss_dssp             EEEEEEEEEEET-TEEEEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTEECTTCCHH
T ss_pred             EEEEeeEEEEEC-CEEEEeee-eEEECCCCEEEEECCCCCcHHHHHHHHhCCC--CCCc-----cEEEecccccccccHH
Confidence            333333333332 34566665 5578999999999999999999998887754  3233     346676654  22333


Q ss_pred             HHHHHHHHhCCCCC-----CCCCCcEEEEe----CCC-HH-HHHHHHH---HHHHHHHhc----------------cCCC
Q 022155           88 RLHQLSHTFRPSND-----HNPCDYIFVQS----VHS-VD-QLLDIMP---KIESFIKNS----------------SNSR  137 (302)
Q Consensus        88 rl~~i~~~~~~~~~-----~~~l~~i~~~~----~~~-~~-~l~~~l~---~l~~~l~~~----------------~~~~  137 (302)
                      ...++...+.....     ..+.+|+.+..    ... .. .+..++.   .+.....+.                +.. 
T Consensus        77 ~~~r~gi~~~~q~~~l~~~ltv~en~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~LSGG~~Qrv~iAraL~-  155 (240)
T d1ji0a_          77 VINRMGIALVPEGRRIFPELTVYENLMMGAYNRKDKEGIKRDLEWIFSLFPRLKERLKQLGGTLSGGEQQMLAIGRALM-  155 (240)
T ss_dssp             HHHHTTEEEECSSCCCCTTSBHHHHHHGGGTTCCCSSHHHHHHHHHHHHCHHHHTTTTSBSSSSCHHHHHHHHHHHHHT-
T ss_pred             HHHHhcccccCcccccCCcccHHHHHHHHHHhcCCHHHHHHHHHHHHHHhhChHHHHhCchhhCCHHHHHHHHHHHHHH-
Confidence            33333322222211     11223322211    011 01 1111111   121111110                112 


Q ss_pred             CCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          138 LPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       138 ~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      .+++++++|+.++-.         |...+    .++.+.|++++++ ++|||++.|...
T Consensus       156 ~~P~lLllDEPt~gL---------D~~~~----~~i~~~i~~l~~~-g~til~~tH~l~  200 (240)
T d1ji0a_         156 SRPKLLMMDEPSLGL---------APILV----SEVFEVIQKINQE-GTTILLVEQNAL  200 (240)
T ss_dssp             TCCSEEEEECTTTTC---------CHHHH----HHHHHHHHHHHHT-TCCEEEEESCHH
T ss_pred             hCCCEeeecCCCcCC---------CHHHH----HHHHHHHHHHHhC-CCEEEEEeCCHH
Confidence            245999999998854         22333    3667778888765 999999999643

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=98.80  E-value=4.1e-10  Score=93.17  Aligned_cols=149  Identities=12%  Similarity=0.171  Sum_probs=83.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHHHHHHHhCCCC--
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLHQLSHTFRPSN--  100 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~~i~~~~~~~~--  100 (302)
                      ..||++ +--+++|+++.|.||+|||||||+..++...  ++..     .-++++.+.  ..++.| +.++.-++...  
T Consensus        14 ~aL~~v-s~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~--~p~s-----G~I~~~G~~i~~~~~~~-r~ig~v~Q~~~l~   84 (229)
T d3d31a2          14 FSLDNL-SLKVESGEYFVILGPTGAGKTLFLELIAGFH--VPDS-----GRILLDGKDVTDLSPEK-HDIAFVYQNYSLF   84 (229)
T ss_dssp             CEEEEE-EEEECTTCEEEEECCCTHHHHHHHHHHHTSS--CCSE-----EEEEETTEECTTSCHHH-HTCEEECTTCCCC
T ss_pred             EEEeee-EEEECCCCEEEEECCCCCcHHHHHHHHhcCc--CCCC-----CEEEEccEeccccchhH-hcceeeccccccC
Confidence            357765 4579999999999999999999998887753  2233     356777653  223322 22332222211  


Q ss_pred             C-CCCCCcEEE----EeCCCHHHHHHHHHHHH--HHHHhc----------------cCCCCCeeEEEEechhhhhhhccC
Q 022155          101 D-HNPCDYIFV----QSVHSVDQLLDIMPKIE--SFIKNS----------------SNSRLPIRLIVIDSIAALFRSDFD  157 (302)
Q Consensus       101 ~-~~~l~~i~~----~~~~~~~~l~~~l~~l~--~~l~~~----------------~~~~~~~~lvVIDsi~~~~~~~~~  157 (302)
                      + .++.+|+.+    ......+...+++..+.  .+..+.                +.. .+++++++|+.++-.     
T Consensus        85 ~~~tV~enl~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL~-~~P~iLllDEPts~L-----  158 (229)
T d3d31a2          85 PHMNVKKNLEFGMRMKKIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALV-TNPKILLLDEPLSAL-----  158 (229)
T ss_dssp             TTSCHHHHHHHHHHHHCCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTT-SCCSEEEEESSSTTS-----
T ss_pred             ccccHHHHHHHHHhhccccHHHHHHHHHHHhcchhhHhCChhhCCHHHhcchhhhhhhh-ccCCceeecCCCcCC-----
Confidence            1 122333321    11222222232222110  000000                112 345999999988744     


Q ss_pred             CChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          158 NTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       158 ~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                          |...+    ..+.+.|+++.++.++|||+++|-..
T Consensus       159 ----D~~~~----~~i~~~l~~l~~~~g~tii~vtHd~~  189 (229)
T d3d31a2         159 ----DPRTQ----ENAREMLSVLHKKNKLTVLHITHDQT  189 (229)
T ss_dssp             ----CHHHH----HHHHHHHHHHHHHTTCEEEEEESCHH
T ss_pred             ----CHHHH----HHHHHHHHHHHhcCCcEEEEEcCCHH
Confidence                22222    36678888888899999999999654

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.71  E-value=4.5e-09  Score=88.58  Aligned_cols=52  Identities=15%  Similarity=0.219  Sum_probs=39.6

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +...||.+ +--+++|+++.|.||+|||||||+..++...  ++..     .-++++.+.
T Consensus        16 ~~~aL~~v-s~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~--~p~~-----G~I~~~g~~   67 (254)
T d1g6ha_          16 EFKALDGV-SISVNKGDVTLIIGPNGSGKSTLINVITGFL--KADE-----GRVYFENKD   67 (254)
T ss_dssp             TEEEEEEE-CCEEETTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTEE
T ss_pred             CeEEEcce-EEEECCCCEEEEECCCCCcHHHHHHHHHCCC--cCCC-----cEEEECCEe
Confidence            45567776 6689999999999999999999998887764  3232     357776653

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=98.69  E-value=7.8e-11  Score=98.33  Aligned_cols=44  Identities=20%  Similarity=0.210  Sum_probs=34.5

Q ss_pred             CccccC-ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           18 EKCTVG-CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        18 ~~i~tG-~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.| ...||++ +--+++|+++.|.||+|||||||+..++...
T Consensus        11 k~y~~g~~~aL~~v-sl~i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          11 KVFKKGKVVALDNV-NINIENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEGGGTEEEEEEE-EEEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEECCCCEEEEece-EEEECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            334444 3567776 5679999999999999999999998887653

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=98.67  E-value=1.7e-09  Score=90.05  Aligned_cols=37  Identities=16%  Similarity=0.105  Sum_probs=30.5

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..||++ +--+++|+++.|.||+|||||||+..++...
T Consensus        17 ~al~~v-sl~i~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          17 TAVREM-SLEVKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEcce-eeEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            356665 4468999999999999999999998887654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=98.55  E-value=2.8e-08  Score=82.81  Aligned_cols=57  Identities=18%  Similarity=0.168  Sum_probs=40.2

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC--CCCHHHHH
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF--PFPMRRLH   90 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~--~~~~~rl~   90 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...  ++..     .-++|+...  .++.+.++
T Consensus        18 vL~~i-sl~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~--~p~~-----G~I~i~g~~i~~~~~~~lr   76 (241)
T d2pmka1          18 ILDNI-NLSIKQGEVIGIVGRSGSGKSTLTKLIQRFY--IPEN-----GQVLIDGHDLALADPNWLR   76 (241)
T ss_dssp             EEEEE-EEEEETTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTEETTTSCHHHHH
T ss_pred             eEeee-EEEEcCCCEEEEECCCCCCHHHHHHHHHhcC--CCCC-----CEEEECCEEecccchhhhh
Confidence            45554 4578999999999999999999998887754  2222     357777653  34444443

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.54  E-value=3.3e-07  Score=74.37  Aligned_cols=94  Identities=17%  Similarity=0.171  Sum_probs=59.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      .+.++.++||+|+||||.+..+|..+.   ..|.   +|.+|+++ +++.   +.|+..+..+.          +-+...
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~---~~g~---kV~lit~D-t~R~gA~eQL~~~a~~l~----------i~~~~~   67 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQ---NLGK---KVMFCAGD-TFRAAGGTQLSEWGKRLS----------IPVIQG   67 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHH---TTTC---CEEEECCC-CSSTTHHHHHHHHHHHHT----------CCEECC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH---HCCC---cEEEEEec-cccccchhhHhhcccccC----------ceEEec
Confidence            578999999999999999999998764   4454   88888877 4433   66766665532          233333


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      .+..++.+.+.........     ...++|+||......
T Consensus        68 ~~~~d~~~~~~~~~~~~~~-----~~~d~ilIDTaGr~~  101 (207)
T d1okkd2          68 PEGTDPAALAYDAVQAMKA-----RGYDLLFVDTAGRLH  101 (207)
T ss_dssp             CTTCCHHHHHHHHHHHHHH-----HTCSEEEECCCCCCT
T ss_pred             cCCccHHHHHHHHHHHHHH-----CCCCEEEcCccccch
Confidence            3333333333322222211     245999999877543

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.52  E-value=2.7e-08  Score=83.47  Aligned_cols=48  Identities=21%  Similarity=0.239  Sum_probs=36.5

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...  ++..     .-++|+..
T Consensus        29 vL~~i-sl~i~~Ge~vaivG~sGsGKSTLl~li~gl~--~p~~-----G~I~i~g~   76 (251)
T d1jj7a_          29 VLQGL-TFTLRPGEVTALVGPNGSGKSTVAALLQNLY--QPTG-----GQLLLDGK   76 (251)
T ss_dssp             SEEEE-EEEECTTCEEEEECSTTSSHHHHHHHHTTSS--CCSE-----EEEEETTE
T ss_pred             eEece-EEEEcCCCEEEEECCCCCcHHHHHHHHhccc--CCCc-----CEEEECCE
Confidence            46665 4578999999999999999999998877654  2222     35777765

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=98.50  E-value=3.6e-08  Score=82.00  Aligned_cols=49  Identities=18%  Similarity=0.145  Sum_probs=35.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .||.+ +-.+++|+++.|.||+|+|||||+..++...  ++..     .-++++.+.
T Consensus        17 vl~~v-s~~v~~Gei~glvG~nGaGKSTLl~~l~G~~--~p~~-----G~i~i~G~~   65 (238)
T d1vpla_          17 ILKGI-SFEIEEGEIFGLIGPNGAGKTTTLRIISTLI--KPSS-----GIVTVFGKN   65 (238)
T ss_dssp             EEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHTTSS--CCSE-----EEEEETTEE
T ss_pred             EEccc-eeEEcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCC-----CEEEECcEe
Confidence            45554 4478999999999999999999998887764  2233     346666553

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.48  E-value=5e-07  Score=73.35  Aligned_cols=92  Identities=18%  Similarity=0.191  Sum_probs=60.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      -.++.++||+|+||||.+..+|..+.   ..|.   +|..|+++ +++.   +.|+..+..+          ++-+....
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~---~~g~---kV~lit~D-t~R~gA~eQL~~~a~~l----------~v~~~~~~   71 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFE---QQGK---SVMLAAGD-TFRAAAVEQLQVWGQRN----------NIPVIAQH   71 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHH---TTTC---CEEEECCC-TTCHHHHHHHHHHHHHT----------TCCEECCS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH---HCCC---cEEEEecc-cccccchhhhhhhhhhc----------CCcccccc
Confidence            35899999999999999999998764   4454   78888876 6665   5555555442          33344444


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhh
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAAL  151 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~  151 (302)
                      +..++.+++.+..+....     ...++|+||.....
T Consensus        72 ~~~d~~~~l~~~~~~a~~-----~~~d~ilIDTaGr~  103 (211)
T d2qy9a2          72 TGADSASVIFDAIQAAKA-----RNIDVLIADTAGRL  103 (211)
T ss_dssp             TTCCHHHHHHHHHHHHHH-----TTCSEEEECCCCCG
T ss_pred             cCCCHHHHHHHHHHHHHH-----cCCCEEEeccCCCc
Confidence            444555555544333322     35699999986653

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=98.46  E-value=1.6e-07  Score=78.28  Aligned_cols=36  Identities=25%  Similarity=0.193  Sum_probs=29.9

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+.+ +--+++|+++.|+||+|||||||+..++...
T Consensus        17 vL~~i-sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          17 ILRDI-SFEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             SEEEE-EEEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eeeee-EEEEcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            45554 4579999999999999999999998887654

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.46  E-value=1.7e-08  Score=84.81  Aligned_cols=49  Identities=16%  Similarity=0.223  Sum_probs=36.1

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.|+.+ +--+++|+++.|+|++|||||||+..++...  ++..     ..++++..
T Consensus        32 ~vL~~i-sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~--~p~~-----G~I~i~g~   80 (255)
T d2hyda1          32 PILKDI-NLSIEKGETVAFVGMSGGGKSTLINLIPRFY--DVTS-----GQILIDGH   80 (255)
T ss_dssp             CSEEEE-EEEECTTCEEEEECSTTSSHHHHHTTTTTSS--CCSE-----EEEEETTE
T ss_pred             cceece-EEEEcCCCEEEEECCCCCcHHHHHHHHHhcC--Cccc-----cccccCCE
Confidence            356665 4579999999999999999999998776643  2222     35777654

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=98.46  E-value=2.8e-07  Score=77.44  Aligned_cols=50  Identities=14%  Similarity=0.274  Sum_probs=36.6

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ...||.+ +--+++|+++.|+||+|||||||+..++..  +++..     ..++++.+
T Consensus        15 ~~al~~v-s~~i~~GEi~~iiG~sGsGKSTLl~~i~Gl--~~p~~-----G~I~~~G~   64 (258)
T d1b0ua_          15 HEVLKGV-SLQARAGDVISIIGSSGSGKSTFLRCINFL--EKPSE-----GAIIVNGQ   64 (258)
T ss_dssp             EEEEEEE-EEEECTTCEEEEECCTTSSHHHHHHHHTTS--SCCSE-----EEEEETTE
T ss_pred             EEEEcce-eeEEcCCCEEEEECCCCCcHHHHHHHHHcC--ccCCC-----CCEEECCE
Confidence            3456665 457899999999999999999999888764  33233     34666654

>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=98.45  E-value=5.3e-07  Score=75.73  Aligned_cols=123  Identities=16%  Similarity=0.148  Sum_probs=68.4

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |++...-+.|+||||+|||+++..+|..+..         .+++++...-.+                     . +  .-
T Consensus        41 g~~~~~~iLL~GppGtGKT~la~~iA~~~~~---------~~~~i~~~~l~~---------------------~-~--~g   87 (256)
T d1lv7a_          41 GGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV---------PFFTISGSDFVE---------------------M-F--VG   87 (256)
T ss_dssp             --CCCCEEEEECCTTSCHHHHHHHHHHHHTC---------CEEEECSCSSTT---------------------S-C--CC
T ss_pred             CCCCCCeEEeeCCCCCCccHHHHHHHHHcCC---------CEEEEEhHHhhh---------------------c-c--hh
Confidence            5555666899999999999999999977531         578888663211                     0 0  00


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      .+...+.+++...    ..     ..+.+|+||.+..++...-...........+++..++..+..+....++.||.++.
T Consensus        88 ~~~~~l~~~f~~A----~~-----~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn  158 (256)
T d1lv7a_          88 VGASRVRDMFEQA----KK-----AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATN  158 (256)
T ss_dssp             CCHHHHHHHHHHH----HT-----TCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEES
T ss_pred             HHHHHHHHHHHHH----HH-----cCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCC
Confidence            2223333333322    22     34489999999998743211111111222334556666665554556677775554


Q ss_pred             ccccC
Q 022155          194 VVDLM  198 (302)
Q Consensus       194 ~~~~~  198 (302)
                      -.+.+
T Consensus       159 ~~~~l  163 (256)
T d1lv7a_         159 RPDVL  163 (256)
T ss_dssp             CTTTS
T ss_pred             CcccC
Confidence            33333

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=98.43  E-value=7.9e-09  Score=85.76  Aligned_cols=45  Identities=20%  Similarity=0.260  Sum_probs=33.1

Q ss_pred             CeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecccc
Q 022155          139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVD  196 (302)
Q Consensus       139 ~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~~~  196 (302)
                      +++++++|..++-.         |...+    ..+...|+++++++++|||+++|-..
T Consensus       144 ~P~illlDEPts~L---------D~~~~----~~i~~~i~~l~~~~g~tvi~vtHd~~  188 (240)
T d2onka1         144 QPRLLLLDEPLSAV---------DLKTK----GVLMEELRFVQREFDVPILHVTHDLI  188 (240)
T ss_dssp             CCSSBEEESTTSSC---------CHHHH----HHHHHHHHHHHHHHTCCEEEEESCHH
T ss_pred             cCCceEecCccccC---------CHHHH----HHHHHHHHHHHHhcCCeEEEEeCCHH
Confidence            34888899887743         22222    36678888899999999999999643

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=98.41  E-value=2.1e-07  Score=77.96  Aligned_cols=50  Identities=22%  Similarity=0.282  Sum_probs=37.2

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      +.|+.+ +--+++|+++.|+||+|||||||+..++.... | ..     .-++|+...
T Consensus        29 ~~L~~i-sl~i~~Ge~iaivG~sGsGKSTLl~ll~gl~~-p-~~-----G~I~i~g~~   78 (253)
T d3b60a1          29 PALRNI-NLKIPAGKTVALVGRSGSGKSTIASLITRFYD-I-DE-----GHILMDGHD   78 (253)
T ss_dssp             CSEEEE-EEEECTTCEEEEEECTTSSHHHHHHHHTTTTC-C-SE-----EEEEETTEE
T ss_pred             ceeece-EEEEcCCCEEEEECCCCChHHHHHHHHhcccC-C-Cc-----cEEEECCcc
Confidence            356665 55799999999999999999999988876542 2 22     357777653

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=98.39  E-value=1e-06  Score=71.10  Aligned_cols=37  Identities=19%  Similarity=0.329  Sum_probs=31.0

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+.+ +--+++|+++.|.||+|||||||+..++...
T Consensus        15 ~vl~~i-s~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          15 PVLERI-TMTIEKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEEEE-EEEEETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEece-EEEEcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            456655 5679999999999999999999998887653

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=98.39  E-value=3.8e-07  Score=75.45  Aligned_cols=33  Identities=21%  Similarity=0.407  Sum_probs=27.9

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      |+.+ +.-+++|+++.|.||+|||||||+..++.
T Consensus        15 l~~i-sl~I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          15 LGPL-SGEVRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             SCSE-EEEEETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             ecCE-EEEEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            4443 45789999999999999999999988876

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.38  E-value=2.2e-06  Score=69.64  Aligned_cols=92  Identities=16%  Similarity=0.136  Sum_probs=57.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      +..++.++||+|+||||.+..+|..+.   ..|.   +|..|+++ +++.   +.|+..+..+          ++.+...
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~---~~~~---kV~lit~D-t~R~gA~eQL~~~a~~l----------~i~~~~~   72 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFV---DEGK---SVVLAAAD-TFRAAAIEQLKIWGERV----------GATVISH   72 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEEEEC-TTCHHHHHHHHHHHHHH----------TCEEECC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH---HCCC---ceEEEeec-ccccchhHHHHHHhhhc----------Ccccccc
Confidence            456899999999999999999998774   4454   78888877 5665   4455554432          3334333


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      .+..++.+++.........     ...++|+||....
T Consensus        73 ~~~~d~~~~~~~~~~~~~~-----~~~d~ilIDTaGr  104 (213)
T d1vmaa2          73 SEGADPAAVAFDAVAHALA-----RNKDVVIIDTAGR  104 (213)
T ss_dssp             STTCCHHHHHHHHHHHHHH-----TTCSEEEEEECCC
T ss_pred             CCCCcHHHHHHHHHHHHHH-----cCCCEEEEecccc
Confidence            3333344333332222221     3458999998764

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=98.34  E-value=2.1e-06  Score=69.50  Aligned_cols=53  Identities=25%  Similarity=0.271  Sum_probs=40.2

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHH
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHT   95 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~   95 (302)
                      ....++.++||+|+||||.+-.+|..+.   ..|.   +|..++++ +++.   +.|+..++.
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~---~~g~---kV~lit~D-t~R~gA~eQL~~~a~~   63 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYK---GKGR---RPLLVAAD-TQRPAAREQLRLLGEK   63 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHH---HTTC---CEEEEECC-SSCHHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHH---HCCC---cEEEEecc-cccchHHHHHHHHHHh
Confidence            3467899999999999999999998875   4554   88888886 5665   445445543

>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=98.30  E-value=6.6e-06  Score=69.12  Aligned_cols=135  Identities=16%  Similarity=0.184  Sum_probs=81.0

Q ss_pred             ccccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH
Q 022155            7 PQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM   86 (302)
Q Consensus         7 ~~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~   86 (302)
                      +.+..++....+.+.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.+.+.  ...+   .|+|.-..+.  .
T Consensus        39 ~p~~~~R~~i~~~l~TGIraID~l~--pigkGQr~~If~~~g~GKt~l~~~i~~~~~~--~~~~---v~V~~~iGer--~  109 (276)
T d2jdid3          39 APEFVEMSVEQEILVTGIKVVDLLA--PYAKGGKIGLFGGAGVGKTVLIMELINNVAK--AHGG---YSVFAGVGER--T  109 (276)
T ss_dssp             CCCGGGCCCCCCEECCSCHHHHHHS--CEETTCEEEEEECTTSSHHHHHHHHHHHHTT--TCSS---EEEEEEESCC--H
T ss_pred             CCChhHhcCCCcccccCceeeeeec--cccCCCEEEeeCCCCCCHHHHHHHHHHHHHh--hCCC---eEEEEEeccC--h
Confidence            3456777778899999999999997  5779999999999999999999999988632  1222   6788764432  2


Q ss_pred             HHHHHHHHHh---CCCCCCCCCCcEE-EEeCCC---HHHHHH--HHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           87 RRLHQLSHTF---RPSNDHNPCDYIF-VQSVHS---VDQLLD--IMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        87 ~rl~~i~~~~---~~~~~~~~l~~i~-~~~~~~---~~~l~~--~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +...++...+   ........+++.. +....+   ...+..  +-..+.+++..   ..+.--|+++||++.+..
T Consensus       110 ~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~---~~G~~VLv~~Dsltr~A~  182 (276)
T d2jdid3         110 REGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRD---QEGQDVLLFIDNIFRFTQ  182 (276)
T ss_dssp             HHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHH---TTCSCEEEEEECTHHHHH
T ss_pred             HHHHHHHHHHHhcCccccccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHh---cCCCeEEEEEcchhHHHH
Confidence            2232232222   1112223344433 333222   111111  11233344432   023447888899998653

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.29  E-value=8.1e-07  Score=74.99  Aligned_cols=125  Identities=13%  Similarity=0.149  Sum_probs=69.9

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEe
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQS  112 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~  112 (302)
                      .|++...-+.|+||||+|||+++..+|..+..         .+++++..         .+...                .
T Consensus        36 ~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~---------~~~~~~~~---------~l~~~----------------~   81 (265)
T d1r7ra3          36 FGMTPSKGVLFYGPPGCGKTLLAKAIANECQA---------NFISIKGP---------ELLTM----------------W   81 (265)
T ss_dssp             CCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTC---------EEEEECHH---------HHHTS----------------C
T ss_pred             CCCCCCCeEEEECCCCCcchhHHHHHHHHhCC---------cEEEEEHH---------Hhhhc----------------c
Confidence            47888888999999999999999999887621         56666522         11100                0


Q ss_pred             CCC-HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEE
Q 022155          113 VHS-VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVT  191 (302)
Q Consensus       113 ~~~-~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~  191 (302)
                      ... ...+..++...    ..     ..+.+|+||.+..++...-...........+++..++..|..+....++.||.+
T Consensus        82 ~~~~~~~l~~~f~~A----~~-----~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~t  152 (265)
T d1r7ra3          82 FGESEANVREIFDKA----RQ-----AAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGA  152 (265)
T ss_dssp             TTTHHHHHHHHHHHH----HH-----TCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEEC
T ss_pred             ccchHHHHHHHHHHH----Hh-----cCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEe
Confidence            111 12222233222    11     234999999999987432111111122233345666677766667778888888


Q ss_pred             ecccccCCC
Q 022155          192 NQVVDLMEP  200 (302)
Q Consensus       192 n~~~~~~~~  200 (302)
                      .+..+.++.
T Consensus       153 tn~~~~ld~  161 (265)
T d1r7ra3         153 TNRPDIIDP  161 (265)
T ss_dssp             CBSCTTTSC
T ss_pred             CCCchhCCH
Confidence            776555543

>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=98.28  E-value=2.2e-06  Score=71.45  Aligned_cols=117  Identities=15%  Similarity=0.082  Sum_probs=62.5

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      |++.-.-+.|+||||+|||+++..++....      -   .+++++..         .+...                ..
T Consensus        38 g~~~~~giLl~GppGtGKT~la~aia~~~~------~---~~~~i~~~---------~l~~~----------------~~   83 (247)
T d1ixza_          38 GARIPKGVLLVGPPGVGKTHLARAVAGEAR------V---PFITASGS---------DFVEM----------------FV   83 (247)
T ss_dssp             TCCCCSEEEEECCTTSSHHHHHHHHHHHTT------C---CEEEEEHH---------HHHHS----------------CT
T ss_pred             CCCCCceEEEecCCCCChhHHHHHHHHHcC------C---CEEEEEhH---------Hhhhc----------------cc
Confidence            555555689999999999999999997642      1   67888743         11110                00


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEe
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTN  192 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n  192 (302)
                      ...+   ..+..+-+....     ..+.+|+||++..++...-............++..++..+..+....++.||.++
T Consensus        84 g~~~---~~l~~~f~~a~~-----~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tT  154 (247)
T d1ixza_          84 GVGA---ARVRDLFETAKR-----HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT  154 (247)
T ss_dssp             THHH---HHHHHHHHHHTT-----SSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEE
T ss_pred             cHHH---HHHHHHHHHHHH-----cCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeC
Confidence            0111   112222222222     3348999999999874321111111122333455666666555455566666443

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.12  E-value=4.7e-06  Score=67.50  Aligned_cols=92  Identities=15%  Similarity=0.169  Sum_probs=52.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH---HHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM---RRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~---~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      ...++.++||+|+||||.+..+|..+.   ..|.   +|.+|+++ +++.   +.|+..+..+          ++.+...
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~---~~g~---kV~lit~D-t~R~ga~eQL~~~a~~l----------~v~~~~~   73 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYK---KKGF---KVGLVGAD-VYRPAALEQLQQLGQQI----------GVPVYGE   73 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHH---HTTC---CEEEEECC-CSSHHHHHHHHHHHHHH----------TCCEECC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH---HCCC---ceEEEEee-ccccchhHHHHHhcccc----------Ccceeec
Confidence            456899999999999999999998764   4454   78888877 5554   4555555443          2233333


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      .+..++.+.+.+.......     ...++|+||....
T Consensus        74 ~~~~~~~~~~~~a~~~~~~-----~~~d~IlIDTaGr  105 (211)
T d1j8yf2          74 PGEKDVVGIAKRGVEKFLS-----EKMEIIIVDTAGR  105 (211)
T ss_dssp             TTCCCHHHHHHHHHHHHHH-----TTCSEEEEECCCS
T ss_pred             ccchhhhHHHHHHHHHhhc-----cCCceEEEecCCc
Confidence            3333444333332112111     3469999997664

>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=98.11  E-value=7.2e-06  Score=69.06  Aligned_cols=128  Identities=16%  Similarity=0.207  Sum_probs=79.1

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR   87 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~   87 (302)
                      .+..++....+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+..   ....   .|+|.-...  ...
T Consensus        39 p~~~~R~~~~~~l~TGi~~ID~l~--pig~GQr~~Ifg~~g~GKt~l~~~~~~~~~---~~~~---v~V~~~iGe--r~~  108 (276)
T d1fx0a3          39 PGIMSRRSVYEPLQTGLIAIDAMI--PVGRGQRELIIGDRQTGKTAVATDTILNQQ---GQNV---ICVYVAIGQ--KAS  108 (276)
T ss_dssp             CCSSSBCCCCSBCCCSCTTTTTTS--CCBTTCBCBEEESSSSSHHHHHHHHHHTCC---TTTC---EEEEEEESC--CHH
T ss_pred             cChhhccCCCccccccceEEeccc--cccCCceEeeccCCCCChHHHHHHHHhhhc---ccCc---eeeeeeecc--hhH
Confidence            346777777889999999999987  577999999999999999999998776642   2222   677765332  233


Q ss_pred             HHHHHHHHhCCCCCCCCCCcEEE-EeCCCH---HHHH--HHHHHHHHHHHhccCCCCCeeEEEEechhhhh
Q 022155           88 RLHQLSHTFRPSNDHNPCDYIFV-QSVHSV---DQLL--DIMPKIESFIKNSSNSRLPIRLIVIDSIAALF  152 (302)
Q Consensus        88 rl~~i~~~~~~~~~~~~l~~i~~-~~~~~~---~~l~--~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~  152 (302)
                      ...++...+..   ...+++..+ ....+.   ....  ..-..+.+++.+    .+.--|+++||++.+.
T Consensus       109 Ev~e~~~~~~~---~~~~~~tvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd----~G~~Vlll~Dsltr~A  172 (276)
T d1fx0a3         109 SVAQVVTNFQE---RGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMY----RERHTLIIYDDLSKQA  172 (276)
T ss_dssp             HHHHHHHHTGG---GTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHH----TTCEEEEEEECHHHHH
T ss_pred             HHHHHHHhhcc---CCcceeeeecccccCccHHHHHHHHHHHHHHHHHHHH----cCCceeEEeeccHHHH
Confidence            34444443321   134444433 322111   1111  111233445544    3444789999999864

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.05  E-value=1.1e-06  Score=69.00  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=20.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|.||||+|||||+..++...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            6899999999999999999875

>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=98.00  E-value=2e-05  Score=66.57  Aligned_cols=134  Identities=14%  Similarity=0.199  Sum_probs=79.3

Q ss_pred             cccccCCCCCCccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCC---CCCCeEEEEeCCCCC
Q 022155            8 QNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHG---GLSASSLYLHTEFPF   84 (302)
Q Consensus         8 ~~l~~~~~~~~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~g---g~~~~vlyid~e~~~   84 (302)
                      .+..++....+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+++++++.+.... ..+   .....|+|.-.... 
T Consensus        40 p~~~~R~~i~e~l~TGIraID~l~--pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~-~~~~~~~~~~~~v~~~IGer-  115 (285)
T d2jdia3          40 PGIIPRISVREPMQTGIKAVDSLV--PIGRGQRELIIGDRQTGKTSIAIDTIINQKRF-NDGTDEKKKLYCIYVAIGQK-  115 (285)
T ss_dssp             CCSTTBCCCCSBCCCSCHHHHHHS--CCBTTCBCEEEESTTSSHHHHHHHHHHHTHHH-HTSSCTTTCCEEEEEEESCC-
T ss_pred             cCchhccCCCcccccCceEEeccc--CccCCCEEEeecCCCCChHHHHHHHHHhHHhh-ccccccccceEEEEeeeCcc-
Confidence            346677777899999999999997  57899999999999999999999998875210 000   00114566553322 


Q ss_pred             CHHHHHHHHHHhCCCCCCCCCCcEE-EEeCCC--HH-HHHH--HHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155           85 PMRRLHQLSHTFRPSNDHNPCDYIF-VQSVHS--VD-QLLD--IMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus        85 ~~~rl~~i~~~~~~~~~~~~l~~i~-~~~~~~--~~-~l~~--~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                       .+...++...+..   ...+++.. +....+  .. ....  +-..+.+++.+    .++--|+++||++.+..
T Consensus       116 -~~E~~e~~~~~~~---~~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd----~G~~VLll~Dsltr~A~  182 (285)
T d2jdia3         116 -RSTVAQLVKRLTD---ADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRD----NGKHALIIYDDLSKQAV  182 (285)
T ss_dssp             -HHHHHHHHHHHHH---TTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHH----TTCEEEEEEETHHHHHH
T ss_pred             -HHHHHHHHHHhcc---cccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH----cCCcEEEEEcChHHHHH
Confidence             3333333333211   12345543 333322  11 1111  11234445544    34447889999998653

>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=97.95  E-value=8.4e-06  Score=68.22  Aligned_cols=30  Identities=20%  Similarity=0.156  Sum_probs=25.2

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+++-.-+.|+||||+|||+++..+|...
T Consensus        33 ~g~~~~~giLL~GppGtGKT~l~~ala~~~   62 (258)
T d1e32a2          33 IGVKPPRGILLYGPPGTGKTLIARAVANET   62 (258)
T ss_dssp             CCCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCCCceeEEecCCCCCchHHHHHHHHHh
Confidence            366666668999999999999999998875

>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=97.87  E-value=7.8e-05  Score=60.26  Aligned_cols=35  Identities=20%  Similarity=0.284  Sum_probs=28.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +-|+||+|+|||.|+..++....   ..+.   .++|++..
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~---~~~~---~~~~~~~~   73 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAK---KRGY---RVIYSSAD   73 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH---HTTC---CEEEEEHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHhc---cCcc---ceEEechH
Confidence            67999999999999999988764   3343   78999855

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.81  E-value=2.1e-05  Score=61.58  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=21.6

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.-.++.++|+|||||||++.+++.
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999987753

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=97.81  E-value=1.6e-05  Score=68.22  Aligned_cols=125  Identities=20%  Similarity=0.154  Sum_probs=68.9

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHN  103 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~  103 (302)
                      .+.+...|+ .-.+..+..++||||+|||.++..+|..+.    ..-   .-+.++...                     
T Consensus       110 ~~~~~~~~~-~~~~~g~~l~~G~pG~GKT~la~ala~~~~----~~~---~~~~~~~~~---------------------  160 (321)
T d1w44a_         110 SPVVAEFGG-HRYASGMVIVTGKGNSGKTPLVHALGEALG----GKD---KYATVRFGE---------------------  160 (321)
T ss_dssp             CCEEEEETT-EEEESEEEEEECSSSSCHHHHHHHHHHHHH----TTS---CCEEEEBSC---------------------
T ss_pred             chHHHHHhh-cccCCceEEEECCCCccHHHHHHHHHHHhc----CCC---CeEEEEhhH---------------------
Confidence            344555552 233455778899999999999999998752    000   123344332                     


Q ss_pred             CCCcEEEEeCCCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHH
Q 022155          104 PCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVG  183 (302)
Q Consensus       104 ~l~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~  183 (302)
                      +++. +  .-.....+.+++.+..    +       ..+|+||+|.++...--.+..  .....+.+.+++..+..+...
T Consensus       161 ~~~~-~--~G~~e~~~~~~f~~a~----~-------~~ilf~DEid~~~~~r~~~~~--~~~~~r~v~~lL~e~dg~~~~  224 (321)
T d1w44a_         161 PLSG-Y--NTDFNVFVDDIARAML----Q-------HRVIVIDSLKNVIGAAGGNTT--SGGISRGAFDLLSDIGAMAAS  224 (321)
T ss_dssp             SSTT-C--BCCHHHHHHHHHHHHH----H-------CSEEEEECCTTTC-------------CCHHHHHHHHHHHHHHHH
T ss_pred             hhhc-c--cchHHHHHHHHHHHHh----h-------ccEEEeehhhhhccccccCCC--CCcchhhhhhhhhhccccccC
Confidence            1111 0  1112223333443322    1       279999999997643211111  111123567788888888888


Q ss_pred             cCcEEEEEec
Q 022155          184 FGLAVLVTNQ  193 (302)
Q Consensus       184 ~~~~viv~n~  193 (302)
                      .++-||.++.
T Consensus       225 ~~v~viaatN  234 (321)
T d1w44a_         225 RGCVVIASLN  234 (321)
T ss_dssp             HTCEEEEECC
T ss_pred             CCeEEEEeCC
Confidence            8998888876

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.71  E-value=6.2e-05  Score=62.29  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .-+.|+||||+|||++|..+|..+
T Consensus        41 ~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhhcc
Confidence            457899999999999999998775

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.70  E-value=4.4e-05  Score=59.92  Aligned_cols=130  Identities=16%  Similarity=0.099  Sum_probs=67.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEe-CCCHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQS-VHSVDQ  118 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~-~~~~~~  118 (302)
                      ++.|.|.+.||||.+|.+++..       ++   +++||.|-..++.+..+++..... ..+    .+..... +.+..+
T Consensus         1 iiLVtGGarSGKS~~AE~l~~~-------~~---~~~YiAT~~~~D~em~~RI~~Hr~-rR~----~~w~tiE~~~~l~~   65 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALIGD-------AP---QVLYIATSQILDDEMAARIQHHKD-GRP----AHWRTAECWRHLDT   65 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS-------CS---SEEEEECCCC------CHHHHHHH-TSC----TTEEEECCSSCGGG
T ss_pred             CEEEECCCCccHHHHHHHHHhc-------CC---CcEEEEccCCCCHHHHHHHHHHHh-cCc----CCCEEecccccHHH
Confidence            5789999999999999987521       22   799999988777654444443321 111    2222222 233222


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCC-----hh--hH-HHHHHHHHHHHHHHHHHHHHcCcEEEE
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNT-----MD--DL-KKRSFLFFKISGMLKAMAVGFGLAVLV  190 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~-----~~--~~-~~r~~~l~~l~~~L~~la~~~~~~viv  190 (302)
                         .+.   ..       ..+-+.|+||+++.+....+-..     ..  +. .....+..++...+..+.+...-.|||
T Consensus        66 ---~l~---~~-------~~~~~~vLlDclt~~l~N~l~~~~~~~~~~~~~~~~~~~~i~~~i~~l~~~l~~~~~~~ViV  132 (180)
T d1c9ka_          66 ---LIT---AD-------LAPDDAILLECITTMVTNLLFALGGENDPEQWDYAAMERAIDDEIQILIAACQRCPAKVVLV  132 (180)
T ss_dssp             ---TSC---TT-------SCTTCEEEEECHHHHHHHHHHHC----CTTSCCHHHHHHHHHHHHHHHHHHHHHCCSEEEEE
T ss_pred             ---HHH---hh-------cCcccchhhhhhhHHHHHHHHhcccccchhhhhhhhHHHHHHHHHHHHHHHHHhCCCcEEEE
Confidence               111   11       12348999999998765433110     00  00 112223334444455555544557777


Q ss_pred             Eeccccc
Q 022155          191 TNQVVDL  197 (302)
Q Consensus       191 ~n~~~~~  197 (302)
                      +|.+...
T Consensus       133 snEVG~G  139 (180)
T d1c9ka_         133 TNEVGMG  139 (180)
T ss_dssp             CCCCCSS
T ss_pred             ecccCCC
Confidence            7887543

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.59  E-value=0.00036  Score=57.20  Aligned_cols=49  Identities=14%  Similarity=-0.071  Sum_probs=35.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHH
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQL   92 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i   92 (302)
                      ......+.|+||||+|||+++..+|....      .   .+.+++.........+...
T Consensus        49 ~~~~~~lll~GPpG~GKTt~a~~la~~~~------~---~~~~~~~~~~~~~~~~~~~   97 (253)
T d1sxja2          49 SGVFRAAMLYGPPGIGKTTAAHLVAQELG------Y---DILEQNASDVRSKTLLNAG   97 (253)
T ss_dssp             TTSCSEEEEECSTTSSHHHHHHHHHHHTT------C---EEEEECTTSCCCHHHHHHT
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHHH------h---hhhccccccchhhHHHHHH
Confidence            34446799999999999999999987752      1   6777776655454555443

>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=97.57  E-value=3e-05  Score=59.56  Aligned_cols=36  Identities=22%  Similarity=0.237  Sum_probs=28.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++.|+|++|||||||+.+++....   ..|.   ++..+..+
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~---~~g~---~v~v~~~d   39 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALC---ARGI---RPGLIKHT   39 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH---HTTC---CEEEEEEC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH---HCCC---eEEEeccc
Confidence            789999999999999999998764   4454   56666544

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=97.54  E-value=0.00032  Score=56.94  Aligned_cols=117  Identities=15%  Similarity=0.149  Sum_probs=64.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC--CC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV--HS  115 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~--~~  115 (302)
                      .+++.|.||+.+|||+++.+++..+.+.  +-|     .|+.++...                 -...++|+..-.  .+
T Consensus        35 ~~~~iiTGpN~~GKSt~lk~i~l~~ilA--q~G-----~~vpA~~~~-----------------i~~~d~I~~~~~~~d~   90 (224)
T d1ewqa2          35 HELVLITGPNMAGKSTFLRQTALIALLA--QVG-----SFVPAEEAH-----------------LPLFDGIYTRIGASDD   90 (224)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHHHHH--TTT-----CCBSSSEEE-----------------ECCCSEEEEECCC---
T ss_pred             CcEEEEECCCccccchhhhhhHHHHHHH--hcc-----ceeecCceE-----------------EeecceEEEEECCCcc
Confidence            3589999999999999999999887542  222     233333200                 012344443211  11


Q ss_pred             H----HHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEE
Q 022155          116 V----DQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVT  191 (302)
Q Consensus       116 ~----~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~  191 (302)
                      .    ..+..-+.++..++..    ..+-.||+||++..=-         +..+...+...+++.|   ++ +++.++++
T Consensus        91 ~~~~~StF~~el~~~~~il~~----~~~~sLvliDE~~~gT---------~~~eg~ala~aile~L---~~-~~~~~i~t  153 (224)
T d1ewqa2          91 LAGGKSTFMVEMEEVALILKE----ATENSLVLLDEVGRGT---------SSLDGVAIATAVAEAL---HE-RRAYTLFA  153 (224)
T ss_dssp             ---CCSHHHHHHHHHHHHHHH----CCTTEEEEEESTTTTS---------CHHHHHHHHHHHHHHH---HH-HTCEEEEE
T ss_pred             ccCCccHHHHhHHHHHHHhcc----CCCCcEEeecccccCc---------chhhhcchHHHHHHHH---hh-cCcceEEe
Confidence            1    1123334455555654    1223899999987621         2244444445555554   43 47777777


Q ss_pred             eccc
Q 022155          192 NQVV  195 (302)
Q Consensus       192 n~~~  195 (302)
                      +|..
T Consensus       154 TH~~  157 (224)
T d1ewqa2         154 THYF  157 (224)
T ss_dssp             CCCH
T ss_pred             eech
Confidence            7754

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.50  E-value=3.4e-05  Score=59.66  Aligned_cols=36  Identities=25%  Similarity=0.349  Sum_probs=27.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .|+++.|.|+|||||||+|..++...      |.   ..++++.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l------g~---~~~~~~~d   38 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP------GV---PKVHFHSD   38 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS------SS---CEEEECTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh------CC---CEEEecHH
Confidence            48899999999999999998776532      22   56777754

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.49  E-value=3.5e-05  Score=59.82  Aligned_cols=25  Identities=20%  Similarity=0.179  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      +.+.|+||||+|||||+.+++..+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            3588999999999999999998874

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.43  E-value=0.00065  Score=55.44  Aligned_cols=119  Identities=16%  Similarity=0.214  Sum_probs=65.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC-CCHHHHHHHHHHhCCCCCCCCCCcEEEEe--C
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP-FPMRRLHQLSHTFRPSNDHNPCDYIFVQS--V  113 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~-~~~~rl~~i~~~~~~~~~~~~l~~i~~~~--~  113 (302)
                      ...++.|.||+.+|||+++.+++..+.+. ..|      .|+-.+.. +                  ...++|+..-  .
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~~la-q~G------~~VpA~~a~~------------------~~~d~I~~~~~~~   94 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIALMA-YIG------SYVPAQKVEI------------------GPIDRIFTRVGAA   94 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHH-TTT------CCBSSSEEEE------------------CCCCEEEEEEC--
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHHHHH-HcC------CeEecCceec------------------ccchhheeEEccC
Confidence            35789999999999999999999887542 222      22332210 0                  1235554321  1


Q ss_pred             CCHH----HHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEE
Q 022155          114 HSVD----QLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVL  189 (302)
Q Consensus       114 ~~~~----~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~vi  189 (302)
                      .+..    .+..-+.++..++..    ..+-.||+||++..--.         ..+...+..   ..|..+..+.++.+|
T Consensus        95 d~~~~~~S~F~~E~~~~~~il~~----~~~~sLvliDE~~~gT~---------~~eg~~l~~---a~l~~l~~~~~~~~i  158 (234)
T d1wb9a2          95 DDLASGRSTFMVEMTETANILHN----ATEYSLVLMDEIGRGTS---------TYDGLSLAW---ACAENLANKIKALTL  158 (234)
T ss_dssp             ---------CHHHHHHHHHHHHH----CCTTEEEEEESCCCCSS---------SSHHHHHHH---HHHHHHHHTTCCEEE
T ss_pred             cccccchhHHHHHHHHHHHHHHh----cccccEEeecccccCCC---------hhhhhHHHH---HhhhhhhccccceEE
Confidence            1111    122223445555544    22338999999876211         122222222   334556667788999


Q ss_pred             EEecccc
Q 022155          190 VTNQVVD  196 (302)
Q Consensus       190 v~n~~~~  196 (302)
                      +++|...
T Consensus       159 ~tTH~~~  165 (234)
T d1wb9a2         159 FATHYFE  165 (234)
T ss_dssp             EECSCGG
T ss_pred             EecchHH
Confidence            9999754

>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=97.41  E-value=5.7e-05  Score=57.04  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.|+|+|||||||+|..++..
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999988665

>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=97.38  E-value=4.7e-05  Score=58.46  Aligned_cols=24  Identities=21%  Similarity=0.421  Sum_probs=21.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|+|||||||||+|..++...
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            578999999999999999998764

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.37  E-value=1.6e-05  Score=67.20  Aligned_cols=39  Identities=21%  Similarity=0.352  Sum_probs=31.7

Q ss_pred             CChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           23 GCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        23 G~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |-+.|+++ +--+++|+++.|+||+|||||||+..++...
T Consensus        48 g~pvL~~i-sl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          48 GNPVLKNI-NLNIEKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TCEEEEEE-EEEECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCeEEeCe-EEEEcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            44455554 4578999999999999999999998887764

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.35  E-value=6.4e-05  Score=57.93  Aligned_cols=27  Identities=19%  Similarity=0.260  Sum_probs=24.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |++..+.|+|+|||||||+|..|+...
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            678899999999999999999998764

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=97.33  E-value=0.0002  Score=60.16  Aligned_cols=44  Identities=18%  Similarity=0.151  Sum_probs=38.2

Q ss_pred             CccccCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        18 ~~i~tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      ....+|...+|-++  -|-+|+-..|.|++|+|||+|+.+++.+..
T Consensus        25 ~~~~~~~r~ID~l~--PigrGQr~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          25 STEDLTARVLDLAS--PIGRGQRGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             CSTHHHHHHHHHHS--CCBTTCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             Ccccccceeeeecc--cccCCCeeeEeCCCCCCHHHHHHHHHHHHh
Confidence            34567788999987  578999999999999999999999998764

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.32  E-value=7.2e-05  Score=57.51  Aligned_cols=27  Identities=26%  Similarity=0.284  Sum_probs=24.0

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.++.|+|+|||||||++..++...
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999998875

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.30  E-value=7.9e-05  Score=58.74  Aligned_cols=35  Identities=23%  Similarity=0.208  Sum_probs=28.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |+|--+.|.|||||||||+|..||...           +..||++.
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~~~-----------g~~~i~~g   35 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAKNF-----------CVCHLATG   35 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHH-----------TCEEEEHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHHHh-----------CCeEEeHH
Confidence            567777799999999999999998765           35778764

>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=97.29  E-value=8.2e-05  Score=58.80  Aligned_cols=25  Identities=20%  Similarity=0.369  Sum_probs=22.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..++.|+|||||||||+|..|+...
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999998765

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=97.29  E-value=0.00041  Score=58.15  Aligned_cols=51  Identities=20%  Similarity=0.103  Sum_probs=35.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      ...++.|+|.+|.||||||.+++.....  ..+.....++|++....++...+
T Consensus        43 ~~~~v~I~GmgGiGKTtLA~~v~~~~~~--~~~~~f~~~~Wv~vs~~~~~~~l   93 (277)
T d2a5yb3          43 DSFFLFLHGRAGSGKSVIASQALSKSDQ--LIGINYDSIVWLKDSGTAPKSTF   93 (277)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHCSS--TBTTTBSEEEEEECCCCSTTHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhhhh--hhhhcCceEEEEEecCCCCHHHH
Confidence            4679999999999999999988765321  01111226899987777766554

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.28  E-value=7.7e-05  Score=57.56  Aligned_cols=27  Identities=19%  Similarity=0.101  Sum_probs=24.4

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|.++.|+|+|||||||++..++...
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999999998775

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=4.7e-05  Score=59.91  Aligned_cols=30  Identities=30%  Similarity=0.344  Sum_probs=25.9

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      +|. +|.++.|+|+|||||||+|..++....
T Consensus        15 ~~~-~g~vI~L~G~pGSGKTTiAk~La~~l~   44 (195)
T d1x6va3          15 GGF-RGCTVWLTGLSGAGKTTVSMALEEYLV   44 (195)
T ss_dssp             CSC-CCEEEEEESSCHHHHHHHHHHHHHHHH
T ss_pred             cCC-CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            355 688999999999999999999988764

>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=97.25  E-value=9.6e-05  Score=58.53  Aligned_cols=35  Identities=23%  Similarity=0.249  Sum_probs=28.6

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.-.++.|.|||||||||+|..++...           +..||++.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~-----------g~~~is~g   40 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY-----------SFVHLSAG   40 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS-----------SCEEEEHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh-----------CCeEEehh
Confidence            345689999999999999999998765           46788864

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.22  E-value=0.00017  Score=55.35  Aligned_cols=37  Identities=19%  Similarity=0.147  Sum_probs=29.2

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +++.|+|++|||||||+..++....   ..|.   +|..|..+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~---~~g~---~v~vik~d   38 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAV---REGW---RVGTVKHH   38 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH---HTTC---CEEEEECC
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH---hCCC---eEEEEEec
Confidence            4789999999999999999998864   4554   66666543

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.22  E-value=8.7e-05  Score=58.76  Aligned_cols=35  Identities=26%  Similarity=0.260  Sum_probs=29.0

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+.++.|.|||||||||+|..++..+           +..+|++.
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~~-----------g~~~is~g   40 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQKY-----------GYTHLSTG   40 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHHT-----------CCEEEEHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHh-----------CCeeEecc
Confidence            457899999999999999999998765           35777764

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.21  E-value=0.00011  Score=56.40  Aligned_cols=25  Identities=20%  Similarity=0.150  Sum_probs=22.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+++.|+|+|||||||+|..++...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999999999999999998874

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=97.21  E-value=0.00012  Score=63.91  Aligned_cols=40  Identities=25%  Similarity=0.248  Sum_probs=33.0

Q ss_pred             CCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           33 GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        33 GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -|+|.+..+.|+||||+|||+||..+|..+      |+   +++.|+..
T Consensus       149 ~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~------~~---~~i~in~s  188 (362)
T d1svma_         149 YNIPKKRYWLFKGPIDSGKTTLAAALLELC------GG---KALNVNLP  188 (362)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHH------CC---EEECCSSC
T ss_pred             hCCCCcCeEEEECCCCCCHHHHHHHHHHHc------CC---CEEEEECc
Confidence            378999999999999999999999998875      33   66666544

>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=97.20  E-value=0.00011  Score=55.59  Aligned_cols=23  Identities=30%  Similarity=0.280  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|||||||||+|..+|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            46778999999999999998874

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=97.20  E-value=0.0015  Score=53.36  Aligned_cols=53  Identities=15%  Similarity=0.145  Sum_probs=35.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH-HHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR-RLHQLSHT   95 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~-rl~~i~~~   95 (302)
                      ...+.|+||||+|||+++..++..+.  ...+   ..++|+......... .+..+...
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~l~--~~~~---~~~~~~~~~~~~~~~~~~~~~~~~   96 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWELYK--DKTT---ARFVYINGFIYRNFTAIIGEIARS   96 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT--TSCC---CEEEEEETTTCCSHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHh--cccC---CcEEEecchhhhhhhhhhhhhHHh
Confidence            34788999999999999999988753  1122   267788776544443 33444443

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.14  E-value=0.00016  Score=59.78  Aligned_cols=27  Identities=22%  Similarity=0.188  Sum_probs=22.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .....+.|+||||||||++|..+|...
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            334569999999999999999998875

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.14  E-value=0.00033  Score=57.92  Aligned_cols=98  Identities=12%  Similarity=0.106  Sum_probs=50.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHH-HHHHHHHHhCCCCCCCCCCcEEEEeCCCHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMR-RLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ  118 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~-rl~~i~~~~~~~~~~~~l~~i~~~~~~~~~~  118 (302)
                      ++.|+||||+|||+++..++....-..........++|++....-... .+...........         .........
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~  118 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPI---------QVRGAPALD  118 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCC---------CCTTCCHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhccccc---------ccccchHHH
Confidence            456679999999999999887642000001112267777765433332 2233333222111         112223333


Q ss_pred             HHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhh
Q 022155          119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFR  153 (302)
Q Consensus       119 l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~  153 (302)
                      +...+.   .....    .....++++|.+..+..
T Consensus       119 ~~~~l~---~~~~~----~~~~~~~iide~d~l~~  146 (287)
T d1w5sa2         119 ILKALV---DNLYV----ENHYLLVILDEFQSMLS  146 (287)
T ss_dssp             HHHHHH---HHHHH----HTCEEEEEEESTHHHHS
T ss_pred             HHHHHH---HHHHh----ccCccccceeEEEEecc
Confidence            333332   22222    23557888999888753

>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=97.14  E-value=0.00014  Score=55.66  Aligned_cols=22  Identities=27%  Similarity=0.344  Sum_probs=19.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|+|||||||+|..++...
T Consensus         7 I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6699999999999999998764

>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=97.13  E-value=0.00012  Score=56.73  Aligned_cols=25  Identities=16%  Similarity=0.224  Sum_probs=22.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.+.|.|+|||||||||..|+...
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            3578999999999999999998875

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.12  E-value=0.00045  Score=56.15  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+||||+|||++|..+|..+
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhcc
Confidence            37899999999999999988875

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.04  E-value=0.00016  Score=59.07  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=20.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+||||+|||++|..++..+
T Consensus        38 ~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          38 LLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999998875

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.03  E-value=0.00019  Score=56.52  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|||||||||.|..+|...
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68899999999999999998765

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.00019  Score=57.55  Aligned_cols=32  Identities=19%  Similarity=0.318  Sum_probs=27.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++.|.|||||||||.|..|+...           +..|++|-.
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~-----------gl~~iStGd   36 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEAL-----------QWHLLDSGA   36 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH-----------TCEEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----------CCcEECHHH
Confidence            89999999999999999999886           467888663

>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=96.98  E-value=0.00035  Score=53.97  Aligned_cols=25  Identities=12%  Similarity=0.088  Sum_probs=22.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      +++.|.|+|||||||++..++..+.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999987753

>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=96.96  E-value=0.00023  Score=57.22  Aligned_cols=32  Identities=19%  Similarity=0.173  Sum_probs=26.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ++.|.|||||||||.|..||..+           +..|++|-.
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l-----------g~~~istGd   36 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF-----------GFTYLDTGA   36 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH-----------CCEEEEHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----------CCcEECHHH
Confidence            56788999999999999999886           457888653

>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=96.94  E-value=0.00025  Score=55.55  Aligned_cols=23  Identities=30%  Similarity=0.302  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++||||||||..++...
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            67899999999999999998765

>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=96.91  E-value=0.00028  Score=55.07  Aligned_cols=25  Identities=20%  Similarity=0.174  Sum_probs=22.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |.++.|+|||||||||++..++...
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            8899999999999999998887663

>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=96.91  E-value=0.0002  Score=55.60  Aligned_cols=22  Identities=18%  Similarity=0.214  Sum_probs=19.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|.|||||||||+|..||...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998875

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.90  E-value=0.00045  Score=54.39  Aligned_cols=33  Identities=18%  Similarity=0.148  Sum_probs=26.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..-+.|.|||||||||+|..||..+           +..+|++.
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~-----------g~~~is~g   38 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF-----------ELKHLSSG   38 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB-----------CCEEEEHH
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH-----------CCeEEcHH
Confidence            3456788999999999999998875           35778764

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.89  E-value=0.00025  Score=55.37  Aligned_cols=23  Identities=17%  Similarity=0.120  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|||||||||+|..||...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999998875

>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=96.87  E-value=0.00021  Score=55.19  Aligned_cols=31  Identities=19%  Similarity=0.237  Sum_probs=25.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .+.|+|+|||||||++..+|...           +.-|+|++
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L-----------g~~~id~D   34 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL-----------GYEFVDTD   34 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH-----------TCEEEEHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-----------CCCEEehh
Confidence            35688999999999999998765           35688865

>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=96.83  E-value=0.0012  Score=54.83  Aligned_cols=117  Identities=14%  Similarity=0.145  Sum_probs=64.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccC---CCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQL---PSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l---~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      ...-..|+||||+|||+++..+|....-   |....  ...++.+|...                         + +...
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~--~~~i~~l~~~~-------------------------l-iag~   89 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMA--DCTIYSLDIGS-------------------------L-LAGT   89 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGT--TCEEEECCCC-----------------------------CCC
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccc--cceeEEeeech-------------------------H-hccC
Confidence            3456889999999999999999887531   11111  11333344331                         0 0001


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      ....++.+.+..+.+.+..     .+--+++||.+..++...-..++ +        ..+.+.|+.+..+-++.||.++.
T Consensus        90 ~~~g~~e~r~~~i~~~~~~-----~~~iIlfiDeih~l~~~g~~~g~-~--------~d~a~~Lkp~L~rg~i~vIgatT  155 (268)
T d1r6bx2          90 KYRGDFEKRFKALLKQLEQ-----DTNSILFIDEIHTIIGAGAASGG-Q--------VDAANLIKPLLSSGKIRVIGSTT  155 (268)
T ss_dssp             CCSSCHHHHHHHHHHHHSS-----SSCEEEEETTTTTTTTSCCSSSC-H--------HHHHHHHSSCSSSCCCEEEEEEC
T ss_pred             ccchhHHHHHHHHHHHhhc-----cCCceEEecchHHHhcCCCCCCc-c--------ccHHHHhhHHHhCCCCeEEEeCC
Confidence            1111223333333333322     23368899999998854322211 1        24567777777777899998876


Q ss_pred             cc
Q 022155          194 VV  195 (302)
Q Consensus       194 ~~  195 (302)
                      ..
T Consensus       156 ~e  157 (268)
T d1r6bx2         156 YQ  157 (268)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=96.82  E-value=0.00031  Score=59.92  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=21.8

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |++ -+.++||||+|||.||..+|..+
T Consensus        48 ~~~-~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          48 TPK-NILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             CCC-CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCc-eEEEECCCCCCHHHHHHHHhhcc
Confidence            454 45689999999999999999875

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.80  E-value=0.00029  Score=54.70  Aligned_cols=23  Identities=13%  Similarity=-0.019  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|||||||||.|..|+...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999998775

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.75  E-value=0.00041  Score=53.98  Aligned_cols=30  Identities=23%  Similarity=0.211  Sum_probs=24.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.|.|||||||||+|..|+...           +..+|++.
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~-----------g~~~i~~~   34 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF-----------HAAHLATG   34 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH-----------CCEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----------CCceEecc
Confidence            5678999999999999998765           35677754

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.73  E-value=0.0012  Score=56.53  Aligned_cols=95  Identities=12%  Similarity=0.105  Sum_probs=56.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCH-------HHHHHHHHHhCCCCCCCCCCcEE
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPM-------RRLHQLSHTFRPSNDHNPCDYIF  109 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~-------~rl~~i~~~~~~~~~~~~l~~i~  109 (302)
                      ..-++.|.|+||+|||||.-.++....   ..| ....|+-+|...+++-       .|+.+.          ..-.+++
T Consensus        50 ~~~~igitG~pGaGKSTli~~l~~~~~---~~g-~~vaViavDpss~~~gg~llgdr~rm~~~----------~~~~~~~  115 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTIDALGSLLT---AAG-HKVAVLAVDPSSTRTGGSILGDKTRMARL----------AIDRNAF  115 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHHH---HTT-CCEEEEEECGGGGSSCCCSSCCGGGSTTG----------GGCTTEE
T ss_pred             CceEEeeeCCCCCCHHHHHHHHHHHHh---hcC-CceeeeecccccHHHHhccccchhhHHHH----------hccccee
Confidence            567799999999999999999987753   223 3446777776544321       111111          1235677


Q ss_pred             EEeCCC---HHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhh
Q 022155          110 VQSVHS---VDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAA  150 (302)
Q Consensus       110 ~~~~~~---~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~  150 (302)
                      +....+   ...+.........+++.     .+.++|+|.++..
T Consensus       116 ir~~~~~~~~gg~~~~~~~~i~~~~~-----~g~d~iiiETVG~  154 (323)
T d2qm8a1         116 IRPSPSSGTLGGVAAKTRETMLLCEA-----AGFDVILVETVGV  154 (323)
T ss_dssp             EECCCCCSSHHHHHHHHHHHHHHHHH-----TTCCEEEEEECSS
T ss_pred             eccccccccccchhHHHHHHHHhhcc-----CCCCeEEEeehhh
Confidence            765443   33344444444444443     4568888887654

>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=96.73  E-value=0.00042  Score=53.04  Aligned_cols=30  Identities=20%  Similarity=0.376  Sum_probs=24.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.|+|+|||||||++..+|...           ..-|+|++
T Consensus         3 I~liG~~GsGKsTi~k~La~~l-----------~~~~~d~d   32 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL-----------DLVFLDSD   32 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH-----------TCEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----------CCCEEecC
Confidence            5677999999999999998875           35778864

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.71  E-value=0.00052  Score=55.50  Aligned_cols=36  Identities=22%  Similarity=0.229  Sum_probs=26.6

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|-..+..+-.+  .+.|+||||+|||+++..++..+
T Consensus        22 ~~l~~~i~~~~~~--~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          22 TVLKKTLKSANLP--HMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             HHHHHHTTCTTCC--CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCC--eEEEECCCCCChHHHHHHHHHHH
Confidence            3556665543222  27899999999999999998875

>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=96.69  E-value=0.0051  Score=52.49  Aligned_cols=44  Identities=14%  Similarity=0.194  Sum_probs=30.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPF   84 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~   84 (302)
                      ..-++.|.|+||+|||||...++....   ..|. ...++-+|...++
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~---~~g~-~vavlavDpss~~   96 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLI---REGL-KVAVIAVDPSSPV   96 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHH---HTTC-CEEEEEECCC---
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHH---hcCC-ceeeecCCCceee
Confidence            577899999999999999999988763   3343 2345556644333

>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=96.63  E-value=0.00057  Score=54.09  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.++|.|||||||++..|+...
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            378999999999999999999765

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.60  E-value=0.0011  Score=51.24  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +++.|.|+|||||||++..++...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999999998775

>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=96.59  E-value=0.00057  Score=53.52  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|||||||||+|..|+...
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999998887765

>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=96.57  E-value=0.00048  Score=52.76  Aligned_cols=22  Identities=32%  Similarity=0.380  Sum_probs=18.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|.|+|||||||++..++...
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            3466999999999999998765

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.56  E-value=0.00061  Score=52.90  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|.|||||||||+|..|+..+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36788999999999999998775

>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=96.54  E-value=0.0012  Score=54.80  Aligned_cols=40  Identities=15%  Similarity=0.216  Sum_probs=34.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      ...++.++|.-|+||||++.++|...+   ..|.   +|+.||++-
T Consensus        19 ~~~iii~sGKGGVGKTT~a~nLA~~lA---~~G~---rVllvD~Dp   58 (279)
T d1ihua2          19 EHGLIMLMGKGGVGKTTMAAAIAVRLA---DMGF---DVHLTTSDP   58 (279)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEESCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH---HCCC---cEEEEeCCC
Confidence            467889999999999999999999876   5665   899999884

>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=96.49  E-value=0.00078  Score=53.72  Aligned_cols=23  Identities=17%  Similarity=0.398  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|+|++||||||++..++...
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68899999999999998887764

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.47  E-value=0.0007  Score=54.71  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+||||+|||+++..+|...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999998765

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.45  E-value=0.0044  Score=48.72  Aligned_cols=116  Identities=15%  Similarity=0.159  Sum_probs=62.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHcc---CCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQ---LPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSV  113 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~---l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~  113 (302)
                      ...-..|+||||+|||+++..+|....   .|...-  ...++.+|..         .+..                 ..
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~--~~~i~~ld~~---------~LiA-----------------g~   93 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLK--GRRVLALDMG---------ALVA-----------------GA   93 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGT--TCEEEEECHH---------HHHT-----------------TT
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHc--CceEEEeeHH---------HHhc-----------------cC
Confidence            455789999999999999999988753   111110  1133334422         1110                 11


Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEec
Q 022155          114 HSVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQ  193 (302)
Q Consensus       114 ~~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~  193 (302)
                      ....++.+.+..+.+-+..    ..+--+++||++..++...-..+  .        ..+.+.|+.+..+-.+.+|.+..
T Consensus        94 ~~rG~~E~rl~~il~e~~~----~~~~iILfIDeih~l~~~g~~~g--~--------~d~~~~Lkp~L~rg~l~~IgatT  159 (195)
T d1jbka_          94 KYRGEFEERLKGVLNDLAK----QEGNVILFIDELHTMVGAGKADG--A--------MDAGNMLKPALARGELHCVGATT  159 (195)
T ss_dssp             CSHHHHHHHHHHHHHHHHH----STTTEEEEEETGGGGTT--------C--------CCCHHHHHHHHHTTSCCEEEEEC
T ss_pred             CccHHHHHHHHHHHHHHhc----CCCcEEEEcchHHHHhcCCCCCC--c--------ccHHHHHHHHHhCCCceEEecCC
Confidence            1223444434333332222    12226889999999874321111  1        13446677777777888888776


Q ss_pred             c
Q 022155          194 V  194 (302)
Q Consensus       194 ~  194 (302)
                      .
T Consensus       160 ~  160 (195)
T d1jbka_         160 L  160 (195)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.45  E-value=0.0016  Score=51.99  Aligned_cols=39  Identities=15%  Similarity=0.112  Sum_probs=30.9

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .+|.++.|.|+.||||||++..++....   ..|-   .|+++..
T Consensus         1 ~rG~lI~ieG~dGsGKsT~~~~L~~~L~---~~g~---~v~~~~~   39 (209)
T d1nn5a_           1 RRGALIVLEGVDRAGKSTQSRKLVEALC---AAGH---RAELLRF   39 (209)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHHH---HTTC---CEEEEES
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHHHH---HCCC---cEEEEeC
Confidence            3689999999999999999998877653   4454   6777763

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.00099  Score=53.17  Aligned_cols=25  Identities=24%  Similarity=0.308  Sum_probs=22.6

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|.++.|+||||+|||||+..++..
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhh
Confidence            3889999999999999999888776

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=96.40  E-value=0.014  Score=47.15  Aligned_cols=55  Identities=15%  Similarity=0.193  Sum_probs=40.3

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      +.-....|+|..|||||.+++..+..+.   ..|.   .|+++--+..+.+...+.+...+
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~~~---~~g~---qv~~l~Pt~~La~Q~~~~~~~~~  128 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFLAV---DNHK---QVAVLVPTTLLAQQHYDNFRDRF  128 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHHHH---TTTC---EEEEECSSHHHHHHHHHHHHHHS
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHHHH---HcCC---ceEEEccHHHhHHHHHHHHHHHH
Confidence            3456889999999999999999988875   5666   88888866555444444444443

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.40  E-value=0.0085  Score=52.26  Aligned_cols=115  Identities=14%  Similarity=0.148  Sum_probs=51.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHcc---CCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCCCCCCCCCCcEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQ---LPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVH  114 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~---l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~  114 (302)
                      ..-..|+|+||+|||.++..+|....   .|...-  +..++.+|...      |   .            .     ...
T Consensus        43 k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~--~~~i~~ld~~~------l---~------------a-----g~~   94 (387)
T d1qvra2          43 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLK--GKRIVSLQMGS------L---L------------A-----GAK   94 (387)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTST--TCEEEEECC----------------------------------
T ss_pred             CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHc--CceEEEeeHhh------h---h------------c-----ccC
Confidence            44468899999999999988876542   121111  12444455431      0   0            0     001


Q ss_pred             CHHHHHHHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEEecc
Q 022155          115 SVDQLLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV  194 (302)
Q Consensus       115 ~~~~l~~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~n~~  194 (302)
                      ...++.+.+..+...+..    ..+.-+++||++..++...-..  +.        ..+.+.|+.+..+-.+.||.+...
T Consensus        95 ~~g~~e~r~~~i~~~~~~----~~~~~ilfide~h~l~~~g~~~--g~--------~d~a~~Lkp~L~rg~~~~I~~tT~  160 (387)
T d1qvra2          95 YRGEFEERLKAVIQEVVQ----SQGEVILFIDELHTVVGAGKAE--GA--------VDAGNMLKPALARGELRLIGATTL  160 (387)
T ss_dssp             ---CHHHHHHHHHHHHHT----TCSSEEEEECCC-----------------------------HHHHHTTCCCEEEEECH
T ss_pred             cchhHHHHHHHHHHHhcc----CCCceEEEeccHHHHhcCCCCC--Cc--------ccHHHHHHHHHhCCCcceeeecCH
Confidence            111222222222222222    1233678999999987432111  11        245678888888888999888764

>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=96.38  E-value=0.0016  Score=55.16  Aligned_cols=40  Identities=13%  Similarity=0.017  Sum_probs=29.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      -++.|+|++||||||||..+.....  ....  ..+|..|++++
T Consensus        81 ~iIGIaG~sgSGKSTla~~L~~lL~--~~~~--~~~v~~Is~D~  120 (308)
T d1sq5a_          81 YIISIAGSVAVGKSTTARVLQALLS--RWPE--HRRVELITTDG  120 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHT--TSTT--CCCEEEEEGGG
T ss_pred             EEEEEeCCCCCCCcHHHHHHHHHHh--hhcC--CCceEEEeeee
Confidence            4999999999999999988877642  1111  12688888775

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.32  E-value=0.0021  Score=51.84  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|++|||||||+..+....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            78999999999999999998764

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.30  E-value=0.0031  Score=51.00  Aligned_cols=44  Identities=25%  Similarity=0.311  Sum_probs=31.5

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ++.+|     .|+-+.|++|.|+|||..++..+....   ..|.   +++|+.-.
T Consensus        52 i~~~l-----~g~~~~i~apTGsGKT~~~~~~~~~~~---~~~~---rvliv~Pt   95 (237)
T d1gkub1          52 AKRIL-----RKESFAATAPTGVGKTSFGLAMSLFLA---LKGK---RCYVIFPT   95 (237)
T ss_dssp             HHHHH-----TTCCEECCCCBTSCSHHHHHHHHHHHH---TTSC---CEEEEESC
T ss_pred             HHHHH-----CCCCEEEEecCCChHHHHHHHHHHHHH---HhcC---eEEEEecc
Confidence            45555     467888999999999987766655543   3344   79998844

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.29  E-value=0.0021  Score=52.58  Aligned_cols=35  Identities=17%  Similarity=0.098  Sum_probs=28.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      .+.++.|+||+|+|||+|+.+++....      .   .+.|++.
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~~~~~~~~------~---~~~~i~~   62 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIKIGINELN------L---PYIYLDL   62 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHT------C---CEEEEEG
T ss_pred             cCCEEEEEcCCCCcHHHHHHHHHHHCC------C---CeEEEEe
Confidence            467999999999999999999887642      1   5677764

>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=96.28  E-value=0.0019  Score=53.30  Aligned_cols=37  Identities=16%  Similarity=0.224  Sum_probs=32.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+.|+|.-|+||||++.++|...+   ..|.   +|+.||.+-
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA---~~G~---rVllID~D~   39 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLH---AMGK---TIMVVGCDP   39 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH---TTTC---CEEEEEECT
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHH---hCCC---cEEEEecCC
Confidence            578899999999999999999986   5565   899999873

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.25  E-value=0.0017  Score=54.40  Aligned_cols=55  Identities=16%  Similarity=0.059  Sum_probs=33.4

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC-CCCHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF-PFPMRRLHQLSHT   95 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~-~~~~~rl~~i~~~   95 (302)
                      --++.|+|++|||||||+..+.....-  ..+ ....|..|+.++ ..+.+...++...
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~--~~~-~~~~v~~iS~DdfY~t~~~r~~L~~~   82 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLME--KYG-GEKSIGYASIDDFYLTHEDQLKLNEQ   82 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH--HHG-GGSCEEEEEGGGGBCCHHHHHHHHHH
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHH--HhC-CCcceEeeccCCCCCCHHHHHHHhhh
Confidence            348899999999999999877655420  111 012577777664 3444333444443

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.21  E-value=0.001  Score=54.20  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+||||+|||+++..++...
T Consensus        36 lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          36 LLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            7799999999999999999875

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.18  E-value=0.0024  Score=51.26  Aligned_cols=39  Identities=23%  Similarity=0.439  Sum_probs=32.8

Q ss_pred             CcEEEEE-eCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           38 NSITELV-AESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        38 G~i~ei~-G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      |+++.|+ +..|+||||++.++|..++   ..|.   +|++||.+-
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la---~~g~---~VlliD~D~   41 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALG---DRGR---KVLAVDGDL   41 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCT
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHH---hCCC---CEEEEeCCC
Confidence            6777777 7799999999999999986   5565   899999874

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.16  E-value=0.0014  Score=52.66  Aligned_cols=35  Identities=17%  Similarity=0.079  Sum_probs=24.8

Q ss_pred             hhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           26 IIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        26 ~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|-..+..+-.+.  +.|+||||+|||++|..++...
T Consensus        26 ~L~~~~~~~~~~~--~ll~Gp~G~GKTt~a~~la~~l   60 (224)
T d1sxjb2          26 RLQQIAKDGNMPH--MIISGMPGIGKTTSVHCLAHEL   60 (224)
T ss_dssp             HHHHHHHSCCCCC--EEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCe--EEEECCCCCCchhhHHHHHHHH
Confidence            3444444333222  7799999999999999888765

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.14  E-value=0.009  Score=46.86  Aligned_cols=47  Identities=19%  Similarity=0.299  Sum_probs=30.3

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ...++.++.     |+-+.|++|+|+|||+.+...+....   ..++   +++|+.-.
T Consensus        31 ~~ai~~l~~-----~~~~il~apTGsGKT~~a~l~i~~~~---~~~~---~vl~l~P~   77 (202)
T d2p6ra3          31 AEAVEKVFS-----GKNLLLAMPTAAGKTLLAEMAMVREA---IKGG---KSLYVVPL   77 (202)
T ss_dssp             HHHHHHHTT-----CSCEEEECSSHHHHHHHHHHHHHHHH---HTTC---CEEEEESS
T ss_pred             HHHHHHHHc-----CCCEEEEcCCCCchhHHHHHHHHHHh---hccC---cceeeccc
Confidence            345676654     44578999999999988754333322   2233   78998633

>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=96.11  E-value=0.0019  Score=51.59  Aligned_cols=41  Identities=17%  Similarity=0.112  Sum_probs=31.1

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..|.++-|+|.|||||||++..++....-  ..+-   .++++|++
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~--~~~~---~~~~ldgD   62 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVR--DRRV---HAYRLDGD   62 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHH--HHCC---CEEEECHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHH--hcCc---eEEEEcch
Confidence            57889999999999999999988865420  1122   57888865

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=96.10  E-value=0.0088  Score=49.73  Aligned_cols=54  Identities=19%  Similarity=0.236  Sum_probs=35.9

Q ss_pred             CCCCcEEEEEeCCCCcHHH-HHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHhCC
Q 022155           35 IPCNSITELVAESGSGKTQ-FCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRP   98 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~-l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~~~   98 (302)
                      +.+|+.+.|.+|.|||||. ++..++..+.   ..+.   +++|+.-    ..+-..++.+.+..
T Consensus         6 ~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~---~~~~---~~lvi~P----tr~La~q~~~~l~~   60 (305)
T d2bmfa2           6 FRKKRLTIMDLHPGAGKTKRYLPAIVREAI---KRGL---RTLILAP----TRVVAAEMEEALRG   60 (305)
T ss_dssp             SSTTCEEEECCCTTSSTTTTHHHHHHHHHH---HHTC---CEEEEES----SHHHHHHHHHHTTT
T ss_pred             hhcCCcEEEEECCCCCHHHHHHHHHHHHHH---hcCC---EEEEEcc----HHHHHHHHHHHHhc
Confidence            5689999999999999995 4444444332   2343   7888862    23445667776653

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.05  E-value=0.0016  Score=52.34  Aligned_cols=22  Identities=23%  Similarity=0.273  Sum_probs=20.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+||||+|||+++..+|...
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHHHh
Confidence            7799999999999999998875

>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=96.05  E-value=0.0029  Score=52.63  Aligned_cols=38  Identities=18%  Similarity=0.259  Sum_probs=33.3

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .++.+.|.-|+||||++.++|...+   ..|.   +|+.||++-
T Consensus         9 ~~i~~sGKGGVGKTTvaa~lA~~lA---~~G~---rVLlvD~Dp   46 (296)
T d1ihua1           9 PYLFFTGKGGVGKTSISCATAIRLA---EQGK---RVLLVSTDP   46 (296)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEECCT
T ss_pred             eEEEEECCCcChHHHHHHHHHHHHH---HCCC---CEEEEeCCC
Confidence            4778999999999999999999886   5666   999999884

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.99  E-value=0.041  Score=41.13  Aligned_cols=22  Identities=14%  Similarity=0.197  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++...
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5799999999999999998653

>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=95.91  E-value=0.028  Score=45.19  Aligned_cols=24  Identities=21%  Similarity=0.183  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..+.|+||||+|||++|+.++...
T Consensus        35 ~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          35 HAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eeEEEECCCCCcHHHHHHHHHHHh
Confidence            457899999999999999888765

>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=95.90  E-value=0.0035  Score=49.66  Aligned_cols=26  Identities=15%  Similarity=0.063  Sum_probs=23.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +|.++.|.|+.||||||++..++...
T Consensus         1 rgkfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           1 RSKYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999999888765

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.87  E-value=0.0024  Score=49.83  Aligned_cols=22  Identities=23%  Similarity=0.289  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .+.|+||+||||||++..++..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3789999999999999998776

>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=95.85  E-value=0.003  Score=48.99  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .+++.|+||+|+|||||+..++..
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999988865

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.83  E-value=0.0025  Score=49.90  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+||+||||||++..++...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6799999999999999887763

>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=95.82  E-value=0.0037  Score=52.17  Aligned_cols=37  Identities=14%  Similarity=0.189  Sum_probs=31.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      .+.|.|.-|+||||++.++|...+   ..|.   +|+.||++-
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA---~~G~---rVLlID~Dp   40 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALA---EMGK---KVMIVGCDP   40 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHH---HTTC---CEEEEEECS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---HCCC---CEEEEecCC
Confidence            567899999999999999998876   5665   899999874

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.81  E-value=0.0042  Score=49.68  Aligned_cols=38  Identities=16%  Similarity=0.309  Sum_probs=30.6

Q ss_pred             EEEEE-eCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC
Q 022155           40 ITELV-AESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP   83 (302)
Q Consensus        40 i~ei~-G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~   83 (302)
                      ++.|+ +..|+||||++.++|...+   ..|.   +|++||.+-.
T Consensus         3 vIav~s~KGGvGKTtia~nlA~~la---~~g~---~VlliD~D~~   41 (232)
T d1hyqa_           3 TITVASGKGGTGKTTITANLGVALA---QLGH---DVTIVDADIT   41 (232)
T ss_dssp             EEEEEESSSCSCHHHHHHHHHHHHH---HTTC---CEEEEECCCS
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHH---hCCC---CEEEEeCCCC
Confidence            44444 8899999999999999876   5565   8999998743

>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=95.80  E-value=0.0025  Score=49.72  Aligned_cols=20  Identities=30%  Similarity=0.420  Sum_probs=17.8

Q ss_pred             cEEEEEeCCCCcHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQL   58 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~l   58 (302)
                      -++.|+|++||||||+|..|
T Consensus         4 ~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47889999999999999766

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.75  E-value=0.0012  Score=55.06  Aligned_cols=24  Identities=17%  Similarity=0.119  Sum_probs=21.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      -+.|+|..|+|||||+-.++...-
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcC
Confidence            588999999999999999987653

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.70  E-value=0.0034  Score=50.50  Aligned_cols=36  Identities=19%  Similarity=0.294  Sum_probs=28.4

Q ss_pred             cCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           22 VGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        22 tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|++.|...|     .|.++.++|+||+|||||...+....
T Consensus        84 ~g~~~L~~~l-----~~kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          84 MGIEELKEYL-----KGKISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             TTHHHHHHHH-----SSSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             hhHhhHHHHh-----cCCeEEEECCCCCCHHHHHHhhcchh
Confidence            4555666665     57899999999999999998886543

>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=95.67  E-value=0.0032  Score=46.93  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.8

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|+||+|||+|+..++..-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5799999999999999998764

>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=95.65  E-value=0.16  Score=37.95  Aligned_cols=21  Identities=19%  Similarity=0.309  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|.+|+|||+|+.++...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998765

>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=95.63  E-value=0.0021  Score=47.26  Aligned_cols=36  Identities=25%  Similarity=0.271  Sum_probs=26.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..+...|.+|.|||||.++..++.      ..|.   +++++...
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~------~~~~---~vli~~P~   42 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA------AQGY---KVLVLNPS   42 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH------TTTC---CEEEEESC
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH------HcCC---cEEEEcCh
Confidence            457789999999999998765543      2343   67777744

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=95.61  E-value=0.0045  Score=46.91  Aligned_cols=28  Identities=18%  Similarity=0.175  Sum_probs=25.8

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++|.++.|.|+=|+|||||+..++...
T Consensus        30 ~~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          30 TEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            3689999999999999999999999875

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=95.57  E-value=0.023  Score=41.95  Aligned_cols=38  Identities=13%  Similarity=-0.003  Sum_probs=30.8

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      |.+..|+||-.||||+-++..+.++.   ..|.   +|+.|...
T Consensus         2 G~L~~i~GpMfsGKTteLi~~~~~~~---~~~~---kv~~ikp~   39 (139)
T d2b8ta1           2 GWIEFITGPMFAGKTAELIRRLHRLE---YADV---KYLVFKPK   39 (139)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHH---HTTC---CEEEEEEC
T ss_pred             cEEEEEEccccCHHHHHHHHHHHHHH---HCCC---cEEEEEEc
Confidence            78999999999999998888887774   3444   78877754

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.52  E-value=0.0039  Score=49.13  Aligned_cols=38  Identities=16%  Similarity=0.247  Sum_probs=31.9

Q ss_pred             ChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           24 CPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        24 ~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..|-..| .|.|....+.|+|||++|||.||+.++..+
T Consensus        40 l~~l~~~l-~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          40 LGALKSFL-KGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHH-HTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHH-cCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            34566666 468999999999999999999999988774

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.43  E-value=0.045  Score=42.27  Aligned_cols=36  Identities=25%  Similarity=0.313  Sum_probs=24.8

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +.|++|.|+|||..+..++.....  ..++   +++|+.-.
T Consensus        26 ~lv~~pTGsGKT~i~~~~~~~~~~--~~~~---~il~i~P~   61 (200)
T d1wp9a1          26 CLIVLPTGLGKTLIAMMIAEYRLT--KYGG---KVLMLAPT   61 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHH--HSCS---CEEEECSS
T ss_pred             eEEEeCCCCcHHHHHHHHHHHHHH--hcCC---cEEEEcCc
Confidence            668899999999877666554321  2343   78888744

>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=95.36  E-value=0.0066  Score=47.82  Aligned_cols=35  Identities=17%  Similarity=0.054  Sum_probs=30.1

Q ss_pred             EEEEEeCC-CCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           40 ITELVAES-GSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        40 i~ei~G~~-GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      -+-|+|-. |+||||++..+|...+   ..|.   +|++||.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa---~~G~---rVl~id~   38 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAK---AAGY---RTAGYKP   38 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHH---HTTC---CEEEECS
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHH---HCCC---eEEEECc
Confidence            46789995 9999999999999986   6676   8999985

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.34  E-value=0.0023  Score=53.49  Aligned_cols=37  Identities=14%  Similarity=0.223  Sum_probs=25.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      |+.|+|++||||||++..|.....   ..+-   +++.|+.+.
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~---~~~v---~~~iI~~Ds   42 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFR---REGV---KAVSIEGDA   42 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHH---HHTC---CEEEEEGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHh---hcCC---CeEEEeCCC
Confidence            899999999999999988876542   2222   567787664

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.24  E-value=0.0053  Score=54.63  Aligned_cols=26  Identities=23%  Similarity=0.313  Sum_probs=22.7

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHcc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSAQ   63 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~~   63 (302)
                      .+-++++||+|||||.||..+|..+.
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~   74 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLAN   74 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHhC
Confidence            34689999999999999999998764

>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=95.22  E-value=0.085  Score=41.10  Aligned_cols=58  Identities=10%  Similarity=-0.008  Sum_probs=40.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC-CCCHHHHHHHHHHhC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF-PFPMRRLHQLSHTFR   97 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~-~~~~~rl~~i~~~~~   97 (302)
                      .+.-+.|+||+|+|||++|..++......   ......+++|..++ ....+.++.+...+.
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~---~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~   72 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKF---PPKASDVLEIDPEGENIGIDDIRTIKDFLN   72 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTS---CCCTTTEEEECCSSSCBCHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhcc---ccCCCCEEEEeCCcCCCCHHHHHHHHHHHh
Confidence            46689999999999999999998765311   11122588998775 345677777766544

>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=95.19  E-value=0.39  Score=35.56  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.++...-
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999998764

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.15  E-value=0.0061  Score=47.07  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=21.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|.=+.|.|++|+|||++++.++..
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            3666899999999999999988654

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.11  E-value=0.0069  Score=46.74  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      |.=+.|.|+||+|||++++.++..
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            566899999999999999987654

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.10  E-value=0.032  Score=45.75  Aligned_cols=54  Identities=17%  Similarity=0.180  Sum_probs=37.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      ......|.|.-|||||-.++..+..+.   ..|.   .|+++--+..+.......+...+
T Consensus       103 ~~m~rLL~GdvGSGKT~Va~~a~~~~~---~~g~---q~~~m~Pt~~La~Qh~~~~~~~f  156 (264)
T d1gm5a3         103 KPMNRLLQGDVGSGKTVVAQLAILDNY---EAGF---QTAFMVPTSILAIQHYRRTVESF  156 (264)
T ss_dssp             SCCCCEEECCSSSSHHHHHHHHHHHHH---HHTS---CEEEECSCHHHHHHHHHHHHHHH
T ss_pred             CcceeeeeccccccccHHHHHHHHHHH---hccc---ceeEEeehHhhhHHHHHHHHHhh
Confidence            345678999999999999998887774   4555   78887765444444444444444

>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=95.03  E-value=0.0065  Score=48.16  Aligned_cols=23  Identities=17%  Similarity=0.138  Sum_probs=21.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+||+|+|||++++.+|...
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHhc
Confidence            48999999999999999999876

>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=94.98  E-value=0.0069  Score=47.12  Aligned_cols=20  Identities=30%  Similarity=0.351  Sum_probs=18.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.|+|+||+|||||+..+..
T Consensus        26 I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHhcC
Confidence            99999999999999998864

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=94.97  E-value=0.01  Score=52.19  Aligned_cols=37  Identities=14%  Similarity=0.190  Sum_probs=28.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEF   82 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~   82 (302)
                      -+.|+|++|||||+++..++.+..   ..|.   .++.+|..+
T Consensus        52 H~~I~G~tGsGKT~~l~~li~~~~---~~g~---~~iiiD~kg   88 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAYTGL---LRGD---RMVIVDPNG   88 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHHHH---HTTC---EEEEEEETT
T ss_pred             eEEEEeCCCCcHHHHHHHHHHHHH---hCCC---CEEEEeCCh
Confidence            389999999999999888887764   4454   677777654

>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=94.96  E-value=0.0082  Score=51.04  Aligned_cols=39  Identities=18%  Similarity=0.275  Sum_probs=28.1

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      +..+..+.|+|+.||||||++..++..  +|.  ..   +++.|..
T Consensus       163 v~~~~nili~G~tgSGKTT~l~al~~~--i~~--~~---rivtiEd  201 (323)
T d1g6oa_         163 IAIGKNVIVCGGTGSGKTTYIKSIMEF--IPK--EE---RIISIED  201 (323)
T ss_dssp             HHHTCCEEEEESTTSSHHHHHHHHGGG--SCT--TC---CEEEEES
T ss_pred             HHhCCCEEEEeeccccchHHHHHHhhh--ccc--cc---ceeeccc
Confidence            344566899999999999999877654  332  22   6777753

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=94.90  E-value=0.0049  Score=44.70  Aligned_cols=53  Identities=23%  Similarity=0.201  Sum_probs=33.2

Q ss_pred             CCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHHHHHHHHh
Q 022155           35 IPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTF   96 (302)
Q Consensus        35 l~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl~~i~~~~   96 (302)
                      +..|+.+.|++|+|+|||..+...+.....  ..+.   .++++.-.    .....+....+
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~~~~--~~~~---~vli~~p~----~~l~~q~~~~~   56 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILAECA--RRRL---RTLVLAPT----RVVLSEMKEAF   56 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHH--HTTC---CEEEEESS----HHHHHHHHHHT
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHHHhh--hcCc---eeeeeecc----hhHHHHHHHHh
Confidence            567999999999999999777544433321  2232   56666633    33445555543

>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=94.88  E-value=0.013  Score=45.90  Aligned_cols=35  Identities=20%  Similarity=0.255  Sum_probs=26.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      ++.|.|..||||||++..++....   ..|-   .|+++..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~---~~g~---~v~~~~~   36 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFR---AAGR---SVATLAF   36 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---HCCC---CEEEEec
Confidence            688999999999999998887653   3443   6777653

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=94.87  E-value=0.0087  Score=50.68  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=22.0

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ...+.++||+|+|||.||.++|...
T Consensus        52 ~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          52 VGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCcchhHHHHHHHHhhc
Confidence            3478899999999999999999874

>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=94.82  E-value=0.013  Score=49.06  Aligned_cols=39  Identities=18%  Similarity=0.080  Sum_probs=25.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCC-CCCeEEEEeCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGG-LSASSLYLHTE   81 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg-~~~~vlyid~e   81 (302)
                      .+.|.|+||||||+.+.+-++...   ..++ .+.+++++...
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll---~~~~~~p~~il~lt~t   65 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLM---AEKHVAPWNILAITFT   65 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHH---HTTCCCGGGEEEEESS
T ss_pred             CEEEEecCCccHHHHHHHHHHHHH---HcCCCCHHHeEeEecc
Confidence            477889999999999887554432   1121 12368888754

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.82  E-value=0.0088  Score=45.81  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=21.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|.=+.|.|++|+|||++++.++..-
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            36678999999999999998887653

>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=94.78  E-value=0.0078  Score=45.02  Aligned_cols=21  Identities=24%  Similarity=0.423  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|.+|+|||+|+..++..
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988765

>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=94.77  E-value=0.01  Score=49.33  Aligned_cols=40  Identities=18%  Similarity=0.067  Sum_probs=25.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           40 ITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      -+.|.|+||||||+.+.+-+.... . ..+....++++++..
T Consensus        16 ~~lI~g~aGTGKTt~l~~rv~~ll-~-~~~~~~~~ILvlt~t   55 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITNKIAHLI-R-GCGYQARHIAAVTFT   55 (306)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHH-H-HHCCCGGGEEEEESS
T ss_pred             CEEEEeeCCccHHHHHHHHHHHHH-H-hcCCChhHEEEEeCc
Confidence            467889999999998876554432 0 111122378888754

>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=0.0083  Score=45.56  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .-=+.|+|.+|+|||+|+.++...
T Consensus        15 ~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          15 EHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999988654

>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=94.69  E-value=0.0053  Score=49.55  Aligned_cols=36  Identities=17%  Similarity=0.135  Sum_probs=26.2

Q ss_pred             cCChhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           22 VGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        22 tG~~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .|+..|-..|     .|..+.|+|+||+|||||...+....
T Consensus        86 ~gl~~L~~~l-----~~~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          86 DSLADIIPHF-----QDKTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             TTCTTTGGGG-----TTSEEEEEESHHHHHHHHHHHHCC--
T ss_pred             hHHHHHHHhh-----ccceEEEECCCCccHHHHHHhhccHh
Confidence            3455555544     57889999999999999998776543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.62  E-value=0.0097  Score=44.12  Aligned_cols=21  Identities=19%  Similarity=0.175  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|+|++|||+|+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            569999999999999988765

>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=94.58  E-value=0.0075  Score=45.92  Aligned_cols=25  Identities=16%  Similarity=0.078  Sum_probs=19.7

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      ++.-=+.|+|++|+|||+|+..+..
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3344577999999999999988743

>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=94.58  E-value=0.017  Score=50.56  Aligned_cols=27  Identities=19%  Similarity=0.118  Sum_probs=23.7

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+..++.|+||.||||||++..+....
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhhh
Confidence            356799999999999999999988765

>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=94.46  E-value=0.011  Score=46.71  Aligned_cols=20  Identities=30%  Similarity=0.434  Sum_probs=17.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la   59 (302)
                      ++.|+|.+||||||+|..+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            78999999999999997653

>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=94.43  E-value=0.01  Score=49.02  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|.|..|+|||||+-+++...
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHc
Confidence            47899999999999999997665

>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=94.41  E-value=0.01  Score=44.70  Aligned_cols=21  Identities=14%  Similarity=0.156  Sum_probs=18.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||+|+..+...
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            679999999999999988543

>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=94.41  E-value=0.011  Score=46.67  Aligned_cols=19  Identities=37%  Similarity=0.441  Sum_probs=16.9

Q ss_pred             EEEEEeCCCCcHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQL   58 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~l   58 (302)
                      ++.|+|..||||||+|..+
T Consensus         4 iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6889999999999998655

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.40  E-value=0.0072  Score=47.02  Aligned_cols=25  Identities=20%  Similarity=0.159  Sum_probs=21.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.-++.|.|+.||||||++..|+..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            3458999999999999999877654

>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=94.39  E-value=0.012  Score=44.59  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~   60 (302)
                      .+.|+|++|+|||||+..|+.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998864

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=94.38  E-value=0.022  Score=46.96  Aligned_cols=36  Identities=11%  Similarity=0.030  Sum_probs=30.4

Q ss_pred             hHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           27 IDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        27 LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      |-..|.++.+.-.++.|+||+++|||+|+..++..+
T Consensus        93 l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          93 FLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344567889999999999999999999998887653

>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=94.36  E-value=0.015  Score=46.43  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ++.|.|.-|||||||+.+++..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc
Confidence            7899999999999999998764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.27  E-value=0.012  Score=44.32  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++...
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

>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=94.25  E-value=0.015  Score=46.13  Aligned_cols=26  Identities=19%  Similarity=0.162  Sum_probs=23.4

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +|.++.|-|+-||||||++..++...
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHH
Confidence            69999999999999999998887664

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=94.20  E-value=0.014  Score=50.32  Aligned_cols=26  Identities=23%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.++.|.||||+|||+++..+....
T Consensus       162 ~~~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         162 TRRISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             cCCeEEEEcCCCCCceehHHHHHHHH
Confidence            46799999999999999987665443

>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=94.18  E-value=0.014  Score=45.99  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=19.0

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+++|||||+-+|....
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~~   27 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYVA   27 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHHh
Confidence            7899999999999998886543

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.16  E-value=0.24  Score=36.95  Aligned_cols=130  Identities=13%  Similarity=0.105  Sum_probs=67.5

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCC-CCHHHHHHHHHHhCCCCCCCCCCcEEEEeCCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFP-FPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHS  115 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~-~~~~rl~~i~~~~~~~~~~~~l~~i~~~~~~~  115 (302)
                      +|.+...+| +|=||||-|+-+|..++   -.|.   +|+++..-.. ...... .+...... .....-... .....+
T Consensus         2 kG~i~vytG-~GKGKTTAAlG~alRA~---G~G~---rV~ivQFlKg~~~~ge~-~~~~~~~~-~~~~~~~~~-~~~~~~   71 (157)
T d1g5ta_           2 RGIIIVFTG-NGKGKTTAAFGTAARAV---GHGK---NVGVVQFIKGTWPNGER-NLLEPHGV-EFQVMATGF-TWETQN   71 (157)
T ss_dssp             CCCEEEEES-SSSCHHHHHHHHHHHHH---HTTC---CEEEEESSCCSSCCHHH-HHHGGGTC-EEEECCTTC-CCCGGG
T ss_pred             CcEEEEEeC-CCCCcHHHHHHHHHHHh---cCCC---EEEEEEEecCCcccchh-hhhcccCc-EEEEecCCC-cccCCC
Confidence            454444444 89999999999988875   4565   8888876532 222111 11111100 000000000 011112


Q ss_pred             HHHHH----HHHHHHHHHHHhccCCCCCeeEEEEechhhhhhhccCCChhhHHHHHHHHHHHHHHHHHHHHHcCcEEEEE
Q 022155          116 VDQLL----DIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVT  191 (302)
Q Consensus       116 ~~~l~----~~l~~l~~~l~~~~~~~~~~~lvVIDsi~~~~~~~~~~~~~~~~~r~~~l~~l~~~L~~la~~~~~~viv~  191 (302)
                      .++-.    +.+....+.+.     ....++||+|.|.......+-.           ..+++..|+.  +-.++-||+|
T Consensus        72 ~e~~~~~a~~~~~~a~~~~~-----~~~~dllILDEi~~Ai~~gli~-----------~~~v~~ll~~--rp~~~evVlT  133 (157)
T d1g5ta_          72 READTAACMAVWQHGKRMLA-----DPLLDMVVLDELTYMVAYDYLP-----------LEEVISALNA--RPGHQTVIIT  133 (157)
T ss_dssp             HHHHHHHHHHHHHHHHHHTT-----CTTCSEEEEETHHHHHHTTSSC-----------HHHHHHHHHT--SCTTCEEEEE
T ss_pred             hHHHHHHHHHHHHHHHHHhh-----cCccCEEeHHHHHHHHHcCCCC-----------HHHHHHHHHh--CCCCCEEEEE
Confidence            22211    22233333333     3678999999999877554332           1355555553  4567889998


Q ss_pred             ecc
Q 022155          192 NQV  194 (302)
Q Consensus       192 n~~  194 (302)
                      ..-
T Consensus       134 Gr~  136 (157)
T d1g5ta_         134 GRG  136 (157)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            763

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=94.12  E-value=0.013  Score=44.03  Aligned_cols=22  Identities=32%  Similarity=0.280  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|.|++|+|||+|+.++...-
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            5689999999999999997653

>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=94.11  E-value=0.014  Score=44.37  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++..-
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            6799999999999999987653

>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=94.11  E-value=0.013  Score=44.53  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++..-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            5789999999999999987653

>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=94.09  E-value=0.014  Score=44.17  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+..++...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999987653

>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=94.09  E-value=0.014  Score=44.02  Aligned_cols=22  Identities=18%  Similarity=0.413  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++..-
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999998653

>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=94.04  E-value=0.016  Score=45.29  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      -+.|+|++++|||+|+..+...-
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            57899999999999999998753

>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=45.09  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+.|+|+|++|||+|...++..-
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999998653

>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=93.98  E-value=0.015  Score=44.76  Aligned_cols=21  Identities=33%  Similarity=0.417  Sum_probs=18.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||+|+..++..
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999988743

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.96  E-value=0.015  Score=43.83  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+.+++...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999998653

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.93  E-value=0.016  Score=43.89  Aligned_cols=22  Identities=14%  Similarity=0.372  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++..-
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999998753

>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=93.90  E-value=0.016  Score=43.15  Aligned_cols=22  Identities=14%  Similarity=0.161  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|+|++++|||||+.+++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999888743

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.89  E-value=0.015  Score=44.03  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~~   29 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADDS   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            6899999999999999998653

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.87  E-value=0.016  Score=43.78  Aligned_cols=22  Identities=18%  Similarity=0.430  Sum_probs=19.0

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+..++...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999887643

>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=93.85  E-value=0.016  Score=43.98  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++...
T Consensus         9 I~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7799999999999999998753

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.83  E-value=0.04  Score=40.18  Aligned_cols=39  Identities=15%  Similarity=0.034  Sum_probs=31.9

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      +|.+..|+||-.||||+-+++.+....   ..|.   +|+.|...
T Consensus         1 ~G~L~li~GpMfsGKTt~Li~~~~~~~---~~g~---~v~~ikp~   39 (133)
T d1xbta1           1 RGQIQVILGPMFSGKSTELMRRVRRFQ---IAQY---KCLVIKYA   39 (133)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH---TTTC---CEEEEEET
T ss_pred             CcEEEEEEecccCHHHHHHHHHHHHHH---HcCC---cEEEEecc
Confidence            589999999999999999999988875   3443   68877644

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.83  E-value=0.017  Score=43.59  Aligned_cols=22  Identities=27%  Similarity=0.344  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+..++.+-
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5799999999999999988653

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.79  E-value=0.009  Score=47.83  Aligned_cols=26  Identities=15%  Similarity=0.118  Sum_probs=22.2

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +++++.|-|+.||||||++..|+...
T Consensus         1 ~~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           1 RIKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999998876653

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.79  E-value=0.017  Score=43.73  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++..-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5789999999999999998654

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.76  E-value=0.018  Score=43.39  Aligned_cols=22  Identities=14%  Similarity=0.288  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++...
T Consensus         7 v~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987653

>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=93.73  E-value=0.017  Score=43.81  Aligned_cols=22  Identities=27%  Similarity=0.268  Sum_probs=18.5

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la   59 (302)
                      --=+.|+|++|+|||+|+..+.
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~   37 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLA   37 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHC
T ss_pred             EEEEEEECCCCCCHHHHHHHHh
Confidence            3347899999999999998774

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.72  E-value=0.018  Score=43.56  Aligned_cols=22  Identities=27%  Similarity=0.395  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++...
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

>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=93.71  E-value=0.018  Score=44.70  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++..-
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHhhCC
Confidence            7899999999999999998653

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.67  E-value=0.019  Score=43.60  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+.+++..-
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987653

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.67  E-value=0.019  Score=43.09  Aligned_cols=22  Identities=18%  Similarity=0.296  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++..-
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999998753

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.65  E-value=0.019  Score=43.16  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++|++|+|||+|+.+++..-
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5799999999999999987653

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.64  E-value=0.022  Score=49.40  Aligned_cols=25  Identities=20%  Similarity=0.418  Sum_probs=20.7

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHH
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      ..+.++.|+|++|||||+++-.|+.
T Consensus        23 ~~~~l~~i~G~NGsGKS~ileAi~~   47 (427)
T d1w1wa_          23 GESNFTSIIGPNGSGKSNMMDAISF   47 (427)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3456999999999999999877753

>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=93.54  E-value=0.021  Score=43.46  Aligned_cols=22  Identities=18%  Similarity=0.237  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ++.|+|.+|+|||+|+..++..
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7999999999999999988754

>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=93.51  E-value=0.019  Score=43.76  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|+|+|++|||||...++..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999888643

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=93.51  E-value=0.0093  Score=50.70  Aligned_cols=22  Identities=18%  Similarity=0.208  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      -+.|.|+||+|||+++..++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHh
Confidence            5899999999999999998864

>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=93.51  E-value=0.02  Score=43.86  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|.+|+|||+|+..++..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            579999999999999988764

>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=93.45  E-value=0.02  Score=43.50  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=19.0

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||+|+..+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988765

>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=93.44  E-value=0.021  Score=43.17  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||+|+.+++..
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998775

>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=93.41  E-value=0.022  Score=43.36  Aligned_cols=22  Identities=18%  Similarity=0.238  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++...
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5688999999999999988764

>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=93.34  E-value=0.023  Score=42.94  Aligned_cols=21  Identities=19%  Similarity=0.232  Sum_probs=18.1

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||+|+..+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            578999999999999988653

>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=93.34  E-value=0.022  Score=48.11  Aligned_cols=26  Identities=19%  Similarity=0.216  Sum_probs=22.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +..++.++||+|+|||.+|..+|...
T Consensus        52 p~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          52 PIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             CSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCcchHHHHHHHHHHHh
Confidence            34477899999999999999999874

>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=93.30  E-value=0.022  Score=43.59  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      =+.|+|.+|+|||+|+.+++...
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998654

>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=93.26  E-value=0.023  Score=42.73  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+.+++..-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6789999999999999987664

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.24  E-value=0.025  Score=42.37  Aligned_cols=22  Identities=18%  Similarity=0.318  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+..+..+-
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5789999999999999988654

>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=93.18  E-value=0.0035  Score=48.53  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|+|++|||||+++-.|...+
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            78899999999999998776543

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.10  E-value=0.026  Score=42.46  Aligned_cols=22  Identities=18%  Similarity=0.400  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+..++..-
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5789999999999999997653

>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=93.09  E-value=0.026  Score=42.66  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++|++|+|||+|+..++...
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5678999999999999998653

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.07  E-value=0.017  Score=48.05  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=18.7

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      .++.|+||+|||||+++..+..
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3999999999999999766644

>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=93.05  E-value=0.018  Score=44.11  Aligned_cols=20  Identities=20%  Similarity=0.208  Sum_probs=17.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.|+|+|++|||||+..++.
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            68999999999999987743

>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=93.05  E-value=0.015  Score=44.13  Aligned_cols=20  Identities=25%  Similarity=0.375  Sum_probs=17.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.|+|++|+|||+|+..++.
T Consensus        15 IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          15 ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEETTSSHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            67899999999999988753

>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=93.00  E-value=0.027  Score=42.54  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=18.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|.+|+|||+|+.+++..
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999998764

>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=92.95  E-value=0.028  Score=45.02  Aligned_cols=23  Identities=17%  Similarity=0.057  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHH
Q 022155           39 SITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .++.|+|..||||||+|..|+-.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            37899999999999999777554

>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=92.93  E-value=0.029  Score=48.34  Aligned_cols=28  Identities=25%  Similarity=0.331  Sum_probs=23.2

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ..|++. ++++||+|+|||-+|..+|...
T Consensus        65 ~~p~~n-iLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          65 ELSKSN-ILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TCCCCC-EEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCCCcc-eeeeCCCCccHHHHHHHHHhhc
Confidence            456665 6777999999999999998764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.79  E-value=0.03  Score=42.60  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+..++...
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988654

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.79  E-value=0.031  Score=42.39  Aligned_cols=21  Identities=24%  Similarity=0.338  Sum_probs=18.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|.+|+|||+|+..++..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999888654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.77  E-value=0.032  Score=42.18  Aligned_cols=22  Identities=18%  Similarity=0.246  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ++.|+|.+++|||||+..|...
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999753

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.70  E-value=0.033  Score=42.76  Aligned_cols=22  Identities=23%  Similarity=0.302  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.+|+|||+|+..++...
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6899999999999999987653

>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=92.66  E-value=0.021  Score=43.63  Aligned_cols=26  Identities=23%  Similarity=0.282  Sum_probs=20.7

Q ss_pred             CCCCCcEEEEEeCCCCcHHHHHHHHH
Q 022155           34 GIPCNSITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        34 Gl~~G~i~ei~G~~GsGKT~l~l~la   59 (302)
                      |-.+.-=+.|+|++|+|||+|..++.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHh
Confidence            44455567899999999999998763

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.44  E-value=0.036  Score=42.29  Aligned_cols=22  Identities=23%  Similarity=0.273  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+..++...
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5789999999999999998764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.41  E-value=0.037  Score=42.66  Aligned_cols=22  Identities=23%  Similarity=0.320  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|++|+|||+|+.+++..-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988654

>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=92.32  E-value=0.045  Score=43.63  Aligned_cols=24  Identities=21%  Similarity=0.205  Sum_probs=21.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           39 SITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .++.|-|.-||||||++..++...
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHH
Confidence            478999999999999999998764

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.26  E-value=0.035  Score=42.73  Aligned_cols=20  Identities=30%  Similarity=0.459  Sum_probs=17.7

Q ss_pred             EEEEeCCCCcHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.|.|.+|+|||+|+.++..
T Consensus         5 ivllG~~~vGKTsll~r~~f   24 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQMRI   24 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            57999999999999999843

>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=92.23  E-value=0.026  Score=42.72  Aligned_cols=21  Identities=33%  Similarity=0.485  Sum_probs=16.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|++|+|||+|+.+++..
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578999999999999877544

>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=92.21  E-value=0.051  Score=44.85  Aligned_cols=44  Identities=14%  Similarity=0.094  Sum_probs=28.8

Q ss_pred             CCCccccCChhhHhhhCCCCC-CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           16 TTEKCTVGCPIIDRCLGGGIP-CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        16 ~~~~i~tG~~~LD~~L~GGl~-~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      ....+...-.+|+.+ . .+. +=.++.|+||.++|||+|+.+++..
T Consensus        11 ~~~~l~~~~e~l~~l-~-~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          11 TNGRLMANPEALKIL-S-AITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             ETTEEEECHHHHHHH-H-TCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCCeEEECHHHHHHH-H-cCCCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            334444444555533 2 121 2458999999999999999888754

>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=92.17  E-value=0.027  Score=42.91  Aligned_cols=20  Identities=25%  Similarity=0.335  Sum_probs=17.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.|+|.|++|||||+..++.
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999988854

>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=92.05  E-value=0.043  Score=41.79  Aligned_cols=22  Identities=14%  Similarity=0.303  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.++|++|+|||+|+.+++..-
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999997753

>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=92.00  E-value=0.025  Score=42.91  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=8.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~   61 (302)
                      +.|+|.+|+|||+|+..++..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999888764

>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=91.75  E-value=0.047  Score=41.56  Aligned_cols=21  Identities=14%  Similarity=0.202  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~   60 (302)
                      -+.|+|.+++|||||+..++.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            378999999999999988764

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=91.64  E-value=0.11  Score=38.19  Aligned_cols=40  Identities=15%  Similarity=0.061  Sum_probs=32.5

Q ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           36 PCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      ..|.+..|+||-.||||+-+++.+.++.   ..|.   +|+.|.-.
T Consensus         5 ~~G~l~lI~GpMfSGKTteLi~~~~~~~---~~g~---~vl~i~~~   44 (141)
T d1xx6a1           5 DHGWVEVIVGPMYSGKSEELIRRIRRAK---IAKQ---KIQVFKPE   44 (141)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH---HTTC---CEEEEEEC
T ss_pred             cceeEEEEEeccccHHHHHHHHHHHHhh---hcCC---cEEEEEec
Confidence            3699999999999999999999998875   3443   78877643

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=91.40  E-value=1.4  Score=33.87  Aligned_cols=39  Identities=21%  Similarity=0.169  Sum_probs=24.4

Q ss_pred             cEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCC
Q 022155           39 SITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE   81 (302)
Q Consensus        39 ~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e   81 (302)
                      .-+.+..|+|+|||......+.... ....+   ..++++...
T Consensus        43 ~d~iv~a~TGsGKT~~~~l~~~~~~-~~~~~---~~~lil~pt   81 (208)
T d1hv8a1          43 YNIVAQARTGSGKTASFAIPLIELV-NENNG---IEAIILTPT   81 (208)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHHHHS-CSSSS---CCEEEECSC
T ss_pred             CCeeeechhcccccceeeccccccc-ccccC---cceEEEeec
Confidence            4677889999999987765554432 21222   256666533

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=91.38  E-value=0.03  Score=42.42  Aligned_cols=20  Identities=25%  Similarity=0.255  Sum_probs=17.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLT   59 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la   59 (302)
                      -+.|+|+|++|||+|+..+.
T Consensus        18 ~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTTC
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            48999999999999997663

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.23  E-value=0.063  Score=42.47  Aligned_cols=22  Identities=23%  Similarity=0.296  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|.|.+|+|||+|+.++...-
T Consensus         9 illlG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999987664

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.19  E-value=0.068  Score=40.84  Aligned_cols=22  Identities=27%  Similarity=0.373  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|.|.+|+|||+|+.++....
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5789999999999999997664

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.87  E-value=1.4  Score=33.71  Aligned_cols=22  Identities=23%  Similarity=0.261  Sum_probs=16.6

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHH
Q 022155           38 NSITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~   60 (302)
                      |+=+.+.+|+|||||. |..+..
T Consensus        38 g~dvi~~a~tGsGKTl-ay~lp~   59 (206)
T d1s2ma1          38 GRDILARAKNGTGKTA-AFVIPT   59 (206)
T ss_dssp             TCCEEEECCTTSCHHH-HHHHHH
T ss_pred             CCCEEEecCCcchhhh-hhcccc
Confidence            4568999999999994 544433

>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=90.80  E-value=0.067  Score=40.70  Aligned_cols=22  Identities=23%  Similarity=0.305  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|.|..|+|||+|+.++...-
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            5789999999999999987654

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=90.71  E-value=0.02  Score=42.53  Aligned_cols=22  Identities=18%  Similarity=0.231  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHc
Q 022155           41 TELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      +.|+|.|++|||+|+..++..-
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            6799999999999999987653

>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=90.44  E-value=0.074  Score=43.21  Aligned_cols=25  Identities=12%  Similarity=0.133  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHc
Q 022155           38 NSITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        38 G~i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .--+.|+|.+|+|||+|+..|...-
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCcHHHHHHHHhCCC
Confidence            3468899999999999999998653

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.99  E-value=2  Score=32.81  Aligned_cols=19  Identities=21%  Similarity=0.177  Sum_probs=15.6

Q ss_pred             CCcEEEEEeCCCCcHHHHH
Q 022155           37 CNSITELVAESGSGKTQFC   55 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~   55 (302)
                      .|+=+.+..|+|||||.-.
T Consensus        39 ~g~dvl~~a~TGsGKTlay   57 (206)
T d1veca_          39 SGRDILARAKNGTGKSGAY   57 (206)
T ss_dssp             TTCCEEEECCSSSTTHHHH
T ss_pred             cCCCEEeeccCcccccccc
Confidence            4567899999999999643

>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=89.69  E-value=0.1  Score=39.64  Aligned_cols=20  Identities=25%  Similarity=0.240  Sum_probs=18.2

Q ss_pred             EEEEeCCCCcHHHHHHHHHH
Q 022155           41 TELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~   60 (302)
                      +.|+|.+.+|||||...++.
T Consensus         8 IaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            78999999999999988864

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=89.23  E-value=0.1  Score=43.63  Aligned_cols=20  Identities=25%  Similarity=0.383  Sum_probs=17.8

Q ss_pred             CCcEEEEEeCCCCcHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCL   56 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l   56 (302)
                      .|.+..++|.+|+|||||..
T Consensus        13 ~~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          13 EGDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             TCCEEEEEECTTSCHHHHTC
T ss_pred             CCCEEEEEccCCCCcccccc
Confidence            47899999999999999764

>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=89.05  E-value=0.37  Score=38.58  Aligned_cols=46  Identities=15%  Similarity=0.173  Sum_probs=29.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeCCCCCCHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTEFPFPMRRL   89 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~e~~~~~~rl   89 (302)
                      ...-+.|.|++|+|||.+|..+.....   ...   ...+-+++. .++...+
T Consensus        22 ~~~pvlI~Ge~GtGK~~~A~~ih~~s~---~~~---~~~~~~~~~-~~~~~~~   67 (247)
T d1ny5a2          22 AECPVLITGESGVGKEVVARLIHKLSD---RSK---EPFVALNVA-SIPRDIF   67 (247)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHHHHHST---TTT---SCEEEEETT-TSCHHHH
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHHhcC---Ccc---cccccchhh-hhhhccc
Confidence            345589999999999999987765431   111   145666655 3444433

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=88.77  E-value=0.11  Score=43.35  Aligned_cols=20  Identities=25%  Similarity=0.400  Sum_probs=17.9

Q ss_pred             CCCcEEEEEeCCCCcHHHHH
Q 022155           36 PCNSITELVAESGSGKTQFC   55 (302)
Q Consensus        36 ~~G~i~ei~G~~GsGKT~l~   55 (302)
                      ..|++..++|-+|+|||||.
T Consensus        12 ~~~~~alfFGLSGTGKTTLs   31 (313)
T d2olra1          12 EKGDVAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             TTSCEEEEECSTTSSHHHHH
T ss_pred             CCCCEEEEEccCCCCcccce
Confidence            35789999999999999976

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.70  E-value=3.7  Score=31.77  Aligned_cols=19  Identities=26%  Similarity=0.184  Sum_probs=16.1

Q ss_pred             CCcEEEEEeCCCCcHHHHH
Q 022155           37 CNSITELVAESGSGKTQFC   55 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~   55 (302)
                      .|+-+.+..|+|||||.--
T Consensus        53 ~g~dvi~~a~TGSGKTlay   71 (222)
T d2j0sa1          53 KGRDVIAQSQSGTGKTATF   71 (222)
T ss_dssp             TTCCEEEECCTTSSHHHHH
T ss_pred             CCCCeEEEcCcchhhhhhh
Confidence            5778999999999999643

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=88.18  E-value=0.14  Score=42.89  Aligned_cols=20  Identities=30%  Similarity=0.426  Sum_probs=18.1

Q ss_pred             CCcEEEEEeCCCCcHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCL   56 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l   56 (302)
                      .|.+..++|-+|+|||||..
T Consensus        13 ~gd~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          13 QGDVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             TCCEEEEECCTTSSHHHHHC
T ss_pred             CCCEEEEEccCCCCccccee
Confidence            57899999999999999883

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.86  E-value=1.9  Score=33.13  Aligned_cols=20  Identities=30%  Similarity=0.144  Sum_probs=17.0

Q ss_pred             CCcEEEEEeCCCCcHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCL   56 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l   56 (302)
                      .|+=+.+.+|+|||||...+
T Consensus        46 ~g~dvl~~a~TGsGKT~a~~   65 (212)
T d1qdea_          46 EGHDVLAQAQSGTGKTGTFS   65 (212)
T ss_dssp             TTCCEEEECCTTSSHHHHHH
T ss_pred             cCCCEEeecccccchhhhhH
Confidence            56789999999999998554

>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=87.27  E-value=0.2  Score=39.54  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      ++.|.|.+.+|||||+..+....
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCccHHHHHHHHHhhc
Confidence            58999999999999998887764

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.07  E-value=5  Score=30.46  Aligned_cols=19  Identities=32%  Similarity=0.183  Sum_probs=15.5

Q ss_pred             CCcEEEEEeCCCCcHHHHH
Q 022155           37 CNSITELVAESGSGKTQFC   55 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~   55 (302)
                      .|+=+.+..|+|||||.-.
T Consensus        37 ~g~dvl~~A~TGsGKTla~   55 (207)
T d1t6na_          37 LGMDVLCQAKSGMGKTAVF   55 (207)
T ss_dssp             TTCCEEEECCTTSCHHHHH
T ss_pred             cCCCeEEEecccccccccc
Confidence            4567999999999998644

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.83  E-value=1  Score=35.06  Aligned_cols=25  Identities=28%  Similarity=0.114  Sum_probs=18.7

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLS   61 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~   61 (302)
                      .|.-+.+.+|+|||||.-.+--+.+
T Consensus        48 ~g~dvl~~a~TGsGKTlayllp~l~   72 (218)
T d2g9na1          48 KGYDVIAQAQSGTGKTATFAISILQ   72 (218)
T ss_dssp             HTCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCCEEEEcccchhhhhhhhhhhhh
Confidence            4667899999999999865533333

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=85.16  E-value=1.1  Score=35.38  Aligned_cols=18  Identities=33%  Similarity=0.272  Sum_probs=16.0

Q ss_pred             CCcEEEEEeCCCCcHHHH
Q 022155           37 CNSITELVAESGSGKTQF   54 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l   54 (302)
                      .|+=+.+..|+|||||.-
T Consensus        57 ~g~dvvi~a~TGsGKTla   74 (238)
T d1wrba1          57 EHRDIMACAQTGSGKTAA   74 (238)
T ss_dssp             TTCCEEEECCTTSSHHHH
T ss_pred             CCCCEEEECCCCCCccee
Confidence            578899999999999984

>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=84.56  E-value=0.24  Score=41.67  Aligned_cols=33  Identities=18%  Similarity=0.071  Sum_probs=24.9

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEe
Q 022155           41 TELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH   79 (302)
Q Consensus        41 ~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid   79 (302)
                      +.|-|+-|+||||++..++....   ..|.   .++++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~---~~g~---~v~~~~   40 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFA---ITPN---RILLIG   40 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTT---TSGG---GEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh---hcCC---ceEEEe
Confidence            78899999999999988877642   2333   566665

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=84.05  E-value=0.63  Score=35.87  Aligned_cols=42  Identities=21%  Similarity=0.275  Sum_probs=28.8

Q ss_pred             hhhHhhhCCCCCCCcEEEEEeCCCCcHHHHHHHHHHHccCCCcCCCCCCeEEEEeC
Q 022155           25 PIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT   80 (302)
Q Consensus        25 ~~LD~~L~GGl~~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~~gg~~~~vlyid~   80 (302)
                      ..++.++.     +.-..|+.|.|+|||.++..++...      +.   +++++..
T Consensus        77 eav~~~~~-----~~~~ll~~~tG~GKT~~a~~~~~~~------~~---~~Liv~p  118 (206)
T d2fz4a1          77 KALERWLV-----DKRGCIVLPTGSGKTHVAMAAINEL------ST---PTLIVVP  118 (206)
T ss_dssp             HHHHHHTT-----TSEEEEEESSSTTHHHHHHHHHHHS------CS---CEEEEES
T ss_pred             HHHHHHHh-----CCCcEEEeCCCCCceehHHhHHHHh------cC---ceeEEEc
Confidence            35666653     2345688999999999887776553      22   6888874

>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=83.93  E-value=0.42  Score=40.12  Aligned_cols=23  Identities=22%  Similarity=0.076  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHc
Q 022155           40 ITELVAESGSGKTQFCLQLTLSA   62 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~~~   62 (302)
                      .+-|-|+-|+||||++..++...
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGG
T ss_pred             EEEEECCccCCHHHHHHHHHHHh
Confidence            46789999999999998887664

>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=83.78  E-value=0.3  Score=42.19  Aligned_cols=21  Identities=33%  Similarity=0.433  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHHH
Q 022155           40 ITELVAESGSGKTQFCLQLTL   60 (302)
Q Consensus        40 i~ei~G~~GsGKT~l~l~la~   60 (302)
                      -+.|+|.||+|||+|...+..
T Consensus        58 ~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999988864

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.39  E-value=0.78  Score=32.34  Aligned_cols=51  Identities=14%  Similarity=0.050  Sum_probs=34.3

Q ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHccCCCc-CCCCCCeEEEEeCCCCCCHHHHHHHHHH
Q 022155           37 CNSITELVAESGSGKTQFCLQLTLSAQLPSS-HGGLSASSLYLHTEFPFPMRRLHQLSHT   95 (302)
Q Consensus        37 ~G~i~ei~G~~GsGKT~l~l~la~~~~l~~~-~gg~~~~vlyid~e~~~~~~rl~~i~~~   95 (302)
                      .|=.+-+.|-+|+||+|++..+.....   . .|+  ..+-.+|.+   +..|+..++..
T Consensus         5 qgf~i~~tg~~~~gk~~ia~al~~~l~---q~~G~--R~vtll~~~---ni~ri~fva~e   56 (122)
T d1g8fa3           5 QGFSIVLGNSLTVSREQLSIALLSTFL---QFGGG--RYYKIFEHN---NKTELLSLIQD   56 (122)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHT---TSCSC--CCEEECCCT---TCHHHHTTHHH
T ss_pred             cceEEEEeCCCCCCHHHHHHHHHHHHH---HhcCC--cceEEecCC---CHHHHHHHHHH
Confidence            455778899999999999988877652   3 354  255556655   35666544443