Citrus Sinensis ID: 017884

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360----
Protein Sequence
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAAAK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHHHccccccccccEEEEEEcccccccHHHHHHHHHHHHHHHccccEEEEEcccccccHHHHcccccEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccEEccccccccccccccccccccccccccccccccccccEEEcccccHHHHcccHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHcHHHHHHHHHHcccccccHHHHHHHHHHHHHccccccccccccEEEEEccHHHHcHHHHHHHHHHHHHHHcccEEEEEEccccccccHHHcccEEEEEccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHcccccHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
maeaetvslmdfdedenqnlkpkdngknvivsgtppdikaspwvekyrpqsladvaaHRDIVDTIdrltsenrlphlllygppgtgktSTILAVARKLYGAQYHNMILElnasddrgIDVVRQQIQDfastqsfsfgvKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPalqsrctrfrfaplepvhvTERLKHVIeaegldvteGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLctgnplpkdIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLsfgcndklqlgsIISTFTQARSAIVAAAK
Flexible Loop (DISEMBL)
maeaetvslmdfdedenqnlkpkdngknvivsgtppdikaspwVEKYRPQSLADVAAHRDIVDTidrltsenrlphlllygppgtgkTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFastqsfsfgvKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIeaegldvtegGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFvfkikmpsdvRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAAAK
Low Complexity Region (SEG)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAAAK
Disordered region (IsUnstruct)
*****************************************PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAI*****
Disordered Region (DISOPRED)
******************************************WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS*****KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIV****
Disordered Region (DISEMBL)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAAAK
Disordered Region (DISPRO)
**************************************KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAA**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAAAK
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	364	2.2.26 [Sep-21-2011]
Q9D0F6	339	Replication factor C subu	yes	no	0.876	0.941	0.606	1e-113
P40937	340	Replication factor C subu	yes	no	0.887	0.95	0.593	1e-112
Q54ST4	347	Probable replication fact	yes	no	0.859	0.902	0.578	1e-102
O14003	342	Replication factor C subu	yes	no	0.843	0.897	0.519	1e-95
O74111	338	Replication factor C subu	N/A	no	0.851	0.917	0.5	3e-87
P38629	340	Replication factor C subu	yes	no	0.843	0.902	0.472	4e-82
P34429	368	Probable replication fact	yes	no	0.835	0.826	0.479	7e-81
Q9HN27	322	Replication factor C smal	yes	no	0.837	0.947	0.423	2e-69
B0R7H7	322	Replication factor C smal	yes	no	0.837	0.947	0.423	2e-69
Q0W037	322	Replication factor C smal	yes	no	0.843	0.953	0.4	3e-68

>sp|Q9D0F6|RFC5_MOUSE Replication factor C subunit 5 OS=Mus musculus GN=Rfc5 PE=2 SV=1

 Score =  407 bits (1045), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 196/323 (60%), Positives = 249/323 (77%), Gaps = 4/323 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-G 100
           PWVEKYRPQ+LAD+ +H+DI+ TI +  SE+RLPHLLLYGPPGTGKTSTILA A++LY  
Sbjct: 20  PWVEKYRPQTLADLISHQDILSTIQKFISEDRLPHLLLYGPPGTGKTSTILACAKQLYKD 79

Query: 101 AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFA 160
            ++ +M+LELNASDDRGID+VR  I  FAST++     K   KLV+LDEADAMT+DAQ A
Sbjct: 80  KEFGSMVLELNASDDRGIDIVRGPILSFASTRTI---FKKGFKLVILDEADAMTQDAQNA 136

Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
           LRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV++ E +D+
Sbjct: 137 LRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVQEENVDI 196

Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE 280
           +E G+ ALV L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W+LN+
Sbjct: 197 SEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKTDIANILDWMLNQ 256

Query: 281 SFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCN 340
            F  ++K I E+K  KGLAL DI+ EV +FV ++  PS VR+ L+  +ADIEYRLS G +
Sbjct: 257 DFTTAYKNIMELKTLKGLALHDILTEVHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTS 316

Query: 341 DKLQLGSIISTFTQARSAIVAAA 363
           +K+QL S+I+ F   R  IVA A
Sbjct: 317 EKIQLSSLIAAFQVTRDLIVAEA 339

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1.
Mus musculus (taxid: 10090)

>sp|P40937|RFC5_HUMAN Replication factor C subunit 5 OS=Homo sapiens GN=RFC5 PE=1 SV=1

 Score =  406 bits (1044), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 194/327 (59%), Positives = 251/327 (76%), Gaps = 4/327 (1%)

Query: 38  IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK 97
           I+  PWVEKYRPQ+L D+ +H+DI+ TI +  +E+RLPHLLLYGPPGTGKTSTILA A++
Sbjct: 17  IRNLPWVEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQ 76

Query: 98  LY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD 156
           LY   ++ +M+LELNASDDRGID++R  I  FAST++     K   KLV+LDEADAMT+D
Sbjct: 77  LYKDKEFGSMVLELNASDDRGIDIIRGPILSFASTRTI---FKKGFKLVILDEADAMTQD 133

Query: 157 AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE 216
           AQ ALRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV+E E
Sbjct: 134 AQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEE 193

Query: 217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYW 276
            +D++E G+ ALV L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W
Sbjct: 194 KVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDW 253

Query: 277 LLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLS 336
           +LN+ F  +++ I+E+K  KGLAL DI+ E+ +FV ++  PS VR+ L+  +ADIEYRLS
Sbjct: 254 MLNQDFTTAYRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLS 313

Query: 337 FGCNDKLQLGSIISTFTQARSAIVAAA 363
            G N+K+QL S+I+ F   R  IVA A
Sbjct: 314 VGTNEKIQLSSLIAAFQVTRDLIVAEA 340

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1.

Homo sapiens (taxid: 9606)

>sp|Q54ST4|RFC5_DICDI Probable replication factor C subunit 5 OS=Dictyostelium discoideum GN=rfc5 PE=3 SV=1

 Score =  370 bits (951), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 184/318 (57%), Positives = 231/318 (72%), Gaps = 5/318 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L D+ AH DI  TI +L   N LPHLL YGPPGTGKTSTI A+ARKLYG 
Sbjct: 25  PWVEKYRPKNLDDLIAHEDITQTITKLIDNNTLPHLLFYGPPGTGKTSTIQAIARKLYGD 84

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            Y  M+LELNASDDRGIDVVR+QI+ FAS+  F F      KL++LDEAD+MT  AQ AL
Sbjct: 85  NYSRMVLELNASDDRGIDVVREQIKTFASSM-FFFNTTVPYKLIILDEADSMTNIAQTAL 143

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTE-RLKHVIEAEGLDV 220
           RRVIEKYTK TRF ++CN V KIIPALQSRCTRFRF+PL P   TE RLK +IE E + V
Sbjct: 144 RRVIEKYTKTTRFCIVCNYVIKIIPALQSRCTRFRFSPL-PTPPTEIRLKEIIEKENVKV 202

Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLL 278
               + A++ L  GDMRK LNILQS  M+S    ITEEA+Y CTG P+P DIE +  WLL
Sbjct: 203 DSKAMNAVLELGCGDMRKCLNILQSVSMSSIDNNITEEAIYKCTGYPMPSDIELMVDWLL 262

Query: 279 NESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFG 338
           N  + ++F+ IS++K +KGL+L DI+  +  FV +I + + +  +L++ L+DIEY LS G
Sbjct: 263 NSDYEEAFQNISDLKKKKGLSLNDIIATLQKFVVQIDLDNVILCKLLSHLSDIEYNLSIG 322

Query: 339 CNDKLQLGSIISTFTQAR 356
            ++KLQLGS++  F  +R
Sbjct: 323 SSEKLQLGSLVGCFQLSR 340

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1.

Dictyostelium discoideum (taxid: 44689)

>sp|O14003|RFC3_SCHPO Replication factor C subunit 3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rfc3 PE=1 SV=2

 Score =  350 bits (898), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 161/310 (51%), Positives = 226/310 (72%), Gaps = 3/310 (0%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP +L DV +H+DI+ T+++  S NR+PH+L YGPPGTGKTSTILA ARK+YG 
Sbjct: 24  PWVEKYRPANLEDVVSHKDIISTLEKFISSNRVPHMLFYGPPGTGKTSTILACARKIYGP 83

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            Y N ++ELNASDDRGID VR+QI++FAST+       ++ K+++LDEADAMT  AQ AL
Sbjct: 84  NYRNQLMELNASDDRGIDAVREQIKNFASTRQI---FASTFKMIILDEADAMTLAAQNAL 140

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RRVIEKYTKN RF +ICN +NKI PA+QSRCTRFRF PL P  + + + HVI++E  ++ 
Sbjct: 141 RRVIEKYTKNVRFCIICNYINKISPAIQSRCTRFRFQPLPPKEIEKTVDHVIQSEHCNID 200

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
                A++RL  GDMRKALNILQ+ H A   I   A+Y C G+P P DI+     ++N+ 
Sbjct: 201 PDAKMAVLRLSKGDMRKALNILQACHAAYDHIDVSAIYNCVGHPHPSDIDYFLKSIMNDE 260

Query: 282 FADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCND 341
           F  +F  IS +K +KGLAL DI+  +   + ++++  + ++ +++ LA IE+R+SFGC++
Sbjct: 261 FVIAFNTISSIKQQKGLALQDILTCIFEALDELEIKPNAKIFILDQLATIEHRMSFGCSE 320

Query: 342 KLQLGSIIST 351
           K+QL ++I++
Sbjct: 321 KIQLSAMIAS 330

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1. Subunit 3 binds ATP. Also involved in replication and DNA damage checkpoint controls, probably functioning as a checkpoint sensor.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|O74111|RFC3_BLAAD Replication factor C subunit 3 OS=Blastobotrys adeninivorans GN=RFC3 PE=3 SV=1

 Score =  322 bits (825), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 159/318 (50%), Positives = 218/318 (68%), Gaps = 8/318 (2%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP +L +VA H  ++ TI +   E +LPHLL +GPPGTGKT+TI+AVAR++YG 
Sbjct: 18  PWVEKYRPTTLDEVAGHEGVITTIKKFVEEGKLPHLLFHGPPGTGKTTTIIAVARQIYGK 77

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFAST-QSFSFGVKASVKLVLLDEADAMTKDAQFA 160
            Y NMILELNASD+RGIDVVR QI+ FAST Q FS G     KLV+LDEADAMT  AQ A
Sbjct: 78  NYRNMILELNASDERGIDVVRDQIKTFASTRQIFSSG----FKLVILDEADAMTNAAQNA 133

Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
           LRR+IEKY+ +TRF ++ N  +K+ PAL SRCTRFRF+PL+   +  RL HVIE E +D+
Sbjct: 134 LRRIIEKYSAHTRFCILANYTHKLNPALLSRCTRFRFSPLKEDAIKHRLAHVIEQESVDL 193

Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHM---ASQQITEEAVYLCTGNPLPKDIEQISYWL 277
           +     +L+ L +GDMR+ALN+LQ+ +    A +QI+EE VY C G+P P DI  +   +
Sbjct: 194 SPEAFQSLLHLSSGDMRRALNVLQACYASVDAGEQISEELVYDCVGSPRPADIRTVLQAV 253

Query: 278 LNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSF 337
           L+ S+  +    S +K  KGLAL D++    +   K+ + +  R+ L++ L++IE+RLS 
Sbjct: 254 LDGSWESALHTFSYIKQSKGLALADMLTAFAVEFQKLDLQNKTRIALLDGLSEIEWRLSS 313

Query: 338 GCNDKLQLGSIISTFTQA 355
           G N+ +Q  + I    Q+
Sbjct: 314 GGNESIQTSATIGVIKQS 331

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. Subunit 3 binds ATP.

Blastobotrys adeninivorans (taxid: 409370)

>sp|P38629|RFC3_YEAST Replication factor C subunit 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RFC3 PE=1 SV=1

 Score =  305 bits (780), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 152/322 (47%), Positives = 217/322 (67%), Gaps = 15/322 (4%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V    +++ T+ +   E +LPHLL YGPPGTGKTSTI+A+AR++YG 
Sbjct: 14  PWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK 73

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFAST-QSFSFGVKASVKLVLLDEADAMTKDAQFA 160
            Y NM+LELNASDDRGIDVVR QI+DFAST Q FS G     KL++LDEADAMT  AQ A
Sbjct: 74  NYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG----FKLIILDEADAMTNAAQNA 129

Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
           LRRVIE+YTKNTRF ++ N  +K+ PAL SRCTRFRF PL    +  R+ +V+  E L +
Sbjct: 130 LRRVIERYTKNTRFCVLANYAHKLTPALLSRCTRFRFQPLPQEAIERRIANVLVHEKLKL 189

Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEEAVYLCTGNPLPKDIEQISY 275
           +     AL+ L NGDMR+ LN+LQS           +I+++ +Y C G P P D++ +  
Sbjct: 190 SPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLK 249

Query: 276 WLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPS-DVRVRLMNDLADIEYR 334
            +L + +  +   +++++  KGLAL+D++  +   +   ++ + + RV L+  LADIEY 
Sbjct: 250 SILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYS 309

Query: 335 LSFGCNDKLQ----LGSIISTF 352
           +S G ND++Q    +G+I ++F
Sbjct: 310 ISKGGNDQIQGSAVIGAIKASF 331

Component of ATP-dependent clamp loader (RFC and RFC-like) complexes for DNA clamps, such as the POL30/PCNA homotrimer and the checkpoint clamp DDC1:MEC3:RAD17 complex. During a clamp loading circle, the RFC:clamp complex binds to DNA and the recognition of the double-stranded/single-stranded junction stimulates ATP hydrolysis by RFC. The complex presumably provides bipartite ATP sites in which one subunit supplies a catalytic site for hydrolysis of ATP bound to the neighboring subunit. Dissociation of RFC from the clamp leaves the clamp encircling DNA. Component of the replication factor C (RFC or activator 1) complex which loads POL30/PCNA and acts during elongation of primed DNA templates by DNA polymerase delta and epsilon. RFC has an essential but redundant activity in sister chromatid cohesion establishment. Component of the RFC-like complex CTF18-RFC which is required for efficient establishment of chromosome cohesion during S-phase and may load or unload POL30/PCNA. Component of the RFC-like RAD24-RFC complex which loads the checkpoint clamp DDC1:MEC3:RAD17 complex and is involved in DNA repair pathways. Component of the RFC-like ELG1-RFC complex which appears to have a role in DNA replication, replication fork re-start, recombination and repair. RFC3 supplies a catalytic site to the ATP site of RFC4.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|P34429|RFC5_CAEEL Probable replication factor C subunit 5 OS=Caenorhabditis elegans GN=F44B9.8 PE=3 SV=3

 Score =  301 bits (770), Expect = 7e-81,   Method: Compositional matrix adjust.
 Identities = 149/311 (47%), Positives = 200/311 (64%), Gaps = 7/311 (2%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG- 100
           PWVEKYRP  L ++ AH  IV T+ +      LPHLL YGPPGTGKT+T+LA AR++Y  
Sbjct: 30  PWVEKYRPSKLDELVAHEQIVKTLTKFIENRTLPHLLFYGPPGTGKTTTVLAAARQMYSP 89

Query: 101 AQYHNMILELNASDDRGIDVVRQQIQDFAST---QSFSFGVKASV---KLVLLDEADAMT 154
            +  +M+LELNASD+RGIDVVR  I +FA T   Q+FS          KLV+LDEADAMT
Sbjct: 90  TKMASMVLELNASDERGIDVVRNTIVNFAQTKGLQAFSTSSNTGTVPFKLVILDEADAMT 149

Query: 155 KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE 214
           KDAQ ALRRVIEKYT N RF +ICN +  I+PA+QSRCTRFRFAPL+   +  RL++++E
Sbjct: 150 KDAQNALRRVIEKYTDNVRFCIICNYLASIVPAIQSRCTRFRFAPLDQKLIVPRLEYIVE 209

Query: 215 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQIS 274
            E L +T  G  AL+ +  GDMR  +N LQST M+   ++E  VY C G P PK+++++ 
Sbjct: 210 TEQLKMTPDGKDALLIVSKGDMRTVINTLQSTAMSFDTVSENTVYQCIGQPTPKEMKEVV 269

Query: 275 YWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYR 334
             LLN+        I       G AL D++  +  FVF + +P +    ++  L ++E  
Sbjct: 270 KTLLNDPSKKCMNTIQTKLFENGYALQDVITHLHDFVFTLDIPDEAMSAIITGLGEVEEN 329

Query: 335 LSFGCNDKLQL 345
           LS GC+++ QL
Sbjct: 330 LSTGCSNETQL 340

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1.

Caenorhabditis elegans (taxid: 6239)

>sp|Q9HN27|RFCS_HALSA Replication factor C small subunit OS=Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) GN=rfcS PE=3 SV=1

 Score =  263 bits (671), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 131/309 (42%), Positives = 196/309 (63%), Gaps = 4/309 (1%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
           WVEKYRP+ L DV  H DI + +      + LPHLL  GP GTGKT++ +++A++LYG  
Sbjct: 12  WVEKYRPERLEDVVGHPDITERLQSYVDRDDLPHLLFAGPAGTGKTASSVSIAKELYGDD 71

Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
           + +  LELNASD+RGIDVVR +I+DFA +   SFG   + +++ LDEADA+T DAQ ALR
Sbjct: 72  WQDNFLELNASDERGIDVVRDRIKDFARS---SFGGH-NYRVIFLDEADALTDDAQSALR 127

Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE 222
           R +E+++ NTRF L CN  +KII  +QSRC  FRFA L    V   L+ + E EGL+ T+
Sbjct: 128 RTMEQFSNNTRFILSCNYSSKIIDPIQSRCAVFRFAQLGDDAVAAHLREIAETEGLEHTD 187

Query: 223 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESF 282
            G+ ALV   +GDMR+A+N LQ+       + EE VY  T    P++IE +    L   F
Sbjct: 188 DGIDALVYAADGDMRRAINALQAASATGDSVNEETVYAITATARPEEIETMVTEALGGDF 247

Query: 283 ADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDK 342
           A +   + ++   +GLA  DI+ +V   V++  +     VRL++ L + +YR++ G N++
Sbjct: 248 AAARATLDDLLTNRGLAGGDIIDQVHRSVWEFDVEEAAAVRLLDRLGEADYRIAEGANER 307

Query: 343 LQLGSIIST 351
           +QL +++++
Sbjct: 308 VQLEALLAS 316

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA.

Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) (taxid: 64091)

>sp|B0R7H7|RFCS_HALS3 Replication factor C small subunit OS=Halobacterium salinarum (strain ATCC 29341 / DSM 671 / R1) GN=rfcS PE=3 SV=1

 Score =  263 bits (671), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 131/309 (42%), Positives = 196/309 (63%), Gaps = 4/309 (1%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
           WVEKYRP+ L DV  H DI + +      + LPHLL  GP GTGKT++ +++A++LYG  
Sbjct: 12  WVEKYRPERLEDVVGHPDITERLQSYVDRDDLPHLLFAGPAGTGKTASSVSIAKELYGDD 71

Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
           + +  LELNASD+RGIDVVR +I+DFA +   SFG   + +++ LDEADA+T DAQ ALR
Sbjct: 72  WQDNFLELNASDERGIDVVRDRIKDFARS---SFGGH-NYRVIFLDEADALTDDAQSALR 127

Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE 222
           R +E+++ NTRF L CN  +KII  +QSRC  FRFA L    V   L+ + E EGL+ T+
Sbjct: 128 RTMEQFSNNTRFILSCNYSSKIIDPIQSRCAVFRFAQLGDDAVAAHLREIAETEGLEHTD 187

Query: 223 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESF 282
            G+ ALV   +GDMR+A+N LQ+       + EE VY  T    P++IE +    L   F
Sbjct: 188 DGIDALVYAADGDMRRAINALQAASATGDSVNEETVYAITATARPEEIETMVTEALGGDF 247

Query: 283 ADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDK 342
           A +   + ++   +GLA  DI+ +V   V++  +     VRL++ L + +YR++ G N++
Sbjct: 248 AAARATLDDLLTNRGLAGGDIIDQVHRSVWEFDVEEAAAVRLLDRLGEADYRIAEGANER 307

Query: 343 LQLGSIIST 351
           +QL +++++
Sbjct: 308 VQLEALLAS 316

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA.

Halobacterium salinarum (strain ATCC 29341 / DSM 671 / R1) (taxid: 478009)

>sp|Q0W037|RFCS_UNCMA Replication factor C small subunit OS=Uncultured methanogenic archaeon RC-I GN=rfcS PE=3 SV=1

 Score =  259 bits (661), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 124/310 (40%), Positives = 192/310 (61%), Gaps = 3/310 (0%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
           W EKYRP+ L DV  H+ I   +        LPHLL  GPPG GKT+  +A+AR+LYG  
Sbjct: 7   WTEKYRPRRLEDVIGHQQITRRLISYVKSGNLPHLLFSGPPGVGKTACAVALARELYGET 66

Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
           +H+  +ELNASD+RGIDVVR  I++FA T       +A  K++ LDEADA+T DAQ ALR
Sbjct: 67  WHSNFIELNASDERGIDVVRNNIKNFARTAPLG---EAKFKIIFLDEADALTSDAQSALR 123

Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE 222
           R +E+Y    RF + CN  +KII  +QSRC  +RF PL    +T  +  + + EGL + +
Sbjct: 124 RTMERYAATCRFIISCNYSSKIIEPIQSRCAVYRFGPLNATDITTGITRIAKNEGLKIEK 183

Query: 223 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESF 282
            G+ AL+ +  GDMR+A+N LQS    ++ IT + +Y  T    PK+IE +    LN  F
Sbjct: 184 DGMDALIYVARGDMRRAINALQSAATIAKDITADVIYQTTSTAKPKEIEDMLKLALNGQF 243

Query: 283 ADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDK 342
            DS  ++ E+ +  GL+  DI+ ++   +F++ +  DV V L++ + + ++RL+ G +++
Sbjct: 244 MDSRNKLDELLITYGLSGTDIIDQIYRSMFELGLDEDVLVALVDRIGEADFRLTEGASER 303

Query: 343 LQLGSIISTF 352
           +Q+ ++++ F
Sbjct: 304 IQIEALLAHF 313

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA.

Uncultured methanogenic archaeon RC-I (taxid: 351160)

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	364
224066809	363	predicted protein [Populus trichocarpa]	0.989	0.991	0.864	0.0
255558636	360	replication factor C / DNA polymerase II	0.978	0.988	0.859	0.0
225459599	360	PREDICTED: replication factor C subunit	0.956	0.966	0.885	0.0
356515902	361	PREDICTED: replication factor C subunit	0.983	0.991	0.858	1e-179
449464168	363	PREDICTED: replication factor C subunit	0.991	0.994	0.837	1e-179
356509405	363	PREDICTED: replication factor C subunit	0.989	0.991	0.850	1e-179
357463515	355	Replication factor C subunit [Medicago t	0.909	0.932	0.873	1e-170
297842523	369	hypothetical protein ARALYDRAFT_476911 [	0.986	0.972	0.804	1e-169
115449001	361	Os02g0775200 [Oryza sativa Japonica Grou	0.906	0.914	0.848	1e-168
326489719	359	predicted protein [Hordeum vulgare subsp	0.983	0.997	0.785	1e-168

>gi|224066809|ref|XP_002302226.1| predicted protein [Populus trichocarpa] gi|222843952|gb|EEE81499.1| predicted protein [Populus trichocarpa]

 Score =  649 bits (1675), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 312/361 (86%), Positives = 336/361 (93%), Gaps = 1/361 (0%)

Query: 4   AETVSLMDFDEDENQNLKPKDN-GKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIV 62
           AE ++LMD DE+ENQN   K N GK V+V  TPP  KA+PWVEKYRPQSLADVAAHRDI+
Sbjct: 2   AEAIALMDIDEEENQNHLSKPNKGKKVVVPATPPGGKATPWVEKYRPQSLADVAAHRDII 61

Query: 63  DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR 122
           DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR
Sbjct: 62  DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR 121

Query: 123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN 182
           +QIQDFASTQSFSFG KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN VN
Sbjct: 122 KQIQDFASTQSFSFGAKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNHVN 181

Query: 183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI 242
           KIIPALQSRCTRFRFAPL+P+HV ERLKHVIEAEGLDV E GL AL  L NGDMRKALNI
Sbjct: 182 KIIPALQSRCTRFRFAPLDPMHVGERLKHVIEAEGLDVPESGLEALKCLSNGDMRKALNI 241

Query: 243 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVD 302
           LQSTHMASQQITEE VYLCTGNPLP+D++QI++WLLNESFA+S+KRISE+K RKGLALVD
Sbjct: 242 LQSTHMASQQITEETVYLCTGNPLPQDVQQITHWLLNESFAESYKRISEIKTRKGLALVD 301

Query: 303 IVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAA 362
           IVREVTMFVFKIKM SD+RV L+NDLADIEYRLSFGCNDKLQLGS+I++FT+ARSA+VAA
Sbjct: 302 IVREVTMFVFKIKMQSDIRVPLINDLADIEYRLSFGCNDKLQLGSLIASFTRARSALVAA 361

Query: 363 A 363
           A
Sbjct: 362 A 362

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255558636|ref|XP_002520343.1| replication factor C / DNA polymerase III gamma-tau subunit, putative [Ricinus communis] gi|223540562|gb|EEF42129.1| replication factor C / DNA polymerase III gamma-tau subunit, putative [Ricinus communis]

 Score =  643 bits (1659), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 313/364 (85%), Positives = 338/364 (92%), Gaps = 8/364 (2%)

Query: 4   AETVSLMDFDED--ENQNLKPKDN-GKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRD 60
           A+ V++MD DED  E QN   K N GKNV V     D KA+PWVEKYRPQSLADVAAHRD
Sbjct: 2   ADVVTIMDIDEDVKEKQNQLSKPNKGKNVFV-----DTKATPWVEKYRPQSLADVAAHRD 56

Query: 61  IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV 120
           IVDTIDRLT+ENRLPHLLLYGPPGTGKTSTILAVARKLYG QYHNMILELNASDDRGIDV
Sbjct: 57  IVDTIDRLTNENRLPHLLLYGPPGTGKTSTILAVARKLYGVQYHNMILELNASDDRGIDV 116

Query: 121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ 180
           VRQQIQDFASTQSFSF  K++VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN 
Sbjct: 117 VRQQIQDFASTQSFSFDAKSAVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNH 176

Query: 181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKAL 240
           VNKIIPALQSRCTRFRFAPL+P+HVT+RLKHVIEAEGLDV E GLAA+VRL NGDMRKAL
Sbjct: 177 VNKIIPALQSRCTRFRFAPLDPIHVTDRLKHVIEAEGLDVPEPGLAAVVRLSNGDMRKAL 236

Query: 241 NILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLAL 300
           NILQSTHMASQQITEEAV+LCTGNPLPKDI+QISYWLLNESFA+SFKRISE+K +KGLAL
Sbjct: 237 NILQSTHMASQQITEEAVHLCTGNPLPKDIQQISYWLLNESFAESFKRISEIKTKKGLAL 296

Query: 301 VDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIV 360
           VDIVREVTMFVFKIKMPSDVRV+L+ND+ADIEYRLSFGC+DKLQLGS++++FT ARSA+V
Sbjct: 297 VDIVREVTMFVFKIKMPSDVRVQLINDMADIEYRLSFGCSDKLQLGSLVASFTWARSALV 356

Query: 361 AAAK 364
           AAAK
Sbjct: 357 AAAK 360

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225459599|ref|XP_002285868.1| PREDICTED: replication factor C subunit 5 [Vitis vinifera] gi|302141794|emb|CBI18997.3| unnamed protein product [Vitis vinifera]

 Score =  643 bits (1659), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 310/350 (88%), Positives = 330/350 (94%), Gaps = 2/350 (0%)

Query: 4   AETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVD 63
           AE V++MD DE++N  LK  + GK+V+V G PPD KA+PWVEKYRPQSLADVAAHRDIVD
Sbjct: 2   AEAVTVMDIDEEDNHLLKA-NKGKSVVVGG-PPDRKATPWVEKYRPQSLADVAAHRDIVD 59

Query: 64  TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ 123
           TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG Q+HNMILELNASDDRGIDVVRQ
Sbjct: 60  TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGEQFHNMILELNASDDRGIDVVRQ 119

Query: 124 QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK 183
           QIQDFASTQSFSFG K+SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN VNK
Sbjct: 120 QIQDFASTQSFSFGAKSSVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNHVNK 179

Query: 184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL 243
           IIPALQSRCTRFRFAPL+ VHVTERLKHVI AE LDV+E GLAALVRL +GDMRKALNIL
Sbjct: 180 IIPALQSRCTRFRFAPLDAVHVTERLKHVINAEKLDVSESGLAALVRLSSGDMRKALNIL 239

Query: 244 QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDI 303
           QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFA SF RISE+KMRKGLALVD+
Sbjct: 240 QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFAASFDRISEVKMRKGLALVDV 299

Query: 304 VREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFT 353
           VREVTMFVFKIKMPSDVRV+L+NDLADIEYRLSFGCNDKLQLGS+I++FT
Sbjct: 300 VREVTMFVFKIKMPSDVRVQLINDLADIEYRLSFGCNDKLQLGSLIASFT 349

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515902|ref|XP_003526636.1| PREDICTED: replication factor C subunit 5-like [Glycine max]

 Score =  635 bits (1637), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 310/361 (85%), Positives = 328/361 (90%), Gaps = 3/361 (0%)

Query: 4   AETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDI-KASPWVEKYRPQSLADVAAHRDIV 62
           A+T   MD D D      P D GK+V+ +G PP   KA PWVEKYRPQSL DVAAHRDIV
Sbjct: 2   AQTTHPMDID-DHTYTASP-DKGKSVVFAGNPPAAGKAIPWVEKYRPQSLDDVAAHRDIV 59

Query: 63  DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR 122
           DTIDRLT+ENRLPHLLLYGPPGTGKTSTILAVARKLYG+QY NMILELNASDDRGIDVVR
Sbjct: 60  DTIDRLTTENRLPHLLLYGPPGTGKTSTILAVARKLYGSQYQNMILELNASDDRGIDVVR 119

Query: 123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN 182
           QQIQDFASTQS SFGVK+SVKLVLLDEADAMTKDAQFALRRVIEKYTK+TRFALICN VN
Sbjct: 120 QQIQDFASTQSLSFGVKSSVKLVLLDEADAMTKDAQFALRRVIEKYTKSTRFALICNHVN 179

Query: 183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI 242
           KIIPALQSRCTRFRFAPL+ VHVTERLKHVI+AEGLDV + GLAA VRL NGDMRKALNI
Sbjct: 180 KIIPALQSRCTRFRFAPLDAVHVTERLKHVIKAEGLDVEDSGLAAFVRLSNGDMRKALNI 239

Query: 243 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVD 302
           LQSTHMASQQITEEAVYLCTGNPLPKDIE ISYWLLNE FADSFKRI EMK RKGLAL+D
Sbjct: 240 LQSTHMASQQITEEAVYLCTGNPLPKDIELISYWLLNEQFADSFKRIDEMKTRKGLALID 299

Query: 303 IVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAA 362
           IVREVTMFVFKIKMPS VRV+LMNDLADIEYRLSFGCNDKLQLGS+I++FT+ARSA+VAA
Sbjct: 300 IVREVTMFVFKIKMPSAVRVQLMNDLADIEYRLSFGCNDKLQLGSVIASFTRARSALVAA 359

Query: 363 A 363
           A
Sbjct: 360 A 360

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464168|ref|XP_004149801.1| PREDICTED: replication factor C subunit 5-like [Cucumis sativus] gi|449499057|ref|XP_004160708.1| PREDICTED: replication factor C subunit 5-like [Cucumis sativus]

 Score =  633 bits (1632), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 303/362 (83%), Positives = 330/362 (91%), Gaps = 1/362 (0%)

Query: 4   AETVSLMDFDEDENQNLKPKD-NGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIV 62
           +E +S+MD D+D   N   K   GKNV      P+ KA PWVEK+RP+SLADVAAHRDIV
Sbjct: 2   SEVISVMDIDDDNGNNEAEKAVKGKNVASPAAAPEGKAIPWVEKFRPKSLADVAAHRDIV 61

Query: 63  DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR 122
           DTID+LTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  YHNMILELNASDDRGIDVVR
Sbjct: 62  DTIDKLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGTNYHNMILELNASDDRGIDVVR 121

Query: 123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN 182
           QQIQDFASTQSFSFG KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN VN
Sbjct: 122 QQIQDFASTQSFSFGAKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNHVN 181

Query: 183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI 242
           KIIPALQSRCTRFRFAPL+  HVTERL++VIEAE LDVTEGGLAALVRLC GDMRKALNI
Sbjct: 182 KIIPALQSRCTRFRFAPLDNFHVTERLRYVIEAERLDVTEGGLAALVRLCTGDMRKALNI 241

Query: 243 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVD 302
           LQSTHMASQ ITEEAVYLCTGNP+PKDIEQIS+WLLNE F+DSFKRISE+K RKGLALVD
Sbjct: 242 LQSTHMASQHITEEAVYLCTGNPMPKDIEQISFWLLNEPFSDSFKRISEIKTRKGLALVD 301

Query: 303 IVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAA 362
           IVREVT+FVFKI+MPS++RV+L+NDLADIEYR++FGCNDKLQLGS+IS+FT ARSA+V A
Sbjct: 302 IVREVTLFVFKIEMPSNIRVQLINDLADIEYRMTFGCNDKLQLGSLISSFTGARSALVGA 361

Query: 363 AK 364
           A+
Sbjct: 362 AQ 363

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356509405|ref|XP_003523440.1| PREDICTED: replication factor C subunit 5-like [Glycine max]

 Score =  632 bits (1630), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 307/361 (85%), Positives = 327/361 (90%), Gaps = 1/361 (0%)

Query: 4   AETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDI-KASPWVEKYRPQSLADVAAHRDIV 62
           AET   MD D D++      D  K+V+V+  P    KA PWVEKYRP SL DVAAHRDIV
Sbjct: 2   AETNHHMDIDSDDHTYTARPDKAKSVVVASNPAAAGKAIPWVEKYRPLSLDDVAAHRDIV 61

Query: 63  DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR 122
           DTIDRLT+ENRLPHLLLYGPPGTGKTSTILAVARKLYG+QY NMILELNASDDRGIDVVR
Sbjct: 62  DTIDRLTTENRLPHLLLYGPPGTGKTSTILAVARKLYGSQYQNMILELNASDDRGIDVVR 121

Query: 123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN 182
           QQIQDFASTQS SFGVK+SVKLVLLDEADAMTKDAQFALRRVIEKYTK+TRFALICN VN
Sbjct: 122 QQIQDFASTQSLSFGVKSSVKLVLLDEADAMTKDAQFALRRVIEKYTKSTRFALICNHVN 181

Query: 183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI 242
           KIIPALQSRCTRFRFAPL+ VHVTERLKHVI+AEGLDV + GLAALVRL NGDMRKALNI
Sbjct: 182 KIIPALQSRCTRFRFAPLDAVHVTERLKHVIKAEGLDVEDSGLAALVRLSNGDMRKALNI 241

Query: 243 LQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVD 302
           LQSTHMASQQITEE VYLCTGNPLPKDIEQISYWLLNE FADSFKRI EMK RKGLALVD
Sbjct: 242 LQSTHMASQQITEETVYLCTGNPLPKDIEQISYWLLNEQFADSFKRIDEMKTRKGLALVD 301

Query: 303 IVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAA 362
           IVREVT+FVFKIKMPS VRV+LMNDLADIEYRLSFGCNDKLQLGS+I++F++ARSA+VAA
Sbjct: 302 IVREVTLFVFKIKMPSAVRVQLMNDLADIEYRLSFGCNDKLQLGSVIASFSRARSALVAA 361

Query: 363 A 363
           A
Sbjct: 362 A 362

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357463515|ref|XP_003602039.1| Replication factor C subunit [Medicago truncatula] gi|355491087|gb|AES72290.1| Replication factor C subunit [Medicago truncatula]

 Score =  603 bits (1556), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 290/332 (87%), Positives = 308/332 (92%), Gaps = 1/332 (0%)

Query: 24  DNGKNVIVSGTPP-DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGP 82
           D GK VI +G P    KAS WVEKYRPQSL DVAAHRDIVDTIDRLT+ENRLPHLLLYGP
Sbjct: 14  DKGKTVIAAGNPSFGGKASLWVEKYRPQSLDDVAAHRDIVDTIDRLTTENRLPHLLLYGP 73

Query: 83  PGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV 142
           PGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS SFGVK SV
Sbjct: 74  PGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSLSFGVKPSV 133

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           KLVLLDEADAMTKDAQFALRRVIEKYTK+TRFALICN VNKIIPALQSRCTRFRFAPL+ 
Sbjct: 134 KLVLLDEADAMTKDAQFALRRVIEKYTKSTRFALICNHVNKIIPALQSRCTRFRFAPLDA 193

Query: 203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCT 262
           VHVTERLKHVI AE LDV + GL+ALVRL NGDMRKALNILQSTHMASQQITEEAVYLCT
Sbjct: 194 VHVTERLKHVINAERLDVQDSGLSALVRLSNGDMRKALNILQSTHMASQQITEEAVYLCT 253

Query: 263 GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRV 322
           GNPLPKDIEQISYWLLNE +++SFKRI +MK RKGLAL+DIVREVTMFVFKI MPS VRV
Sbjct: 254 GNPLPKDIEQISYWLLNEQYSESFKRIYDMKTRKGLALIDIVREVTMFVFKINMPSAVRV 313

Query: 323 RLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ 354
           +L+NDLADIEYRLSFGCNDKLQLGS++++FT+
Sbjct: 314 QLVNDLADIEYRLSFGCNDKLQLGSVVASFTR 345

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297842523|ref|XP_002889143.1| hypothetical protein ARALYDRAFT_476911 [Arabidopsis lyrata subsp. lyrata] gi|297334984|gb|EFH65402.1| hypothetical protein ARALYDRAFT_476911 [Arabidopsis lyrata subsp. lyrata]

 Score =  600 bits (1546), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 296/368 (80%), Positives = 322/368 (87%), Gaps = 9/368 (2%)

Query: 5   ETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDT 64
           E  S MD D DE Q  KP + GK+V   G PP  KA+PWVEKYRPQSL DVAAHRDI+DT
Sbjct: 3   EITSAMDIDVDEIQPRKPINKGKDVAGFGAPPQSKATPWVEKYRPQSLDDVAAHRDIIDT 62

Query: 65  IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ 124
           IDRLT+EN+LPHLLLYGPPGTGKTSTILAVARKLYG +Y NMILELNASDDRGIDVVRQQ
Sbjct: 63  IDRLTNENKLPHLLLYGPPGTGKTSTILAVARKLYGPKYRNMILELNASDDRGIDVVRQQ 122

Query: 125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI 184
           IQDFASTQSFS G K+SVKLVLLDEADAMTKDAQFALRRVIEKYTK+TRFALI N VNKI
Sbjct: 123 IQDFASTQSFSLG-KSSVKLVLLDEADAMTKDAQFALRRVIEKYTKSTRFALIGNHVNKI 181

Query: 185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ 244
           IPALQSRCTRFRFAPL+P+HV++RLKHVIEAEGL V++ GLAALVRL NGDMRKALNILQ
Sbjct: 182 IPALQSRCTRFRFAPLDPLHVSQRLKHVIEAEGLGVSDCGLAALVRLSNGDMRKALNILQ 241

Query: 245 STHMASQQ--------ITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRK 296
           STHMAS++        ITEE VYLCTGNPLPKDIEQIS+WLLN+ F + +K ISE+K RK
Sbjct: 242 STHMASKEITEKESKKITEEEVYLCTGNPLPKDIEQISHWLLNKPFDECYKNISEIKTRK 301

Query: 297 GLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR 356
           GLA+VDIVREVTMFV KIKMPS V V+L+NDLADIEYRLSFGCNDKLQLG+IISTFT AR
Sbjct: 302 GLAIVDIVREVTMFVLKIKMPSHVSVQLINDLADIEYRLSFGCNDKLQLGAIISTFTHAR 361

Query: 357 SAIVAAAK 364
           S IV AAK
Sbjct: 362 SIIVDAAK 369

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115449001|ref|NP_001048280.1| Os02g0775200 [Oryza sativa Japonica Group] gi|46805779|dbj|BAD17147.1| putative replication factor C 36kDa subunit [Oryza sativa Japonica Group] gi|46806135|dbj|BAD17365.1| putative replication factor C 36kDa subunit [Oryza sativa Japonica Group] gi|113537811|dbj|BAF10194.1| Os02g0775200 [Oryza sativa Japonica Group] gi|215697717|dbj|BAG91711.1| unnamed protein product [Oryza sativa Japonica Group] gi|218191668|gb|EEC74095.1| hypothetical protein OsI_09136 [Oryza sativa Indica Group]

 Score =  597 bits (1538), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 280/330 (84%), Positives = 310/330 (93%)

Query: 34  TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILA 93
           + P  +A+PWVEKYRPQSL DVAAHRDIVDTIDRLT+ENRLPHLLLYGPPGTGKTSTILA
Sbjct: 31  STPGGRAAPWVEKYRPQSLGDVAAHRDIVDTIDRLTNENRLPHLLLYGPPGTGKTSTILA 90

Query: 94  VARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM 153
           VARKLYG+QY NMILELNASD+RGIDVVRQQIQDFAS +S SFG K SVK+VLLDEADAM
Sbjct: 91  VARKLYGSQYGNMILELNASDERGIDVVRQQIQDFASARSLSFGAKQSVKMVLLDEADAM 150

Query: 154 TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVI 213
           TKDAQFALRRVIEK+T++TRFALICN VNKIIPALQSRCTRFRFAPL+  HV ERLKH+I
Sbjct: 151 TKDAQFALRRVIEKHTRSTRFALICNHVNKIIPALQSRCTRFRFAPLDGTHVRERLKHII 210

Query: 214 EAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQI 273
           ++EGLDV +GGL ALVRL NGDMRKALNILQSTHMAS+QITEEAVYLCTGNP+PKDIEQI
Sbjct: 211 QSEGLDVDDGGLTALVRLSNGDMRKALNILQSTHMASKQITEEAVYLCTGNPMPKDIEQI 270

Query: 274 SYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEY 333
           +YWLLNESF+ SFK IS+MKMRKGLALVDI+REVTMFVFKI+MPSDVR++L+NDLADIEY
Sbjct: 271 AYWLLNESFSTSFKCISDMKMRKGLALVDIIREVTMFVFKIQMPSDVRIKLINDLADIEY 330

Query: 334 RLSFGCNDKLQLGSIISTFTQARSAIVAAA 363
           RLSF CNDKLQLG++ISTFT AR+A+VAAA
Sbjct: 331 RLSFACNDKLQLGALISTFTGARTAMVAAA 360

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326489719|dbj|BAK01840.1| predicted protein [Hordeum vulgare subsp. vulgare] gi|326531584|dbj|BAJ97796.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  596 bits (1536), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 285/363 (78%), Positives = 319/363 (87%), Gaps = 5/363 (1%)

Query: 1   MAEAETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRD 60
           MA A   + MD D        P   GK  + +     +K+SPWVEKYRPQSLADVAAHRD
Sbjct: 1   MAGATAAAPMDID---GAAAPPAFKGKAPLSAAAA--VKSSPWVEKYRPQSLADVAAHRD 55

Query: 61  IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV 120
           IVDTIDRLT ENRLPHLLLYGPPGTGKTSTILAVARK+YG+QY NMILELNASD+RGI V
Sbjct: 56  IVDTIDRLTDENRLPHLLLYGPPGTGKTSTILAVARKIYGSQYGNMILELNASDERGIGV 115

Query: 121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ 180
           VRQQIQDFAS  S SFG K +VKLVLLDEADAMTKDAQFALRRVIEKYT++TRFALICN 
Sbjct: 116 VRQQIQDFASAHSLSFGAKPAVKLVLLDEADAMTKDAQFALRRVIEKYTRSTRFALICNH 175

Query: 181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKAL 240
           VNKIIPALQSRCTRFRFAPL+  HV+ERL+H+I++EGLDV EGGL+ALVRL NGDMRK+L
Sbjct: 176 VNKIIPALQSRCTRFRFAPLDGSHVSERLRHIIKSEGLDVDEGGLSALVRLSNGDMRKSL 235

Query: 241 NILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLAL 300
           NILQSTHMASQQITEEAVYLCTGNP+PKDIEQI++WLLNE F+ SFK I++MKMRKGLAL
Sbjct: 236 NILQSTHMASQQITEEAVYLCTGNPMPKDIEQIAFWLLNEPFSTSFKHIADMKMRKGLAL 295

Query: 301 VDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIV 360
           +DI+REVTMFVFKIKMPS VRV+L+NDLADIEYRL+F CNDKLQLG++ISTFT AR+A+V
Sbjct: 296 IDIIREVTMFVFKIKMPSSVRVKLINDLADIEYRLTFACNDKLQLGALISTFTTARTAMV 355

Query: 361 AAA 363
           AAA
Sbjct: 356 AAA 358

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

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	364
TAIR|locus:2204710	369	RFC3 "replication factor C sub	0.986	0.972	0.793	2.7e-148
MGI|MGI:1919401	339	Rfc5 "replication factor C (ac	0.876	0.941	0.606	1e-100
RGD|1309280	339	Rfc5 "replication factor C (ac	0.876	0.941	0.606	1.7e-100
UNIPROTKB|P40937	340	RFC5 "Replication factor C sub	0.887	0.95	0.593	2.1e-100
UNIPROTKB|F1RKG3	354	RFC5 "Uncharacterized protein"	0.887	0.912	0.593	4.4e-100
UNIPROTKB|E2RCF4	339	RFC5 "Uncharacterized protein"	0.887	0.952	0.596	2.4e-99
ZFIN|ZDB-GENE-040907-1	334	rfc5 "replication factor C (ac	0.898	0.979	0.570	8.4e-97
DICTYBASE|DDB_G0282235	347	rfc5 "replication factor C sub	0.859	0.902	0.578	8.1e-92
UNIPROTKB|Q32PI3	316	RFC5 "Uncharacterized protein"	0.75	0.863	0.610	1.6e-86
POMBASE|SPAC27E2.10c	342	rfc3 "DNA replication factor C	0.870	0.926	0.510	2e-86

TAIR|locus:2204710 RFC3 "replication factor C subunit 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 1448 (514.8 bits), Expect = 2.7e-148, P = 2.7e-148
 Identities = 292/368 (79%), Positives = 323/368 (87%)

Query:     5 ETVSLMDFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDT 64
             E  S MD D DE Q  KP + GK+V+  G PP  KA+PWVEKYRPQSL DVAAHRDI+DT
Sbjct:     3 ELTSAMDIDVDEIQPRKPINKGKDVVGFGPPPQSKATPWVEKYRPQSLDDVAAHRDIIDT 62

Query:    65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ 124
             IDRLT+EN+LPHLLLYGPPGTGKTSTILAVARKLYG +Y NMILELNASDDRGIDVVRQQ
Sbjct:    63 IDRLTNENKLPHLLLYGPPGTGKTSTILAVARKLYGPKYRNMILELNASDDRGIDVVRQQ 122

Query:   125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI 184
             IQDFASTQSFS G K+SVKLVLLDEADAMTKDAQFALRRVIEKYTK+TRFALI N VNKI
Sbjct:   123 IQDFASTQSFSLG-KSSVKLVLLDEADAMTKDAQFALRRVIEKYTKSTRFALIGNHVNKI 181

Query:   185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ 244
             IPALQSRCTRFRFAPL+ VH+++RLKHVIEAE L V++ GLAALVRL NGDMRKALNILQ
Sbjct:   182 IPALQSRCTRFRFAPLDGVHMSQRLKHVIEAERLVVSDCGLAALVRLSNGDMRKALNILQ 241

Query:   245 STHMASQ--------QITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRK 296
             STHMAS+        QITEE VYLCTGNPLPKDIEQIS+WLLN+ F + +K +SE+K RK
Sbjct:   242 STHMASKEITEEESKQITEEDVYLCTGNPLPKDIEQISHWLLNKPFDECYKDVSEIKTRK 301

Query:   297 GLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR 356
             GLA+VDIV+E+T+F+FKIKMPS VRV+L+NDLADIEYRLSFGCNDKLQLG+IISTFT AR
Sbjct:   302 GLAIVDIVKEITLFIFKIKMPSAVRVQLINDLADIEYRLSFGCNDKLQLGAIISTFTHAR 361

Query:   357 SAIVAAAK 364
             S IV AAK
Sbjct:   362 SIIVGAAK 369

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0005663 "DNA replication factor C complex" evidence=ISS

GO:0006260 "DNA replication" evidence=IEA

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0031348 "negative regulation of defense response" evidence=IMP

GO:0000398 "mRNA splicing, via spliceosome" evidence=RCA

GO:0006312 "mitotic recombination" evidence=RCA

GO:0006346 "methylation-dependent chromatin silencing" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0016246 "RNA interference" evidence=RCA

GO:0016570 "histone modification" evidence=RCA

GO:0031048 "chromatin silencing by small RNA" evidence=RCA

GO:0048449 "floral organ formation" evidence=RCA

GO:0051567 "histone H3-K9 methylation" evidence=RCA

MGI|MGI:1919401 Rfc5 "replication factor C (activator 1) 5" [Mus musculus (taxid:10090)]

 Score = 999 (356.7 bits), Expect = 1.0e-100, P = 1.0e-100
 Identities = 196/323 (60%), Positives = 249/323 (77%)

Query:    42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-G 100
             PWVEKYRPQ+LAD+ +H+DI+ TI +  SE+RLPHLLLYGPPGTGKTSTILA A++LY  
Sbjct:    20 PWVEKYRPQTLADLISHQDILSTIQKFISEDRLPHLLLYGPPGTGKTSTILACAKQLYKD 79

Query:   101 AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFA 160
              ++ +M+LELNASDDRGID+VR  I  FAST++     K   KLV+LDEADAMT+DAQ A
Sbjct:    80 KEFGSMVLELNASDDRGIDIVRGPILSFASTRTI---FKKGFKLVILDEADAMTQDAQNA 136

Query:   161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
             LRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV++ E +D+
Sbjct:   137 LRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVQEENVDI 196

Query:   221 TEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE 280
             +E G+ ALV L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W+LN+
Sbjct:   197 SEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKTDIANILDWMLNQ 256

Query:   281 SFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCN 340
              F  ++K I E+K  KGLAL DI+ EV +FV ++  PS VR+ L+  +ADIEYRLS G +
Sbjct:   257 DFTTAYKNIMELKTLKGLALHDILTEVHLFVHRVDFPSSVRIHLLTKMADIEYRLSVGTS 316

Query:   341 DKLQLGSIISTFTQARSAIVAAA 363
             +K+QL S+I+ F   R  IVA A
Sbjct:   317 EKIQLSSLIAAFQVTRDLIVAEA 339

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=ISO

GO:0006260 "DNA replication" evidence=IEA

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

RGD|1309280 Rfc5 "replication factor C (activator 1) 5" [Rattus norvegicus (taxid:10116)]

 Score = 997 (356.0 bits), Expect = 1.7e-100, P = 1.7e-100
 Identities = 196/323 (60%), Positives = 249/323 (77%)

Query:    42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-G 100
             PWVEKYRPQ+LAD+ +H+DI+ TI +  SE+RLPHLLLYGPPGTGKTSTILA A++LY  
Sbjct:    20 PWVEKYRPQTLADLISHQDILSTIQKFISEDRLPHLLLYGPPGTGKTSTILACAKQLYKD 79

Query:   101 AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFA 160
              ++ +M+LELNASDDRGID+VR  I  FAST++     K   KLV+LDEADAMT+DAQ A
Sbjct:    80 KEFGSMVLELNASDDRGIDIVRGPILSFASTRTI---FKRGFKLVILDEADAMTQDAQNA 136

Query:   161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
             LRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV++ E +D+
Sbjct:   137 LRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVQEENVDI 196

Query:   221 TEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE 280
             +E G+ ALV L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W+LN+
Sbjct:   197 SEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKTDIANILDWMLNQ 256

Query:   281 SFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCN 340
              F  ++K I E+K  KGLAL DI+ EV +FV ++  PS VR+ L+  +ADIEYRLS G +
Sbjct:   257 DFTTAYKNIMELKTLKGLALHDILTEVHLFVHRVDFPSSVRMHLLTKMADIEYRLSVGTS 316

Query:   341 DKLQLGSIISTFTQARSAIVAAA 363
             +K+QL S+I+ F   R  IVA A
Sbjct:   317 EKIQLSSLIAAFQVTRDLIVAEA 339

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:0005663 "DNA replication factor C complex" evidence=IEA;ISO

GO:0006260 "DNA replication" evidence=IEA

GO:0008150 "biological_process" evidence=ND

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

UNIPROTKB|P40937 RFC5 "Replication factor C subunit 5" [Homo sapiens (taxid:9606)]

 Score = 996 (355.7 bits), Expect = 2.1e-100, P = 2.1e-100
 Identities = 194/327 (59%), Positives = 251/327 (76%)

Query:    38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK 97
             I+  PWVEKYRPQ+L D+ +H+DI+ TI +  +E+RLPHLLLYGPPGTGKTSTILA A++
Sbjct:    17 IRNLPWVEKYRPQTLNDLISHQDILSTIQKFINEDRLPHLLLYGPPGTGKTSTILACAKQ 76

Query:    98 LY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD 156
             LY   ++ +M+LELNASDDRGID++R  I  FAST++     K   KLV+LDEADAMT+D
Sbjct:    77 LYKDKEFGSMVLELNASDDRGIDIIRGPILSFASTRTI---FKKGFKLVILDEADAMTQD 133

Query:   157 AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE 216
             AQ ALRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV+E E
Sbjct:   134 AQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEE 193

Query:   217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYW 276
              +D++E G+ ALV L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W
Sbjct:   194 KVDISEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDW 253

Query:   277 LLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLS 336
             +LN+ F  +++ I+E+K  KGLAL DI+ E+ +FV ++  PS VR+ L+  +ADIEYRLS
Sbjct:   254 MLNQDFTTAYRNITELKTLKGLALHDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLS 313

Query:   337 FGCNDKLQLGSIISTFTQARSAIVAAA 363
              G N+K+QL S+I+ F   R  IVA A
Sbjct:   314 VGTNEKIQLSSLIAAFQVTRDLIVAEA 340

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0019899 "enzyme binding" evidence=NAS

GO:0006260 "DNA replication" evidence=NAS;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0006281 "DNA repair" evidence=NAS;TAS

GO:0005663 "DNA replication factor C complex" evidence=IDA

GO:0000722 "telomere maintenance via recombination" evidence=TAS

GO:0000723 "telomere maintenance" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006271 "DNA strand elongation involved in DNA replication" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0006289 "nucleotide-excision repair" evidence=TAS

GO:0006297 "nucleotide-excision repair, DNA gap filling" evidence=TAS

GO:0032201 "telomere maintenance via semi-conservative replication" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

UNIPROTKB|F1RKG3 RFC5 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 993 (354.6 bits), Expect = 4.4e-100, P = 4.4e-100
 Identities = 194/327 (59%), Positives = 249/327 (76%)

Query:    38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK 97
             I+  PWVEKYRPQ+L D+ +H+DI+ TI +  SE+RLPHLLLYGPPGTGKTSTILA A++
Sbjct:    31 IRNLPWVEKYRPQTLDDLISHQDILSTIQKFISEDRLPHLLLYGPPGTGKTSTILACAKQ 90

Query:    98 LY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD 156
             LY   ++ +M+LELNASDDRGID+VR  I  FAST++     K   KLV+LDEADAMT+D
Sbjct:    91 LYKDKEFGSMVLELNASDDRGIDIVRGPILSFASTRTI---FKKGFKLVILDEADAMTQD 147

Query:   157 AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE 216
             AQ ALRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV+E E
Sbjct:   148 AQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEE 207

Query:   217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYW 276
              +D++E G+ AL+ L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W
Sbjct:   208 KVDISEDGMKALITLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDW 267

Query:   277 LLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLS 336
             +LN+ F  +++ I E+K  KGLAL DI+ E+ +FV ++  PS VR+ L+  +ADIEYRLS
Sbjct:   268 MLNQDFTTAYRNIMELKTLKGLALNDILTEIHLFVHRVDFPSSVRIHLLTKMADIEYRLS 327

Query:   337 FGCNDKLQLGSIISTFTQARSAIVAAA 363
              G N+K+QL S+I+ F   R  IV  A
Sbjct:   328 VGTNEKIQLSSLIAAFQVTRDLIVTEA 354

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|E2RCF4 RFC5 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 986 (352.1 bits), Expect = 2.4e-99, P = 2.4e-99
 Identities = 195/327 (59%), Positives = 248/327 (75%)

Query:    38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK 97
             I+  PWVEKYRPQ+L D+ +H+DI+ TI +  SE+RLPHLLLYGPPGTGKTSTILA A++
Sbjct:    16 IRNLPWVEKYRPQTLNDLISHQDILSTIQKFISEDRLPHLLLYGPPGTGKTSTILACAKQ 75

Query:    98 LY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD 156
             LY   ++ +M+LELNASDDRGID+VR  I  FAST++     K   KLV+LDEADAMT+D
Sbjct:    76 LYKDKEFGSMVLELNASDDRGIDIVRGPILSFASTRTI---FKKGFKLVILDEADAMTQD 132

Query:   157 AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE 216
             AQ ALRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV+  E
Sbjct:   133 AQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVGEE 192

Query:   217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYW 276
              +D++E G+ ALV L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W
Sbjct:   193 KVDLSEDGMKALVTLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDW 252

Query:   277 LLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLS 336
             +LN+ F  +++ I E+K  KGLAL DI+ E+ +FV ++  PS VRV L+  +ADIEYRLS
Sbjct:   253 MLNQDFTTAYRNIMELKTLKGLALHDILTEIHLFVHRVDFPSSVRVHLLTKMADIEYRLS 312

Query:   337 FGCNDKLQLGSIISTFTQARSAIVAAA 363
              G N+K+QL S+I+ F   R  IV  A
Sbjct:   313 VGTNEKIQLSSLIAAFQVTRDLIVTEA 339

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

ZFIN|ZDB-GENE-040907-1 rfc5 "replication factor C (activator 1) 5" [Danio rerio (taxid:7955)]

 Score = 962 (343.7 bits), Expect = 8.4e-97, P = 8.4e-97
 Identities = 189/331 (57%), Positives = 245/331 (74%)

Query:    32 SGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTI 91
             S T P  +  PWVEKYRPQ+L D+ +H+DI+ TI +  SE+RLPHLL YGPPGTGKTSTI
Sbjct:     5 SKTQPQARNLPWVEKYRPQTLDDLISHQDILSTIQKFISEDRLPHLLFYGPPGTGKTSTI 64

Query:    92 LAVARKLY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA 150
             LA AR+LY   ++++M+LELNASDDRGIDVVR  I  FAST++     K   KLV+LDEA
Sbjct:    65 LACARQLYKDKEFNSMVLELNASDDRGIDVVRGPILSFASTRTI---FKKGFKLVILDEA 121

Query:   151 DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLK 210
             DAMT+DAQ ALRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL    +  RL+
Sbjct:   122 DAMTQDAQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLSQNQMIPRLE 181

Query:   211 HVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDI 270
             HVI+ E +D+T  G+ A+V L  GDMR++LNILQSTHMA  ++TEE VY CTG+PL  DI
Sbjct:   182 HVIQQESIDITPDGMKAIVTLSTGDMRRSLNILQSTHMAYGKVTEETVYTCTGHPLRSDI 241

Query:   271 EQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLAD 330
               I  W LN+ F  ++ +I E+K  KGLAL DI+ EV + + ++  P  +R+ L+  LAD
Sbjct:   242 ANILDWALNKDFTTAYNQILELKTLKGLALHDILTEVHLLIHRVDFPPSIRMGLLIKLAD 301

Query:   331 IEYRLSFGCNDKLQLGSIISTFTQARSAIVA 361
             IEYRL+ G ++K+QL S+++ F   R  +V+
Sbjct:   302 IEYRLASGTSEKIQLSSMVAAFQAVRDIVVS 332

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0060041 "retina development in camera-type eye" evidence=IMP

DICTYBASE|DDB_G0282235 rfc5 "replication factor C subunit 5" [Dictyostelium discoideum (taxid:44689)]

 Score = 915 (327.2 bits), Expect = 8.1e-92, P = 8.1e-92
 Identities = 184/318 (57%), Positives = 231/318 (72%)

Query:    42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
             PWVEKYRP++L D+ AH DI  TI +L   N LPHLL YGPPGTGKTSTI A+ARKLYG 
Sbjct:    25 PWVEKYRPKNLDDLIAHEDITQTITKLIDNNTLPHLLFYGPPGTGKTSTIQAIARKLYGD 84

Query:   102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
              Y  M+LELNASDDRGIDVVR+QI+ FAS+  F F      KL++LDEAD+MT  AQ AL
Sbjct:    85 NYSRMVLELNASDDRGIDVVREQIKTFASSMFF-FNTTVPYKLIILDEADSMTNIAQTAL 143

Query:   162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTE-RLKHVIEAEGLDV 220
             RRVIEKYTK TRF ++CN V KIIPALQSRCTRFRF+PL P   TE RLK +IE E + V
Sbjct:   144 RRVIEKYTKTTRFCIVCNYVIKIIPALQSRCTRFRFSPL-PTPPTEIRLKEIIEKENVKV 202

Query:   221 TEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLL 278
                 + A++ L  GDMRK LNILQS  M+S    ITEEA+Y CTG P+P DIE +  WLL
Sbjct:   203 DSKAMNAVLELGCGDMRKCLNILQSVSMSSIDNNITEEAIYKCTGYPMPSDIELMVDWLL 262

Query:   279 NESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFG 338
             N  + ++F+ IS++K +KGL+L DI+  +  FV +I + + +  +L++ L+DIEY LS G
Sbjct:   263 NSDYEEAFQNISDLKKKKGLSLNDIIATLQKFVVQIDLDNVILCKLLSHLSDIEYNLSIG 322

Query:   339 CNDKLQLGSIISTFTQAR 356
              ++KLQLGS++  F  +R
Sbjct:   323 SSEKLQLGSLVGCFQLSR 340

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

GO:0006260 "DNA replication" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003689 "DNA clamp loader activity" evidence=ISS

GO:0031391 "Elg1 RFC-like complex" evidence=ISS

GO:0031389 "Rad17 RFC-like complex" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0006298 "mismatch repair" evidence=ISS

GO:0006272 "leading strand elongation" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

GO:0005663 "DNA replication factor C complex" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q32PI3 RFC5 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 865 (309.6 bits), Expect = 1.6e-86, P = 1.6e-86
 Identities = 169/277 (61%), Positives = 216/277 (77%)

Query:    38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK 97
             I+  PWVEKYRPQ+L D+ +H+DI+ TI +  SE+RLPHLLLYGPPGTGKTSTILA A++
Sbjct:    16 IRNLPWVEKYRPQTLDDLISHQDILSTIQKFISEDRLPHLLLYGPPGTGKTSTILACAKQ 75

Query:    98 LY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD 156
             LY   ++ +M+LELNASDDRGID+VR  I  FAST++     K   KLV+LDEADAMT+D
Sbjct:    76 LYKDKEFGSMVLELNASDDRGIDIVRGPILSFASTRTI---FKKGFKLVILDEADAMTQD 132

Query:   157 AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE 216
             AQ ALRRVIEK+T+NTRF LICN ++KIIPALQSRCTRFRF PL P  +  RL+HV+E E
Sbjct:   133 AQNALRRVIEKFTENTRFCLICNYLSKIIPALQSRCTRFRFGPLTPELMVPRLEHVVEEE 192

Query:   217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYW 276
              +D++E G+ AL+ L +GDMR+ALNILQST+MA  ++TEE VY CTG+PL  DI  I  W
Sbjct:   193 KVDISEDGMKALITLSSGDMRRALNILQSTNMAFGKVTEETVYTCTGHPLKSDIANILDW 252

Query:   277 LLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFK 313
             +LN+ F  +++ I E+K  KGLAL DI+ E+ +FV +
Sbjct:   253 MLNQDFTTAYRNIMELKTLKGLALHDILTEIHLFVHR 289

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

POMBASE|SPAC27E2.10c rfc3 "DNA replication factor C complex subunit Rfc3" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 864 (309.2 bits), Expect = 2.0e-86, P = 2.0e-86
 Identities = 165/323 (51%), Positives = 233/323 (72%)

Query:    42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
             PWVEKYRP +L DV +H+DI+ T+++  S NR+PH+L YGPPGTGKTSTILA ARK+YG 
Sbjct:    24 PWVEKYRPANLEDVVSHKDIISTLEKFISSNRVPHMLFYGPPGTGKTSTILACARKIYGP 83

Query:   102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
              Y N ++ELNASDDRGID VR+QI++FAST+   F   ++ K+++LDEADAMT  AQ AL
Sbjct:    84 NYRNQLMELNASDDRGIDAVREQIKNFASTRQI-FA--STFKMIILDEADAMTLAAQNAL 140

Query:   162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
             RRVIEKYTKN RF +ICN +NKI PA+QSRCTRFRF PL P  + + + HVI++E  ++ 
Sbjct:   141 RRVIEKYTKNVRFCIICNYINKISPAIQSRCTRFRFQPLPPKEIEKTVDHVIQSEHCNID 200

Query:   222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
                  A++RL  GDMRKALNILQ+ H A   I   A+Y C G+P P DI+     ++N+ 
Sbjct:   201 PDAKMAVLRLSKGDMRKALNILQACHAAYDHIDVSAIYNCVGHPHPSDIDYFLKSIMNDE 260

Query:   282 FADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCND 341
             F  +F  IS +K +KGLAL DI+  +   + ++++  + ++ +++ LA IE+R+SFGC++
Sbjct:   261 FVIAFNTISSIKQQKGLALQDILTCIFEALDELEIKPNAKIFILDQLATIEHRMSFGCSE 320

Query:   342 KLQLGSIISTFTQARSAIVAAAK 364
             K+QL ++I++    ++ +  AAK
Sbjct:   321 KIQLSAMIASI---KTGVDLAAK 340

GO:0000077 "DNA damage checkpoint" evidence=IMP

GO:0000790 "nuclear chromatin" evidence=IC

GO:0005524 "ATP binding" evidence=ISM

GO:0005634 "nucleus" evidence=IC;IDA

GO:0005663 "DNA replication factor C complex" evidence=TAS

GO:0005829 "cytosol" evidence=IDA

GO:0006261 "DNA-dependent DNA replication" evidence=IC

GO:0031389 "Rad17 RFC-like complex" evidence=TAS

GO:0031390 "Ctf18 RFC-like complex" evidence=TAS

GO:0031391 "Elg1 RFC-like complex" evidence=IDA

GO:0043596 "nuclear replication fork" evidence=IC

GO:0065007 "biological regulation" evidence=NAS

GO:0003689 "DNA clamp loader activity" evidence=TAS

---

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)
A2SQT3	RFCS_METLZ	No assigned EC number	0.3531	0.8681	0.9844	yes	no
A3CUX9	RFCS_METMJ	No assigned EC number	0.3738	0.8516	0.9627	yes	no
A3MS28	RFCS_PYRCJ	No assigned EC number	0.3881	0.8214	0.9171	yes	no
B0R7H7	RFCS_HALS3	No assigned EC number	0.4239	0.8379	0.9472	yes	no
Q5UZE5	RFCS_HALMA	No assigned EC number	0.4057	0.8489	0.9507	yes	no
A6US36	RFCS_METVS	No assigned EC number	0.3721	0.8406	0.9714	yes	no
P40937	RFC5_HUMAN	No assigned EC number	0.5932	0.8873	0.95	yes	no
A7I8Y0	RFCS_METB6	No assigned EC number	0.3897	0.8516	0.9627	yes	no
O26343	RFCS_METTH	No assigned EC number	0.3676	0.8598	0.9750	yes	no
Q2FQT9	RFCS_METHJ	No assigned EC number	0.3741	0.8434	0.9504	yes	no
Q54ST4	RFC5_DICDI	No assigned EC number	0.5786	0.8598	0.9020	yes	no
A9A6K6	RFCS_METM6	No assigned EC number	0.3915	0.8406	0.9714	yes	no
A1RSA2	RFCS1_PYRIL	No assigned EC number	0.3850	0.8708	0.9635	yes	no
Q8PVY4	RFCS_METMA	No assigned EC number	0.3575	0.8681	0.9349	yes	no
Q8TSX5	RFCS_METAC	No assigned EC number	0.3636	0.8681	0.9349	yes	no
Q2NH89	RFCS_METST	No assigned EC number	0.3892	0.8461	0.9595	yes	no
Q6L1I0	RFCS_PICTO	No assigned EC number	0.3459	0.8626	0.9874	yes	no
Q9HN27	RFCS_HALSA	No assigned EC number	0.4239	0.8379	0.9472	yes	no
Q4JAB0	RFCS_SULAC	No assigned EC number	0.4	0.8351	0.9353	yes	no
O14003	RFC3_SCHPO	No assigned EC number	0.5193	0.8434	0.8976	yes	no
A4FZ74	RFCS_METM5	No assigned EC number	0.3915	0.8406	0.9714	yes	no
Q9UXF5	RFCS_SULSO	No assigned EC number	0.3967	0.8351	0.9212	yes	no
Q3ITJ2	RFCS_NATPD	No assigned EC number	0.3959	0.8076	0.9046	yes	no
Q9D0F6	RFC5_MOUSE	No assigned EC number	0.6068	0.8763	0.9410	yes	no
Q977Z9	RFCS_THEVO	No assigned EC number	0.3522	0.8571	0.9811	yes	no
O28219	RFCS_ARCFU	No assigned EC number	0.3697	0.8461	0.9655	yes	no
P34429	RFC5_CAEEL	No assigned EC number	0.4790	0.8351	0.8260	yes	no
A5UMF3	RFCS_METS3	No assigned EC number	0.3785	0.8489	0.9809	yes	no
A6VJ61	RFCS_METM7	No assigned EC number	0.3948	0.8406	0.9714	yes	no
Q9HI47	RFCS_THEAC	No assigned EC number	0.3544	0.8516	0.9748	yes	no
Q0W037	RFCS_UNCMA	No assigned EC number	0.4	0.8434	0.9534	yes	no
A4WGV2	RFCS1_PYRAR	No assigned EC number	0.38	0.8159	0.9027	yes	no
P38629	RFC3_YEAST	No assigned EC number	0.4720	0.8434	0.9029	yes	no
P60374	RFCS_NANEQ	No assigned EC number	0.3645	0.8379	0.9472	yes	no
Q8ZYK4	RFCS1_PYRAE	No assigned EC number	0.3831	0.8379	0.9270	yes	no
Q46C63	RFCS_METBF	No assigned EC number	0.3619	0.8571	0.9341	yes	no
Q6M044	RFCS_METMP	No assigned EC number	0.3948	0.8406	0.9714	yes	no
Q9YBS7	RFCS_AERPE	No assigned EC number	0.3993	0.8434	0.9446	yes	no
Q975D3	RFCS_SULTO	No assigned EC number	0.4134	0.8406	0.9357	yes	no
A1RWU7	RFCS_THEPD	No assigned EC number	0.3961	0.8434	0.9446	yes	no
A3DNV9	RFCS_STAMF	No assigned EC number	0.4129	0.8351	0.9240	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	364
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	1e-117
PLN03025	319	PLN03025, PLN03025, replication factor C subunit;	3e-82
PRK12402	337	PRK12402, PRK12402, replication factor C small sub	3e-67
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	2e-65
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	5e-41
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	5e-31
COG2812	515	COG2812, DnaX, DNA polymerase III, gamma/tau subun	9e-26
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	4e-25
PRK14953	486	PRK14953, PRK14953, DNA polymerase III subunits ga	2e-24
TIGR02397	355	TIGR02397, dnaX_nterm, DNA polymerase III, subunit	3e-24
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	2e-22
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	2e-21
pfam08542	89	pfam08542, Rep_fac_C, Replication factor C C-termi	3e-21
COG0470	230	COG0470, HolB, ATPase involved in DNA replication	4e-20
PRK14962	472	PRK14962, PRK14962, DNA polymerase III subunits ga	5e-20
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	2e-19
TIGR00678	188	TIGR00678, holB, DNA polymerase III, delta' subuni	6e-19
PRK14970	367	PRK14970, PRK14970, DNA polymerase III subunits ga	2e-16
PRK07133	725	PRK07133, PRK07133, DNA polymerase III subunits ga	2e-16
PRK14961	363	PRK14961, PRK14961, DNA polymerase III subunits ga	2e-16
PRK14963	504	PRK14963, PRK14963, DNA polymerase III subunits ga	7e-16
PRK08691	709	PRK08691, PRK08691, DNA polymerase III subunits ga	1e-15
pfam13177	161	pfam13177, DNA_pol3_delta2, DNA polymerase III, de	5e-15
PRK14965	576	PRK14965, PRK14965, DNA polymerase III subunits ga	5e-15
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	6e-15
PRK05896	605	PRK05896, PRK05896, DNA polymerase III subunits ga	3e-14
PRK14959	624	PRK14959, PRK14959, DNA polymerase III subunits ga	6e-14
PRK05563	559	PRK05563, PRK05563, DNA polymerase III subunits ga	8e-14
PRK06305	451	PRK06305, PRK06305, DNA polymerase III subunits ga	1e-12
PRK14969	527	PRK14969, PRK14969, DNA polymerase III subunits ga	2e-12
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	2e-12
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	6e-12
TIGR00602	637	TIGR00602, rad24, checkpoint protein rad24	2e-11
PRK08451	535	PRK08451, PRK08451, DNA polymerase III subunits ga	3e-11
smart00382	148	smart00382, AAA, ATPases associated with a variety	5e-11
PRK07471	365	PRK07471, PRK07471, DNA polymerase III subunit del	7e-11
PRK14952	584	PRK14952, PRK14952, DNA polymerase III subunits ga	9e-11
PRK14964	491	PRK14964, PRK14964, DNA polymerase III subunits ga	2e-10
PRK14958	509	PRK14958, PRK14958, DNA polymerase III subunits ga	3e-10
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	4e-10
PRK14955	397	PRK14955, PRK14955, DNA polymerase III subunits ga	4e-10
PRK06645	507	PRK06645, PRK06645, DNA polymerase III subunits ga	7e-10
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	2e-09
PRK14954	620	PRK14954, PRK14954, DNA polymerase III subunits ga	2e-09
PRK08058	329	PRK08058, PRK08058, DNA polymerase III subunit del	3e-09
PRK14971	614	PRK14971, PRK14971, DNA polymerase III subunits ga	4e-09
pfam03215	490	pfam03215, Rad17, Rad17 cell cycle checkpoint prot	5e-09
PRK14957	546	PRK14957, PRK14957, DNA polymerase III subunits ga	7e-09
PRK05707	328	PRK05707, PRK05707, DNA polymerase III subunit del	7e-08
PRK06647	563	PRK06647, PRK06647, DNA polymerase III subunits ga	1e-07
PRK09112	351	PRK09112, PRK09112, DNA polymerase III subunit del	2e-07
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	2e-07
PRK05564	313	PRK05564, PRK05564, DNA polymerase III subunit del	4e-07
PRK14956	484	PRK14956, PRK14956, DNA polymerase III subunits ga	6e-07
PRK14948	620	PRK14948, PRK14948, DNA polymerase III subunits ga	4e-06
PRK06964	342	PRK06964, PRK06964, DNA polymerase III subunit del	4e-06
PRK08769	319	PRK08769, PRK08769, DNA polymerase III subunit del	5e-06
PRK07993	334	PRK07993, PRK07993, DNA polymerase III subunit del	5e-06
pfam13401	124	pfam13401, AAA_22, AAA domain	7e-06
PRK07399	314	PRK07399, PRK07399, DNA polymerase III subunit del	3e-05
PRK06090	319	PRK06090, PRK06090, DNA polymerase III subunit del	3e-05
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	3e-05
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	7e-05
PRK08699	325	PRK08699, PRK08699, DNA polymerase III subunit del	7e-05
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	8e-05
PRK14960	702	PRK14960, PRK14960, DNA polymerase III subunits ga	1e-04
pfam13173	127	pfam13173, AAA_14, AAA domain	2e-04
pfam13086	220	pfam13086, AAA_11, AAA domain	2e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	4e-04
PRK09111	598	PRK09111, PRK09111, DNA polymerase III subunits ga	5e-04
TIGR03922	557	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPas	0.002
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	0.002
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	0.002
pfam07726	131	pfam07726, AAA_3, ATPase family associated with va	0.002
PRK07132	299	PRK07132, PRK07132, DNA polymerase III subunit del	0.003
TIGR02902	531	TIGR02902, spore_lonB, ATP-dependent protease LonB	0.003
TIGR02902	531	TIGR02902, spore_lonB, ATP-dependent protease LonB	0.004
TIGR03345	852	TIGR03345, VI_ClpV1, type VI secretion ATPase, Clp	0.004
TIGR02928	365	TIGR02928, TIGR02928, orc1/cdc6 family replication	0.004

>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed

 Score =  342 bits (880), Expect = e-117
 Identities = 128/311 (41%), Positives = 207/311 (66%), Gaps = 3/311 (0%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
            WVEKYRP++L ++    +IV+ +     E  +PHLL  GPPGTGKT+  LA+AR+LYG 
Sbjct: 6   IWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGE 65

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            +    LELNASD+RGIDV+R +I++FA T        A  K++ LDEAD +T DAQ AL
Sbjct: 66  DWRENFLELNASDERGIDVIRNKIKEFARTAPVG---GAPFKIIFLDEADNLTSDAQQAL 122

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E Y++NTRF L CN  +KII  +QSRC  FRF+PL+   V ERL+++ E EG+++T
Sbjct: 123 RRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIEIT 182

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
           +  L A+  +  GDMRKA+N LQ+     +++TEEAVY  TG   P++I ++    LN  
Sbjct: 183 DDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELALNGD 242

Query: 282 FADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCND 341
           F ++ +++ ++ +  GL+  DI++++   V+ + +P +++V L++ + + ++R++ G N+
Sbjct: 243 FTEAREKLRDLMIDYGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGANE 302

Query: 342 KLQLGSIISTF 352
           ++QL ++++  
Sbjct: 303 RIQLEALLAKL 313

Length = 319

>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional

 Score =  252 bits (646), Expect = 3e-82
 Identities = 124/322 (38%), Positives = 179/322 (55%), Gaps = 5/322 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP  L D+  + D V  +  +  +  +P+L+L GPPGTGKT++ILA+A +L G 
Sbjct: 2   PWVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP 61

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQ-SFSFGVKASVKLVLLDEADAMTKDAQFA 160
            Y   +LELNASDDRGIDVVR +I+ FA  + +   G     K+V+LDEAD+MT  AQ A
Sbjct: 62  NYKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPG---RHKIVILDEADSMTSGAQQA 118

Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
           LRR +E Y+  TRFAL CN  +KII  +QSRC   RF+ L    +  RL  V+EAE +  
Sbjct: 119 LRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVPY 178

Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE 280
              GL A++   +GDMR+ALN LQ+TH     + +E V+     P P  ++ I    L  
Sbjct: 179 VPEGLEAIIFTADGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCLKG 238

Query: 281 SFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCN 340
            F D+   + ++    G +  DI+  +   V    MP  +++  + ++     R+  G  
Sbjct: 239 KFDDACDGLKQL-YDLGYSPTDIITTLFRVVKNYDMPEFLKLEYLREIGFAHMRICDGVG 297

Query: 341 DKLQLGSIISTFTQARSAIVAA 362
             LQL  +++     R    A 
Sbjct: 298 SLLQLSGLLAKLCLVRETAKAP 319

Length = 319

>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed

 Score =  214 bits (548), Expect = 3e-67
 Identities = 106/338 (31%), Positives = 177/338 (52%), Gaps = 32/338 (9%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
           W EKYRP  L D+    ++V+ + R      LPHLL+ GPPG+GKT+ + A+AR+LYG  
Sbjct: 5   WTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP 64

Query: 103 YHNMILELNASD--DRG------------------------IDVVRQQIQDFASTQSFSF 136
           + N   E N +D  D+G                        ID  +  ++++AS +  S 
Sbjct: 65  WENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLS- 123

Query: 137 GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR 196
              A  K +LLD A+A+ +DAQ ALRR++E+Y++  RF +   Q +K+IP ++SRC    
Sbjct: 124 ---ADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLF 180

Query: 197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEE 256
           F       + + L+ + EAEG+D  + GL  +     GD+RKA+  LQ+  +A+ +IT E
Sbjct: 181 FRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEITME 240

Query: 257 AVYLCTGN-PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIK 315
           A Y   G+    + IE +        F D+ K + ++ + +GL+  +++ E+        
Sbjct: 241 AAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVARSRY 300

Query: 316 MPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFT 353
              ++  RL    AD + RL+ G ND++QL ++++   
Sbjct: 301 RGDNL-ARLHRLAADADARLTDGANDRIQLEALLAELG 337

Length = 337

>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit; Provisional

 Score =  222 bits (566), Expect = 2e-65
 Identities = 104/266 (39%), Positives = 174/266 (65%), Gaps = 3/266 (1%)

Query: 88  TSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLL 147
           T+  LA+AR+L+G  + +  LELNASD+RGI+V+R+++++FA T+       AS K++ L
Sbjct: 580 TTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIG---GASFKIIFL 636

Query: 148 DEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTE 207
           DEADA+T+DAQ ALRR +E ++ N RF L CN  +KII  +QSRC  FRF PL    + +
Sbjct: 637 DEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAK 696

Query: 208 RLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLP 267
           RL+++ E EGL++TE GL A++ +  GDMR+A+NILQ+      +IT+E V+L      P
Sbjct: 697 RLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALDDKITDENVFLVASRARP 756

Query: 268 KDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMND 327
           +DI ++    L  +F  + +++ E+ +++GL+  D++ ++   VF + +    +V L + 
Sbjct: 757 EDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHREVFNLPIDEPKKVELADK 816

Query: 328 LADIEYRLSFGCNDKLQLGSIISTFT 353
           + +  +RL  G N+ +QL ++++ FT
Sbjct: 817 IGEYNFRLVEGANEMIQLEALLAQFT 842

Length = 846

>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional

 Score =  145 bits (369), Expect = 5e-41
 Identities = 75/212 (35%), Positives = 109/212 (51%), Gaps = 19/212 (8%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGP-PGTGKTSTILAVARKLYGA 101
           W +KYRP ++ +        +T   +  + R+P++LL+ P PGTGKT+   A+  ++ GA
Sbjct: 11  WEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV-GA 69

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEAD-AMTKDAQFA 160
           +     L +N SD R ID VR ++  FAST S         K++++DE D     DAQ  
Sbjct: 70  EV----LFVNGSDCR-IDFVRNRLTRFASTVSL----TGGGKVIIIDEFDRLGLADAQRH 120

Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTE-------RLKHVI 213
           LR  +E Y+KN  F +  N  N II  L+SRC    F         E       R K ++
Sbjct: 121 LRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQMIVRCKGIL 180

Query: 214 EAEGLDVTEGGLAALVRLCNGDMRKALNILQS 245
           EAEG++V    LAALV+    D R+ +N LQ 
Sbjct: 181 EAEGVEVDMKVLAALVKKNFPDFRRTINELQR 212

Length = 316

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score =  122 bits (308), Expect = 5e-31
 Identities = 73/226 (32%), Positives = 109/226 (48%), Gaps = 19/226 (8%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDT----IDRLTSENRLPHLLLYGPPGTGKTSTILAVARK 97
           PWVEKYRP++L+DV  +    +     I+          LLLYGPPG GKTS   A+A  
Sbjct: 3   PWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAND 62

Query: 98  LYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA 157
            YG +     +ELNASD R  DV+ +   + A++ S  FG +   KL+LLDE D +  + 
Sbjct: 63  -YGWEV----IELNASDQRTADVIERVAGEAATSGSL-FGARR--KLILLDEVDGIHGNE 114

Query: 158 QF----ALRRVIEKYTKNTRFALICNQV-NKIIPALQSRCTRFRFAPLEPVHVTERLKHV 212
                 A+  +I+K  K     L  N   +  +  L++ C    F  L    +   LK +
Sbjct: 115 DRGGARAILELIKK-AKQP-IILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVLKRI 172

Query: 213 IEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAV 258
              EG++  +  L  +     GD+R A+N LQ+      ++T E V
Sbjct: 173 CRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDV 218

Length = 482

>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

 Score =  107 bits (269), Expect = 9e-26
 Identities = 72/314 (22%), Positives = 142/314 (45%), Gaps = 32/314 (10%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKL------ 98
           KYRP++  DV     +V T+       R+ H  L  GP G GKT+    +A+ L      
Sbjct: 9   KYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGP 68

Query: 99  YGA------------QYHNM-ILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKASVK 143
                          +   + ++E++A+ + G+D +R+ I+   +A ++          K
Sbjct: 69  TAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEG-------RYK 121

Query: 144 LVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPV 203
           + ++DE   ++K A  AL + +E+   + +F L   +  KI   + SRC RF F  L+  
Sbjct: 122 VYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRLDLE 181

Query: 204 HVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCT 262
            + + L  +++ EG+++ E  L+ + R   G +R AL++L Q+      +IT E+V    
Sbjct: 182 EIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESVRDML 241

Query: 263 GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFV-FKIKMPSDVR 321
           G    + +  +   +L     ++ + I+E+ + +G      + ++  F+   +     V 
Sbjct: 242 GLTDIEKLLSLLEAILKGDAKEALRLINEL-IEEGKDPEAFLEDLLNFLRDLLLFKQTVP 300

Query: 322 VRLMNDLADIEYRL 335
             L  +  +IE R 
Sbjct: 301 NELQLNTTEIEERT 314

Length = 515

>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score =  104 bits (263), Expect = 4e-25
 Identities = 63/228 (27%), Positives = 103/228 (45%), Gaps = 33/228 (14%)

Query: 45  EKYRPQSLADVAAHRDIVDT---IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           E+ RP++L +V     ++     + R+    RL  ++L+GPPGTGKT+    +A      
Sbjct: 4   ERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT--- 60

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
                   L+A    G+  +R+ I++  + Q  S G +    ++ +DE     K  Q AL
Sbjct: 61  DAP--FEALSAVTS-GVKDLREVIEE--ARQRRSAGRR---TILFIDEIHRFNKAQQDAL 112

Query: 162 RRVIEKY--------TKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVI 213
              +E          T+N  F         + PAL SR   F   PL    + + LK  +
Sbjct: 113 LPHVEDGTITLIGATTENPSFE--------VNPALLSRAQVFELKPLSEEDIEQLLKRAL 164

Query: 214 EAEG---LDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAV 258
           E +    +++ +  L AL RL NGD R+ALN+L+   +    IT E +
Sbjct: 165 EDKERGLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELL 212

Length = 413

>gnl|CDD|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional

 Score =  103 bits (259), Expect = 2e-24
 Identities = 68/239 (28%), Positives = 112/239 (46%), Gaps = 28/239 (11%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTST--ILAVARKL 98
           P+  KYRP+   +V     +V  +       R+ H  ++ GP GTGKT+   ILA     
Sbjct: 5   PFARKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNC 64

Query: 99  YGAQ------------------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA 140
              Q                  + ++I E++A+ +RGID +R  ++D  S       +K 
Sbjct: 65  LNPQEGEPCGKCENCVEIDKGSFPDLI-EIDAASNRGIDDIRA-LRDAVSYTP----IKG 118

Query: 141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL 200
             K+ ++DEA  +TK+A  AL + +E+    T F L   + +KI P + SRC RF F+  
Sbjct: 119 KYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKP 178

Query: 201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
               + E LK +   E ++  E  L  L +   G MR A ++L Q++     ++T + V
Sbjct: 179 TKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTYGEGKVTIKVV 237

Length = 486

>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau

 Score =  101 bits (254), Expect = 3e-24
 Identities = 75/271 (27%), Positives = 127/271 (46%), Gaps = 32/271 (11%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTST--ILAVAR------ 96
           KYRPQ+  DV     IV T+       R+ H  L  GP GTGKTS   I A A       
Sbjct: 7   KYRPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGP 66

Query: 97  -----------KLYGAQYHNMILELNASDDRGIDVVRQQIQD---FASTQSFSFGVKASV 142
                      K   +     ++E++A+ + G+D +R+ I D   +A +           
Sbjct: 67  DGEPCNECESCKEINSGSSLDVIEIDAASNNGVDDIRE-ILDNVKYAPSSG-------KY 118

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           K+ ++DE   ++K A  AL + +E+  ++  F L   + +KI   + SRC RF F  +  
Sbjct: 119 KVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPL 178

Query: 203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLC 261
             + ERLK +++ EG+ + +  L  + R  +G +R AL++L Q     +  IT E V   
Sbjct: 179 EDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGNITYEDVNEL 238

Query: 262 TGNPLPKDIEQISYWLLNESFADSFKRISEM 292
            G    + + ++   +LN+  A++ K + E+
Sbjct: 239 LGLVDDEKLIELLEAILNKDTAEALKILDEI 269

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis [DNA metabolism, DNA replication, recombination, and repair]. Length = 355

>gnl|CDD|99707 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

 Score = 91.4 bits (227), Expect = 2e-22
 Identities = 44/148 (29%), Positives = 64/148 (43%), Gaps = 11/148 (7%)

Query: 61  IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV 120
            ++ +          +LLLYGPPGTGKT+   A+A +L+        L LNASD     V
Sbjct: 6   AIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAP--FLYLNASDLLEGLV 63

Query: 121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------TKNTRF 174
           V +    F     F    KA   ++ +DE D++++ AQ AL RV+E         +N R 
Sbjct: 64  VAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRV 123

Query: 175 ALICNQVN--KIIPALQSRC-TRFRFAP 199
               N+     +  AL  R   R     
Sbjct: 124 IGATNRPLLGDLDRALYDRLDIRIVIPL 151

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. Length = 151

>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau; Provisional

 Score = 95.6 bits (238), Expect = 2e-21
 Identities = 64/237 (27%), Positives = 106/237 (44%), Gaps = 31/237 (13%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTST--ILAVARK----- 97
           K+R Q+ A++     +V T+    +E R+ H  L+ GP G GKTST  ILA A       
Sbjct: 9   KWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTND 68

Query: 98  ------------LYGAQYHNM-ILELNASDDRGIDVVRQQIQ--DFASTQSFSFGVKASV 142
                          A+   + ++E++A+    +D  R+ I+   F           A  
Sbjct: 69  PKGRPCGTCEMCRAIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPAL-------ARY 121

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           K+ ++DE   ++  A  AL + +E+   +  F L   +V+K+   + SRC RF F     
Sbjct: 122 KVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHSV 181

Query: 203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-QITEEAV 258
             +   L+ +  AEG+++  G L A+ R   G MR A N+LQ        +I+   V
Sbjct: 182 ADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYGGEISLSQV 238

Length = 585

>gnl|CDD|203973 pfam08542, Rep_fac_C, Replication factor C C-terminal domain

 Score = 86.4 bits (215), Expect = 3e-21
 Identities = 25/90 (27%), Positives = 59/90 (65%), Gaps = 1/90 (1%)

Query: 263 GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRV 322
           G P P+DI++I   +L   F ++ + + E+ + +G++  DI++++   + ++ +P  +++
Sbjct: 1   GWPPPEDIKEILDSILKGDFDEARETLYEL-LVEGISAEDILKQLHEVLIRLDIPDSLKL 59

Query: 323 RLMNDLADIEYRLSFGCNDKLQLGSIISTF 352
            ++ +LA+IE+RLS G  + +QL ++I+ F
Sbjct: 60  EIIKELAEIEHRLSDGAKEIIQLEALIAKF 89

This is the C-terminal domain of RFC (replication factor-C) protein of the clamp loader complex which binds to the DNA sliding clamp (proliferating cell nuclear antigen, PCNA). The five modules of RFC assemble into a right-handed spiral, which results in only three of the five RFC subunits (RFC-A, RFC-B and RFC-C) making contact with PCNA, leaving a wedge-shaped gap between RFC-E and the PCNA clamp-loader complex. The C-terminal is vital for the correct orientation of RFC-E with respect to RFC-A. Length = 89

>gnl|CDD|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]

 Score = 87.4 bits (216), Expect = 4e-20
 Identities = 54/192 (28%), Positives = 96/192 (50%), Gaps = 20/192 (10%)

Query: 168 YTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA 227
             KNTRF LI N  +KI+P ++SRC R RF P        RL+ +   E     + GL  
Sbjct: 41  PPKNTRFILITNDPSKILPTIRSRCQRIRFKPP------SRLEAIAWLE-----DQGLEE 89

Query: 228 LVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQIS----YWLLNESFA 283
           +  +  GD RKA+N LQ+  +A+ +I EE++Y      LP+ + Q++      L    F 
Sbjct: 90  IAAVAEGDARKAINPLQA--LAALEIGEESIYEALLLALPESLAQLAALELLKLAENKFL 147

Query: 284 DSFKRISEMKMRKGLA---LVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCN 340
           ++ +++  + + +GL    L+D ++   + + K  +  +    L++ LA    RL  G  
Sbjct: 148 EALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQARRRLLDGLL 207

Query: 341 DKLQLGSIISTF 352
             +QL ++++  
Sbjct: 208 ALIQLENLLAEL 219

Length = 230

>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau; Provisional

 Score = 90.6 bits (225), Expect = 5e-20
 Identities = 64/234 (27%), Positives = 115/234 (49%), Gaps = 26/234 (11%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKL-----Y 99
           KYRP++ ++V     +   I     +N + H  ++ GP GTGKT+    +A+ L      
Sbjct: 7   KYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRK 66

Query: 100 GAQYHNM--------------ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
           G +  N               ++EL+A+ +RGID +R+ I+D    +     ++   K+ 
Sbjct: 67  GVEPCNECRACRSIDEGTFMDVIELDAASNRGIDEIRK-IRDAVGYRP----MEGKYKVY 121

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           ++DE   +TK+A  AL + +E+   +  F L    + K+ P + SRC    F  +    +
Sbjct: 122 IIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELI 181

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
            +RL+ V EAEG+++    L+ + +  +G +R AL +L Q    +  +IT E V
Sbjct: 182 IKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETV 235

Length = 472

>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

 Score = 88.4 bits (220), Expect = 2e-19
 Identities = 67/240 (27%), Positives = 104/240 (43%), Gaps = 38/240 (15%)

Query: 32  SGTPPDIKAS-PWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGK 87
           S    D +   P  E+ RP+SL +V     ++     + R      L  ++L+GPPGTGK
Sbjct: 2   SLDLSDNEFRMPLAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGK 61

Query: 88  TSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLL 147
           T+    +A     A        L+A    G+  +R+ I++  + ++   G +    ++ L
Sbjct: 62  TTLARLIAGTTNAA-----FEALSAVTS-GVKDLREIIEE--ARKNRLLGRRT---ILFL 110

Query: 148 DEADAMTKDAQFALRRVIEKY--------TKNTRFALICNQVNKIIPALQSRCTRFRFAP 199
           DE     K  Q AL   +E          T+N  F L         PAL SR   F   P
Sbjct: 111 DEIHRFNKAQQDALLPHVENGTIILIGATTENPSFEL--------NPALLSRARVFELKP 162

Query: 200 LEPVHVTERLKHVIEAE--GLD-----VTEGGLAALVRLCNGDMRKALNILQSTHMASQQ 252
           L    + + LK  +  E  GL      + E  L  LVRL NGD R+ALN+L+   ++++ 
Sbjct: 163 LSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEP 222

Length = 436

>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit

 Score = 83.4 bits (207), Expect = 6e-19
 Identities = 50/191 (26%), Positives = 79/191 (41%), Gaps = 32/191 (16%)

Query: 70  SENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNM-----------ILELNASDDR- 116
            + RL H  L  GP G GK    LA+A+ L   Q               I   N  D   
Sbjct: 9   EKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHR 68

Query: 117 --------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY 168
                    +D VR+ + +F S        ++  ++V++++A+ M + A  AL + +E+ 
Sbjct: 69  LEPEGQSIKVDQVRE-LVEFLSR----TPQESGRRVVIIEDAERMNEAAANALLKTLEEP 123

Query: 169 TKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAAL 228
             NT F LI     K++P ++SRC    F PL      E L   +  +G  ++E     L
Sbjct: 124 PPNTLFILITPSPEKLLPTIRSRCQVLPFPPLS----EEALLQWLIRQG--ISEEAAELL 177

Query: 229 VRLCNGDMRKA 239
           + L  G    A
Sbjct: 178 LALAGGSPGAA 188

This model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau [DNA metabolism, DNA replication, recombination, and repair]. Length = 188

>gnl|CDD|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau; Provisional

 Score = 79.5 bits (196), Expect = 2e-16
 Identities = 57/205 (27%), Positives = 92/205 (44%), Gaps = 13/205 (6%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKL----YG 100
           KYRPQ+  DV     I +T+      N L   LL+ GP G GKT+    +ARK+    Y 
Sbjct: 10  KYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYD 69

Query: 101 AQYHNM---ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA 157
               +    I EL+A+ +  +D +R  I                 K+ ++DE   ++  A
Sbjct: 70  DPNEDFSFNIFELDAASNNSVDDIRNLIDQVRIPPQT-----GKYKIYIIDEVHMLSSAA 124

Query: 158 QFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEG 217
             A  + +E+   +  F L   + +KIIP + SRC  F F  +    + E L  +   EG
Sbjct: 125 FNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEG 184

Query: 218 LDVTEGGLAALVRLCNGDMRKALNI 242
           +   +  L  + +  +G +R AL+I
Sbjct: 185 IKFEDDALHIIAQKADGALRDALSI 209

Length = 367

>gnl|CDD|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau; Validated

 Score = 80.2 bits (198), Expect = 2e-16
 Identities = 62/234 (26%), Positives = 114/234 (48%), Gaps = 23/234 (9%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKLYGA 101
              KYRP++  D+     IV T+  +   N++ H  L+ GP GTGKTS     A  L  +
Sbjct: 8   LYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCS 67

Query: 102 QYHNM----------------ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
              ++                I+E++A+ + G+D +R+ I++  +        ++  K+ 
Sbjct: 68  HKTDLLEPCQECIENVNNSLDIIEMDAASNNGVDEIRELIENVKN-----LPTQSKYKIY 122

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           ++DE   ++K A  AL + +E+  K+  F L   +V+KI   + SR  RF F  +    +
Sbjct: 123 IIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISEDEI 182

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
             RL+ ++E E +   +  L  + +L +G +R AL+I  Q +   + +IT + V
Sbjct: 183 VSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNV 236

Length = 725

>gnl|CDD|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau; Provisional

 Score = 79.1 bits (195), Expect = 2e-16
 Identities = 69/298 (23%), Positives = 128/298 (42%), Gaps = 39/298 (13%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHL-LLYGPPGTGKTSTILAVARKL------ 98
           K+RPQ   D+   + IV  I    S  R+ H  LL G  G GKT+    +A+ L      
Sbjct: 9   KWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGI 68

Query: 99  -----------YGAQYHNMI--LELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
                         +    +  +E++A+    ++ +R+ + +   + S     K+  K+ 
Sbjct: 69  TSNPCRKCIICKEIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPS-----KSRFKVY 123

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           L+DE   +++ +  AL + +E+  ++ +F L    V KI   + SRC +F+   +    +
Sbjct: 124 LIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKI 183

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTGN 264
              LK+++  E +D  E  L  +    +G MR ALN+L  + ++    I  + V    G 
Sbjct: 184 FNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINLGKGNINIKNVTDMLGL 243

Query: 265 PLPKDIEQISYWLLNESFADS------FKRISEMKMRKGLALVDIVREVTMFVFKIKM 316
              K    ++  LL     DS        +IS + +     L++++R    F+  I M
Sbjct: 244 LNEKQSFLLTDALLK---KDSKKTMLLLNKISSIGIEWENILIEMLR----FLHHISM 294

Length = 363

>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau; Provisional

 Score = 78.3 bits (193), Expect = 7e-16
 Identities = 62/240 (25%), Positives = 109/240 (45%), Gaps = 24/240 (10%)

Query: 45  EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTST--ILAVARKLYG- 100
           ++ RP +  +V     + + +     + RL H  L+ GP G GKT+T  ++A+A    G 
Sbjct: 6   QRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGE 65

Query: 101 ---------------AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
                             H  +LE++A+ +  ++ VR    D       +  ++   K+ 
Sbjct: 66  DPKPCGECESCLAVRRGAHPDVLEIDAASNNSVEDVR----DLREKVLLA-PLRGGRKVY 120

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           +LDEA  M+K A  AL + +E+  ++  F L   +  K+ P + SR   FRF  L    +
Sbjct: 121 ILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEI 180

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNP 265
             +L+ ++EAEG +     L  + RL +G MR A ++L+        +T + V    G P
Sbjct: 181 AGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLALGTPVTRKQVEEALGLP 240

Length = 504

>gnl|CDD|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau; Validated

 Score = 77.8 bits (191), Expect = 1e-15
 Identities = 63/236 (26%), Positives = 111/236 (47%), Gaps = 30/236 (12%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTST--ILAVARKLYGAQ 102
           K+RP++ AD+     +V  +     E RL H  LL G  G GKT+   ILA +     AQ
Sbjct: 9   KWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQ 68

Query: 103 YHNM-----------------ILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKASVK 143
           +                    +LE++A+ + GID +R+ +++  +A T           K
Sbjct: 69  HGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTA-------GKYK 121

Query: 144 LVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPV 203
           + ++DE   ++K A  A+ + +E+  ++ +F L     +K+   + SRC +F    +   
Sbjct: 122 VYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQ 181

Query: 204 HVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
            V + L HV+++E +      L  L R   G MR AL++L Q+  + S ++ E  V
Sbjct: 182 QVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGSGKVAENDV 237

Length = 709

>gnl|CDD|221959 pfam13177, DNA_pol3_delta2, DNA polymerase III, delta subunit

 Score = 71.8 bits (177), Expect = 5e-15
 Identities = 41/165 (24%), Positives = 72/165 (43%), Gaps = 26/165 (15%)

Query: 58  HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHN----------- 105
              ++  +     +N+L H  L  GP G GK    L  A+ L+     +           
Sbjct: 2   QPKVIKLLKNSIKKNKLSHAYLFSGPDGVGKLELALEFAKALFCENPQDDEPCGECKSCK 61

Query: 106 MILELNASDDR---------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD 156
            I   N  D            ID +R+ I++F+         +   K+ ++++A+ MT+ 
Sbjct: 62  RIENGNHPDVIIIEPEGKSIKIDQIRELIEEFSKK-----PFEGKKKVYIIEDAEKMTES 116

Query: 157 AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLE 201
           A  AL + +E+  +NT F L+ +  NK++P ++SRC    F PL 
Sbjct: 117 AANALLKTLEEPPENTYFILLTSNPNKLLPTIRSRCQVINFKPLS 161

DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalyzed reaction. The delta subunit is also known as HolA. Length = 161

>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau; Provisional

 Score = 75.9 bits (187), Expect = 5e-15
 Identities = 54/234 (23%), Positives = 108/234 (46%), Gaps = 26/234 (11%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKLYGAQYH 104
           KYRPQ+ +D+     +  T+       R+ H  L+ G  G GKTST   +A+ L   Q  
Sbjct: 9   KYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGL 68

Query: 105 NM-------------------ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
                                + E++ + + G+D +R+  ++     S     ++  K+ 
Sbjct: 69  TAEPCNVCPPCVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPS-----RSRYKIF 123

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           ++DE   ++ +A  AL + +E+   + +F     + +K+   + SRC RF F  +    +
Sbjct: 124 IIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRRIPLQKI 183

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
            +RL+++ + EG+ +++  LA + R  +G MR +L+ L Q        + ++ V
Sbjct: 184 VDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDAVGDDDV 237

Length = 576

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 70.3 bits (173), Expect = 6e-15
 Identities = 35/141 (24%), Positives = 61/141 (43%), Gaps = 27/141 (19%)

Query: 77  LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--IDVVRQQIQDFASTQSF 134
           LLLYGPPGTGKT+   AVA++L         +E++ S+     +    +++++      F
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGA-----PFIEISGSELVSKYVGESEKRLREL-----F 50

Query: 135 SFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTKNTR---FALICNQ 180
               K +  ++ +DE DA+                  L   ++ +T +          N+
Sbjct: 51  EAAKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLSKVIVIAATNR 110

Query: 181 VNKIIPAL-QSRCTRFRFAPL 200
            +K+ PAL + R  R    PL
Sbjct: 111 PDKLDPALLRGRFDRIIEFPL 131

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau; Validated

 Score = 73.7 bits (181), Expect = 3e-14
 Identities = 56/220 (25%), Positives = 94/220 (42%), Gaps = 25/220 (11%)

Query: 45  EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTS--TILAVAR----- 96
            KYRP +   +     I   +      N+L H  ++ GP G GKTS   I A A      
Sbjct: 8   RKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNP 67

Query: 97  ------------KLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                       +         I+EL+A+ + G+D +R  I D  +    +F      K+
Sbjct: 68  KDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDEIRN-IIDNINYLPTTF----KYKV 122

Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            ++DEA  ++  A  AL + +E+  K+  F     +  KI   + SRC R+ F  L    
Sbjct: 123 YIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSE 182

Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ 244
           + E LK + + E + + +  +  +  L +G +R  L+IL 
Sbjct: 183 LQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILD 222

Length = 605

>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau; Provisional

 Score = 72.4 bits (177), Expect = 6e-14
 Identities = 53/223 (23%), Positives = 95/223 (42%), Gaps = 25/223 (11%)

Query: 41  SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRL-PHLLLYGPPGTGKTSTILAVARKLY 99
           +    +YRPQ+ A+VA    +   + R   ENR+ P  L  G  G GKT+     A+ L 
Sbjct: 4   ASLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALN 63

Query: 100 GAQ-------------------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA 140
                                  H  ++E++ + +RGID  ++  +           ++ 
Sbjct: 64  CETAPTGEPCNTCEQCRKVTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAP-----MEG 118

Query: 141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL 200
             K+ ++DEA  +T++A  AL + +E+      F L   + +K    + SRC  F F  L
Sbjct: 119 RYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRL 178

Query: 201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL 243
               +   L  V+  EG+D     +  + R   G +R ++++L
Sbjct: 179 SEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLL 221

Length = 624

>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated

 Score = 72.2 bits (178), Expect = 8e-14
 Identities = 68/244 (27%), Positives = 115/244 (47%), Gaps = 36/244 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTST--ILAVA------- 95
           K+RPQ+  DV     I  T+     + ++ H  L+ GP GTGKTS   I A A       
Sbjct: 9   KWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPP 68

Query: 96  -----------RKLYGAQYHNM-ILELNASDDRGIDVVRQQIQD---FASTQSFSFGVKA 140
                      + +       M ++E++A+ + G+D +R  I+D   +A ++       A
Sbjct: 69  DGEPCNECEICKAI--TNGSLMDVIEIDAASNNGVDEIRD-IRDKVKYAPSE-------A 118

Query: 141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL 200
             K+ ++DE   ++  A  AL + +E+   +  F L   + +KI   + SRC RF F  +
Sbjct: 119 KYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKRI 178

Query: 201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVY 259
               + ERLK++++ EG++  +  L  + R   G MR AL+IL Q+      ++T E   
Sbjct: 179 SVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFGDGKVTYEDAL 238

Query: 260 LCTG 263
             TG
Sbjct: 239 EVTG 242

Length = 559

>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau; Validated

 Score = 68.6 bits (168), Expect = 1e-12
 Identities = 61/288 (21%), Positives = 130/288 (45%), Gaps = 30/288 (10%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKLYGAQYH 104
           KYRPQ+ +++     +V  +      NR  H  L+ G  GTGKT+     A+ L      
Sbjct: 10  KYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPT 69

Query: 105 NM--------------------ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                                 +LE++ +  RGI+ +RQ       T  F+   K+  K+
Sbjct: 70  EDQEPCNQCASCKEISSGTSLDVLEIDGASHRGIEDIRQ----INETVLFT-PSKSRYKI 124

Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            ++DE   +TK+A  +L + +E+  ++ +F L   +++KI   + SRC +     +    
Sbjct: 125 YIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEET 184

Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
           + ++L  + + EG++ +   L  + R   G +R A ++      +  + +  ++V    G
Sbjct: 185 IIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFPKSLDPDSVAKALG 244

Query: 264 NPLPKD-IEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMF 310
             L +D +  +   +  +++A + + +++  M  G+A    + ++T+F
Sbjct: 245 -LLSQDSLYTLDEAITTQNYAQALEPVTDA-MNSGVAPAHFLHDLTLF 290

Length = 451

>gnl|CDD|237873 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau; Provisional

 Score = 67.9 bits (166), Expect = 2e-12
 Identities = 56/237 (23%), Positives = 108/237 (45%), Gaps = 32/237 (13%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKT--STILAVA------- 95
           K+RP+S +++     +V  +     + RL H  L+ G  G GKT  + ILA +       
Sbjct: 9   KWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGV 68

Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKASV 142
                       ++   ++ ++I E++A+ +  +D +R+ + +  +A T+          
Sbjct: 69  TATPCGVCSACLEIDSGRFVDLI-EVDAASNTQVDAMRELLDNAQYAPTR-------GRF 120

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           K+ ++DE   ++K A  A+ + +E+  ++ +F L      KI   + SRC +F    + P
Sbjct: 121 KVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPP 180

Query: 203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
             +   L+H++E E +      L  L R   G MR AL++L Q+       + E  V
Sbjct: 181 PLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQAIAYGGGTVNESEV 237

Length = 527

>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional

 Score = 67.8 bits (166), Expect = 2e-12
 Identities = 67/239 (28%), Positives = 106/239 (44%), Gaps = 31/239 (12%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKT--STILAVARKLYGAQ 102
           KYRP+S +++     +V  +    ++ RL H  L+ G  G GKT  S ILA +    G  
Sbjct: 9   KYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPD 68

Query: 103 YHNMI----------------------LELNASDDRGIDVVRQQIQDFASTQSFSFGVKA 140
               I                       EL+A+ +RG+D V+Q ++     Q+    V+ 
Sbjct: 69  GQGGITATPCGVCQACRDIDSGRFVDYTELDAASNRGVDEVQQLLE-----QAVYKPVQG 123

Query: 141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL 200
             K+ ++DE   +T  A  A+ + +E+  +  +F L      K+   + SRC +F   P+
Sbjct: 124 RFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRPM 183

Query: 201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
            P  V E L  V+ AE +      L  L R   G MR AL++  Q+    S Q+ E AV
Sbjct: 184 APETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAFGSGQLQEAAV 242

Length = 618

>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 66.6 bits (163), Expect = 6e-12
 Identities = 60/222 (27%), Positives = 94/222 (42%), Gaps = 38/222 (17%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDT---IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL 98
           P  ++ RP++L +      I+     + R    +R+  L+LYGPPG GKT+    +AR +
Sbjct: 17  PLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTT----LARII 72

Query: 99  YGAQYHNM-ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA 157
             A +       LNA    G+  +R ++ D A  +    G +    ++ +DE     K  
Sbjct: 73  --ANHTRAHFSSLNAV-LAGVKDLRAEV-DRAKERLERHGKRT---ILFIDEVHRFNKAQ 125

Query: 158 QFALRRVIEK--------YTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERL 209
           Q AL   +E          T+N  F      VNK   AL SR   FR   L    + + L
Sbjct: 126 QDALLPWVENGTITLIGATTENPYFE-----VNK---ALVSRSRLFRLKSLSDEDLHQLL 177

Query: 210 KHVIEAEG-------LDVTEGGLAALVRLCNGDMRKALNILQ 244
           K  ++ +        +D+       LV + NGD R  LN L+
Sbjct: 178 KRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALE 219

Length = 725

>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24

 Score = 64.6 bits (157), Expect = 2e-11
 Identities = 61/285 (21%), Positives = 108/285 (37%), Gaps = 54/285 (18%)

Query: 11  DFDEDENQNLKPKDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTS 70
           D    +   L  + +   + +S    D    PWVEKY+P++  ++A H+  ++ ++    
Sbjct: 44  DIHARKRGFLSLEQD-TGLELSSENLD-GNEPWVEKYKPETQHELAVHKKKIEEVETWLK 101

Query: 71  ENRLPH-----LLLYGPPGTGKTSTILAVARKLYGAQYH---NMILELNASDDRG----- 117
              L +     LL+ GP G GK++TI  ++++L G Q     N  L     +D       
Sbjct: 102 AQVLENAPKRILLITGPSGCGKSTTIKILSKEL-GIQVQEWSNPTLPDFQKNDHKVTLSL 160

Query: 118 ---IDVVRQQIQDF--------ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIE 166
                  + QI+ F           Q     +    K++L+++          AL  ++ 
Sbjct: 161 ESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILR 220

Query: 167 -KYTKNTRFALIC----------NQVNKIIPALQS---------RCTRFRFAPLEPVHVT 206
            KY    R  L+           NQ   + PA            R +   F P+ P  + 
Sbjct: 221 WKYVSIGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMK 280

Query: 207 ERLKHVIEAEGLDVTE-------GGLAALVRLCNGDMRKALNILQ 244
           + L  ++  E     E         +  L + C+GD+R A+N LQ
Sbjct: 281 KFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSGDIRSAINSLQ 325

All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 637

>gnl|CDD|236267 PRK08451, PRK08451, DNA polymerase III subunits gamma and tau; Validated

 Score = 64.3 bits (157), Expect = 3e-11
 Identities = 74/268 (27%), Positives = 115/268 (42%), Gaps = 26/268 (9%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKLYGAQ-- 102
           KYRP+   ++     +  T+      NRL H  L+ G  G+GKTS+    AR L   Q  
Sbjct: 7   KYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGP 66

Query: 103 -----------------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
                             H  I+E++A+ +RGID +R+ I+      S      A  K+ 
Sbjct: 67  SSTPCDTCIQCQSALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSM-----ARFKIF 121

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           ++DE   +TK+A  AL + +E+     +F L      K+   + SR   FRF  +    +
Sbjct: 122 IIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSI 181

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTGN 264
              LK ++E EG+      L  L R  NG +R  L +L Q+       ITE  V    G 
Sbjct: 182 ISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYCKNAITESKVADMLGL 241

Query: 265 PLPKDIEQISYWLLNESFADSFKRISEM 292
             P  +E     +LN+     F+ + E+
Sbjct: 242 LDPSKLEDFFQAILNQDKEKLFELLKEL 269

Length = 535

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

 Score = 59.7 bits (144), Expect = 5e-11
 Identities = 32/144 (22%), Positives = 55/144 (38%), Gaps = 21/144 (14%)

Query: 73  RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ 132
               +L+ GPPG+GKT+   A+AR+L        ++ ++  D     + +  +      +
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELG--PPGGGVIYIDGEDILEEVLDQLLLIIVGGKK 58

Query: 133 SFSFGV-----------KASVKLVLLDEADAMTKDAQFALRRVIE--------KYTKNTR 173
           +   G            K    +++LDE  ++    Q AL  ++E        K  KN  
Sbjct: 59  ASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLT 118

Query: 174 FALICNQVNKIIPALQSRCTRFRF 197
             L  N    + PAL  R    R 
Sbjct: 119 VILTTNDEKDLGPALLRRRFDRRI 142

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

>gnl|CDD|236022 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated

 Score = 62.4 bits (152), Expect = 7e-11
 Identities = 57/207 (27%), Positives = 92/207 (44%), Gaps = 42/207 (20%)

Query: 73  RLPH-LLLYGPPGTGKTST-------ILA-----------------------VARKLYGA 101
           RL H  L+ GP G GK +        +LA                       VAR++  A
Sbjct: 39  RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARRI-AA 97

Query: 102 QYHNMILELNASDDRGIDVVRQQI--QDFASTQSFSFGVKASV---KLVLLDEADAMTKD 156
             H  +L L  S +     +R  I   +     SF FG+ A+    ++V++D AD M  +
Sbjct: 98  GAHGGLLTLERSWNEKGKRLRTVITVDEVRELISF-FGLTAAEGGWRVVIVDTADEMNAN 156

Query: 157 AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE 216
           A  AL +V+E+    + F L+ +   +++P ++SRC + R  PL P    E +   + A 
Sbjct: 157 AANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAP----EDVIDALAAA 212

Query: 217 GLDVTEGGLAALVRLCNGDMRKALNIL 243
           G D+ +   AAL  L  G + +AL + 
Sbjct: 213 GPDLPDDPRAALAALAEGSVGRALRLA 239

Length = 365

>gnl|CDD|237866 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau; Provisional

 Score = 63.0 bits (153), Expect = 9e-11
 Identities = 55/223 (24%), Positives = 99/223 (44%), Gaps = 33/223 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKLYGAQY- 103
           KYRP + A+V     + + +       R+ H  L+ GP G GKTS+   +AR L  AQ  
Sbjct: 6   KYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGP 65

Query: 104 --------------------HNMILELNASDDRGIDVVRQQIQD---FASTQSFSFGVKA 140
                                  ++EL+A+   G+D  R+ ++D   +A  QS       
Sbjct: 66  TATPCGVCESCVALAPNGPGSIDVVELDAASHGGVDDTRE-LRDRAFYAPAQS------- 117

Query: 141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL 200
             ++ ++DEA  +T     AL +++E+  ++  F     +  K++P ++SR   + F  L
Sbjct: 118 RYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRLL 177

Query: 201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL 243
            P  +   +  + E EG+ V +     ++R   G  R  L++L
Sbjct: 178 PPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVL 220

Length = 584

>gnl|CDD|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau; Provisional

 Score = 61.3 bits (149), Expect = 2e-10
 Identities = 54/234 (23%), Positives = 107/234 (45%), Gaps = 26/234 (11%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-- 102
           KYRP S  D+     +V  +    + N++P  +LL G  G GKT+    ++  L  +   
Sbjct: 6   KYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGP 65

Query: 103 -----------------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
                             H  ++E++A+ +  +D ++  +++     S    + +  K+ 
Sbjct: 66  TSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVILEN-----SCYLPISSKFKVY 120

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           ++DE   ++  A  AL + +E+   + +F L   +V KI   + SRC RF    +    +
Sbjct: 121 IIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKL 180

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
            E L  + + E ++  E  L  +    +G MR AL +L Q+   ++ +I+E++V
Sbjct: 181 VEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSNNKISEKSV 234

Length = 491

>gnl|CDD|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau; Provisional

 Score = 60.9 bits (147), Expect = 3e-10
 Identities = 50/222 (22%), Positives = 98/222 (44%), Gaps = 27/222 (12%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKT--STILAVA------- 95
           K+RP+   +V     +V  +     +  L H  L+ G  G GKT  S ILA         
Sbjct: 9   KWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGV 68

Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                      R++   ++ ++  E++A+    ++  R+ + +     +     K   K+
Sbjct: 69  SANPCNDCENCREIDEGRFPDL-FEVDAASRTKVEDTRELLDNIPYAPT-----KGRFKV 122

Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            L+DE   ++  +  AL + +E+   + +F L     +K+   + SRC +F  A L P+ 
Sbjct: 123 YLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQ 182

Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQST 246
           +    +H+++ E ++     L  L R  NG +R AL++L  +
Sbjct: 183 IAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQS 224

Length = 509

>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional

 Score = 61.0 bits (148), Expect = 4e-10
 Identities = 60/241 (24%), Positives = 103/241 (42%), Gaps = 35/241 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKT--STILAVARKLYGAQ 102
           K+RP+    +     +V  +     + RL H  L+ G  G GKT  S ILA +    GA 
Sbjct: 9   KWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGAD 68

Query: 103 YHNMI----------------------LELNASDDRGIDVVRQQIQD--FASTQSFSFGV 138
               I                      +E++A+ +RG+D + Q +    +A T       
Sbjct: 69  GEGGITAQPCGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTA------ 122

Query: 139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA 198
               K+ ++DE   +T  A  A+ + +E+  ++ +F L      KI   + SRC +F   
Sbjct: 123 -GRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLK 181

Query: 199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEA 257
            + P H+   L  ++  EG+      L  L +   G MR AL++  Q+   ++  ++EEA
Sbjct: 182 QMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLTDQAIAYSAGNVSEEA 241

Query: 258 V 258
           V
Sbjct: 242 V 242

Length = 700

>gnl|CDD|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau; Provisional

 Score = 60.3 bits (146), Expect = 4e-10
 Identities = 59/245 (24%), Positives = 102/245 (41%), Gaps = 40/245 (16%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKL------ 98
           KYRP+  AD+ A   I  TI       R+ H  ++ G  G GKT+     A+ +      
Sbjct: 9   KYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMI 68

Query: 99  ---------------------YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG 137
                                + A     I E +A+ +  +D +R         ++  +G
Sbjct: 69  DDADYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLL------RENVRYG 122

Query: 138 -VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR 196
             K   ++ ++DE   ++  A  A  + +E+   +  F     +++KI   + SRC RF 
Sbjct: 123 PQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFN 182

Query: 197 FA--PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQI 253
           F   PLE +   ++L+ + EAEG+ V    L  + R   G MR A +IL Q    + +  
Sbjct: 183 FKRIPLEEIQ--QQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESE 240

Query: 254 TEEAV 258
            E ++
Sbjct: 241 GEGSI 245

Length = 397

>gnl|CDD|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau; Validated

 Score = 59.9 bits (145), Expect = 7e-10
 Identities = 59/288 (20%), Positives = 114/288 (39%), Gaps = 43/288 (14%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKL-- 98
           P+  KYRP + A++     +V  +      +RL    LL G  G GKT++   +A+ +  
Sbjct: 10  PFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC 69

Query: 99  ---------------------YGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFS 135
                                +    H  I+E++A+    +D +R+ I+   +   Q   
Sbjct: 70  SALITENTTIKTCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQG-- 127

Query: 136 FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF 195
                  K+ ++DE   ++K A  AL + +E+   +  F     +V KI   + SRC R+
Sbjct: 128 -----KHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRY 182

Query: 196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITE 255
               L    + + L+++ + E L      L  +     G  R A++IL      S +   
Sbjct: 183 DLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKS-- 240

Query: 256 EAVYLCTGNPL-PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVD 302
                   N + P+ I Q+   + +    +  + I   +  K + L++
Sbjct: 241 -------DNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLIN 281

Length = 507

>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit; Provisional

 Score = 58.7 bits (142), Expect = 2e-09
 Identities = 24/49 (48%), Positives = 27/49 (55%)

Query: 42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTST 90
          PWVEKYRPQ L D+     IV  +        +PHLL  GPPG GK  T
Sbjct: 8  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCLT 56

Length = 846

>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau; Provisional

 Score = 58.4 bits (141), Expect = 2e-09
 Identities = 53/227 (23%), Positives = 93/227 (40%), Gaps = 35/227 (15%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKL------ 98
           KYRP   AD+ A   I  TI      +R+ H  ++ G  G GKT+     A+ +      
Sbjct: 9   KYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMI 68

Query: 99  ---------------------YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG 137
                                + A     I E +A+ +  +D +RQ        ++  +G
Sbjct: 69  DDPVYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRQL------RENVRYG 122

Query: 138 -VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR 196
             K   ++ ++DE   ++  A  A  + +E+   +  F     +++KI   + SRC RF 
Sbjct: 123 PQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFN 182

Query: 197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL 243
           F  +    +  +L+ +  AEG+ +    L  + R   G MR A +IL
Sbjct: 183 FKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSIL 229

Length = 620

>gnl|CDD|181214 PRK08058, PRK08058, DNA polymerase III subunit delta'; Validated

 Score = 57.2 bits (139), Expect = 3e-09
 Identities = 53/202 (26%), Positives = 93/202 (46%), Gaps = 25/202 (12%)

Query: 61  IVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI- 118
           +V  +    ++NRL H  L  G  GTGK +T L +A+ L+  + + +      ++ + I 
Sbjct: 14  VVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRID 73

Query: 119 -----DVVR----------QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRR 163
                DV             QI+      S S GV+++ K+ +++ AD MT  A  +L +
Sbjct: 74  SGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKS-GVESNKKVYIIEHADKMTASAANSLLK 132

Query: 164 VIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEG 223
            +E+ +  T   L+    ++I+P + SRC    F PL P    E L   ++ EG+  +  
Sbjct: 133 FLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPP----ESLIQRLQEEGISESLA 188

Query: 224 GLAALVRLCNGDMRKALNILQS 245
            L A   L N  + +AL + + 
Sbjct: 189 TLLA--GLTN-SVEEALALSED 207

Length = 329

>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional

 Score = 57.9 bits (140), Expect = 4e-09
 Identities = 58/236 (24%), Positives = 99/236 (41%), Gaps = 29/236 (12%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKL------ 98
           KYRP +   V     +  T+    + N+L H  L+ GP G GKT+     A+ +      
Sbjct: 10  KYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLT 69

Query: 99  --------------YGAQYHNMILELNASDDRGIDVVRQQI-QDFASTQSFSFGVKASVK 143
                         +  Q    I EL+A+ +  +D +R  I Q     Q   +      K
Sbjct: 70  ADGEACNECESCVAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKY------K 123

Query: 144 LVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPV 203
           + ++DE   +++ A  A  + +E+      F L   + +KI+P + SRC  F F  ++  
Sbjct: 124 IYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVA 183

Query: 204 HVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
            +   L++V   EG+      L  + +  +G MR AL+I  Q        IT ++V
Sbjct: 184 DIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGNITYKSV 239

Length = 614

>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein

 Score = 57.0 bits (137), Expect = 5e-09
 Identities = 61/255 (23%), Positives = 95/255 (37%), Gaps = 58/255 (22%)

Query: 42  PWVEKYRPQSLADVAAHR----DIVDTIDRLTSENRLPHLLLY--GPPGTGKTSTILAVA 95
            W EKY+P+   ++A H+    ++   +  +  E+    L+L   GP G GK ST + V 
Sbjct: 8   LWTEKYKPRRRDELAIHKKKIAEVDHWLKAVFLESN-KQLILLLTGPSGCGK-STTVKVL 65

Query: 96  RKLYGAQY---------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKAS----- 141
            K  G +          HN   E    D RG  +V    Q     Q   F ++ +     
Sbjct: 66  SKELGIEIIEWSNPEYLHNPDNECQKPDFRGDCIVNSLSQ---MEQFREFLLRGARYGSL 122

Query: 142 ------VKLVLLDE-ADAMTKDAQFALRRVIEKYTKNTR-FALIC------------NQV 181
                  KL+L++E  +    DA+   R VI +  ++     LI             NQ 
Sbjct: 123 QGGGLKKKLILVEELPNQFYSDAE-KFREVIREVLQSIWHLPLIFCLTECNSLEGDNNQD 181

Query: 182 NKIIPALQ---------SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC 232
              I A            R     F P+ P  + + L  +   EG   +    + L  +C
Sbjct: 182 RFGIDAETIMTKDILIMPRIDTITFNPIAPTFMKKALVRISVQEGKLKSPKSDSKLEVIC 241

Query: 233 ---NGDMRKALNILQ 244
               GD+R A+N LQ
Sbjct: 242 QEAGGDLRSAINSLQ 256

Length = 490

>gnl|CDD|184921 PRK14957, PRK14957, DNA polymerase III subunits gamma and tau; Provisional

 Score = 57.0 bits (137), Expect = 7e-09
 Identities = 54/248 (21%), Positives = 109/248 (43%), Gaps = 36/248 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKL-----Y 99
           KYRPQS A+VA  +  ++++       ++ H  L+ G  G GKT+    +A+ L      
Sbjct: 9   KYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGV 68

Query: 100 GAQYHNM--------------ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV 145
            A+  N               ++E++A+   G++  ++ + +     S     +   K+ 
Sbjct: 69  TAEPCNKCENCVAINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPS-----QGRYKVY 123

Query: 146 LLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHV 205
           L+DE   ++K +  AL + +E+  +  +F L     +KI   + SRC +     +    +
Sbjct: 124 LIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADI 183

Query: 206 TERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNP 265
            ++LK ++  E ++  E  L  +     G +R AL++L           ++A+  C G  
Sbjct: 184 KDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLL-----------DQAISFCGGEL 232

Query: 266 LPKDIEQI 273
               I+Q+
Sbjct: 233 KQAQIKQM 240

Length = 546

>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated

 Score = 53.2 bits (128), Expect = 7e-08
 Identities = 43/156 (27%), Positives = 72/156 (46%), Gaps = 28/156 (17%)

Query: 67  RLTSENRLPH-LLLYGPPGTGKTSTILAVAR-------------------KLYGAQYH-- 104
           +L    R PH  LL+GP G GK +    +A                    +L  A  H  
Sbjct: 14  QLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPD 73

Query: 105 NMILE-LNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRR 163
           N +LE   A     +D VR+ +  F   Q+   G     K+VL++ A+AM ++A  AL +
Sbjct: 74  NFVLEPEEADKTIKVDQVRE-LVSFV-VQTAQLG---GRKVVLIEPAEAMNRNAANALLK 128

Query: 164 VIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP 199
            +E+ + +T   LI +Q ++++P ++SRC +     
Sbjct: 129 SLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPL 164

Length = 328

>gnl|CDD|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau; Validated

 Score = 52.9 bits (127), Expect = 1e-07
 Identities = 47/217 (21%), Positives = 86/217 (39%), Gaps = 31/217 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKLYGAQYH 104
           K RP+    +     +V+T+      N++ +  ++ GP G GKTS+  A AR L      
Sbjct: 9   KRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGP 68

Query: 105 NM-------------------ILELNASDDRGIDVVRQQIQD---FASTQSFSFGVKASV 142
                                ++E++ + +  +  VR QI++   F    S         
Sbjct: 69  TPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVR-QIKEEIMFPPASS-------RY 120

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           ++ ++DE   ++  A  AL + IE+      F     +V+K+   ++SRC  F F  L  
Sbjct: 121 RVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLSL 180

Query: 203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKA 239
             +   LK V   + +   +  L  +     G +R A
Sbjct: 181 EKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDA 217

Length = 563

>gnl|CDD|169667 PRK09112, PRK09112, DNA polymerase III subunit delta'; Validated

 Score = 52.3 bits (126), Expect = 2e-07
 Identities = 50/252 (19%), Positives = 98/252 (38%), Gaps = 47/252 (18%)

Query: 28  NVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTG 86
            +++     D+   P      P     +  H +    + +   E +L H LL+ GP G G
Sbjct: 3   ELMIPEQHDDLDGVPS-----PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIG 57

Query: 87  KTS-------TILA-------------------VARKLYGAQYHNMILELNASDDRG--- 117
           K +        IL+                   V R++    + N++      D++    
Sbjct: 58  KATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIAQGAHPNLLHITRPFDEKTGKF 117

Query: 118 -----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT 172
                +D +R+     + T         + ++V++D AD M ++A  A+ + +E+     
Sbjct: 118 KTAITVDEIRRVGHFLSQTSG-----DGNWRIVIIDPADDMNRNAANAILKTLEEPPARA 172

Query: 173 RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC 232
            F LI +   +++P ++SRC      PL+   + + L H+              AL++  
Sbjct: 173 LFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLG--SSQGSDGEITEALLQRS 230

Query: 233 NGDMRKALNILQ 244
            G +RKAL +L 
Sbjct: 231 KGSVRKALLLLN 242

Length = 351

>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated

 Score = 52.2 bits (125), Expect = 2e-07
 Identities = 57/235 (24%), Positives = 104/235 (44%), Gaps = 28/235 (11%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKT--STILAVA------- 95
           K+RP+  A +     +V  +       RL H  L+ G  G GKT  S I A A       
Sbjct: 9   KWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGV 68

Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                      R++   ++ + + E++A+ +RG+D +   ++     ++    V A  K+
Sbjct: 69  TSQPCGVCRACREIDEGRFVDYV-EMDAASNRGVDEMAALLE-----RAVYAPVDARFKV 122

Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            ++DE   +T  A  A+ + +E+   + +F L      KI   + SRC +F    +   H
Sbjct: 123 YMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGH 182

Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAV 258
           +   L+ ++  E +      L  L R   G MR AL++  Q+   ++ ++TE AV
Sbjct: 183 IVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYSANEVTETAV 237

Length = 830

>gnl|CDD|180132 PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated

 Score = 50.8 bits (122), Expect = 4e-07
 Identities = 40/160 (25%), Positives = 79/160 (49%), Gaps = 15/160 (9%)

Query: 51  SLADVAAHRDIVDTIDRLTSENRLPHL-LLYGPPGTGKTSTILA--VARKLYGA---QYH 104
           S   +  H +I + I     +NR  H  ++ G  G GK+  +LA  +A K+ G    + +
Sbjct: 2   SFHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKS--LLAKEIALKILGKSQQREY 59

Query: 105 NMILELNASDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
             I+E    + +  G+D +R  I++  + + +  G K   K++++  ++ MT+ AQ A  
Sbjct: 60  VDIIEFKPINKKSIGVDDIRNIIEE-VNKKPYE-GDK---KVIIIYNSEKMTEQAQNAFL 114

Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           + IE+  K     L+C  + +I+  ++SRC  ++   L  
Sbjct: 115 KTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSK 154

Length = 313

>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau; Provisional

 Score = 50.7 bits (121), Expect = 6e-07
 Identities = 51/223 (22%), Positives = 101/223 (45%), Gaps = 33/223 (14%)

Query: 46  KYRPQSLADVAAHRDI-VDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ- 102
           KYRPQ   DV  H+D+ +  +       ++ H  + +GP G GKT+    +A++L     
Sbjct: 11  KYRPQFFRDVI-HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENP 69

Query: 103 ------------------YHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKASV 142
                               + +LE++A+ +RGI+ +R+   +  FA        +    
Sbjct: 70  IGNEPCNECTSCLEITKGISSDVLEIDAASNRGIENIRELRDNVKFAP-------MGGKY 122

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           K+ ++DE   +T  +  AL + +E+   +  F L   + +KI   + SRC  F F  + P
Sbjct: 123 KVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKV-P 181

Query: 203 VHVTER-LKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ 244
           + V +   + + + E +   + GL  + +  +G +R  L+ ++
Sbjct: 182 LSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFME 224

Length = 484

>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau; Provisional

 Score = 48.4 bits (116), Expect = 4e-06
 Identities = 65/239 (27%), Positives = 104/239 (43%), Gaps = 35/239 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDR-LTSENRLPHLLLYGPPGTGKTST--ILA--------- 93
           KYRPQ   ++     I  T+   L S    P  L  GP GTGKTS+  ILA         
Sbjct: 9   KYRPQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSD 68

Query: 94  -----------VARKLYGAQYHNMILELNASDDRGIDVVRQQIQ--DFASTQSFSFGVKA 140
                      + R +  A     ++E++A+ + G+D +R+ I+   FA  Q       A
Sbjct: 69  KPTPEPCGKCELCRAI-AAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQ-------A 120

Query: 141 SVKLVLLDEADAMTKDAQF-ALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP 199
             K+ ++DE   M   A F AL + +E+      F L      +++P + SRC RF F  
Sbjct: 121 RWKVYVIDECH-MLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRFDFRR 179

Query: 200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAV 258
           +    + + L  + E E +++    L  + +   G +R A ++L    +    IT EAV
Sbjct: 180 IPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAESLLDQLSLLPGPITPEAV 238

Length = 620

>gnl|CDD|235898 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated

 Score = 47.8 bits (114), Expect = 4e-06
 Identities = 51/210 (24%), Positives = 81/210 (38%), Gaps = 59/210 (28%)

Query: 73  RLPH-LLLYGPPGTGKTSTILAVARKL-------------------YGAQYHN------- 105
           RLPH LLL+G  G GK      +A+ L                   + AQ ++       
Sbjct: 19  RLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVR 78

Query: 106 -MILELNAS-----------DDRG-----------IDVVRQQIQDFASTQSFSFGVKASV 142
              L   A            D+ G           I+ VR  + DF    +     +   
Sbjct: 79  PEALAAEAPGAADEAKEADADEGGKKTKAPSKEIKIEQVRALL-DFCGVGTH----RGGA 133

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           ++V+L  A+A+   A  AL + +E+    T F L+  ++++++P + SRC +F      P
Sbjct: 134 RVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAP 193

Query: 203 VHVTERLKH--VIEAEGLDVTEGG--LAAL 228
                 L    V +A+ L    GG  LAAL
Sbjct: 194 EAAAAWLAAQGVADADALLAEAGGAPLAAL 223

Length = 342

>gnl|CDD|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated

 Score = 47.6 bits (113), Expect = 5e-06
 Identities = 55/219 (25%), Positives = 94/219 (42%), Gaps = 50/219 (22%)

Query: 41  SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVA---- 95
           SPW ++   Q++A + A               RL H LL+ GP G GK +  LA+A    
Sbjct: 6   SPWQQRAYDQTVAALDA--------------GRLGHGLLICGPEGLGKRAVALALAEHVL 51

Query: 96  ------------RKLYGAQYHNMI-----LELNASDDRGIDVVRQQIQDFASTQSFS--F 136
                       R+L  A  H  +     +     D    ++V +Q+++ +   + +  +
Sbjct: 52  ASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQY 111

Query: 137 GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR 196
           G+    ++V++D ADA+ + A  AL + +E+ +      LI  Q  ++   ++SRC R  
Sbjct: 112 GI---AQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLE 168

Query: 197 FAPLEPVH------VTERLKHVIEAEGLDVTEG--GLAA 227
           F  L P H      + + +      E LD   G  GLAA
Sbjct: 169 FK-LPPAHEALAWLLAQGVSERAAQEALDAARGHPGLAA 206

Length = 319

>gnl|CDD|181190 PRK07993, PRK07993, DNA polymerase III subunit delta'; Validated

 Score = 47.8 bits (114), Expect = 5e-06
 Identities = 49/192 (25%), Positives = 75/192 (39%), Gaps = 34/192 (17%)

Query: 77  LLLYGPPGTGKTSTILAVARKLYGAQ-----------------------YHNMILELNAS 113
           LL+   PG G  + I A++R L   Q                       Y+ +  E   S
Sbjct: 27  LLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKS 86

Query: 114 DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTR 173
              G+D VR+  +       +        K+V L +A  +T  A  AL + +E+  +NT 
Sbjct: 87  S-LGVDAVREVTEKL-----YEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTW 140

Query: 174 FALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCN 233
           F L C +  +++  L+SRC     AP    +    L   +      +    LAAL RL  
Sbjct: 141 FFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREVTMSQDAL----LAAL-RLSA 195

Query: 234 GDMRKALNILQS 245
           G    AL +LQ 
Sbjct: 196 GAPGAALALLQP 207

Length = 334

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

 Score = 44.6 bits (106), Expect = 7e-06
 Identities = 22/118 (18%), Positives = 44/118 (37%), Gaps = 24/118 (20%)

Query: 76  HLLLYGPPGTGKTSTILAVARKLYGAQ---------------YHNMILELNASDDRG-ID 119
             +L G  G+GKT+ +  +AR+L   +                  ++  L      G   
Sbjct: 6   IGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTA 65

Query: 120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI 177
            + + I D    +           L+++DEA  ++ +A   LR + +   K  +  L+
Sbjct: 66  ELLEAILDALKRR--------GRPLLIIDEAQHLSLEALEELRDLYDLSEKGIQVILV 115

Length = 124

>gnl|CDD|236011 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated

 Score = 45.3 bits (108), Expect = 3e-05
 Identities = 27/108 (25%), Positives = 52/108 (48%), Gaps = 9/108 (8%)

Query: 116 RGIDVVR-QQIQD---FASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN 171
           +    +R +QI++   F S       ++A  K+V++++A+ M + A  AL + +E+    
Sbjct: 99  KAPPQIRLEQIREIKRFLSRPP----LEAPRKVVVIEDAETMNEAAANALLKTLEEPGNG 154

Query: 172 TRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLD 219
           T   LI      ++P + SRC    F  L    + + LK + + E L+
Sbjct: 155 T-LILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEILN 201

Length = 314

>gnl|CDD|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated

 Score = 45.2 bits (107), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 33/57 (57%)

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP 199
           +L +++ ADAM + A  AL + +E+   N  F L+ +   +++P + SRC ++   P
Sbjct: 110 RLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTP 166

Length = 319

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

 Score = 43.3 bits (102), Expect = 3e-05
 Identities = 24/120 (20%), Positives = 43/120 (35%), Gaps = 5/120 (4%)

Query: 59  RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI 118
             ++D + R       P +LL GP GTGKTS +  +   L  A       E N       
Sbjct: 10  ERLLDALRR-ARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERN-PPYAFS 67

Query: 119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC 178
             +R+ ++      +        ++  LL    A   +    L  ++E+     R  ++ 
Sbjct: 68  QALRELLRQLLRELAAEL---LLLREALLAALGAELIEGLQDLVELLERLLARARPLVLV 124

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

>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction only]

 Score = 44.0 bits (104), Expect = 7e-05
 Identities = 30/99 (30%), Positives = 42/99 (42%), Gaps = 10/99 (10%)

Query: 76  HLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDDRGIDVVRQQIQDFASTQS 133
           H+LL GPPG GKT    A+AR L G  +       +L  SD  G       + +      
Sbjct: 45  HVLLEGPPGVGKTLLARALARAL-GLPFVRIQCTPDLLPSDLLGTYAYAALLLE---PGE 100

Query: 134 FSF----GVKASVKLVLLDEADAMTKDAQFALRRVIEKY 168
           F F       A   ++LLDE +    + Q AL   +E+ 
Sbjct: 101 FRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALEER 139

Length = 329

>gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated

 Score = 44.1 bits (104), Expect = 7e-05
 Identities = 37/158 (23%), Positives = 64/158 (40%), Gaps = 36/158 (22%)

Query: 73  RLPH-LLLYGPPGTGKTSTILAVARKL--------------------YGAQYH---NMIL 108
           R P+  L  G  G GKT+     A+ L                    +G   H     I 
Sbjct: 19  RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEIT 78

Query: 109 ELNASDDRG-------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            L+   + G       ID VR+ I D     S    V+  ++++L+  A++M   A  +L
Sbjct: 79  PLSDEPENGRKLLQIKIDAVREII-DNVYLTS----VRGGLRVILIHPAESMNLQAANSL 133

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP 199
            +V+E+      F L+ +  +K++P ++SRC +     
Sbjct: 134 LKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPA 171

Length = 325

>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 43.6 bits (104), Expect = 8e-05
 Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 9/54 (16%)

Query: 48 RPQSLADVAAHRDIVDTID------RLTSENRLPHLLLYGPPGTGKTS--TILA 93
          RP+SL +      + + +       +   E  L H+LLYGPPG GKT+   I+A
Sbjct: 20 RPKSLDEFIGQEKVKENLKIFIEAAKKRGEA-LDHVLLYGPPGLGKTTLANIIA 72

Length = 328

>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau; Provisional

 Score = 43.5 bits (102), Expect = 1e-04
 Identities = 44/220 (20%), Positives = 93/220 (42%), Gaps = 31/220 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTST-------------- 90
           KYRP++  ++     +   +       RL H  L+ G  G GKT+               
Sbjct: 8   KYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGV 67

Query: 91  ------ILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKASV 142
                 + A  + +   ++ ++I E++A+    ++  R+ + +  +A TQ          
Sbjct: 68  TSTPCEVCATCKAVNEGRFIDLI-EIDAASRTKVEDTRELLDNVPYAPTQ-------GRF 119

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           K+ L+DE   ++  +  AL + +E+  ++ +F        K+   + SRC +F   PL  
Sbjct: 120 KVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAV 179

Query: 203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI 242
             +T+ L  ++E E +   +  +  +     G +R AL++
Sbjct: 180 DEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSL 219

Length = 702

>gnl|CDD|221955 pfam13173, AAA_14, AAA domain

 Score = 40.6 bits (96), Expect = 2e-04
 Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 11/100 (11%)

Query: 77  LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF 136
           +++ GP   GKT+ +L   ++L        IL +N  D R       ++      + F  
Sbjct: 5   IVITGPRQVGKTTLLLQFLKELLSEN----ILYINLDDPR-----FLRLALLDLLEEFLK 55

Query: 137 GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL 176
            +    K + LDE   +  D + AL+R+ +   +N R  L
Sbjct: 56  LLLPGKKYLFLDEIQKV-PDWEDALKRLYDDG-RNLRIIL 93

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 127

>gnl|CDD|221912 pfam13086, AAA_11, AAA domain

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 78  LLYGPPGTGKTSTILAVARKLYGAQYHNMIL 108
           L+ GPPGTGKT+TI+ + ++L        +L
Sbjct: 21  LIQGPPGTGKTTTIVEIIKQLLSNAPGKKVL 51

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. Length = 220

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 42.0 bits (99), Expect = 4e-04
 Identities = 43/219 (19%), Positives = 84/219 (38%), Gaps = 34/219 (15%)

Query: 58  HRD-----IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA 112
           HR+     +   +       R  ++++YGP GTGKT+T+  V  +L  +  +  ++ +N 
Sbjct: 21  HREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINC 80

Query: 113 SDDRG-IDVVRQQIQDF--------ASTQSFSFGVKASVKL-----VLLDEADAMTKDAQ 158
            + R    V+ + +           +S +          K      V+LDE DA+     
Sbjct: 81  LELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDG 140

Query: 159 FALRRVIE-KYTKNTRFALICNQ-----VNKIIPALQSRCTRFRFAPLEPVH-------V 205
             L  ++        + ++I        ++ + P ++S           P         +
Sbjct: 141 EVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKSSLGPSE-IVFPPYTAEELYDIL 199

Query: 206 TERLKHVIEAEGLDVTEGGLAALVR-LCNGDMRKALNIL 243
            ER++    A  +D     L A +    +GD RKA++IL
Sbjct: 200 RERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL 238

Length = 366

>gnl|CDD|236382 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau; Validated

 Score = 41.4 bits (98), Expect = 5e-04
 Identities = 62/241 (25%), Positives = 106/241 (43%), Gaps = 35/241 (14%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTST--ILAVARKLYGAQ 102
           KYRPQ+  D+     +V T+       R+    +L G  G GKT+T  ILA A    G  
Sbjct: 17  KYRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPD 76

Query: 103 ----------------------YHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGV 138
                                  H  +LE++A+   G+D +R+ I+   +         V
Sbjct: 77  GDGGPTIDLCGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRP-------V 129

Query: 139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA 198
            A  K+ ++DE   ++  A  AL + +E+   + +F     ++ K+   + SRC RF   
Sbjct: 130 SARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRFDLR 189

Query: 199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEA 257
            +E   +   L  +   EG++V +  LA + R   G +R  L++L Q+    + ++T EA
Sbjct: 190 RIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAHGAGEVTAEA 249

Query: 258 V 258
           V
Sbjct: 250 V 250

Length = 598

>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 50/218 (22%), Positives = 86/218 (39%), Gaps = 33/218 (15%)

Query: 68  LTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD 127
           L       H+L  GPPGTGKT+    VA+   G     ++ +    +    D++ Q I +
Sbjct: 306 LPVAQTSNHMLFAGPPGTGKTTIARVVAKIYCGL---GVLRKPLVREVSRADLIGQYIGE 362

Query: 128 FASTQSFSFGVKASVKLVLLDEADAM--TKDAQ---FALRRV--IEKYTKNTRFALIC-- 178
             +  +      A   ++ LDEA  +  T   Q   F L  +  +    +N R  L+   
Sbjct: 363 SEAKTNEIID-SALGGVLFLDEAYTLVETGYGQKDPFGLEAIDTLLARMENDRDRLVVIG 421

Query: 179 ----NQVNKII---PALQSRCTR----FRFAPLEPVHVTERL----KHVIEAEGLDVTEG 223
                 ++K +     L+SR TR      ++P E V +  R+      V++    D    
Sbjct: 422 AGYRKDLDKFLEVNEGLRSRFTRVIEFPSYSPDELVEIARRMATERDSVLDDAAADALLE 481

Query: 224 GLAALVR----LCNGDMRKALNILQSTHMASQQITEEA 257
               L +      NGD+R+ L+I  +     + + E A
Sbjct: 482 AATTLAQDTTPDANGDLRRGLDIAGNGRFV-RNVVERA 518

This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc [Protein fate, Protein and peptide secretion and trafficking]. Length = 557

>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus

 Score = 39.0 bits (92), Expect = 0.002
 Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 9/54 (16%)

Query: 48 RPQSLADVAAHRDIVDTID------RLTSENRLPHLLLYGPPGTGKT--STILA 93
          RP+ L +      + + +       +   E  L H+LLYGPPG GKT  + I+A
Sbjct: 19 RPRRLDEYIGQEKVKENLKIFIEAAKKRGEA-LDHVLLYGPPGLGKTTLANIIA 71

The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein. Length = 231

>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

 Score = 39.1 bits (92), Expect = 0.002
 Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 5/56 (8%)

Query: 48 RPQSLADVAAHRDIVDTIDRL--TSENR---LPHLLLYGPPGTGKTSTILAVARKL 98
          RP++L +      + + +      ++ R   L H+LL+GPPG GKT+    +A +L
Sbjct: 21 RPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL 76

Length = 332

>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular activities (AAA)

 Score = 37.5 bits (88), Expect = 0.002
 Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 3/55 (5%)

Query: 76  HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL--ELNASDDRGIDVVRQQIQDF 128
           H+LL G PG  KT     +AR L G  +  +    +L  SD  G +V  Q+ ++F
Sbjct: 1   HVLLEGVPGLAKTLLARTLARSL-GLDFRRIQFTPDLLPSDITGTEVYDQKTREF 54

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 131

>gnl|CDD|180855 PRK07132, PRK07132, DNA polymerase III subunit delta'; Validated

 Score = 38.9 bits (91), Expect = 0.003
 Identities = 22/91 (24%), Positives = 43/91 (47%), Gaps = 3/91 (3%)

Query: 107 ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIE 166
           I+  +  D    D+ + +     +   FS  V++  K++++   +  +     AL + IE
Sbjct: 59  IILFDIFDK---DLSKSEFLSAINKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIE 115

Query: 167 KYTKNTRFALICNQVNKIIPALQSRCTRFRF 197
           +  K+T F L    +NK++P + SRC  F  
Sbjct: 116 EPPKDTYFLLTTKNINKVLPTIVSRCQVFNV 146

Length = 299

>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 1/63 (1%)

Query: 182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALN 241
            +I PAL+SRC    F PL    + E  K+  E  G+++ +  L  +V+  +   R+A+N
Sbjct: 245 EEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALELIVKYASNG-REAVN 303

Query: 242 ILQ 244
           I+Q
Sbjct: 304 IVQ 306

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis [Protein fate, Degradation of proteins, peptides, and glycopeptides, Cellular processes, Sporulation and germination]. Length = 531

>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB

 Score = 39.0 bits (91), Expect = 0.004
 Identities = 24/86 (27%), Positives = 43/86 (50%), Gaps = 9/86 (10%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTST---ILAVARKL 98
           P  EK RP+S  ++    + +  +          H+++YGPPG GKT+    +L  A+K 
Sbjct: 54  PLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKN 113

Query: 99  YGAQYHN--MILELNAS----DDRGI 118
             + +      +E++A+    D+RGI
Sbjct: 114 PASPFKEGAAFVEIDATTARFDERGI 139

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis [Protein fate, Degradation of proteins, peptides, and glycopeptides, Cellular processes, Sporulation and germination]. Length = 531

>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 17/30 (56%), Positives = 20/30 (66%), Gaps = 1/30 (3%)

Query: 78  LLYGPPGTGKTSTILAVARKLYGAQYHNMI 107
           LL GP G GKT T LA+A  LYG +  N+I
Sbjct: 600 LLVGPSGVGKTETALALAELLYGGE-QNLI 628

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]. Length = 852

>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation protein

 Score = 38.4 bits (90), Expect = 0.004
 Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 24/84 (28%)

Query: 45  EKYRPQSLADVAAHRDIVDTIDRLTSE-------NRLPHLLLYGPPGTGKTSTILAVARK 97
             Y P  +     HRD  + I+ L          +R  ++ +YG  GTGKT+    V ++
Sbjct: 10  PDYVPDRIV----HRD--EQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKE 63

Query: 98  LYGAQYHNMILELNASDDRGIDVV 121
           L             A++DR + VV
Sbjct: 64  LE-----------EAAEDRDVRVV 76

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other [DNA metabolism, DNA replication, recombination, and repair]. Length = 365

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	364
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	100.0
PLN03025	319	replication factor C subunit; Provisional	100.0
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	100.0
PRK00440	319	rfc replication factor C small subunit; Reviewed	100.0
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12402	337	replication factor C small subunit 2; Reviewed	100.0
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	100.0
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	100.0
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	100.0
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	100.0
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	100.0
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	100.0
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	100.0
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	100.0
PHA02544	316	44 clamp loader, small subunit; Provisional	100.0
PRK04132	846	replication factor C small subunit; Provisional	100.0
COG2256	436	MGS1 ATPase related to the helicase subunit of the	100.0
PRK04195	482	replication factor C large subunit; Provisional	100.0
PRK05564	313	DNA polymerase III subunit delta'; Validated	100.0
PRK13342	413	recombination factor protein RarA; Reviewed	100.0
PRK13341	725	recombination factor protein RarA/unknown domain f	100.0
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.97
KOG2028	554	consensus ATPase related to the helicase subunit o	99.97
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.97
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.97
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.96
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.96
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.96
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.96
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.96
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.96
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.95
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.95
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.94
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.94
PRK05907	311	hypothetical protein; Provisional	99.94
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.94
PRK05917	290	DNA polymerase III subunit delta'; Validated	99.93
PRK05629	318	hypothetical protein; Validated	99.93
PRK07452	326	DNA polymerase III subunit delta; Validated	99.93
PRK07914	320	hypothetical protein; Reviewed	99.93
PRK07132	299	DNA polymerase III subunit delta'; Validated	99.92
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.92
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.92
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.92
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.92
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	99.91
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.91
PRK08487	328	DNA polymerase III subunit delta; Validated	99.91
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.9
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.9
PRK07276	290	DNA polymerase III subunit delta'; Validated	99.89
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	99.89
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	99.89
PRK08084	235	DNA replication initiation factor; Provisional	99.88
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.87
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.86
PRK08727	233	hypothetical protein; Validated	99.86
PRK06893	229	DNA replication initiation factor; Validated	99.86
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.85
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.84
PRK05818	261	DNA polymerase III subunit delta'; Validated	99.84
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.84
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.84
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.82
COG1466	334	HolA DNA polymerase III, delta subunit [DNA replic	99.82
PRK05642	234	DNA replication initiation factor; Validated	99.81
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.81
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.81
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.81
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	99.8
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.8
CHL00181	287	cbbX CbbX; Provisional	99.79
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.79
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.79
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.78
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.78
PRK09087	226	hypothetical protein; Validated	99.78
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.78
PRK12422	445	chromosomal replication initiation protein; Provis	99.78
PRK06620	214	hypothetical protein; Validated	99.77
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	99.77
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.77
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.76
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.76
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.76
PRK06581	263	DNA polymerase III subunit delta'; Validated	99.73
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.72
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.72
CHL00195	489	ycf46 Ycf46; Provisional	99.7
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.7
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.69
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.69
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.69
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.68
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.68
CHL00176	638	ftsH cell division protein; Validated	99.67
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.67
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.63
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.62
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.61
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.61
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.59
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.59
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.58
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.58
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.58
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.57
PRK10865	857	protein disaggregation chaperone; Provisional	99.57
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.57
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.56
CHL00095	821	clpC Clp protease ATP binding subunit	99.55
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.55
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.55
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.54
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.54
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.54
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.52
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.52
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.52
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.51
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.51
KOG1514	767	consensus Origin recognition complex, subunit 1, a	99.5
PF00004	132	AAA: ATPase family associated with various cellula	99.49
PRK08485	206	DNA polymerase III subunit delta'; Validated	99.49
CHL00095	821	clpC Clp protease ATP binding subunit	99.49
PRK14700	300	recombination factor protein RarA; Provisional	99.49
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.49
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.49
COG2204	464	AtoC Response regulator containing CheY-like recei	99.48
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	99.47
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.47
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.47
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.47
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.46
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.46
PRK10865	857	protein disaggregation chaperone; Provisional	99.46
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.46
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.46
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.46
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	99.45
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.45
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.45
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.45
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.44
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.44
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.44
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.44
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.44
CHL00206	2281	ycf2 Ycf2; Provisional	99.43
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.43
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.43
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.43
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.42
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.42
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.41
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.4
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.4
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.39
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.39
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.39
PRK13531	498	regulatory ATPase RavA; Provisional	99.38
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.38
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.37
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.37
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.36
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.35
PF06144	172	DNA_pol3_delta: DNA polymerase III, delta subunit;	99.35
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.33
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.33
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.32
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.31
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.29
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.27
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.25
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.25
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.25
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.25
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.23
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.21
PRK15115	444	response regulator GlrR; Provisional	99.19
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.18
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.18
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.17
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.17
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.15
PHA02244	383	ATPase-like protein	99.15
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.15
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.15
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.14
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.14
COG0714	329	MoxR-like ATPases [General function prediction onl	99.13
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.11
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.1
PRK13765	637	ATP-dependent protease Lon; Provisional	99.1
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.1
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.08
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.07
smart00350	509	MCM minichromosome maintenance proteins.	99.07
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.07
PRK12377	248	putative replication protein; Provisional	99.04
PF07726	131	AAA_3: ATPase family associated with various cellu	99.03
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	99.02
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.98
PF13173	128	AAA_14: AAA domain	98.97
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.97
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.97
PF08542	89	Rep_fac_C: Replication factor C C-terminal domain;	98.96
PRK06526	254	transposase; Provisional	98.96
PRK08181	269	transposase; Validated	98.96
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	98.95
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.95
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.94
PRK08116	268	hypothetical protein; Validated	98.92
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.92
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.92
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.89
PRK07952	244	DNA replication protein DnaC; Validated	98.89
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.88
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	98.85
PF05729	166	NACHT: NACHT domain	98.84
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.83
smart00382	148	AAA ATPases associated with a variety of cellular	98.81
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.78
PRK09183	259	transposase/IS protein; Provisional	98.77
PRK06835	329	DNA replication protein DnaC; Validated	98.76
PRK06921	266	hypothetical protein; Provisional	98.76
PRK04841	903	transcriptional regulator MalT; Provisional	98.75
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.75
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.71
PF14516	331	AAA_35: AAA-like domain	98.69
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.67
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.66
PRK04132	846	replication factor C small subunit; Provisional	98.65
PHA00729	226	NTP-binding motif containing protein	98.65
PRK09862	506	putative ATP-dependent protease; Provisional	98.64
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.64
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.63
PF12169	143	DNA_pol3_gamma3: DNA polymerase III subunits gamma	98.62
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.6
PRK08939	306	primosomal protein DnaI; Reviewed	98.58
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.58
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.58
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.56
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.54
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.54
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.52
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.5
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	98.48
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.46
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.44
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.43
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.41
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.41
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.38
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.38
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.29
PRK10536	262	hypothetical protein; Provisional	98.27
PHA02774	613	E1; Provisional	98.25
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.25
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.16
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.15
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.09
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.08
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.07
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.07
PRK04296	190	thymidine kinase; Provisional	98.03
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	98.03
PHA02624	647	large T antigen; Provisional	98.01
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.98
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.98
COG3899	849	Predicted ATPase [General function prediction only	97.97
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	97.93
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.87
COG4650	531	RtcR Sigma54-dependent transcription regulator con	97.81
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.81
PRK13695	174	putative NTPase; Provisional	97.81
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.8
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	97.79
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.77
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.76
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.76
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.74
PRK15455	644	PrkA family serine protein kinase; Provisional	97.73
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.72
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.69
KOG0479	818	consensus DNA replication licensing factor, MCM3 c	97.69
PTZ00202	550	tuzin; Provisional	97.66
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.66
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.66
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.65
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.64
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.61
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	97.6
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.6
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.59
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.56
PRK10875	615	recD exonuclease V subunit alpha; Provisional	97.54
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	97.53
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.52
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.51
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.51
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.5
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.5
PRK14974	336	cell division protein FtsY; Provisional	97.49
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.49
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.46
PRK14532	188	adenylate kinase; Provisional	97.45
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.45
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.45
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.42
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.42
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.41
PRK06067	234	flagellar accessory protein FlaH; Validated	97.4
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.4
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.39
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.39
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.39
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.38
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.37
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.37
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.37
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	97.34
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.34
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.34
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.34
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.34
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.32
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.32
cd01128	249	rho_factor Transcription termination factor rho is	97.3
COG1485	367	Predicted ATPase [General function prediction only	97.29
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.28
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	97.27
PRK06762	166	hypothetical protein; Provisional	97.27
cd03246	173	ABCC_Protease_Secretion This family represents the	97.27
PRK14528	186	adenylate kinase; Provisional	97.26
PRK13826	1102	Dtr system oriT relaxase; Provisional	97.26
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.26
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.25
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.25
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.25
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.25
PRK08118	167	topology modulation protein; Reviewed	97.24
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.22
PRK07261	171	topology modulation protein; Provisional	97.21
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.2
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.19
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.19
PF13479	213	AAA_24: AAA domain	97.19
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	97.17
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.16
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.16
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.16
PF13245	76	AAA_19: Part of AAA domain	97.15
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.15
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.15
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.15
PRK11823	446	DNA repair protein RadA; Provisional	97.15
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.14
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	97.14
COG4178	604	ABC-type uncharacterized transport system, permeas	97.13
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.13
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.13
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.13
PRK04328	249	hypothetical protein; Provisional	97.12
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.1
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.1
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	97.08
KOG3928	461	consensus Mitochondrial ribosome small subunit com	97.08
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.08
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.07
PRK14737	186	gmk guanylate kinase; Provisional	97.07
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.06
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	97.05
PRK09376	416	rho transcription termination factor Rho; Provisio	97.05
PRK09354	349	recA recombinase A; Provisional	97.03
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.03
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.02
PRK06696	223	uridine kinase; Validated	97.01
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	97.0
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.99
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.99
TIGR00767	415	rho transcription termination factor Rho. Members	96.98
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.97
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.96
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.96
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.96
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.95
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.95
PRK00131	175	aroK shikimate kinase; Reviewed	96.94
KOG2383	467	consensus Predicted ATPase [General function predi	96.94
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.94
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.94
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.93
COG3910	233	Predicted ATPase [General function prediction only	96.93
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.92
PRK12608	380	transcription termination factor Rho; Provisional	96.92
PRK10416	318	signal recognition particle-docking protein FtsY;	96.91
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	96.89
PRK14527	191	adenylate kinase; Provisional	96.89
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.89
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.87
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.87
CHL00195	489	ycf46 Ycf46; Provisional	96.87
PRK02496	184	adk adenylate kinase; Provisional	96.86
PRK00279	215	adk adenylate kinase; Reviewed	96.86
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	96.85
PF14840	125	DNA_pol3_delt_C: Processivity clamp loader gamma c	96.85
PRK06547	172	hypothetical protein; Provisional	96.84
PRK05973	237	replicative DNA helicase; Provisional	96.84
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.84
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.84
PRK13947	171	shikimate kinase; Provisional	96.84
PRK03839	180	putative kinase; Provisional	96.83
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.83
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	96.81
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.81
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.81
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.8
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.8
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.8
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.79
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.79
COG1100	219	GTPase SAR1 and related small G proteins [General	96.79
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.77
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.77
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.77
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.76
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.76
PHA02530	300	pseT polynucleotide kinase; Provisional	96.76
PRK13808	333	adenylate kinase; Provisional	96.75
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.74
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.74
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	96.73
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.72
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.72
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.72
PRK07667	193	uridine kinase; Provisional	96.71
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.7
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.69
PRK00625	173	shikimate kinase; Provisional	96.68
PRK13709	1747	conjugal transfer nickase/helicase TraI; Provision	96.67
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.67
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.67
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.66
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.64
PLN02674	244	adenylate kinase	96.64
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.63
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.63
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.62
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	96.6
PRK10867	433	signal recognition particle protein; Provisional	96.6
PRK14530	215	adenylate kinase; Provisional	96.6
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	96.6
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	96.59
PF13337	457	Lon_2: Putative ATP-dependent Lon protease	96.59
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.59
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.57
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.57
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.57
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.56
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.55
COG1855	604	ATPase (PilT family) [General function prediction	96.55
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.55
PRK05541	176	adenylylsulfate kinase; Provisional	96.55
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.55
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.55
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.55
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.54
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.53
PHA00350	399	putative assembly protein	96.53

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

Probab=100.00  E-value=1.7e-52  Score=342.06  Aligned_cols=319  Identities=37%  Similarity=0.627  Sum_probs=302.2

Q ss_pred             CCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ....+.||++||||..+.|+||+++.+..|.-..+.|..||++|.||||+||||.+.++|+++.+..+.-.++++|+++.
T Consensus        10 ~~~~~l~wVeKYrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASde   89 (333)
T KOG0991|consen   10 SDKYQLPWVEKYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDE   89 (333)
T ss_pred             cccccchHHHhhCchHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccc
Confidence            34457889999999999999999999999999999999999999999999999999999999998888888999999999


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEE
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i  195 (364)
                      +|++.++..|+.|++.... . +.+..++||+||+|.|+..+|.+|+++||-++..++|.++||...++.+++.|||-++
T Consensus        90 RGIDvVRn~IK~FAQ~kv~-l-p~grhKIiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN~s~KIiEPIQSRCAiL  167 (333)
T KOG0991|consen   90 RGIDVVRNKIKMFAQKKVT-L-PPGRHKIIILDEADSMTAGAQQALRRTMEIYSNTTRFALACNQSEKIIEPIQSRCAIL  167 (333)
T ss_pred             cccHHHHHHHHHHHHhhcc-C-CCCceeEEEeeccchhhhHHHHHHHHHHHHHcccchhhhhhcchhhhhhhHHhhhHhh
Confidence            9999999999999876543 2 2236899999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHH
Q 017884          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISY  275 (364)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~  275 (364)
                      +|..+++.++...+..+++.+++.++++.++.++.-+.||+|+++|.||......+.++.+.|.+++..+.+..+.+++.
T Consensus       168 Rysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDMRQalNnLQst~~g~g~Vn~enVfKv~d~PhP~~v~~ml~  247 (333)
T KOG0991|consen  168 RYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNLQSTVNGFGLVNQENVFKVCDEPHPLLVKKMLQ  247 (333)
T ss_pred             hhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccchHHHHHHHHHHHhccccccchhhhhhccCCCChHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999998889999999999999999999999999


Q ss_pred             HHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          276 WLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       276 ~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                      ++...++.++++.+..++ +.|++|.+|+..+|+...++.+++....+++..++-+-+++..|.+..++|..++++||..
T Consensus       248 ~~~~~~~~~A~~il~~lw-~lgysp~Dii~~~FRv~K~~~~~E~~rlE~ikeig~thmrI~eGv~s~LQl~glla~l~~~  326 (333)
T KOG0991|consen  248 ACLKRNIDEALKILAELW-KLGYSPEDIITTLFRVVKNMDVAESLRLEFIKEIGLTHMRILEGVNSLLQLSGLLAKLCKV  326 (333)
T ss_pred             HHHhccHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhHHhHHHhhHhHHHHHHHHHHHHHHh
Confidence            999999999999999999 9999999999999999999888888888999999999999999999999999999999976


Q ss_pred             HH
Q 017884          356 RS  357 (364)
Q Consensus       356 ~~  357 (364)
                      -.
T Consensus       327 ~~  328 (333)
T KOG0991|consen  327 GE  328 (333)
T ss_pred             cc
Confidence            43

>PLN03025 replication factor C subunit; Provisional

Probab=100.00  E-value=1.5e-50  Score=368.13  Aligned_cols=313  Identities=39%  Similarity=0.642  Sum_probs=289.5

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      .||++||||.+|++++||++++..|+.++..+..||++|+||||+|||++|+++++++.|.++...++++++++..+.+.
T Consensus         1 ~~w~~kyrP~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~   80 (319)
T PLN03025          1 LPWVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDV   80 (319)
T ss_pred             CChhhhcCCCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHH
Confidence            48999999999999999999999999999999999999999999999999999999998887777889999988888888


Q ss_pred             HHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCC
Q 017884          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL  200 (364)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~  200 (364)
                      +++.+..++..... +. .+++++++|||+|.|+...+++|+++++.++.+++||++||..+++.++|+|||..++|+++
T Consensus        81 vr~~i~~~~~~~~~-~~-~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l  158 (319)
T PLN03025         81 VRNKIKMFAQKKVT-LP-PGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRL  158 (319)
T ss_pred             HHHHHHHHHhcccc-CC-CCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCC
Confidence            88888877654321 11 12589999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHHhc
Q 017884          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE  280 (364)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~  280 (364)
                      +.+++..++..+++++|+.++++++++++..++||+|.+++.||......+.||.++|.++++...+..++.+++++..+
T Consensus       159 ~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~gDlR~aln~Lq~~~~~~~~i~~~~v~~~~~~~~~~~i~~~i~~~~~~  238 (319)
T PLN03025        159 SDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCLKG  238 (319)
T ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHcCCCCHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999765545689999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          281 SFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       281 ~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                      ++..++..+.+++ ..|+++..|+..+++.+....+++.....++..++++++++..|.++.+||++|+++++.++
T Consensus       239 ~~~~a~~~l~~ll-~~g~~~~~Il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~l~a~~~~~~~~~  313 (319)
T PLN03025        239 KFDDACDGLKQLY-DLGYSPTDIITTLFRVVKNYDMPEFLKLEYLREIGFAHMRICDGVGSLLQLSGLLAKLCLVR  313 (319)
T ss_pred             CHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999998 88999999999999999877788888899999999999999999999999999999999883

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

Probab=100.00  E-value=4.1e-49  Score=335.40  Aligned_cols=317  Identities=34%  Similarity=0.590  Sum_probs=287.8

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCC
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRG  117 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~  117 (364)
                      ....|.+||||++|++++||+.++..|++.+.....||++||||||||||+.|++++++++|+. .+..+++.|+++..|
T Consensus        22 ~~~swteKYrPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderG  101 (346)
T KOG0989|consen   22 KHRSWTEKYRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERG  101 (346)
T ss_pred             CccchHHHhCCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccc
Confidence            3445999999999999999999999999999998899999999999999999999999999944 566788899999999


Q ss_pred             hHHHHHHHHHHHhcCcccc----CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccce
Q 017884          118 IDVVRQQIQDFASTQSFSF----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (364)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~----~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  193 (364)
                      +..+++.+..|+......-    .....++|+|+||+|.|+.++|.+|+++||.++.+++||++||+.++++.++.|||+
T Consensus       102 isvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~  181 (346)
T KOG0989|consen  102 ISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQ  181 (346)
T ss_pred             ccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHH
Confidence            9999999888776543210    111246999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCc-hHHHHHhcCCCChHHHHH
Q 017884          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT-EEAVYLCTGNPLPKDIEQ  272 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~-~~~v~~~~~~~~~~~~~~  272 (364)
                      .+.|++++.+.+...|+.++.++|+.++++++..|+..++||+|+|+..||.+......|| ...++.+.+......+..
T Consensus       182 KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~GdLR~Ait~Lqsls~~gk~It~~~~~e~~~GvVp~~~l~~  261 (346)
T KOG0989|consen  182 KFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRRAITTLQSLSLLGKRITTSLVNEELAGVVPDEKLLD  261 (346)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCcHHHHHHHHHHhhccCcccchHHHHHHHhccCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999998788899 555566666888899999


Q ss_pred             HHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHH
Q 017884          273 ISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIIST  351 (364)
Q Consensus       273 l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~  351 (364)
                      +++....+|+....+.++++. +.|+++..++++|+..+... +.++.....+-..+.+.+.++..|.+.+++|-.|...
T Consensus       262 lle~a~S~d~~~~v~~~Rei~-~sg~~~~~lmsQLa~vi~~~~g~~d~~k~~~~~kl~~~~~~~~dg~~l~~~L~~L~~~  340 (346)
T KOG0989|consen  262 LLELALSADTPNTVKRVREIM-RSGYSPLQLMSQLAEVIMDIIGLSDEQKAQISLKLFTRDKRLEDGEDLELALKDLLEA  340 (346)
T ss_pred             HHHHHHccChHHHHHHHHHHH-HhccCHHHHHHHHHHHHHhccccchHHHHHHHHHHHhccchhhcchhHHHHHHHHHHH
Confidence            999999999999999999999 99999999999999999876 7788889999999999999999999999999999888


Q ss_pred             HHHHH
Q 017884          352 FTQAR  356 (364)
Q Consensus       352 l~~~~  356 (364)
                      +.+++
T Consensus       341 ~~ql~  345 (346)
T KOG0989|consen  341 EKQLR  345 (346)
T ss_pred             HHHHh
Confidence            87654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=100.00  E-value=4.3e-45  Score=334.31  Aligned_cols=314  Identities=41%  Similarity=0.761  Sum_probs=288.4

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      ++.||+++|||.+|++++|++.++..+..++..+..|+++|+||+|+|||++++++++.+.+.++...+++++.+...+.
T Consensus         3 ~~~~w~~kyrP~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~   82 (319)
T PRK00440          3 MEEIWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGI   82 (319)
T ss_pred             ccCccchhhCCCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccch
Confidence            57899999999999999999999999999999998889999999999999999999999988877777888887766666


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEec
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  198 (364)
                      +.+.+.+..+....++ +..  ++++|+|||++.+....++.|+++++.++.++.+|++++...++.+++++||.+++|+
T Consensus        83 ~~~~~~i~~~~~~~~~-~~~--~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~  159 (319)
T PRK00440         83 DVIRNKIKEFARTAPV-GGA--PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFS  159 (319)
T ss_pred             HHHHHHHHHHHhcCCC-CCC--CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeC
Confidence            6677777777766554 222  4789999999999999999999999999999999999998899999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHH
Q 017884          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (364)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~  278 (364)
                      +++.+++..++..++.++|+.+++++++.++..++||+|.+++.++.+....+.||.++|.++++...+.+++++++++.
T Consensus       160 ~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~~~~it~~~v~~~~~~~~~~~i~~l~~~~~  239 (319)
T PRK00440        160 PLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELAL  239 (319)
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999888777899999999999999999999999999


Q ss_pred             hccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          279 NESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       279 ~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                      .++...++..+.+++...|.++.+++..+...+...++++..+.++++.+.++|+++++|.++.++||.|++++|..
T Consensus       240 ~~~~~~a~~~l~~ll~~~g~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~d~~~k~g~~~~~~le~~i~~~~~~  316 (319)
T PRK00440        240 NGDFTEAREKLRDLMIDYGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGANERIQLEALLAKLALL  316 (319)
T ss_pred             cCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999866899999999999877655689999999999999999999999999999999999999875

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3.5e-44  Score=337.39  Aligned_cols=313  Identities=20%  Similarity=0.340  Sum_probs=280.4

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC---------------
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ---------------  102 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~---------------  102 (364)
                      ...+|.++|||.+|++++||+.++..|.+++..++.+| +|||||+|+|||++|+.+++.+.|..               
T Consensus         3 ~~~~~~~kyRP~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~   82 (451)
T PRK06305          3 SYQVSSRKYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCK   82 (451)
T ss_pred             chHHHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHH
Confidence            35789999999999999999999999999999999988 79999999999999999999998852               


Q ss_pred             -----CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEE
Q 017884          103 -----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI  177 (364)
Q Consensus       103 -----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~  177 (364)
                           .+.+++++++....+.+.+++..+... ..+. +   ++++||||||+|.|+...++.|++++++++.++.+|++
T Consensus        83 ~i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~-~~~~-~---~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~  157 (451)
T PRK06305         83 EISSGTSLDVLEIDGASHRGIEDIRQINETVL-FTPS-K---SRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLA  157 (451)
T ss_pred             HHhcCCCCceEEeeccccCCHHHHHHHHHHHH-hhhh-c---CCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEE
Confidence                 234577777766667777776544332 2111 2   25899999999999999999999999999999999999


Q ss_pred             eeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchH
Q 017884          178 CNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEE  256 (364)
Q Consensus       178 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~  256 (364)
                      ++...++.++|++||..++|.+++.+++..|+..+++++|+.+++++++.|+..++||+|.++++++++..+ .+.|+.+
T Consensus       158 t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~Lekl~~~~~~~It~~  237 (451)
T PRK06305        158 TTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFPKSLDPD  237 (451)
T ss_pred             eCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999988765 3569999


Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc--------------CCChHHHH
Q 017884          257 AVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI--------------KMPSDVRV  322 (364)
Q Consensus       257 ~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~--------------~~~~~~~~  322 (364)
                      +|.++++....+++|++++++..++..+++.++.++. ..|.++..++..+.+++|.+              .++.+.+.
T Consensus       238 ~V~~l~~~~~~~~vf~L~~ai~~~d~~~al~~l~~L~-~~g~~~~~iL~~L~~~fR~ll~vk~~~~~~~~a~~~s~~~L~  316 (451)
T PRK06305        238 SVAKALGLLSQDSLYTLDEAITTQNYAQALEPVTDAM-NSGVAPAHFLHDLTLFFRNILLKQYNKQLSSVATKYSSEQLL  316 (451)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCcCHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhCCHHHHH
Confidence            9999999999999999999999999999999999998 88999999999888887764              57888999


Q ss_pred             HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 017884          323 RLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARS  357 (364)
Q Consensus       323 ~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~~  357 (364)
                      ++++.+.++++++++|.++++.+|.++.+++.++.
T Consensus       317 ~ii~~l~e~d~~lk~~~~~k~~lE~lll~l~~~~~  351 (451)
T PRK06305        317 EIIDFLGESAKHIQLTIFEKTFLETVIIHLIRIYQ  351 (451)
T ss_pred             HHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999997654

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.8e-44  Score=332.39  Aligned_cols=311  Identities=19%  Similarity=0.308  Sum_probs=268.6

Q ss_pred             CCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC--------------
Q 017884           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ--------------  102 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~--------------  102 (364)
                      .+..||++||||.+|++++||++++..|..++..++.+| ++|+||+|+|||++|+.+++.+.|..              
T Consensus         3 ~~~~~L~~KyRP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~   82 (484)
T PRK14956          3 GTHEVLSRKYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCL   82 (484)
T ss_pred             CCcchhHHHhCCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHH
Confidence            346799999999999999999999999999999999998 79999999999999999999998853              


Q ss_pred             -----CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEE
Q 017884          103 -----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI  177 (364)
Q Consensus       103 -----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~  177 (364)
                           ...+++++++....+.+.+++.+...... +.  .  ++++|+||||+|.|+..++++|++.||+++.+++||++
T Consensus        83 ~i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~-p~--~--g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILa  157 (484)
T PRK14956         83 EITKGISSDVLEIDAASNRGIENIRELRDNVKFA-PM--G--GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILA  157 (484)
T ss_pred             HHHccCCccceeechhhcccHHHHHHHHHHHHhh-hh--c--CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEee
Confidence                 23457788887777888888766554322 21  1  25899999999999999999999999999999999999


Q ss_pred             eeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchH
Q 017884          178 CNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEE  256 (364)
Q Consensus       178 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~  256 (364)
                      |+.++++.++|+|||+.+.|.+++.+++.+++..++.++|+.++++++..|++.++|++|.|++.|+.+... .+.||.+
T Consensus       158 Tte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~~~~it~~  237 (484)
T PRK14956        158 TTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFTDSKLTGV  237 (484)
T ss_pred             cCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChHHHHHHHHHHHHHhCCCCcCHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999876543 4589999


Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhccH-HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc---------------------
Q 017884          257 AVYLCTGNPLPKDIEQISYWLLNESF-ADSFKRISEMKMRKGLALVDIVREVTMFVFKI---------------------  314 (364)
Q Consensus       257 ~v~~~~~~~~~~~~~~l~~~l~~~~~-~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~---------------------  314 (364)
                      .|.++++......++++++++.+++. .+++.++.+++ ..|.++..++..+..++|++                     
T Consensus       238 ~V~~~lg~~~~~~~~~l~~si~~~d~~~~al~~l~~l~-~~G~d~~~~~~~l~~~~r~l~~~~~~~~~~~~~~~~~~~~~  316 (484)
T PRK14956        238 KIRKMIGYHGIEFLTSFIKSLIDPDNHSKSLEILESLY-QEGQDIYKFLWDSIEFTHTLNLIRDSLADRESVNFPKEDLQ  316 (484)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhcccchhhccCCHHHHH
Confidence            99999999999999999999999875 68999999999 99999999999999999876                     


Q ss_pred             -------CCChHHHHHHHHHH----HHH-HHHHhcCCChHHHHHHHHHHHHH
Q 017884          315 -------KMPSDVRVRLMNDL----ADI-EYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       315 -------~~~~~~~~~i~~~l----~~~-~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                             .++...+.+++..+    ..+ +.+++...++++.+|-.+.++|.
T Consensus       317 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~s~~~r~~~E~~~~~l~~  368 (484)
T PRK14956        317 KMKSDFENVDSSKLNFLSGKLFEIYEKIKTIRLRNSFEIKVFTEIQIKKLVE  368 (484)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhhhccCCCchHHHHHHHHHHhc
Confidence                   22333344443333    222 45667788999999999999873

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.9e-44  Score=335.98  Aligned_cols=308  Identities=26%  Similarity=0.380  Sum_probs=277.2

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------  102 (364)
                      .+|.+||||.+|++++||+++++.|...+..++.+| +|||||+|+|||++|+++++.+.|..                 
T Consensus         2 ~~l~~KyRP~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~   81 (535)
T PRK08451          2 QALALKYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSAL   81 (535)
T ss_pred             ccHHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHh
Confidence            479999999999999999999999999999999999 69999999999999999999998753                 


Q ss_pred             --CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                        .+..++++++....+++.+++.+..... .|+ ++   +++|+||||+|.|+.+++++|+++||+||.+++||++++.
T Consensus        82 ~~~h~dv~eldaas~~gId~IRelie~~~~-~P~-~~---~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd  156 (535)
T PRK08451         82 ENRHIDIIEMDAASNRGIDDIRELIEQTKY-KPS-MA---RFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTD  156 (535)
T ss_pred             hcCCCeEEEeccccccCHHHHHHHHHHHhh-Ccc-cC---CeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECC
Confidence              3456788887776788999888765432 232 33   5899999999999999999999999999999999999999


Q ss_pred             cccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHH
Q 017884          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (364)
Q Consensus       181 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~  259 (364)
                      +.++.++++|||..++|.+++.+++..|+..++.++|+.++++++..|++.++||+|.+++.++++..+. +.||.++|.
T Consensus       157 ~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~~~~It~~~V~  236 (535)
T PRK08451        157 PLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYCKNAITESKVA  236 (535)
T ss_pred             hhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998877765 589999999


Q ss_pred             HhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------CCChHHHHHHHHHHHHHHH
Q 017884          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------KMPSDVRVRLMNDLADIEY  333 (364)
Q Consensus       260 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------~~~~~~~~~i~~~l~~~~~  333 (364)
                      .+++......++.+++++..++...++.++.++.   |.++.+++..+..+++..      .++...+.+++..+.+.+.
T Consensus       237 ~~lg~~~~~~I~~li~ai~~~d~~~a~~~l~~L~---g~~~~~~l~~l~~~l~~~~~~~~~~~~l~~l~r~~riL~~~k~  313 (535)
T PRK08451        237 DMLGLLDPSKLEDFFQAILNQDKEKLFELLKELE---DYEAEMVLDEMMLFLKEKFLSKDSEFSILLYERFFRILSSAKS  313 (535)
T ss_pred             HHhCCCCHHHHHHHHHHHHhcCHHHHHHHHHHHH---CCCHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998874   688999999999998843      2344557788999999999


Q ss_pred             HHhcCCChHHHHHHHHHHHHHHH
Q 017884          334 RLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       334 ~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                      .+..|.+++++++.++.+++.+.
T Consensus       314 ~l~~g~~~~i~l~~~~~~~~~~~  336 (535)
T PRK08451        314 LLKEGADDGFVLLLMLFKMKEAL  336 (535)
T ss_pred             HHHhCCCcHHHHHHHHHHHHHhc
Confidence            99999999999999999999754

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=9.9e-44  Score=335.37  Aligned_cols=315  Identities=20%  Similarity=0.289  Sum_probs=281.4

Q ss_pred             CCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------
Q 017884           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------  102 (364)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------  102 (364)
                      +-+..||.++|||.+|++++||+.++..|...+..++.+| ++|+||+|+|||++|+.+++.++|..             
T Consensus         5 ~~~y~~la~kyRP~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~   84 (507)
T PRK06645          5 SNQYIPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQ   84 (507)
T ss_pred             cccccchhhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCC
Confidence            4557899999999999999999999999999999998887 89999999999999999999998853             


Q ss_pred             ----------CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCc
Q 017884          103 ----------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT  172 (364)
Q Consensus       103 ----------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~  172 (364)
                                .+.+++++++....+++.+++.+... ...|+ ++   +++|+||||+|.++...++.|++++++++.++
T Consensus        85 C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a-~~~P~-~~---~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~  159 (507)
T PRK06645         85 CTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESA-EYKPL-QG---KHKIFIIDEVHMLSKGAFNALLKTLEEPPPHI  159 (507)
T ss_pred             ChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHH-Hhccc-cC---CcEEEEEEChhhcCHHHHHHHHHHHhhcCCCE
Confidence                      23568888887778899999877654 44454 44   58999999999999999999999999999999


Q ss_pred             cEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-
Q 017884          173 RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-  251 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~-  251 (364)
                      +||++++..+++.+++++||..++|.+++.+++..|+..+++++|+.+++++++.|++.++|++|.++++++++..+.+ 
T Consensus       160 vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~  239 (507)
T PRK06645        160 IFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAK  239 (507)
T ss_pred             EEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999998866543 


Q ss_pred             ---cCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc--------------
Q 017884          252 ---QITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI--------------  314 (364)
Q Consensus       252 ---~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~--------------  314 (364)
                         .||.++|.++++.....++|++++++..++...++..++++. ..|.++..++..+..+++.+              
T Consensus       240 ~~~~It~~~V~~llg~~~~~~if~L~~ai~~~d~~~Al~~l~~L~-~~g~~~~~~l~~l~~~~~~l~~~k~~~~~~~~~~  318 (507)
T PRK06645        240 SDNIISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLY-GSSVNLEIFIESVSDFIAYLNKVKMLPNYSLPIY  318 (507)
T ss_pred             CCCCcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence               799999999999999999999999999999999999999999 99999999988776666533              


Q ss_pred             ------------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 017884          315 ------------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARS  357 (364)
Q Consensus       315 ------------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~~  357 (364)
                                  .++...+..+++.+.+....++...++++.+|-.+.+++-+..
T Consensus       319 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~l~r~~~~~~  373 (507)
T PRK06645        319 ESFNDRTKSILDKISLPHLSILWQIYNKGVGEIKISYNQLTETEMLVIKSIYSTS  373 (507)
T ss_pred             hhHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhcc
Confidence                        2344566788888999999999999999999999999986543

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-43  Score=340.03  Aligned_cols=307  Identities=20%  Similarity=0.276  Sum_probs=272.4

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC------------------
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~------------------  102 (364)
                      .|.+||||.+|++++||+++++.|++++..++.+| +||+||+|+|||++|+.+++.++|..                  
T Consensus         2 al~~kyRP~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~   81 (584)
T PRK14952          2 ALYRKYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAP   81 (584)
T ss_pred             cHHHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhc
Confidence            37799999999999999999999999999999999 79999999999999999999999752                  


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         .+.+++++++....+++.+++.+... ...++ ++   .++|+||||+|.|+..++++|+++||+++.++.||++|+
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~-~~~P~-~~---~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tt  156 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRA-FYAPA-QS---RYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATT  156 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHH-Hhhhh-cC---CceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence               23567888887777889988765544 33343 33   589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--ccCchHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEA  257 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~--~~i~~~~  257 (364)
                      .++++.++|+|||++++|.+++.+++.+|+..+++++|+.++++++..++..++|++|.++++|+++..+.  +.||.++
T Consensus       157 e~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~It~~~  236 (584)
T PRK14952        157 EPEKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQR  236 (584)
T ss_pred             ChHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCcCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999988764  5899999


Q ss_pred             HHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-----------------------
Q 017884          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-----------------------  314 (364)
Q Consensus       258 v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-----------------------  314 (364)
                      +..+++......++++++++..++...++..+.++. ..|.++..++..|.+++|++                       
T Consensus       237 v~~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~-~~g~d~~~~l~~L~~~~RdLll~k~~~~~~~~~l~~~~~~~~~  315 (584)
T PRK14952        237 ALGLLGATDVALIDDAVDALAADDAAALFGAIESVI-DAGHDPRRFATDLLERFRDLIVLQAVPDAAARGVVDAPEDVLE  315 (584)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhcchhhhcccccCCHHHHH
Confidence            999999999999999999999999999999999998 89999999999998888765                       


Q ss_pred             -------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          315 -------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       315 -------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                             +++...+.++++.+.+....++.+.++++.||.++.++|.
T Consensus       316 ~l~~qa~~~s~~~L~~~i~~l~~~~~~~~~~~~~rl~LE~llikl~~  362 (584)
T PRK14952        316 RMREQAARIGLATLTRYAEVVQAGLGEMRGATAPRLLLEVVCARLLL  362 (584)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHhc
Confidence                   1344556677775555555566667999999999999984

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-43  Score=344.43  Aligned_cols=313  Identities=22%  Similarity=0.320  Sum_probs=283.8

Q ss_pred             CCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC--------------
Q 017884           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ--------------  102 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~--------------  102 (364)
                      ++..+|++||||.+|++++||+++++.|..++..++.+| +|||||+|+|||++|+.+++.+.|..              
T Consensus         2 ~~~~~~~~kyRP~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC   81 (614)
T PRK14971          2 ENYIVSARKYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESC   81 (614)
T ss_pred             chhHHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHH
Confidence            456789999999999999999999999999999999999 89999999999999999999998742              


Q ss_pred             ------CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEE
Q 017884          103 ------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFAL  176 (364)
Q Consensus       103 ------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il  176 (364)
                            .+.++.++++....+.+.+++.+... ...|+ ++   +++|+||||+|.|+...+++|+++||+|+.+++||+
T Consensus        82 ~~~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~-~~~P~-~~---~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL  156 (614)
T PRK14971         82 VAFNEQRSYNIHELDAASNNSVDDIRNLIEQV-RIPPQ-IG---KYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFIL  156 (614)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHH-hhCcc-cC---CcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEE
Confidence                  24567788887666788888877654 44444 44   599999999999999999999999999999999999


Q ss_pred             EeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCch
Q 017884          177 ICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITE  255 (364)
Q Consensus       177 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~  255 (364)
                      +++..+++.++|+|||.+++|.+++.+++..|+..++.++|+.+++++++.|+..++||+|.++++++++..+. +.|+.
T Consensus       157 ~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~It~  236 (614)
T PRK14971        157 ATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGNITY  236 (614)
T ss_pred             EeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCccH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999987665 36999


Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc---------------------
Q 017884          256 EAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI---------------------  314 (364)
Q Consensus       256 ~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~---------------------  314 (364)
                      ++|.+.+.....+++|++++++..++...++..+++++ ..|+++..++..|.+++|.+                     
T Consensus       237 ~~V~~~l~~~~~~~iF~L~dai~~~~~~~al~ll~~Ll-~~g~~~~~iL~~L~~~fRdlL~~K~~~~~~ll~v~~~~~~~  315 (614)
T PRK14971        237 KSVIENLNILDYDYYFRLTDALLAGKVSDSLLLFDEIL-NKGFDGSHFITGLASHFRDLLVCKDAATLQLLEVGESIRQR  315 (614)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHhhcccccccccCCHHHHHH
Confidence            99999999999999999999999999999999999999 89999999999998888765                     


Q ss_pred             ------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          315 ------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       315 ------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                            +++...+..+++.+.++|+.++++.|.++.+|.++.++|...
T Consensus       316 ~~~qa~~~s~~~L~~~l~~l~e~d~~lK~~~n~~l~lE~lllkL~~~~  363 (614)
T PRK14971        316 YLEQAQKCPMSFLYRALKLCNQCDLNYRASKNKRLLVELTLIQLAQLT  363 (614)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHhccC
Confidence                  455667889999999999999999999999999999999764

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.8e-43  Score=340.34  Aligned_cols=315  Identities=22%  Similarity=0.318  Sum_probs=283.6

Q ss_pred             CCCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC----------
Q 017884           35 PPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------  103 (364)
Q Consensus        35 ~~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~----------  103 (364)
                      .......+|.+||||.+|++++||+.+++.|.+++..++.+| +||+||+|+|||++|+.+++.++|...          
T Consensus         6 ~~~~~y~~la~KyRP~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~   85 (598)
T PRK09111          6 AAATPYRVLARKYRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDL   85 (598)
T ss_pred             CCCccchhHHhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCcccc
Confidence            344456889999999999999999999999999999999998 899999999999999999999988532          


Q ss_pred             --------------CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc
Q 017884          104 --------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT  169 (364)
Q Consensus       104 --------------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~  169 (364)
                                    +.+++++++....+++.+++.+.. +...++ ++   +++||||||+|.|+...++.|+++||+|+
T Consensus        86 cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~-~~~~P~-~a---~~KVvIIDEad~Ls~~a~naLLKtLEePp  160 (598)
T PRK09111         86 CGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIES-VRYRPV-SA---RYKVYIIDEVHMLSTAAFNALLKTLEEPP  160 (598)
T ss_pred             CcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHH-HHhchh-cC---CcEEEEEEChHhCCHHHHHHHHHHHHhCC
Confidence                          245777877777789999986654 455554 44   48999999999999999999999999999


Q ss_pred             cCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          170 KNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       170 ~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                      .+++|||+++..+++.++++|||+.++|.+++.+++..|+.++++++|+.+++++++.|+..++|++|.++++++++..+
T Consensus       161 ~~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~  240 (598)
T PRK09111        161 PHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAH  240 (598)
T ss_pred             CCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999887654


Q ss_pred             c-ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc--------------
Q 017884          250 S-QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI--------------  314 (364)
Q Consensus       250 ~-~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~--------------  314 (364)
                      . +.||.++|..+++......++++++++..++...++..+.++. ..|.++..++..+.++++.+              
T Consensus       241 g~g~It~e~V~~llg~~~~~~if~L~~ai~~gd~~~Al~~l~~l~-~~G~~p~~il~~L~~~~r~L~~vK~~~~~a~~~~  319 (598)
T PRK09111        241 GAGEVTAEAVRDMLGLADRARVIDLFEALMRGDVAAALAEFRAQY-DAGADPVVVLTDLAEFTHLVTRLKIVPDAAEDPS  319 (598)
T ss_pred             cCCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhccchhhccc
Confidence            3 5899999999999999999999999999999999999999988 89999999999988777743              


Q ss_pred             --------------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 --------------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 --------------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                                    +++...+.++++.+.+.++.++++.|+.+.+|.++.++|.+
T Consensus       320 ~~p~~~~kl~~~A~~~s~~~L~r~~q~Ll~~~~~vK~~~n~~lalE~lLlrl~~~  374 (598)
T PRK09111        320 LSEAERTRGAEFAKKLSMRVLSRLWQMLLKGIEEVQGAPRPLAAAEMVLIRLAYA  374 (598)
T ss_pred             CCHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHhh
Confidence                          44566789999999999999999999999999999999854

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.4e-43  Score=336.76  Aligned_cols=310  Identities=18%  Similarity=0.282  Sum_probs=274.4

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+|++||||.+|++++||+++++.|.+++..++.+| +||+||+|+|||++|+.+++.++|..                
T Consensus         3 y~~l~~kyRP~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i   82 (509)
T PRK14958          3 HQVLARKWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREI   82 (509)
T ss_pred             chhHHHHHCCCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHH
Confidence            4689999999999999999999999999999999999 79999999999999999999998853                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...+++++++....+++.+++.+...... +.    .++++|+||||+|.|+...+++|+++||+||.+++||++|+
T Consensus        83 ~~g~~~d~~eidaas~~~v~~iR~l~~~~~~~-p~----~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlatt  157 (509)
T PRK14958         83 DEGRFPDLFEVDAASRTKVEDTRELLDNIPYA-PT----KGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATT  157 (509)
T ss_pred             hcCCCceEEEEcccccCCHHHHHHHHHHHhhc-cc----cCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEEC
Confidence               23468889988778899999877664432 21    22589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v  258 (364)
                      .+.++.++++|||..++|.+++.+++..++..+++++|+.++++++..|++.++|++|.++++++++..+ .+.||.++|
T Consensus       158 d~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~GslR~al~lLdq~ia~~~~~It~~~V  237 (509)
T PRK14958        158 DHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAYGNGKVLIADV  237 (509)
T ss_pred             ChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhcCCCCcCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999877665 368999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-----------------------C
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-----------------------K  315 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-----------------------~  315 (364)
                      ..+++......++.+++++..++...++..++++. ..|.++..++..+...++++                       .
T Consensus       238 ~~~lg~~~~~~i~~ll~al~~~d~~~~l~~~~~l~-~~g~~~~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (509)
T PRK14958        238 KTMLGTIEPLLLFDILEALAAKAGDRLLGCVTRLV-EQGVDFSNALADLLSLLHQIAIIQTVPEALIENDSEQLRQLAKL  316 (509)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhCccccccchHHHHHHHHHh
Confidence            99999999999999999999999999999999998 99999988888887777654                       2


Q ss_pred             CChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          316 MPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       316 ~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                      ++.+.+..++..+......++...++++.+|-.+.+++..
T Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  356 (509)
T PRK14958        317 LDREDVQLFYQIGLIGQRDLAYSPTPQTGFEMTLLRMLAF  356 (509)
T ss_pred             CCHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHhc
Confidence            3333444556666667778888889999999999998854

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.4e-43  Score=329.96  Aligned_cols=305  Identities=21%  Similarity=0.301  Sum_probs=273.7

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------------
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------  102 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------------  102 (364)
                      |.+||||.+|+|++||+.+++.|.+.+..++.+| ++|+||+|+|||++|+.+++.++|..                   
T Consensus         3 la~KyRP~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~   82 (491)
T PRK14964          3 LALKYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNS   82 (491)
T ss_pred             hhHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhcc
Confidence            7899999999999999999999999999999997 99999999999999999999998742                   


Q ss_pred             CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      .+.+++++++++..+++.+++.+... ...|+ ++   +++|+||||+|.|+..++++|+++||+|++++.||++++..+
T Consensus        83 ~~~Dv~eidaas~~~vddIR~Iie~~-~~~P~-~~---~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~  157 (491)
T PRK14964         83 NHPDVIEIDAASNTSVDDIKVILENS-CYLPI-SS---KFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVK  157 (491)
T ss_pred             CCCCEEEEecccCCCHHHHHHHHHHH-Hhccc-cC---CceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChH
Confidence            35678999998888999999877664 44454 33   599999999999999999999999999999999999999999


Q ss_pred             cCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHHHh
Q 017884          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLC  261 (364)
Q Consensus       183 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~~~  261 (364)
                      ++.++++|||+.+.|.+++.+++.+|+..+++++|+.+++++++.|++.++|++|.++++++++..+. +.||.++|.++
T Consensus       158 Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~~~It~e~V~~l  237 (491)
T PRK14964        158 KIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSNNKISEKSVRDL  237 (491)
T ss_pred             HHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999887764 58999999999


Q ss_pred             cCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-------------------------CC
Q 017884          262 TGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-------------------------KM  316 (364)
Q Consensus       262 ~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-------------------------~~  316 (364)
                      ++......++++++++.+++...++..+.++. ..| ++..++..+..+++.+                         .+
T Consensus       238 lg~~~~~~If~L~~aI~~~d~~~Al~~l~~Ll-~~g-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  315 (491)
T PRK14964        238 LGCVDKHILEDLVEAILLGDAQSALNVFRELC-NTS-NPVIILEGMLQIIYEICYFSITKEIDFLLGEDLITRIKSLKIG  315 (491)
T ss_pred             HccCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-hcC-CHHHHHHHHHHHHHHHHHHhcCccccccCCHHHHHHHHHHhCC
Confidence            99999999999999999999999999999998 555 5777887776665543                         13


Q ss_pred             ChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          317 PSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       317 ~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                      +...+.++++.+.+....++...++++.+|-.+.++|.
T Consensus       316 ~~~~l~~~~~~l~~~~~~~~~~~~~~~~~e~~~~rl~~  353 (491)
T PRK14964        316 STIFLSRLWQMLLKGIQEVKSSTCVKQAAEMMIIRLCY  353 (491)
T ss_pred             CHHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHh
Confidence            44566778888899999999999999999999999884

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3.4e-43  Score=335.95  Aligned_cols=310  Identities=19%  Similarity=0.278  Sum_probs=274.7

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ...|.+||||++|++++||+++++.|++++..++.+| +||+||+|+|||++++.+++.++|..                
T Consensus         3 Y~vLarKYRPqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I   82 (830)
T PRK07003          3 YQVLARKWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREI   82 (830)
T ss_pred             cHhHHHHhCCCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHH
Confidence            4679999999999999999999999999999999999 69999999999999999999998852                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...++++++..+..+++.+++.+...... +.    .++++|+||||+|.|+...++.|+++||+++.+++|||+|+
T Consensus        83 ~~G~h~DviEIDAas~rgVDdIReLIe~a~~~-P~----~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTt  157 (830)
T PRK07003         83 DEGRFVDYVEMDAASNRGVDEMAALLERAVYA-PV----DARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATT  157 (830)
T ss_pred             hcCCCceEEEecccccccHHHHHHHHHHHHhc-cc----cCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEEC
Confidence               12368888888778888888877765422 21    12589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v  258 (364)
                      +..++.++|+|||+.+.|.+++.+++.++|.+++.++++.++++++..|++.++|++|.++++++....+ .+.|+.+.|
T Consensus       158 d~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdALsLLdQAia~~~~~It~~~V  237 (830)
T PRK07003        158 DPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYSANEVTETAV  237 (830)
T ss_pred             ChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998665544 468999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......++.+++++..++...++..+.++. ..|.+...++..|..+++++                        
T Consensus       238 ~~~LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~-~~g~~~~~~l~dLl~~l~~~~~~q~~~~~~~~~~~e~~~~~~~a  316 (830)
T PRK07003        238 SGMLGALDQTYMVRLLDALAAGDGPEILAVADEMA-LRSLSFSTALQDLASLLHRIAWAQFAPASVLDEWPEAADLRRFA  316 (830)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhCccccccccchHHHHHHHH
Confidence            99999999999999999999999999999999998 88888777777776666644                        


Q ss_pred             -CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 -KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 -~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                       .++.+.+..+++.+......++...++++.+|-.+.+++..
T Consensus       317 ~~~s~~~l~~~~qi~l~g~~el~~ap~~~~~~Em~llr~l~~  358 (830)
T PRK07003        317 ELLSPEQVQLFYQIATVGRGELGLAPDEYAGFTMTLLRMLAF  358 (830)
T ss_pred             HhCCHHHHHHHHHHHHhHHHHhhcCCCHHHHHHHHHHHHhcC
Confidence             45666677888888888999999999999999999888754

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.2e-43  Score=341.54  Aligned_cols=310  Identities=20%  Similarity=0.320  Sum_probs=280.6

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC---------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~---------------  103 (364)
                      ...|++||||.+|++++||+++++.|.+++..++.+| +|||||+|+|||++|+.+++.++|...               
T Consensus         3 y~~l~~k~RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i   82 (576)
T PRK14965          3 YLVLARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEI   82 (576)
T ss_pred             cHHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHH
Confidence            3568999999999999999999999999999999999 699999999999999999999988532               


Q ss_pred             ----CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                          +.+++++++....+++.+++.+... ...|+ ++   +++|+||||+|.|+...+++|+++||+|+++++|||+|+
T Consensus        83 ~~g~~~d~~eid~~s~~~v~~ir~l~~~~-~~~p~-~~---~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~  157 (576)
T PRK14965         83 TEGRSVDVFEIDGASNTGVDDIRELRENV-KYLPS-RS---RYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATT  157 (576)
T ss_pred             hcCCCCCeeeeeccCccCHHHHHHHHHHH-Hhccc-cC---CceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeC
Confidence                4567888887777888888866554 33343 33   589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      .++++.++|+|||..++|.+++.+++..++..+++++|+.++++++..|+..++||+|.++++++++..+. +.|+.++|
T Consensus       158 ~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~Ldqliay~g~~It~edV  237 (576)
T PRK14965        158 EPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDAVGDDDV  237 (576)
T ss_pred             ChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999887765 57999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......++.+++++..++...++.++.++. ..|.++..++..+.+++|++                        
T Consensus       238 ~~llG~~~~~~l~~ll~al~~~d~~~al~~l~~l~-~~G~~~~~~l~~Ll~~~RdLl~~k~~~~~~~~l~~~~~~~~~~~  316 (576)
T PRK14965        238 AELLGVVDRRLLLDISAAVFGRDTRALLEIVERVD-EFGYNMRQFCQELIDHLRNLVVLRAVGEPGDLLDLSEAELAELR  316 (576)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhcCchhhhccCCHHHHHHHH
Confidence            99999999999999999999999999999999988 89999999999988888765                        


Q ss_pred             ----CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 ----KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 ----~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                          .++...+..+++.+.+.++.++.+.++++.+|.++.++|..
T Consensus       317 ~~A~~~s~~~L~~~l~~l~~~~~~lk~~~~~~l~lE~lllkl~~~  361 (576)
T PRK14965        317 AQAAAADAADLQRHLTLLLRAEGEMAHASFPRLVLEMALLKMATL  361 (576)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHhhc
Confidence                34556678889999999999999999999999999999873

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3.2e-43  Score=328.10  Aligned_cols=310  Identities=20%  Similarity=0.294  Sum_probs=278.3

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------  102 (364)
                      ..++++|||.+|++++||+.+++.|++++.+++.+| ++|+||+|+|||++|+++++.+.|..                 
T Consensus         4 ~~l~~k~RP~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~   83 (397)
T PRK14955          4 QVIARKYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGE   83 (397)
T ss_pred             HHHHHhcCCCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCC
Confidence            457899999999999999999999999999999999 89999999999999999999998842                 


Q ss_pred             ----------CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCc
Q 017884          103 ----------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT  172 (364)
Q Consensus       103 ----------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~  172 (364)
                                .+.++.++++....+.+.+++...... ..|+ ++   +++++||||+|.++...++.|+++++++++.+
T Consensus        84 c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~-~~p~-~~---~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t  158 (397)
T PRK14955         84 CESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVR-YGPQ-KG---RYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHA  158 (397)
T ss_pred             CHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHh-hchh-cC---CeEEEEEeChhhCCHHHHHHHHHHHhcCCCCe
Confidence                      123566677666667788887655443 3343 44   48999999999999999999999999999999


Q ss_pred             cEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--
Q 017884          173 RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--  250 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~--  250 (364)
                      .+|++++...++.+++++||.+++|.+++.+++..|+..+++++++.+++++++.|+..++||+|.++++++++..+.  
T Consensus       159 ~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~  238 (397)
T PRK14955        159 IFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVE  238 (397)
T ss_pred             EEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccc
Confidence            999999888999999999999999999999999999999999999999999999999999999999999999887653  


Q ss_pred             ----ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------
Q 017884          251 ----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------  314 (364)
Q Consensus       251 ----~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------  314 (364)
                          ..||.++|.++++...+.++|++++++..++...++..+.++. ..+.++..++..+.+++|.+            
T Consensus       239 ~~~~~~It~~~v~~~v~~~~~~~vf~l~~ai~~~~~~~al~~~~~l~-~~~~~~~~iL~ll~~~~R~ll~~k~~~~~~~~  317 (397)
T PRK14955        239 SEGEGSIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVI-RNGYDEQDFLEKLIEHLRNFLVVHNLRSTRLV  317 (397)
T ss_pred             cCCCCccCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhccccccc
Confidence                4799999999999999999999999999999999999999998 88999999999999988875            


Q ss_pred             ---------------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          315 ---------------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       315 ---------------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                                     +++...+..+++.+.++++.++++.|+.+.+|.|+.+++...
T Consensus       318 ~~~~~~~~~~~~~a~~~s~~~L~~~l~~l~e~d~~lK~~~~~~l~lE~lll~l~~~~  374 (397)
T PRK14955        318 ERPDAVRERYERDAAKFSPEVIMQMTDLLLQTQKELKFQFEYQFRFELALLKLIEIG  374 (397)
T ss_pred             cCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHhhC
Confidence                           567778889999999999999999999999999999998643

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.8e-43  Score=336.12  Aligned_cols=308  Identities=22%  Similarity=0.391  Sum_probs=280.1

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------  102 (364)
                      ..|.++|||.+|++++||+++++.|++++..++.+| +||+||+|+|||++|+.+++.++|..                 
T Consensus         4 ~al~~k~rP~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~   83 (559)
T PRK05563          4 QALYRKWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAIT   83 (559)
T ss_pred             HHHHHHhCCCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHh
Confidence            568899999999999999999999999999999999 79999999999999999999998864                 


Q ss_pred             --CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                        .+.+++++++....+.+.+++.+.... ..|. .+   +++|+||||+|.|+...+++|++++++||.+++||++|+.
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~-~~p~-~~---~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~  158 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVK-YAPS-EA---KYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTE  158 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHh-hCcc-cC---CeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCC
Confidence              246788888887788888888665543 3333 23   5999999999999999999999999999999999999999


Q ss_pred             cccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHHH
Q 017884          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAVY  259 (364)
Q Consensus       181 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v~  259 (364)
                      +++++++++|||+.+.|.+++.+++..|+..+++++|+.+++++++.++..++|++|.+++.|+++..+ .+.||.++|.
T Consensus       159 ~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~~~~It~~~V~  238 (559)
T PRK05563        159 PHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFGDGKVTYEDAL  238 (559)
T ss_pred             hhhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999887665 3579999999


Q ss_pred             HhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-------------------------
Q 017884          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-------------------------  314 (364)
Q Consensus       260 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-------------------------  314 (364)
                      .+++......++++++++..++...++..+.++. ..|.++..++..+..++|++                         
T Consensus       239 ~vlg~~~~~~i~~l~~al~~~d~~~al~~l~~l~-~~g~d~~~~l~~L~~~~Rdll~~k~~~~~~~~~~~~~~~~~~~~~  317 (559)
T PRK05563        239 EVTGSVSQEALDDLVDAIVEGDVAKALKILEELL-DEGKDPNRFIEDLIYYLRDLLLVKTSPELEILDESTENDELFKEL  317 (559)
T ss_pred             HHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhcCcccccccCHHHHHHHHHH
Confidence            9999999999999999999999999999999998 89999999999888887765                         


Q ss_pred             --CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          315 --KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       315 --~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                        .++...+.++++.+.+++.+++.+.++++.+|.++.++|.
T Consensus       318 a~~~s~~~L~~~i~~L~~~~~~lk~~~~~~l~lE~lllkl~~  359 (559)
T PRK05563        318 SEKLDIERLYRMIDILNDAQQQIKWTNQPRIYLEVALVKLCE  359 (559)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHh
Confidence              2456678899999999999999999999999999999998

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-42  Score=321.27  Aligned_cols=310  Identities=22%  Similarity=0.291  Sum_probs=274.6

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+|++||||.+|++++||+++++.|++.+..++.+| ++|+||+|+|||++|+++++.+.|..                
T Consensus         3 ~~~l~~kyrP~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~   82 (363)
T PRK14961          3 YQILARKWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEI   82 (363)
T ss_pred             cHHHHHHhCCCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHH
Confidence            4689999999999999999999999999999999999 69999999999999999999998742                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...++.++++....+.+.+++.+.... ..|. .+   +++|+||||+|.++...+++|++++++++.++.+|++|+
T Consensus        83 ~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~-~~p~-~~---~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~  157 (363)
T PRK14961         83 EKGLCLDLIEIDAASRTKVEEMREILDNIY-YSPS-KS---RFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATT  157 (363)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHh-cCcc-cC---CceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcC
Confidence               123566666655456777776655433 3332 22   588999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      ..+++.++++|||..++|+|++.+++.+|+..+++++|+.+++++++.++..++||+|.+++.++.+..+. +.|+.++|
T Consensus       158 ~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~al~~l~~~~~~~~~~It~~~v  237 (363)
T PRK14961        158 DVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINLGKGNINIKNV  237 (363)
T ss_pred             ChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999998876544 68999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      .++++...+..++++++++..++...++..+.++. ..|.++..++..+..+++++                        
T Consensus       238 ~~~l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~-~~g~~~~~il~~l~~~~~d~l~~~~~~~~~~~~~~~~~~~~~~~  316 (363)
T PRK14961        238 TDMLGLLNEKQSFLLTDALLKKDSKKTMLLLNKIS-SIGIEWENILIEMLRFLHHISMSQSFPKIWNTIFIKNYKNQIQK  316 (363)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhcCchhhcccchHHHHHHHH
Confidence            99999999999999999999999999999999998 88999999999998888865                        


Q ss_pred             ---CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 ---KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 ---~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                         .++...+..+++.+.+...+++.+.|+++.+|-++.+++.+
T Consensus       317 ~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~e~~l~~~~~~  360 (363)
T PRK14961        317 IAQNNKKTNIQLCYQILLNGRKELKFAPDQKIGVEMTLLRAINA  360 (363)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHHccCCCchHHHHHHHHHHHhC
Confidence               34555667788999999999999999999999999999865

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7e-43  Score=336.47  Aligned_cols=311  Identities=19%  Similarity=0.284  Sum_probs=280.4

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------  102 (364)
                      ..+.+||||.+|++++||+.+++.|++++.+++.+| +||+||+|+|||++|+.+++.++|..                 
T Consensus         4 ~~l~~kyRP~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~   83 (620)
T PRK14954          4 QVIARKYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGE   83 (620)
T ss_pred             HHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCcc
Confidence            457899999999999999999999999999999999 89999999999999999999999843                 


Q ss_pred             ----------CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCc
Q 017884          103 ----------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNT  172 (364)
Q Consensus       103 ----------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~  172 (364)
                                .+.++.++++....+++.+++.+..+.. .|+ ++   +++|+||||+|.|+...++.|+++|++|+.++
T Consensus        84 C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~-~P~-~~---~~KVvIIdEad~Lt~~a~naLLK~LEePp~~t  158 (620)
T PRK14954         84 CESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRY-GPQ-KG---RYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHA  158 (620)
T ss_pred             CHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHh-hhh-cC---CCEEEEEeChhhcCHHHHHHHHHHHhCCCCCe
Confidence                      1245667776666678888887665543 233 44   48999999999999999999999999999999


Q ss_pred             cEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--
Q 017884          173 RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--  250 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~--  250 (364)
                      +||++++...++.++|++||++++|.+++.+++..|+..+++++|+.+++++++.|+..++||+|.++++++++..+.  
T Consensus       159 v~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~Gdlr~al~eLeKL~~y~~~  238 (620)
T PRK14954        159 IFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQVIAFSVG  238 (620)
T ss_pred             EEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhccc
Confidence            999999888999999999999999999999999999999999999999999999999999999999999999988774  


Q ss_pred             ----ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------
Q 017884          251 ----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------  314 (364)
Q Consensus       251 ----~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------  314 (364)
                          +.||.++|.++++...+.++|++++++..++...++..+.++. ..|..+..++..+.+++|.+            
T Consensus       239 ~~~~~~It~~~V~~lv~~~~e~~iF~L~dai~~~d~~~al~~l~~Ll-~~ge~p~~iL~lL~~~fRdLL~vK~~~~~~l~  317 (620)
T PRK14954        239 SEAEKVIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVI-DNGYDEQDFLEKLIEHFRNFLVLYNLRSTRLI  317 (620)
T ss_pred             cccCCccCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhccccccc
Confidence                4799999999999999999999999999999999999999998 89999999999999998866            


Q ss_pred             ---------------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 017884          315 ---------------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARS  357 (364)
Q Consensus       315 ---------------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~~  357 (364)
                                     +++...+..+++.+.++++.++++.+.++.+|.++.+++....
T Consensus       318 ~~~~~v~~~l~~qA~~fs~~~L~~~l~~l~e~d~~LKtn~n~~l~lEllLlkl~~~~~  375 (620)
T PRK14954        318 ERPESVKERYQQSAGGLTPAAVMQMTDFLMKTQGELKFQFEYQFRFELALLRLIELVR  375 (620)
T ss_pred             cCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHhccC
Confidence                           4556677888999999999999988999999999999998553

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-42  Score=338.72  Aligned_cols=310  Identities=19%  Similarity=0.276  Sum_probs=274.9

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC---------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~---------------  103 (364)
                      ..+|.+||||.+|++++||++++..|++++..++.+| +||+||+|+|||++|+.+++.++|...               
T Consensus         3 Y~~LaeKyRP~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i   82 (944)
T PRK14949          3 YQVLARKWRPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEI   82 (944)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHH
Confidence            4689999999999999999999999999999999999 599999999999999999999998521               


Q ss_pred             ----CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                          ...++++++....+++.+++.+..+... +.    .++++|+||||+|.|+...+++|+++||+|+.+++||++|+
T Consensus        83 ~~g~~~DviEidAas~~kVDdIReLie~v~~~-P~----~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTT  157 (944)
T PRK14949         83 AQGRFVDLIEVDAASRTKVDDTRELLDNVQYR-PS----RGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATT  157 (944)
T ss_pred             hcCCCceEEEeccccccCHHHHHHHHHHHHhh-hh----cCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECC
Confidence                2345777776667888888877665332 21    12689999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v  258 (364)
                      ...++.++|+|||.+++|.+++.+++..+|..++..+++.++++++..|+..++|++|.++++++.+..+ .+.++.+.|
T Consensus       158 e~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~Gd~R~ALnLLdQala~~~~~It~~~V  237 (944)
T PRK14949        158 DPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANGSMRDALSLTDQAIAFGGGQVMLTQV  237 (944)
T ss_pred             CchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCcccHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999765443 368999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......+..+++++.+++...++.++.+++ ..|.++..++..|..++|.+                        
T Consensus       238 ~~llG~iD~~~V~~llksI~~~D~~aaL~~l~~Ll-~~G~D~~~ILr~Ll~~lRDill~k~~~~~~~l~i~~e~i~~~a~  316 (944)
T PRK14949        238 QTMLGSIDEQHVIALLKALTDADIGVLMQTCAQVL-AFGADAQEVLRSLLELLHQITLTQFAPAAAQQSLYSEQIRAFAE  316 (944)
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhccchhhccchHHHHHHHHH
Confidence            99999888888999999999999999999999998 99999999999988888755                        


Q ss_pred             CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 ~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                      .++...+..+++.+.+...+++...++++.||.++.+++..
T Consensus       317 ~~s~~~L~~~ie~l~~a~~~L~~n~n~rl~lE~~LLrl~~~  357 (944)
T PRK14949        317 QLSPEQVQLYYQILLTGRKDLPHAPDPKSGLEMALLRAVAF  357 (944)
T ss_pred             hCCHHHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHc
Confidence            23444567788999999999999999999999999999753

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=100.00  E-value=3.2e-42  Score=317.70  Aligned_cols=307  Identities=34%  Similarity=0.568  Sum_probs=269.5

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC----
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR----  116 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~----  116 (364)
                      .+|++||||.+|++++|++.++..|..++..+..||++|+||+|+|||++|+++++.+.+.++...++.+++.+..    
T Consensus         3 ~~w~~ky~P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~   82 (337)
T PRK12402          3 PLWTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGK   82 (337)
T ss_pred             CchHHhhCCCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcch
Confidence            4899999999999999999999999999999988899999999999999999999999876644555666654310    


Q ss_pred             ----------------------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccE
Q 017884          117 ----------------------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (364)
Q Consensus       117 ----------------------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~  174 (364)
                                            ..+.++..+.......++ ++   ++++|+|||++.++...++.|+++++.++.++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~---~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~  158 (337)
T PRK12402         83 KYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPL-SA---DYKTILLDNAEALREDAQQALRRIMEQYSRTCRF  158 (337)
T ss_pred             hhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCC-CC---CCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeE
Confidence                                  122333334444444443 23   4789999999999999999999999999888999


Q ss_pred             EEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCc
Q 017884          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT  254 (364)
Q Consensus       175 Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~  254 (364)
                      |++++.+.++.+++++||..+.|.|++.+++..++..++.++++.+++++++.|+..++||+|.+++.++..+...+.||
T Consensus       159 Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l~~~~~~~~~It  238 (337)
T PRK12402        159 IIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEIT  238 (337)
T ss_pred             EEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC
Confidence            99998888899999999999999999999999999999999999999999999999999999999999998876667899


Q ss_pred             hHHHHHhcCC-CChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          255 EEAVYLCTGN-PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEY  333 (364)
Q Consensus       255 ~~~v~~~~~~-~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~  333 (364)
                      .++|.+++.. ..+.+++++++++.+++...++..+.+++...|.++..++..+...... +++...+.++++.+.++|+
T Consensus       239 ~~~v~~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~~~~~~-~~~~~~l~~~~~~l~~~d~  317 (337)
T PRK12402        239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVARS-RYRGDNLARLHRLAADADA  317 (337)
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH-HCCHHHHHHHHHHHHHHHH
Confidence            9999999887 5588999999999999999999999998767899999999998877665 4899999999999999999


Q ss_pred             HHhcCCChHHHHHHHHHHH
Q 017884          334 RLSFGCNDKLQLGSIISTF  352 (364)
Q Consensus       334 ~l~~~~~~~~~l~~l~~~l  352 (364)
                      ++++|.++.++|+.++.++
T Consensus       318 ~lk~g~~~~~~le~~i~~~  336 (337)
T PRK12402        318 RLTDGANDRIQLEALLAEL  336 (337)
T ss_pred             HHHcCCCHHHHHHHHHHhh
Confidence            9999999999999999876

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.9e-42  Score=327.86  Aligned_cols=310  Identities=15%  Similarity=0.232  Sum_probs=275.6

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+|++||||.+|++++||+++++.|.+++..++.+| +||+||+|+|||++|+++++.++|..                
T Consensus         2 Y~~LarKyRPktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I   81 (702)
T PRK14960          2 YQVLARKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAV   81 (702)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHH
Confidence            4689999999999999999999999999999999998 69999999999999999999998842                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...++++++++...+++.+++.+...... +. .   ++++|+||||+|.|+...+++|+++|++++.++.||++|+
T Consensus        82 ~~g~hpDviEIDAAs~~~VddIReli~~~~y~-P~-~---gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTt  156 (702)
T PRK14960         82 NEGRFIDLIEIDAASRTKVEDTRELLDNVPYA-PT-Q---GRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATT  156 (702)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhh-hh-c---CCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEEC
Confidence               23468888888777888888877654332 21 1   2589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v  258 (364)
                      .+.++..+++|||.++.|.+++.+++.+++..++.++|+.++++++..|++.++||+|.++++++++..+ .+.|+.++|
T Consensus       157 d~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdALnLLDQaIayg~g~IT~edV  236 (702)
T PRK14960        157 DPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLTDQAIAYGQGAVHHQDV  236 (702)
T ss_pred             ChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999776654 368999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......++++++++.+++...++..+.++. ..|.++..++..+...++++                        
T Consensus       237 ~~lLG~~d~e~IfdLldAI~k~d~~~al~~L~el~-~~g~d~~~~l~~Ll~~lrdlll~~~~~~~~~~~~~~~~~~~~~l  315 (702)
T PRK14960        237 KEMLGLIDRTIIYDLILAVHQNQREKVSQLLLQFR-YQALDVSLVLDQLISTLHELALLQYLPELGLKYSEEINAKILQL  315 (702)
T ss_pred             HHHhccCCHHHHHHHHHHHHhcCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHH
Confidence            99999999999999999999999999999999998 88999888887777766653                        


Q ss_pred             --CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 --KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 --~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                        .++...+..++..+.+....++...++++.+|-++.+++..
T Consensus       316 a~~~s~~~l~~~~qi~l~~~~~l~~s~~~r~~lEm~llrl~~~  358 (702)
T PRK14960        316 SKLISAQDLQLYYQIACKGRSDLQLAVTQEQGFEMCVLRLLAF  358 (702)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHhC
Confidence              34555667888888888899999999999999999999865

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3.2e-42  Score=326.70  Aligned_cols=305  Identities=24%  Similarity=0.339  Sum_probs=274.9

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC------------------C
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------Y  103 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~------------------~  103 (364)
                      +.+||||.+|++++||++++..|..++..++.+| ++|+||||+|||++|+++++.+.|.+                  .
T Consensus         4 l~~KyRP~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~   83 (504)
T PRK14963          4 LYQRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGA   83 (504)
T ss_pred             HHHhhCCCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCC
Confidence            3499999999999999999999999999999999 59999999999999999999998742                  3


Q ss_pred             CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +.+++++++....+.+.+++.. .+....++ ++   ++++|||||+|.++...++.|++++++++.++.+|++++.+.+
T Consensus        84 h~dv~el~~~~~~~vd~iR~l~-~~~~~~p~-~~---~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~k  158 (504)
T PRK14963         84 HPDVLEIDAASNNSVEDVRDLR-EKVLLAPL-RG---GRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEK  158 (504)
T ss_pred             CCceEEecccccCCHHHHHHHH-HHHhhccc-cC---CCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhh
Confidence            4568888887777888888754 44444443 33   5899999999999999999999999999999999999999999


Q ss_pred             CchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcC
Q 017884          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (364)
Q Consensus       184 l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~  263 (364)
                      +.+++++||..++|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.++++|+++..+.+.||.++|..+++
T Consensus       159 l~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~aln~Lekl~~~~~~It~~~V~~~l~  238 (504)
T PRK14963        159 MPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLALGTPVTRKQVEEALG  238 (504)
T ss_pred             CChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHC
Confidence            99999999999999999999999999999999999999999999999999999999999999887767899999999999


Q ss_pred             CCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-------------hcCCChHHHHHHHHHHHH
Q 017884          264 NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVF-------------KIKMPSDVRVRLMNDLAD  330 (364)
Q Consensus       264 ~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~-------------~~~~~~~~~~~i~~~l~~  330 (364)
                      .....+++++++++..++...++..+.+++ ..|+++..|+..+.++++             ...+++..+..++..+.+
T Consensus       239 ~~~~~~if~Li~al~~~d~~~Al~~l~~Ll-~~G~~~~~Il~~L~~~~r~ll~~k~~~~~~~~~~~~~~~~~~~l~~l~~  317 (504)
T PRK14963        239 LPPQERLRGIAAALAQGDAAEALSGAAQLY-RDGFAARTLVEGLLEAFRAALYAELGLGGGPRLEGAEPRLLAAMTALDE  317 (504)
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhccCcccccccCcHHHHHHHHHHHH
Confidence            999999999999999999999999999998 789999999999999999             335577788999999999


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHH
Q 017884          331 IEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       331 ~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                      .++++..+.+ +..|+-.+.++|.
T Consensus       318 ~~~~~~~~~~-~~~l~~~l~~~~~  340 (504)
T PRK14963        318 QMERFARRSD-ALSLELALLHALL  340 (504)
T ss_pred             HHHHHHhccc-hhHHHHHHHHHHh
Confidence            9999988875 6678888888874

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.3e-42  Score=328.22  Aligned_cols=310  Identities=20%  Similarity=0.294  Sum_probs=275.4

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+|.+||||.+|++++||+++++.|.+++..++.+| +||+||+|+|||++++.+++.++|.+                
T Consensus         3 y~vLarKYRPqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~   82 (700)
T PRK12323          3 YQVLARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCR   82 (700)
T ss_pred             chhHHHHhCCCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccH
Confidence            5689999999999999999999999999999999999 69999999999999999999999832                


Q ss_pred             --------CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccE
Q 017884          103 --------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (364)
Q Consensus       103 --------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~  174 (364)
                              .+.++++++.....+++.+++.+...... +.    .++++|+||||+|.|+...+|.|+++||+++.++.|
T Consensus        83 sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~-P~----~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~F  157 (700)
T PRK12323         83 ACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYA-PT----AGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKF  157 (700)
T ss_pred             HHHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhc-hh----cCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceE
Confidence                    12367888888778899999877765433 21    225899999999999999999999999999999999


Q ss_pred             EEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccC
Q 017884          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQI  253 (364)
Q Consensus       175 Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i  253 (364)
                      |++|++++++.++|+|||+.+.|.+++.+++.+++..++.++++.++++++..|++.++|++|.++++++....+ .+.|
T Consensus       158 ILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A~Gs~RdALsLLdQaia~~~~~I  237 (700)
T PRK12323        158 ILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLTDQAIAYSAGNV  237 (700)
T ss_pred             EEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999765443 3689


Q ss_pred             chHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-------------------
Q 017884          254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-------------------  314 (364)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-------------------  314 (364)
                      +.+.|..+++......++.+++.+..++....+..+..+. ..|.+...++..|..+++++                   
T Consensus       238 t~~~V~~~LG~~d~~~i~~Ll~aL~~~d~~~~l~l~~~l~-~~G~d~~~~L~dLl~~l~~l~l~q~~~~~~~~~~~~~~~  316 (700)
T PRK12323        238 SEEAVRGMLGAIDQSYLVRLLDALAAEDGAALLAIADEMA-GRSLSFAGALQDLASLLQKIALAQVVPAAVQDDWPEADD  316 (700)
T ss_pred             CHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhCchhcccccchHHH
Confidence            9999999999999999999999999999999999999887 88999877777777666554                   


Q ss_pred             ------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 ------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 ------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                            .++.+.+..+++.+.+....++...++++.+|-.+.+++..
T Consensus       317 ~~~~a~~~s~~~l~~~~q~~~~~~~el~~a~~~~~~~Em~llrll~~  363 (700)
T PRK12323        317 IRRLAGRFDAQEVQLFYQIANLGRSELALAPDEYAGFTMTLLRMLAF  363 (700)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHhhC
Confidence                  24556677888888999999999999999999999988754

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.8e-42  Score=343.12  Aligned_cols=308  Identities=20%  Similarity=0.285  Sum_probs=274.2

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------  102 (364)
                      ..|.+||||.+|++|+||+++++.|++++..++.+| +||+||+|+|||++|+.|++.++|..                 
T Consensus         3 ~~l~~KyRP~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~   82 (824)
T PRK07764          3 LALYRRYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALA   82 (824)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHH
Confidence            458899999999999999999999999999999999 89999999999999999999999842                 


Q ss_pred             ----CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          103 ----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       103 ----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                          .+.+++++++....+++.+++.+..... .+  ..  .+++|+||||+|.|+...++.|+++||+++.+++|||++
T Consensus        83 ~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~-~p--~~--~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~t  157 (824)
T PRK07764         83 PGGPGSLDVTEIDAASHGGVDDARELRERAFF-AP--AE--SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFAT  157 (824)
T ss_pred             cCCCCCCcEEEecccccCCHHHHHHHHHHHHh-ch--hc--CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence                2356778888777788999886554332 22  11  268999999999999999999999999999999999999


Q ss_pred             eccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--ccCchH
Q 017884          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEE  256 (364)
Q Consensus       179 ~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~--~~i~~~  256 (364)
                      +..+++.++|+|||+++.|.+++.+++.+||.++++++|+.++++++..|+..++||+|.++++|+++..+.  +.||.+
T Consensus       158 t~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e  237 (824)
T PRK07764        158 TEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYE  237 (824)
T ss_pred             CChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999988653  579999


Q ss_pred             HHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc----------------------
Q 017884          257 AVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI----------------------  314 (364)
Q Consensus       257 ~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~----------------------  314 (364)
                      ++..+++......++++++++..++...++.++.+++ ..|.++..++..|.++|+++                      
T Consensus       238 ~V~allg~~~~~~I~~lidAL~~~D~a~al~~l~~Li-~~G~dp~~~L~~LL~~fRDLL~vka~~~~~~~~l~~~p~d~~  316 (824)
T PRK07764        238 RAVALLGVTDSALIDEAVDALAAGDGAALFGTVDRVI-EAGHDPRRFAEDLLERLRDLIVLQAVPDAAERGLVDAPADQL  316 (824)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhcCcchhhhhccCCHHHH
Confidence            9999999999999999999999999999999999988 88999998888888888765                      


Q ss_pred             --------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          315 --------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       315 --------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                              +++...+.++++.+.++...++.+.+.++.+|.|+.+++.
T Consensus       317 ~~L~~qA~~~s~~~L~r~ie~l~ea~~~lrgn~nprL~LElLllrLll  364 (824)
T PRK07764        317 DRMRAQAQRLGPAELTRAADVVNDGLTEMRGATSPRLLLELLCARMLL  364 (824)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHh
Confidence                    3444566778899999977777778999999999999974

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2e-42  Score=334.09  Aligned_cols=316  Identities=24%  Similarity=0.372  Sum_probs=278.5

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC--------------
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------  103 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~--------------  103 (364)
                      ...+|+++|||.+|++++||+.+++.|++++..++.+| +||+||+|+|||++|+.+++.+.|.+.              
T Consensus         4 ~y~~l~~KyRP~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~   83 (725)
T PRK07133          4 KYKALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENV   83 (725)
T ss_pred             chhhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhh
Confidence            35789999999999999999999999999999999999 699999999999999999999988532              


Q ss_pred             --CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          104 --HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       104 --~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                        +..++++++....+.+.+++.+... ...|+ .+   +++|+||||+|.|+..++++|+++||+||.++++|++|+.+
T Consensus        84 ~~~~Dvieidaasn~~vd~IReLie~~-~~~P~-~g---~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~  158 (725)
T PRK07133         84 NNSLDIIEMDAASNNGVDEIRELIENV-KNLPT-QS---KYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEV  158 (725)
T ss_pred             cCCCcEEEEeccccCCHHHHHHHHHHH-Hhchh-cC---CCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCCh
Confidence              2355667766556788888866554 44443 33   58999999999999999999999999999999999999999


Q ss_pred             ccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHHH
Q 017884          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYL  260 (364)
Q Consensus       182 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~~  260 (364)
                      +++.++++|||+++.|.+++.+++..++..++.++|+.+++++++.++..++|++|.|+++++.+..+. +.|+.++|..
T Consensus       159 ~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLekl~~y~~~~It~e~V~e  238 (725)
T PRK07133        159 HKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNVEE  238 (725)
T ss_pred             hhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999876554 4699999999


Q ss_pred             hcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-----------------------CCC
Q 017884          261 CTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-----------------------KMP  317 (364)
Q Consensus       261 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-----------------------~~~  317 (364)
                      +++......++.+++++..++...++.++.++. ..|.++..++..+...+|.+                       .++
T Consensus       239 llg~~~~e~If~Ll~aI~~kd~~~aL~~l~~L~-~~ged~~~iL~~Ll~~~RDlLl~k~~~~~~ll~~~d~~~l~~~~~s  317 (725)
T PRK07133        239 LFGLVSNENLINLLNLLYSKDIKEVLNILNQIK-EQGIDPELLLISLINLVKEFIIFNKTKDNSLLEYYSEEDLEKLKID  317 (725)
T ss_pred             HHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhcCchhhhccCCHHHHHHhcCC
Confidence            999999999999999999999999999999988 89999999988887777753                       223


Q ss_pred             hHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHH
Q 017884          318 SDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIV  360 (364)
Q Consensus       318 ~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~~~~~  360 (364)
                      ...+..+++.+.++..+++...++++.+|.++.+++....++.
T Consensus       318 ~~~l~~~le~i~~~~~~L~~n~n~~l~lE~lll~L~~~~~~~~  360 (725)
T PRK07133        318 DDFAYKFIEILFDLLKDLKISDNPNDTLEILIIKLLALSELEE  360 (725)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhcCCCch
Confidence            3456677899999999999999999999999999987655443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=3.4e-42  Score=330.52  Aligned_cols=310  Identities=23%  Similarity=0.334  Sum_probs=277.8

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ...|.+||||.+|++++||++++..|.+++..++.+| +||+||+|+|||++|+.+++.++|.+                
T Consensus         3 y~vla~KyRP~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~   82 (618)
T PRK14951          3 YLVLARKYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQ   82 (618)
T ss_pred             hHHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccH
Confidence            4679999999999999999999999999999999999 69999999999999999999999853                


Q ss_pred             --------CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccE
Q 017884          103 --------YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRF  174 (364)
Q Consensus       103 --------~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~  174 (364)
                              .+.+++++++....+++.+++.+..... .+. .   ++++|+||||+|.|+...++.|++++|+++.++.|
T Consensus        83 ~C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~-~p~-~---g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~f  157 (618)
T PRK14951         83 ACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVY-KPV-Q---GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKF  157 (618)
T ss_pred             HHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHh-Ccc-c---CCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEE
Confidence                    2346788888777888999988766433 222 2   25899999999999999999999999999999999


Q ss_pred             EEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccC
Q 017884          175 ALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQI  253 (364)
Q Consensus       175 Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i  253 (364)
                      ||+|+.+.++.++++|||..++|.+++.+++.+++..++.++|+.++++++..|++.++|++|.+++++++...+. +.|
T Consensus       158 IL~Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s~GslR~al~lLdq~ia~~~~~I  237 (618)
T PRK14951        158 VLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAFGSGQL  237 (618)
T ss_pred             EEEECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999997765543 589


Q ss_pred             chHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-------------------
Q 017884          254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-------------------  314 (364)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-------------------  314 (364)
                      |.++|.++++......++.+++++..++...++..+.++. ..|.++..++..|...++++                   
T Consensus       238 t~~~V~~~Lg~~~~~~i~~LldaL~~~d~~~al~~l~~l~-~~G~~~~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (618)
T PRK14951        238 QEAAVRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELR-LNGLSAASTLEEMAAVLQRMAVLQAVPQAAAAATDPEAA  316 (618)
T ss_pred             CHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhCcccccccChHHHH
Confidence            9999999999999999999999999999999999999998 88999999999998888765                   


Q ss_pred             -------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 -------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 -------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                             .++.+.+..++..+.+....+....++++++|-.+.+++..
T Consensus       317 ~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~em~l~r~~~~  364 (618)
T PRK14951        317 EVARLAALMPADETQLLYSICLHGRAELGLAPDEYAALTMVLLRLLAF  364 (618)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHhhC
Confidence                   33555677788888888889988899999999999888753

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.6e-42  Score=323.64  Aligned_cols=309  Identities=24%  Similarity=0.353  Sum_probs=274.8

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..||.++|||.+|++++||+.++..|++++..++.+| ++||||+|+|||++|+.+++.+.|.+                
T Consensus         3 y~~~~~kyRP~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i   82 (486)
T PRK14953          3 YIPFARKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEI   82 (486)
T ss_pred             chHHHHhhCCCcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHH
Confidence            4699999999999999999999999999999999999 68999999999999999999998732                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...++++++++...+.+.++.. .+.....|+ ++   .++|+||||+|.|+...+++|++++++++.++.+|++++
T Consensus        83 ~~g~~~d~~eidaas~~gvd~ir~I-~~~~~~~P~-~~---~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt  157 (486)
T PRK14953         83 DKGSFPDLIEIDAASNRGIDDIRAL-RDAVSYTPI-KG---KYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTT  157 (486)
T ss_pred             hcCCCCcEEEEeCccCCCHHHHHHH-HHHHHhCcc-cC---CeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEEC
Confidence               1235667777666778877764 444455554 33   589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      ..+++.+++++||+.+.|.+++.+++..|+..+++++|+.+++++++.|++.++||+|.++++++++..+. +.||.++|
T Consensus       158 ~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G~lr~al~~Ldkl~~~~~~~It~~~V  237 (486)
T PRK14953        158 EYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTYGEGKVTIKVV  237 (486)
T ss_pred             CHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            88899999999999999999999999999999999999999999999999999999999999998886654 57999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc----------------------CC
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI----------------------KM  316 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~----------------------~~  316 (364)
                      .++++......++++++++..++...++.++.++. ..|.++..++..+.++++++                      .+
T Consensus       238 ~~~lg~~~~~~vf~Li~ai~~~d~~~al~~l~~L~-~~g~~~~~iL~~L~~~~rdll~~k~~~~~~~~~~~~~~~~~~~~  316 (486)
T PRK14953        238 EEFLGIVSQESVRKFLNLLLESDVDEAIKFLRTLE-EKGYNLNKFWKQLEEEIRNILLNKSLKNPEEVFQVEDFYRKLEK  316 (486)
T ss_pred             HHHhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhcCChhhhcchHHHHHHhcC
Confidence            99999999999999999999999999999999988 89999999999999988865                      12


Q ss_pred             ChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          317 PSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       317 ~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                      +...+..+++.+.+...+++. .|+++.+|.++.++|..
T Consensus       317 ~~~~l~~~~~~~~~~~~~l~~-~~~~~~~E~~ll~l~~~  354 (486)
T PRK14953        317 PLEALLYLEDVINKAFSEART-RDPLRAYELAILKLLYV  354 (486)
T ss_pred             CHHHHHHHHHHHHHHHHHHhc-cChhHHHHHHHHHHHhh
Confidence            244566778899999999999 99999999999999853

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=100.00  E-value=6.5e-42  Score=317.74  Aligned_cols=307  Identities=25%  Similarity=0.413  Sum_probs=273.9

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------  103 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~----------------  103 (364)
                      +||.++|||.+|++++|++.++..|..++..++.+| ++||||||+|||++++.+++.+.|...                
T Consensus         2 ~~~~~~~rp~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~   81 (355)
T TIGR02397         2 QVLARKYRPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEIN   81 (355)
T ss_pred             ccHHHHhCCCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHh
Confidence            699999999999999999999999999999999888 799999999999999999999987532                


Q ss_pred             ---CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          104 ---HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       104 ---~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                         +.+++++++....+.+.+++.+.. +...|+ ++   ++++|+|||++.++...++.|++++++++.++.+|+++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~p~-~~---~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~  156 (355)
T TIGR02397        82 SGSSLDVIEIDAASNNGVDDIREILDN-VKYAPS-SG---KYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTE  156 (355)
T ss_pred             cCCCCCEEEeeccccCCHHHHHHHHHH-HhcCcc-cC---CceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCC
Confidence               345777777655566666765554 444443 33   5899999999999999999999999999999999999998


Q ss_pred             cccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHH
Q 017884          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (364)
Q Consensus       181 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~  259 (364)
                      +.++.+++++||..+.|++++.+++.+|+..+++++|+.+++++++.+++.++||+|.+.+.++++..+. +.||.++|.
T Consensus       157 ~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~~~it~~~v~  236 (355)
T TIGR02397       157 PHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGNITYEDVN  236 (355)
T ss_pred             HHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcCCCCCHHHHH
Confidence            8899999999999999999999999999999999999999999999999999999999999999888765 469999999


Q ss_pred             HhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-------------------------
Q 017884          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-------------------------  314 (364)
Q Consensus       260 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-------------------------  314 (364)
                      ++++......++++++++..++...++..+..+. ..|.++..++..+.++++.+                         
T Consensus       237 ~~~~~~~~~~i~~l~~ai~~~~~~~a~~~~~~l~-~~~~~~~~il~~l~~~~r~l~~~k~~~~~~~~i~~~~~~~l~~~a  315 (355)
T TIGR02397       237 ELLGLVDDEKLIELLEAILNKDTAEALKILDEIL-ESGVDPEKFLEDLIEILRDLLLIKKTPSNLLAVLESEQEFLKELA  315 (355)
T ss_pred             HHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhcCccccccCHHHHHHHHHHH
Confidence            9999999999999999999999999999999988 78899999999988888764                         


Q ss_pred             -CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 017884          315 -KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFT  353 (364)
Q Consensus       315 -~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~  353 (364)
                       +++...+..+++.+.++++.++++.|..+.+|.++.++|
T Consensus       316 ~~~s~~~L~~~l~~l~~~~~~lk~~~~~~l~le~l~~~~~  355 (355)
T TIGR02397       316 LKLSLEFLLRLLDILLEALKDLRFSNDPRIWLEMTLLRLL  355 (355)
T ss_pred             HhCCHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHhC
Confidence             445556778899999999999999999999999999986

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

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5e-42  Score=329.04  Aligned_cols=309  Identities=20%  Similarity=0.285  Sum_probs=277.6

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------  102 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------  102 (364)
                      ..|++||||.+|++++||+.++..|+.++.+++.+| ++||||+|+|||++|+++++.+.|..                 
T Consensus         4 ~~l~~kyRP~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~   83 (563)
T PRK06647          4 RGTATKRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSID   83 (563)
T ss_pred             HHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHH
Confidence            568999999999999999999999999999999999 89999999999999999999998852                 


Q ss_pred             --CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          103 --YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       103 --~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                        .+.+++++++....+.+.+++..... ...|+ ++   +++++||||+|.|+..++++|++++++||.++.||++++.
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~-~~~p~-~~---~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte  158 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEI-MFPPA-SS---RYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTE  158 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHH-Hhchh-cC---CCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCC
Confidence              23467777776656778887755443 33333 33   5899999999999999999999999999999999999998


Q ss_pred             cccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHH
Q 017884          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVY  259 (364)
Q Consensus       181 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~  259 (364)
                      +.++.++|+|||+.++|.+++.+++.+++..++.++|+.++++++..|++.++||+|.++++++++..+. +.||.++|.
T Consensus       159 ~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~GdlR~alslLdklis~~~~~It~e~V~  238 (563)
T PRK06647        159 VHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSDSDITLEQIR  238 (563)
T ss_pred             hHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCHHHHH
Confidence            8999999999999999999999999999999999999999999999999999999999999998877654 589999999


Q ss_pred             HhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-------------------------
Q 017884          260 LCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-------------------------  314 (364)
Q Consensus       260 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-------------------------  314 (364)
                      ++++......++++++++..++..+++.++.++. ..|.++..++..+.+++|++                         
T Consensus       239 ~llg~~~~~~if~LidaI~~~D~~~al~~l~~Ll-~~G~d~~~iL~~Ll~~fRdLL~vK~G~~~~~~l~~~~e~l~k~~~  317 (563)
T PRK06647        239 SKMGLTGDEFLEKLASSILNEDAKELLCVLDSVF-LSGVSVEQFLLDCIEFFRELLFLKHGIKNEAFIGIKAERLPEKLR  317 (563)
T ss_pred             HHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhcCCchhhhccccHHHHHHHHH
Confidence            9999999999999999999999999999999998 89999999999998888765                         


Q ss_pred             CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 ~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                      .++...+.++++.+.+++++++.+.++++.+|.++.++|..
T Consensus       318 ~~s~~~L~~~l~~Llea~~~lK~n~~~~l~lE~llikl~~~  358 (563)
T PRK06647        318 EFDLSQIERAISVLLETYRDLQFSVNPRYELEINFSKILRL  358 (563)
T ss_pred             hCCHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhc
Confidence            35566778899999999999999999999999999998853

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=9.2e-42  Score=326.25  Aligned_cols=310  Identities=21%  Similarity=0.323  Sum_probs=279.1

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC---------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~---------------  103 (364)
                      ..+|.+||||++|++++||+++++.|++++..++.+| +||+||+|+|||++|+.+++.++|...               
T Consensus         3 y~vLarKYRP~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i   82 (709)
T PRK08691          3 YQVLARKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQI   82 (709)
T ss_pred             chhHHHHhCCCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHH
Confidence            4679999999999999999999999999999999998 799999999999999999999988631               


Q ss_pred             ----CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                          ..+++++++....+++.+++.+... ...++ ++   +++|+||||+|.|+...++.|+++|++++.++.|||+|+
T Consensus        83 ~~g~~~DvlEidaAs~~gVd~IRelle~a-~~~P~-~g---k~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTt  157 (709)
T PRK08691         83 DAGRYVDLLEIDAASNTGIDNIREVLENA-QYAPT-AG---KYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATT  157 (709)
T ss_pred             hccCccceEEEeccccCCHHHHHHHHHHH-Hhhhh-hC---CcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeC
Confidence                2356788877778888888877653 33332 33   489999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      .+.++..+++|||..+.|.+++.+++..+|..++.++|+.++++++..|++.++||+|.++++|+++..+. +.|+.++|
T Consensus       158 d~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~GslRdAlnLLDqaia~g~g~It~e~V  237 (709)
T PRK08691        158 DPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGSGKVAENDV  237 (709)
T ss_pred             CccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998876653 58999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......++.+++++..++...++..++++. ..|.++..++..|..+++++                        
T Consensus       238 ~~lLG~~d~~~If~LldAL~~~d~~~al~~l~~L~-~~G~d~~~~l~~L~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~a  316 (709)
T PRK08691        238 RQMIGAVDKQYLYELLTGIINQDGAALLAKAQEMA-ACAVGFDNALGELAILLQQLALIQAVPSALAHDDPDSDILHRLA  316 (709)
T ss_pred             HHHHcccCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHhhcCchhccccchHHHHHHHHH
Confidence            99999999999999999999999999999999998 99999999999998888875                        


Q ss_pred             -CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 -KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 -~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                       .++...+...++.+.+....++...++++.+|-.+.+++..
T Consensus       317 ~~~~~~~l~~~~q~~l~~~~~l~~a~~~~~~~Em~llrl~~~  358 (709)
T PRK08691        317 QTISGEQIQLYYQIAVHGKRDLSLAPDEYAGFMMTLLRMLAF  358 (709)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhc
Confidence             45666677888889999999999999999999999998754

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.7e-41  Score=313.97  Aligned_cols=311  Identities=23%  Similarity=0.352  Sum_probs=277.1

Q ss_pred             CCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------CCCcEEE
Q 017884           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------YHNMILE  109 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------~~~~~~~  109 (364)
                      .+..+|++||||.+|++++||+.+++.+.+.+..+..+| ++||||||+|||++++++++.+.|.+       ....+++
T Consensus         2 ~~~~~~~~k~rP~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~   81 (367)
T PRK14970          2 ENFVVSARKYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFE   81 (367)
T ss_pred             cchHHHHHHHCCCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEE
Confidence            456799999999999999999999999999999998886 89999999999999999999998743       2345566


Q ss_pred             EeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhh
Q 017884          110 LNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQ  189 (364)
Q Consensus       110 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~  189 (364)
                      ++.....+.+.+++.+.... ..|+ ++   ++++|+|||++.++...++.|++++++++.++.+|++++...++.++++
T Consensus        82 l~~~~~~~~~~i~~l~~~~~-~~p~-~~---~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~  156 (367)
T PRK14970         82 LDAASNNSVDDIRNLIDQVR-IPPQ-TG---KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTIL  156 (367)
T ss_pred             eccccCCCHHHHHHHHHHHh-hccc-cC---CcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHH
Confidence            66655556677777666543 3343 34   4889999999999999999999999999889999999998999999999


Q ss_pred             ccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHHHhcCCCChH
Q 017884          190 SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLCTGNPLPK  268 (364)
Q Consensus       190 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~~~~~~~~~~  268 (364)
                      +||..++|++++.+++..|+..++.++|+.+++++++.|+..++||+|.+++.++++..+. ..||.++|..+++.....
T Consensus       157 sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~it~~~v~~~~~~~~~~  236 (367)
T PRK14970        157 SRCQIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKNITRQAVTENLNILDYD  236 (367)
T ss_pred             hcceeEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHhCCCCHH
Confidence            9999999999999999999999999999999999999999999999999999999988764 469999999999999999


Q ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc---------------------------CCChHHH
Q 017884          269 DIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI---------------------------KMPSDVR  321 (364)
Q Consensus       269 ~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~---------------------------~~~~~~~  321 (364)
                      ++|++++++..++...++..++++. ..|.++..++..+.++++.+                           +++...+
T Consensus       237 ~if~l~~ai~~~~~~~a~~~~~~l~-~~~~~~~~il~~l~~~fr~ll~~k~~~~~~~l~~~~~~~~~~~~~a~~~s~~~L  315 (367)
T PRK14970        237 TYINVTDLILENKIPELLLAFNEIL-RKGFDGHHFIAGLASHFRDLMVSKTPATIALLEVGEQAKKRYEVQSQKVSQSFL  315 (367)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHhhccCccccccCCHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999999999988 88999999999998888765                           4677788


Q ss_pred             HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          322 VRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       322 ~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                      ..++..+.+++++++++.++.+.+|.++.+++.
T Consensus       316 ~~~l~~l~~~d~~lK~~~~~~l~lE~~l~~l~~  348 (367)
T PRK14970        316 LSGIDIANDCDLKYKLSKNQRLLVELALMQLAS  348 (367)
T ss_pred             HHHHHHHHHHHHHHhcCCChhHHHHHHHHHHhh
Confidence            899999999999999999999999999999874

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.4e-41  Score=326.86  Aligned_cols=311  Identities=19%  Similarity=0.314  Sum_probs=272.4

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+|.+||||.+|++++||++++..|.+.+..++.+| +||+||+|+|||++|+.+++.++|..                
T Consensus         3 y~~La~KyRP~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i   82 (647)
T PRK07994          3 YQVLARKWRPQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREI   82 (647)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHH
Confidence            4689999999999999999999999999999999999 69999999999999999999999842                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         .+.+++++++....+++.+++.+..+... +.    .++++|+||||+|.|+...+++|+++||+|+.+++||++|+
T Consensus        83 ~~g~~~D~ieidaas~~~VddiR~li~~~~~~-p~----~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt  157 (647)
T PRK07994         83 EQGRFVDLIEIDAASRTKVEDTRELLDNVQYA-PA----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  157 (647)
T ss_pred             HcCCCCCceeecccccCCHHHHHHHHHHHHhh-hh----cCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecC
Confidence               23357788877667888888877664432 21    12589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v  258 (364)
                      .+.++.++|+|||..+.|.+++.+++..+|..++.++++.++++++..|+..++|++|.++++++.+... .+.|+.++|
T Consensus       158 ~~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~Gs~R~Al~lldqaia~~~~~it~~~v  237 (647)
T PRK07994        158 DPQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADGSMRDALSLTDQAIASGNGQVTTDDV  237 (647)
T ss_pred             CccccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999765544 468999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......+.++++++..++...++.++.++. ..|.++..++..+...++++                        
T Consensus       238 ~~~lg~~d~~~~~~ll~al~~~d~~~~l~~~~~l~-~~g~d~~~~L~~l~~~lrdil~~q~~~~~~~~~~~d~~~~l~~l  316 (647)
T PRK07994        238 SAMLGTLDDDQALSLLEALVEGDGERVMALINQLA-ERGPDWEGLLVELLELLHRIAMAQLLPAALDNDMADIELRLREL  316 (647)
T ss_pred             HHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhccchhcccchhHHHHHHHH
Confidence            99999888888999999999999999999999987 88988888777776666544                        


Q ss_pred             --CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          315 --KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       315 --~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                        .++...+..+++.+.+....+..+.|.++.+|.++.++...+
T Consensus       317 a~~~s~~~l~~~~q~~~~~~~~L~~n~n~~l~lE~~llr~~~~~  360 (647)
T PRK07994        317 ARTLPPEDVQLYYQTLLIGRKDLPLAPDRRMGVEMTLLRMLAFH  360 (647)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhcC
Confidence              234445566788888999999999999999999999987543

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=100.00  E-value=3.1e-41  Score=282.75  Aligned_cols=313  Identities=30%  Similarity=0.530  Sum_probs=265.5

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-------------------
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-------------------  102 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-------------------  102 (364)
                      +|.++|||.+++.++++++....|+.....+..||+++|||+|+||.|.+.++.+++++.+                   
T Consensus         2 LWvdkyrpksl~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kkl   81 (351)
T KOG2035|consen    2 LWVDKYRPKSLDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKL   81 (351)
T ss_pred             cchhhcCcchhhhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceE
Confidence            6999999999999999999999999999989999999999999999999999999999864                   


Q ss_pred             -----CCCcEEEEeCCCCCChH--HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEE
Q 017884          103 -----YHNMILELNASDDRGID--VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA  175 (364)
Q Consensus       103 -----~~~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~I  175 (364)
                           .+.+++++++++....|  .+.+.+++.+++.+..+......++|+|.|+|.|+.++|.+|+++||.+..++++|
T Consensus        82 EistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlI  161 (351)
T KOG2035|consen   82 EISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLI  161 (351)
T ss_pred             EEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEE
Confidence                 13456677776643333  56788889998888766666689999999999999999999999999999999999


Q ss_pred             EEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCch
Q 017884          176 LICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITE  255 (364)
Q Consensus       176 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~  255 (364)
                      ++||+.+++.++++|||..++++.|+++++...+...++++|+.++.+.+..+++.++||+|+|+-.++.+.......+.
T Consensus       162 l~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a  241 (351)
T KOG2035|consen  162 LVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLPKELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTA  241 (351)
T ss_pred             EEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCcHHHHHHHHHHhcccHHHHHHHHHHHHhccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988876544433


Q ss_pred             HHHHHhcCCCC-hHHHHHHHHHHHhcc----HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 017884          256 EAVYLCTGNPL-PKDIEQISYWLLNES----FADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLAD  330 (364)
Q Consensus       256 ~~v~~~~~~~~-~~~~~~l~~~l~~~~----~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~  330 (364)
                      ..  ....... +..+.++...+....    +.+.+..+.+++ .++++|..|+..|...+.. +.+......++++.+.
T Consensus       242 ~~--~~i~~~dWe~~i~e~a~~i~~eQs~~~L~~vR~~LYeLL-~~CIPP~~Ilk~Ll~~Ll~-~~d~~~k~~~~~~Aa~  317 (351)
T KOG2035|consen  242 NS--QVIPKPDWEIYIQEIARVILKEQSPAKLLEVRGRLYELL-SHCIPPNTILKELLEELLL-KCDTQLKLEVIQHAAK  317 (351)
T ss_pred             cC--CCCCCccHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHH-hccCChHHHHHHHHHHHHh-cCCchhHHHHHHHHHH
Confidence            32  1111111 112333333333322    233556788888 9999999999999999987 7788888999999999


Q ss_pred             HHHHHhcCCChHHHHHHHHHHHHHHHHH
Q 017884          331 IEYRLSFGCNDKLQLGSIISTFTQARSA  358 (364)
Q Consensus       331 ~~~~l~~~~~~~~~l~~l~~~l~~~~~~  358 (364)
                      +|+++..|....+|||+|+++++.+.+.
T Consensus       318 yEhRl~lG~KaIfHLEaFVA~fM~iy~~  345 (351)
T KOG2035|consen  318 YEHRLRLGQKAIFHLEAFVAKFMCIYKK  345 (351)
T ss_pred             HHHHHhhcchhhhhHHHHHHHHHHHHHH
Confidence            9999999999999999999999887654

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.6e-41  Score=322.08  Aligned_cols=310  Identities=20%  Similarity=0.305  Sum_probs=270.3

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..||++||||.+|++++||+.+++.|.+++..++.+| +||+||+|+|||++|+.+++.++|..                
T Consensus         3 ~~~la~KyRP~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i   82 (624)
T PRK14959          3 HASLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKV   82 (624)
T ss_pred             cchHHHHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHH
Confidence            4689999999999999999999999999999998777 89999999999999999999999852                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         .+.+++++++....+++.++..+.. ....++ .+   +++||||||+|.|+...++.|+++||+++.+++||++|+
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~iR~L~~~-~~~~p~-~g---~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt  157 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDDAKRLKEA-IGYAPM-EG---RYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATT  157 (624)
T ss_pred             hcCCCCceEEEecccccCHHHHHHHHHH-HHhhhh-cC---CceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecC
Confidence               2455778887666788888874443 333332 22   589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v  258 (364)
                      .+.++.++|+|||++++|.+++.+++..+|..++.++++.+++++++.|++.++||+|.++++|+++... .+.||.++|
T Consensus       158 ~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll~~g~~~It~d~V  237 (624)
T PRK14959        158 EPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLALGESRLTIDGA  237 (624)
T ss_pred             ChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999876532 358999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......++++++++..++...++.++..++ ..|.++..++..|..+++++                        
T Consensus       238 ~~~lg~~~~e~vfeLl~AL~~~D~~aal~~l~~Ll-~~g~d~~~iL~~Ll~~~RdLLl~k~~~~~~~~~l~i~~~~~~~~  316 (624)
T PRK14959        238 RGVLGLAGQELFLRLMEALAAQDCLGVANVVRELL-DRGVDMGFFLRELVATWRNLFMLRQAGEAALASLDLPEDEARQW  316 (624)
T ss_pred             HHHhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHhhhccccchhhcccCHHHHHHH
Confidence            99999999899999999999999999999999988 78888888888777777654                        


Q ss_pred             -----CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 -----KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 -----~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                           +++...+..+++.+.+...+++.+.|.++.+|.++.+++..
T Consensus       317 ~~~A~~~s~~~L~~~l~~il~~~~~l~~n~n~rl~lE~lLL~l~~~  362 (624)
T PRK14959        317 LGWAKRFEPAHIHACWQMTLEGQRRVLTSLEPAMALELLLLNLAML  362 (624)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence                 23334455668888899999999999999999999998753

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.2e-41  Score=315.08  Aligned_cols=307  Identities=23%  Similarity=0.373  Sum_probs=272.5

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC-----------------
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-----------------  103 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~-----------------  103 (364)
                      .|.++|||.+|++++||++++..|...+..++.+| ++|+||||+|||++|+++++.+.|...                 
T Consensus         3 ~l~~kyRP~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~   82 (472)
T PRK14962          3 ALYRKYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDE   82 (472)
T ss_pred             hhHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhc
Confidence            58899999999999999999999999999999988 799999999999999999999987532                 


Q ss_pred             --CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          104 --HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       104 --~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                        ...+++++++...+.+.++. +.+.....++ ++   ++++++|||+|.++...++.|++++++++.++.+|++++.+
T Consensus        83 g~~~dv~el~aa~~~gid~iR~-i~~~~~~~p~-~~---~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~  157 (472)
T PRK14962         83 GTFMDVIELDAASNRGIDEIRK-IRDAVGYRPM-EG---KYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNL  157 (472)
T ss_pred             CCCCccEEEeCcccCCHHHHHH-HHHHHhhChh-cC---CeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCCh
Confidence              33678888877778888886 4444444443 33   48999999999999999999999999999999999999888


Q ss_pred             ccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHHH
Q 017884          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYL  260 (364)
Q Consensus       182 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~~  260 (364)
                      .++.+++++||.++.|.+++.+++..++..++..+++.+++++++.|++.++||+|.+++.|+.+..+. +.||.++|..
T Consensus       158 ~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~It~e~V~~  237 (472)
T PRK14962        158 EKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETVHE  237 (472)
T ss_pred             HhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCHHHHHH
Confidence            899999999999999999999999999999999999999999999999999999999999999877654 4799999999


Q ss_pred             hcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHh-cCCCh-HHHHHHHHHHHHHHHHHhcC
Q 017884          261 CTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFK-IKMPS-DVRVRLMNDLADIEYRLSFG  338 (364)
Q Consensus       261 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~-~~~~~-~~~~~i~~~l~~~~~~l~~~  338 (364)
                      +++......++.+++++.++|..+++.++.+++ ..|++|..+++.+...+.. .+..+ .....+...+.++-..++..
T Consensus       238 ~l~~~~~~~i~~li~si~~~d~~~Al~~l~~ll-~~Gedp~~i~r~l~~~~~edi~~a~~~~~~~~~~~~~~~~~~i~~~  316 (472)
T PRK14962        238 ALGLIPIEVVRDYINAIFNGDVKRVFTVLDDVY-YSGKDYEVLIQQAIEDLVEDLERERANDIIQVSRQLLNILREIKFA  316 (472)
T ss_pred             HHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHHHhCCc
Confidence            999999999999999999999999999999999 8899999999999888874 34444 66777888888888888888


Q ss_pred             CChHHHHHHHHHHHHH
Q 017884          339 CNDKLQLGSIISTFTQ  354 (364)
Q Consensus       339 ~~~~~~l~~l~~~l~~  354 (364)
                      .+.....+-++.+++.
T Consensus       317 e~~~~l~~~~~~~~~~  332 (472)
T PRK14962        317 EEKRLVCKLGSASIAT  332 (472)
T ss_pred             chHHHHHHHHHHHHHH
Confidence            8888888888887774

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.2e-40  Score=316.20  Aligned_cols=310  Identities=18%  Similarity=0.274  Sum_probs=271.2

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+|.+||||.+|++++||+++++.|...+..++.+| ++|+||+|+|||++|+.+++.+.|..                
T Consensus         3 y~~La~KyRP~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i   82 (546)
T PRK14957          3 YQALARKYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAI   82 (546)
T ss_pred             chhHHHHHCcCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHH
Confidence            5789999999999999999999999999999999999 79999999999999999999998742                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...+++++++....+.+.+++.+..+. ..++ ++   +++|+||||+|.|+...++.|+++||++|.++.||++|+
T Consensus        83 ~~~~~~dlieidaas~~gvd~ir~ii~~~~-~~p~-~g---~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Tt  157 (546)
T PRK14957         83 NNNSFIDLIEIDAASRTGVEETKEILDNIQ-YMPS-QG---RYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATT  157 (546)
T ss_pred             hcCCCCceEEeecccccCHHHHHHHHHHHH-hhhh-cC---CcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEEC
Confidence               234677777766678888887776543 3333 33   589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-SQQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v  258 (364)
                      ...++.++++|||.+++|.+++.+++..++..+++++|+.+++++++.|++.++||+|.+++.++++..+ .+.|+.++|
T Consensus       158 d~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~GdlR~alnlLek~i~~~~~~It~~~V  237 (546)
T PRK14957        158 DYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLDQAISFCGGELKQAQI  237 (546)
T ss_pred             ChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999987765 368999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      .++++......++++++++..++...++..+.++. ..+.+...++..+...+.+.                        
T Consensus       238 ~~~l~~~~~~~v~~ll~Al~~~d~~~~l~~~~~l~-~~~~~~~~~l~~l~~~~~r~~~~~~~~~~~~~~~~~~~~i~~~a  316 (546)
T PRK14957        238 KQMLGIIDSEEVYSIINAIIDNDPKAILPAIKNLA-LTESSADAVLDRIAEIWFACCIYSFTQSLDAVNDIDVDIINNIL  316 (546)
T ss_pred             HHHHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhcccccccchhhHHHHHHHH
Confidence            99999988888999999999999999999998888 77888777776655211111                        


Q ss_pred             -CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 -KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 -~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                       +++...+..+++.+.+....++.+.+.++.+|-.+.+++..
T Consensus       317 ~~~s~~~l~~~~~~~~~~~~~l~~~~~~~~~~em~l~r~~~~  358 (546)
T PRK14957        317 AKISIEQAHFLYQLTITAKKDIALAPNFETGVTMAILRLIAF  358 (546)
T ss_pred             HhCCHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Confidence             44666677889999999999999999999999999988754

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-40  Score=324.62  Aligned_cols=309  Identities=22%  Similarity=0.377  Sum_probs=276.7

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC----------------
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------  103 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~----------------  103 (364)
                      +-|.+||||.+|++++||+++++.|+.++..++.+| +||+||+|+|||++++.+++.+.|...                
T Consensus         4 ~~l~~kyRP~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i   83 (585)
T PRK14950          4 QVLYRKWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAI   83 (585)
T ss_pred             HHHHHHhCCCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHH
Confidence            348899999999999999999999999999999888 699999999999999999999987532                


Q ss_pred             ----CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                          +.+++++++....+.+.+++.+.. ....++ ++   +++||||||+|.|+.+.++.|++++++++.++.||++++
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~ir~ii~~-~~~~p~-~~---~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~  158 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDAREIIER-VQFRPA-LA---RYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATT  158 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHHHHHHHH-HhhCcc-cC---CeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence                245677777666678888876544 344443 33   589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      ..+++.+++++||..+.|.+++..++..++..++.++|+.++++++..|+..++||+|.+++.++++..+. +.||.++|
T Consensus       159 ~~~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~LekL~~y~~~~It~e~V  238 (585)
T PRK14950        159 EVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYGGEISLSQV  238 (585)
T ss_pred             ChhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999987753 58999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++.....+++++++++..++...++.++..+. ..|.++..++..+.++++.+                        
T Consensus       239 ~~ll~~s~~~~vf~Lidal~~~d~~~al~~l~~L~-~~g~~~~~il~~L~~~lR~Ll~lk~g~~~~~l~i~p~~~~~~~~  317 (585)
T PRK14950        239 QSLLGISGDEEVKALAEALLAKDLKAALRTLNAVA-ADGADLRQFTRDLVEYLRQVMLLNSGADRSLLDLTADEKAALQK  317 (585)
T ss_pred             HHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHhhcCccccccCCHHHHHHHHH
Confidence            99999999999999999999999999999999998 88999999999888888764                        


Q ss_pred             ---CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 ---KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 ---~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                         .++...+..+++.+.++|+.+|+|.++++.+|.++.++|..
T Consensus       318 qa~~~s~~~L~~~l~~l~~~D~~lK~~~~~~l~lE~~l~~~~~~  361 (585)
T PRK14950        318 VSQIANLEALTKWVKAFSQLDFQLRTTSYGQLPLELAVIEALLV  361 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhcC
Confidence               45667788999999999999999988899999999998853

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

Probab=100.00  E-value=1.2e-41  Score=317.00  Aligned_cols=311  Identities=23%  Similarity=0.365  Sum_probs=279.3

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+++.||||++|++++||+.++..|.+.+..++..| ++|+||-|+|||++|+.+|+.++|.+                
T Consensus         3 yq~L~rKyRP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I   82 (515)
T COG2812           3 YQVLARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEI   82 (515)
T ss_pred             hHHHHHHhCcccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhh
Confidence            3568999999999999999999999999999999999 89999999999999999999999984                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...+++++++....+++.+++.++..... |.    .+++||++|||+|.|+..+.++|++++|+||.++.|||+|.
T Consensus        83 ~~g~~~DviEiDaASn~gVddiR~i~e~v~y~-P~----~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATT  157 (515)
T COG2812          83 NEGSLIDVIEIDAASNTGVDDIREIIEKVNYA-PS----EGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATT  157 (515)
T ss_pred             hcCCcccchhhhhhhccChHHHHHHHHHhccC-Cc----cccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecC
Confidence               23568888888888999999977765433 22    22699999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      .+.+++.++.|||+.+.|..++.+++...|..++.++++.++++++..+++.++|.+|+++++|+.+.... +.||.+.|
T Consensus       158 e~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq~i~~~~~~It~~~v  237 (515)
T COG2812         158 EPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESV  237 (515)
T ss_pred             CcCcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCCChhhHHHHHHHHHHccCCcccHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998877655 58999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......+..+++++..+|...++..++++. ..|.++..++..+..+++..                        
T Consensus       238 ~~~lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~-~~G~~~~~~l~dl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~  316 (515)
T COG2812         238 RDMLGLTDIEKLLSLLEAILKGDAKEALRLINELI-EEGKDPEAFLEDLLNFLRDLLLFKQTVPNELQLNTTEIEERTKE  316 (515)
T ss_pred             HHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHH-HhCcCHHHHHHHHHHHHHHHHHHHhcccchhhccchhhhHHHHH
Confidence            99999999999999999999999999999999998 99999999999988888652                        


Q ss_pred             ---CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          315 ---KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       315 ---~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                         .++...+..+++.+......++.+.++++.++.++.+++...
T Consensus       317 ~a~~~~~~~l~~~~~~~~~~~~e~~~s~~~~~~~E~~lirl~~~~  361 (515)
T COG2812         317 LASQISVLNLQRLYQLLLPGLKELKRSLSPRLGLEMTLIRLLEAA  361 (515)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhc
Confidence               122223445677777777788888999999999999998764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.5e-40  Score=322.23  Aligned_cols=309  Identities=22%  Similarity=0.360  Sum_probs=275.9

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..||.++|||.+|++++||+.++..|..++..++.+| +||+||+|+|||++|+++++.++|..                
T Consensus         3 ~~pl~~kyRP~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~   82 (620)
T PRK14948          3 YEPLHHKYRPQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCR   82 (620)
T ss_pred             cchHHHHhCCCcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHH
Confidence            5789999999999999999999999999999988765 89999999999999999999999842                


Q ss_pred             -----CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEE
Q 017884          103 -----YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI  177 (364)
Q Consensus       103 -----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~  177 (364)
                           .+.++++++.....+++.+++.+... ...++ ++   +++|+||||+|.|+...+++|+++||+++.+++||++
T Consensus        83 ~i~~g~h~D~~ei~~~~~~~vd~IReii~~a-~~~p~-~~---~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~  157 (620)
T PRK14948         83 AIAAGNALDVIEIDAASNTGVDNIRELIERA-QFAPV-QA---RWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLA  157 (620)
T ss_pred             HHhcCCCccEEEEeccccCCHHHHHHHHHHH-hhChh-cC---CceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEE
Confidence                 22356677776667888888877654 33333 23   5899999999999999999999999999999999999


Q ss_pred             eeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHH
Q 017884          178 CNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEA  257 (364)
Q Consensus       178 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~  257 (364)
                      ++.+.++.++|+|||..++|.+++.+++..++..++.++++.++++++..+++.++|++|.|+++++++..+.+.||.++
T Consensus       158 t~~~~~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G~lr~A~~lLeklsL~~~~It~e~  237 (620)
T PRK14948        158 TTDPQRVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAESLLDQLSLLPGPITPEA  237 (620)
T ss_pred             eCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988888999999


Q ss_pred             HHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-----------------------
Q 017884          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-----------------------  314 (364)
Q Consensus       258 v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-----------------------  314 (364)
                      |..+++......++++++++..++...++..+.++. ..|.++..++..+.++++++                       
T Consensus       238 V~~lvg~~~e~~i~~Ll~ai~~~d~~~al~~~~~Ll-~~g~~p~~iL~~L~~~~RDLL~~K~~~~~~~l~~i~~d~~~~l  316 (620)
T PRK14948        238 VWDLLGAVPEQDLLNLLKALASNDPESLLDSCRQLL-DRGREPLAILQGLAAFYRDLLLAKTAPNRPDLVAVSQQTWDEL  316 (620)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHHHHHHhcccchhhhhcCHHHHHHH
Confidence            999999888889999999999999999999999988 88888888888887777654                       


Q ss_pred             -----CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          315 -----KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       315 -----~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                           .++...+..+++.+.+++++++.+.++++.+|.++.+++.
T Consensus       317 ~~~A~~~s~~~L~~~i~~L~eae~~LK~n~nprL~LE~lLl~l~~  361 (620)
T PRK14948        317 CKLAKQINLERILQWQQHLKGSEYQLKNSTQPRLWLEVTLLGLLP  361 (620)
T ss_pred             HHHHhhCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHhhc
Confidence                 2345567788999999999999999999999999999975

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=2.5e-40  Score=313.76  Aligned_cols=269  Identities=22%  Similarity=0.365  Sum_probs=243.8

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC---------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~---------------  103 (364)
                      ..+|.+||||.+|++++||+.+++.|.+++..++.+| +||+||+|+|||++|+.+++.+.|.++               
T Consensus         3 ~~~~~~KyRP~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i   82 (605)
T PRK05896          3 EITFYRKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESI   82 (605)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHH
Confidence            3689999999999999999999999999999999898 899999999999999999999988543               


Q ss_pred             ----CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                          +.+++++++....+.+.++..+..+. ..|+ ++   +++|++|||+|.|+..++++|+++|++|+.++++|++|+
T Consensus        83 ~~~~h~DiieIdaas~igVd~IReIi~~~~-~~P~-~~---~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt  157 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDEIRNIIDNIN-YLPT-TF---KYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATT  157 (605)
T ss_pred             HcCCCCceEEeccccccCHHHHHHHHHHHH-hchh-hC---CcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECC
Confidence                24577777766678888888665544 3343 33   489999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-cCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-QITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~-~i~~~~v  258 (364)
                      .+.++.++++|||++++|.+++.+++..|+..++.++|+.+++++++.++..++|++|.|++.++.+..+.+ .|+.++|
T Consensus       158 ~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~GdlR~AlnlLekL~~y~~~~It~e~V  237 (605)
T PRK05896        158 EFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSEIDIEDI  237 (605)
T ss_pred             ChHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCCCCCHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999877654 4999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~  314 (364)
                      ..+++......++.+++++..++...++.++.++. ..|.++..++..+..++|.+
T Consensus       238 ~ellg~~~~~~Vf~Ll~AI~~kd~~~al~~l~~Ll-~~ge~~~~il~~L~~~~RDl  292 (605)
T PRK05896        238 NKTFGLVDNNKKINLIELIQKNDIEELRNLINELE-SKGINFEAFCRDLINLLIDL  292 (605)
T ss_pred             HHHhccCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHH
Confidence            99999888888999999999999999999999998 89999999999999988865

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.1e-40  Score=315.20  Aligned_cols=311  Identities=19%  Similarity=0.311  Sum_probs=274.9

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC----------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ----------------  102 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~----------------  102 (364)
                      ..+|.+||||.+|++++||+++++.|.+++..++.+| ++|+||+|+|||++|+.+++.++|..                
T Consensus         3 ~~~l~~k~rP~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i   82 (527)
T PRK14969          3 YQVLARKWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEI   82 (527)
T ss_pred             cHHHHHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHH
Confidence            4679999999999999999999999999999999999 69999999999999999999998842                


Q ss_pred             ---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          103 ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       103 ---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                         ...+++++++....+++.+++.+... ...|. .+   +++|+||||+|.|+..++++|++++++++.++.||++|+
T Consensus        83 ~~~~~~d~~ei~~~~~~~vd~ir~l~~~~-~~~p~-~~---~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~  157 (527)
T PRK14969         83 DSGRFVDLIEVDAASNTQVDAMRELLDNA-QYAPT-RG---RFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATT  157 (527)
T ss_pred             hcCCCCceeEeeccccCCHHHHHHHHHHH-hhCcc-cC---CceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeC
Confidence               12356778777667888888766654 33333 23   589999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      ++.++.++++|||..++|.+++.+++.+++..+++++|+.++++++..|++.++|++|.++++++++..+. +.|+.++|
T Consensus       158 d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~Gslr~al~lldqai~~~~~~I~~~~v  237 (527)
T PRK14969        158 DPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQAIAYGGGTVNESEV  237 (527)
T ss_pred             ChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998776554 68999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      ..+++......++++++++..++...++..+.++. ..|.+...++..+...++++                        
T Consensus       238 ~~~~~~~~~~~i~~ll~al~~~~~~~~l~~~~~l~-~~~~~~~~~l~~l~~~~rd~~~~~~~~~~~~~~~~~~~~~~~~a  316 (527)
T PRK14969        238 RAMLGAIDQDYLFALLEALLAQDGAALLAIADAME-ERSLSFDAALQDLAALLHRLAIAQTVPDSIADDLPERDRLLDLA  316 (527)
T ss_pred             HHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHhhcCcccccccchHHHHHHHHH
Confidence            99999988889999999999999999999999988 88888888888877777654                        


Q ss_pred             -CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          315 -KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       315 -~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                       .++.+.+..+++.+.+....+....++++.+|-.+.+++...
T Consensus       317 ~~~s~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~~~r~~~~~  359 (527)
T PRK14969        317 KRLSPEDIQLYYQIALHGRRDLGLAPDEYAGFTMTLLRMLAFR  359 (527)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHhccC
Confidence             345666778888999999999999999999999999887543

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=100.00  E-value=1.6e-40  Score=284.45  Aligned_cols=333  Identities=50%  Similarity=0.643  Sum_probs=303.4

Q ss_pred             CCCCCCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC-CCCCCcEEEE
Q 017884           32 SGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG-AQYHNMILEL  110 (364)
Q Consensus        32 ~~~~~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~-~~~~~~~~~~  110 (364)
                      ..++......||.++|||.+++++++|++++..+.+....++.||+|+|||||+|||+.+.+.++.+++ .++...+.++
T Consensus        20 ~~p~~~~~~~pwvekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lel   99 (360)
T KOG0990|consen   20 YIPQSPQYPQPWVEKYRPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLEL   99 (360)
T ss_pred             CCCCCcccCCCCccCCCCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHh
Confidence            456667778999999999999999999999999999999999999999999999999999999999998 4555668889


Q ss_pred             eCCCCCChHHHHHHHHHHHhcCcc-ccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhh
Q 017884          111 NASDDRGIDVVRQQIQDFASTQSF-SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQ  189 (364)
Q Consensus       111 ~~~~~~~~~~~~~~i~~~~~~~~~-~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~  189 (364)
                      ++++.++++.+++.+..++.+.++ .|+.....++||+||+|.|+.++|++|++.++.+..+++|++++|++.++.++++
T Consensus       100 naSd~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRviek~t~n~rF~ii~n~~~ki~pa~q  179 (360)
T KOG0990|consen  100 NASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPAQQ  179 (360)
T ss_pred             hccCccCCcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHHHHHHHHHhccceEEEEeccChhhcCchhh
Confidence            999999999999999888776542 2333346899999999999999999999999999999999999999999999999


Q ss_pred             ccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCc-----hHHHHHhcCC
Q 017884          190 SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT-----EEAVYLCTGN  264 (364)
Q Consensus       190 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~-----~~~v~~~~~~  264 (364)
                      +||..++|.|++..+....+..+++.+....+++....++..+.||+|.++|.|+....+...++     .+.++...+.
T Consensus       180 sRctrfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s~gDmr~a~n~Lqs~~~~~~~~~e~~~~~~~vy~c~g~  259 (360)
T KOG0990|consen  180 SRCTRFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLSVGDMRVALNYLQSILKKVMERKELNNPNDLVYQCKGA  259 (360)
T ss_pred             cccccCCCCCCChhhhhhHHHHHHhcchhhcCHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCCCCCCCCchhhHHHhcCC
Confidence            99999999999999999999999999999999999999999999999999999999888765444     4459999999


Q ss_pred             CChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHH
Q 017884          265 PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQ  344 (364)
Q Consensus       265 ~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~  344 (364)
                      ....++.++++++++..+..+...+..+....|+...+++..+...+....+.......|+..++++++++..|.+++++
T Consensus       260 p~~~dI~~I~~~il~~~~~~~~~~is~lk~~~gla~~d~i~~l~~~~~~~~~~~~~~~~I~~~l~~Ie~~ls~g~~~~~q  339 (360)
T KOG0990|consen  260 PQPSDIRQIIEKRMNGEDIELMLDDSELKKPKGLARQDRRAELEQRFAIVISKTPVEGHILYQLADIEERLSKGCMQKEQ  339 (360)
T ss_pred             CChhHHHHHHHHHhcCchHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHhHHHHHHHHhcchhHHHH
Confidence            99999999999999999988888888888888999999999999999888887788899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhcC
Q 017884          345 LGSIISTFTQARSAIVAAAK  364 (364)
Q Consensus       345 l~~l~~~l~~~~~~~~~~~~  364 (364)
                      +.++|+.+...++++.+.++
T Consensus       340 l~aii~~~~~~~~~~~~~~~  359 (360)
T KOG0990|consen  340 LKAIIKNFAAELKALAWKID  359 (360)
T ss_pred             HHHHHHHHHHHHHHHHHhhc
Confidence            99999999999999888764

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=100.00  E-value=1.1e-35  Score=271.47  Aligned_cols=299  Identities=27%  Similarity=0.400  Sum_probs=251.0

Q ss_pred             CCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcE-EEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHL-LLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~l-ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      -.++..+|++||||.+|++++||+++...++.++..+..||+ +++||+|+|||++++++++.+     ...+.++++..
T Consensus         4 ~~~~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~-----~~~~~~i~~~~   78 (316)
T PHA02544          4 VNPNEFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV-----GAEVLFVNGSD   78 (316)
T ss_pred             cCCCCCcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CccceEeccCc
Confidence            456789999999999999999999999999999999998885 669999999999999999987     34556777776


Q ss_pred             CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC-CHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccce
Q 017884          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM-TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (364)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l-~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  193 (364)
                       ...+.+++.+..+....++ .+   ++++|+|||+|.+ ....++.|..++++++.++.+|++++...++.+++++||.
T Consensus        79 -~~~~~i~~~l~~~~~~~~~-~~---~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~  153 (316)
T PHA02544         79 -CRIDFVRNRLTRFASTVSL-TG---GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCR  153 (316)
T ss_pred             -ccHHHHHHHHHHHHHhhcc-cC---CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhce
Confidence             3356666667666665543 22   4789999999999 6777888999999999999999999999999999999999


Q ss_pred             EEEecCCChHHHHHHHH-------HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCC
Q 017884          194 RFRFAPLEPVHVTERLK-------HVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPL  266 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~-------~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~  266 (364)
                      .+.|++|+.++...++.       .++.++|+.++++++..+++.+.||.|.+++.++.... .+.++..++..+.    
T Consensus       154 ~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~~~~d~r~~l~~l~~~~~-~~~i~~~~l~~~~----  228 (316)
T PHA02544        154 VIDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS-TGKIDAGILSEVT----  228 (316)
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHc-cCCCCHHHHHHhh----
Confidence            99999999888765543       44556799999999999999999999999999997764 4678888877654    


Q ss_pred             hHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHH
Q 017884          267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLG  346 (364)
Q Consensus       267 ~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~  346 (364)
                      ...++.+++++...+...... +..   ..+.++.+++..++..+.. .+....+.++++.+++.+..+..|.|+.++++
T Consensus       229 ~~~~~~l~~~l~~~d~~~~~~-~~~---~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~le  303 (316)
T PHA02544        229 NSDIDDVVEALKAKDFKAVRA-LAP---NYANDYASFVGKLYDELYP-QVTPPSIIRLIEIIGENNQYHGFAADQEIHLL  303 (316)
T ss_pred             HHHHHHHHHHHHcCCHHHHHH-HHH---HhccCHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHH
Confidence            567888999999888777665 222   4467888999998777766 56788899999999999999999999999999


Q ss_pred             HHHHHHHH
Q 017884          347 SIISTFTQ  354 (364)
Q Consensus       347 ~l~~~l~~  354 (364)
                      +++..+|.
T Consensus       304 ~~l~~~~~  311 (316)
T PHA02544        304 YLLTQLML  311 (316)
T ss_pred             HHHHHHHH
Confidence            99999974

>PRK04132 replication factor C small subunit; Provisional

Probab=100.00  E-value=1.5e-35  Score=291.86  Aligned_cols=275  Identities=39%  Similarity=0.684  Sum_probs=254.8

Q ss_pred             EEEeC--CCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC
Q 017884           77 LLLYG--PPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (364)
Q Consensus        77 lll~G--~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~  154 (364)
                      -+..|  |.+.||||+|+++++.+++.++...++++|+++..+.+.+++.+..++...+. .+.  +++|+||||+|.|+
T Consensus       567 ~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~-~~~--~~KVvIIDEaD~Lt  643 (846)
T PRK04132        567 NFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPI-GGA--SFKIIFLDEADALT  643 (846)
T ss_pred             hhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCc-CCC--CCEEEEEECcccCC
Confidence            35567  77889999999999999888788899999999988999999999988876554 221  47999999999999


Q ss_pred             HHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          155 KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       155 ~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      ..+|++|+++||+|+.+++||++||++.++.++|+|||+.+.|++++.+++...|..++.++|+.++++++..++..++|
T Consensus       644 ~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~~e~L~~Ia~~s~G  723 (846)
T PRK04132        644 QDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG  723 (846)
T ss_pred             HHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc
Q 017884          235 DMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI  314 (364)
Q Consensus       235 ~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~  314 (364)
                      |+|.|++.||.++.....||.++|..+.+......+++++..+..+++..++..+.+++...|.++.+++..++..+...
T Consensus       724 DlR~AIn~Lq~~~~~~~~It~~~V~~~~~~~~~~~I~~il~~~l~~~~~~ar~~l~ell~~~G~~~~~iL~~l~~~l~~~  803 (846)
T PRK04132        724 DMRRAINILQAAAALDDKITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHREVFNL  803 (846)
T ss_pred             CHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCCHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            99999999998877667899999999999988889999999999999999999999988789999999999999999887


Q ss_pred             CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          315 KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       315 ~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                      .+++.....+++.++++++++..|.++.+||++|+++++.
T Consensus       804 ~i~~~~k~~ll~~lae~e~rl~~G~n~~iqL~a~la~~~~  843 (846)
T PRK04132        804 PIDEPKKVELADKIGEYNFRLVEGANEMIQLEALLAQFTL  843 (846)
T ss_pred             CCCHHHHHHHHHHHHHHhHHHHCCCCHHHHHHHHHHHHHh
Confidence            7888899999999999999999999999999999999975

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

Probab=100.00  E-value=6.5e-34  Score=251.47  Aligned_cols=297  Identities=24%  Similarity=0.344  Sum_probs=236.6

Q ss_pred             CChhhccCCCCCcchhccHHHHH---HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~---~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  117 (364)
                      .|++++.||.+++|++||++++.   .|.++++.+..++++||||||+||||+|+.+++..     ...|..+++.. .+
T Consensus        12 ~PLA~rmRP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~-----~~~f~~~sAv~-~g   85 (436)
T COG2256          12 MPLAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT-----NAAFEALSAVT-SG   85 (436)
T ss_pred             cChHHHhCCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh-----CCceEEecccc-cc
Confidence            59999999999999999999995   79999999999999999999999999999999986     56788888776 47


Q ss_pred             hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe--eccccCchhhhccceEE
Q 017884          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTRF  195 (364)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~--~~~~~l~~~l~sr~~~i  195 (364)
                      +.+++..++.......  .   +.+.|++|||+|++++..|+.|+..+|+.  ...+|.+|  |+...+.++|+|||+++
T Consensus        86 vkdlr~i~e~a~~~~~--~---gr~tiLflDEIHRfnK~QQD~lLp~vE~G--~iilIGATTENPsF~ln~ALlSR~~vf  158 (436)
T COG2256          86 VKDLREIIEEARKNRL--L---GRRTILFLDEIHRFNKAQQDALLPHVENG--TIILIGATTENPSFELNPALLSRARVF  158 (436)
T ss_pred             HHHHHHHHHHHHHHHh--c---CCceEEEEehhhhcChhhhhhhhhhhcCC--eEEEEeccCCCCCeeecHHHhhhhhee
Confidence            7888888877644322  1   24789999999999999999999999953  34444444  45568999999999999


Q ss_pred             EecCCChHHHHHHHHHHHH--HcCCC-----CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc---cCchHHHHHhcCC-
Q 017884          196 RFAPLEPVHVTERLKHVIE--AEGLD-----VTEGGLAALVRLCNGDMRKALNILQSTHMASQ---QITEEAVYLCTGN-  264 (364)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~--~~~~~-----i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~---~i~~~~v~~~~~~-  264 (364)
                      .|+|++.+++...+.+-+.  ..++.     +++++.+.|+..++||.|.++|.|+......+   .++.+.+++++.. 
T Consensus       159 ~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~  238 (436)
T COG2256         159 ELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRR  238 (436)
T ss_pred             eeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHhhh
Confidence            9999999999999998443  33444     78999999999999999999999998887553   3447777776533 


Q ss_pred             ---------CChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-hcCCChHHHHHHHHHHHHHHHH
Q 017884          265 ---------PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVF-KIKMPSDVRVRLMNDLADIEYR  334 (364)
Q Consensus       265 ---------~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~-~~~~~~~~~~~i~~~l~~~~~~  334 (364)
                               ..++.+..+.+++.+.|..+++.++.+|+ +.|.+|.-|-+.+..... .+++-+..-..+.....+.-.+
T Consensus       239 ~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi-~~GeDp~yiARRlv~~AsEDIGlAdP~Al~~a~aa~da~~~  317 (436)
T COG2256         239 SARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMI-EAGEDPLYIARRLVRIASEDIGLADPNALQVAVAALDAVER  317 (436)
T ss_pred             hhccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHH-hcCCCHHHHHHHHHHHHHhhccCCChhHHHHHHHHHHHHHH
Confidence                     45677888999999999999999999999 999999999988877665 3454444444444443343333


Q ss_pred             HhcCC-ChHHHHHHHHHHHH
Q 017884          335 LSFGC-NDKLQLGSIISTFT  353 (364)
Q Consensus       335 l~~~~-~~~~~l~~l~~~l~  353 (364)
                        -|. .-++.|-..+..||
T Consensus       318 --lG~PE~~i~LAqavvyLA  335 (436)
T COG2256         318 --LGSPEARIALAQAVVYLA  335 (436)
T ss_pred             --hCCchHHHHHHHHHHHHH
Confidence              343 33666777776665

>PRK04195 replication factor C large subunit; Provisional

Probab=100.00  E-value=1.3e-33  Score=270.12  Aligned_cols=297  Identities=26%  Similarity=0.353  Sum_probs=240.8

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc---CC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE---NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~---~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      .+|++||||.+|++++|++.++..|..|+..   +. .++++|+||||+|||++|+++++++     ...++++++++..
T Consensus         2 ~~W~eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el-----~~~~ielnasd~r   76 (482)
T PRK04195          2 MPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY-----GWEVIELNASDQR   76 (482)
T ss_pred             CCchhhcCCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEcccccc
Confidence            4899999999999999999999999999874   33 4459999999999999999999997     4678899988877


Q ss_pred             ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH----HHHHHHHHHHHHhccCccEEEEeeccccCch-hhhcc
Q 017884          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKYTKNTRFALICNQVNKIIP-ALQSR  191 (364)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~----~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~-~l~sr  191 (364)
                      ..+.+...+.......++ ++.  .+++|+|||+|.+..    ...+.|+++++.  ..+.+|+++|.+..+.. ++++|
T Consensus        77 ~~~~i~~~i~~~~~~~sl-~~~--~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~Lrsr  151 (482)
T PRK04195         77 TADVIERVAGEAATSGSL-FGA--RRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRELRNA  151 (482)
T ss_pred             cHHHHHHHHHHhhccCcc-cCC--CCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhHhcc
Confidence            777777777766655554 432  488999999999976    567889999984  35678899988887776 89999


Q ss_pred             ceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHH
Q 017884          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIE  271 (364)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~  271 (364)
                      |..+.|++|+..++..++..++..+|+.+++++++.|++.++||+|.+++.|+..+...+.++.+++..+.......++|
T Consensus       152 ~~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~~d~~~~if  231 (482)
T PRK04195        152 CLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGRRDREESIF  231 (482)
T ss_pred             ceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhcCCCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999976556789999999888777778999


Q ss_pred             HHHHHHHh-ccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHH---hcCCChHHHHHH
Q 017884          272 QISYWLLN-ESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRL---SFGCNDKLQLGS  347 (364)
Q Consensus       272 ~l~~~l~~-~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l---~~~~~~~~~l~~  347 (364)
                      +++..++. ++...++..+.    ....++..++..+...+...-.+.+.+.++++.+++.|..+   ..+.+  .+|+.
T Consensus       232 ~~l~~i~~~k~~~~a~~~~~----~~~~~~~~i~~~l~en~~~~~~~~~~~~~a~~~ls~ad~~~~~~~~~~~--~~l~~  305 (482)
T PRK04195        232 DALDAVFKARNADQALEASY----DVDEDPDDLIEWIDENIPKEYDDPEDIARAYDALSRADIFLGRVKRTQN--YDLWR  305 (482)
T ss_pred             HHHHHHHCCCCHHHHHHHHH----cccCCHHHHHHHHHhccccccCCHHHHHHHHHHHhHHHHHHHHHHhcCC--cchHH
Confidence            99999987 77776665443    34578888888877776542123467777788887776644   44444  66666


Q ss_pred             HHHHHH
Q 017884          348 IISTFT  353 (364)
Q Consensus       348 l~~~l~  353 (364)
                      +...++
T Consensus       306 ~~~~~m  311 (482)
T PRK04195        306 YASDLM  311 (482)
T ss_pred             HHHHHh
Confidence            665553

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=2.7e-31  Score=241.21  Aligned_cols=278  Identities=18%  Similarity=0.300  Sum_probs=215.6

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC---CCCcEEEEeC--CCCCChHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNA--SDDRGIDVVRQQ  124 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~--~~~~~~~~~~~~  124 (364)
                      +|++++||+.+++.|..++..++.+| ++|+||+|+|||++|+.+++.+.|..   .+.++..+..  ....+.+.+++.
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~   81 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNI   81 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHH
Confidence            58999999999999999999999999 69999999999999999999998853   2344545543  233566788876


Q ss_pred             HHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCChHH
Q 017884          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH  204 (364)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~  204 (364)
                      +... ...|+ .+   +++|+|||++|.|+..++++|++++|+||+++.+|++|+.++++.++++|||+.+.|.++++++
T Consensus        82 ~~~~-~~~p~-~~---~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~  156 (313)
T PRK05564         82 IEEV-NKKPY-EG---DKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEE  156 (313)
T ss_pred             HHHH-hcCcc-cC---CceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHH
Confidence            6554 34443 33   5999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHHhccHHH
Q 017884          205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFAD  284 (364)
Q Consensus       205 ~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~  284 (364)
                      +..|+.+...    .++++.+..++.+++|+++.|...+......       .        ....++++++.+..++...
T Consensus       157 ~~~~l~~~~~----~~~~~~~~~l~~~~~g~~~~a~~~~~~~~~~-------~--------~~~~~~~~~~~l~~~~~~~  217 (313)
T PRK05564        157 IEKFISYKYN----DIKEEEKKSAIAFSDGIPGKVEKFIEDDSLK-------N--------IRNMSLEILKDIKKSNINI  217 (313)
T ss_pred             HHHHHHHHhc----CCCHHHHHHHHHHcCCCHHHHHHHhcccHHH-------H--------HHHHHHHHHHHHHcCCHHH
Confidence            9999986542    5788889999999999999988765322110       0        0124455555555555555


Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHhc--------------------------CCChHHHHHHHHHHHHHHHHHhcC
Q 017884          285 SFKRISEMKMRKGLALVDIVREVTMFVFKI--------------------------KMPSDVRVRLMNDLADIEYRLSFG  338 (364)
Q Consensus       285 ~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~--------------------------~~~~~~~~~i~~~l~~~~~~l~~~  338 (364)
                      ++..+..+. ..+..+..++..+.+++++.                          .++...+..+++.+.++++.++++
T Consensus       218 ~l~~~~~l~-~~~~~~~~~l~~l~~~~rdll~~k~~~~~~~~~~~~~~~~i~~~a~~~s~~~L~~~~~~l~~~~~~l~~n  296 (313)
T PRK05564        218 LLKYENFLI-KYKENWEEILTCILSYIRDSLLYKETGNEELIINIDKIEDIKHISEKFSYKKLNKMIEIINDTRDNLSSN  296 (313)
T ss_pred             HHHHHHHHH-HcCccHHHHHHHHHHHHHHHHHHhccCchhhhcChhHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHc
Confidence            555555544 44444444444444444322                          356667888999999999999999


Q ss_pred             CChHHHHHHHHHHHH
Q 017884          339 CNDKLQLGSIISTFT  353 (364)
Q Consensus       339 ~~~~~~l~~l~~~l~  353 (364)
                      .|+.+.++.++.++.
T Consensus       297 ~n~~l~le~lll~~~  311 (313)
T PRK05564        297 VNPTLVFDSMLIKMQ  311 (313)
T ss_pred             CCccHHHHHHHHhhh
Confidence            999999999999875

>PRK13342 recombination factor protein RarA; Reviewed

Probab=100.00  E-value=4.4e-31  Score=248.16  Aligned_cols=298  Identities=24%  Similarity=0.367  Sum_probs=231.8

Q ss_pred             ChhhccCCCCCcchhccHHHHHH---HHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDT---IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~---l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      ||+++|||.+|++++||++++..   |..++..+..++++|+||||+|||++|+.+++.+     ...+..+++... +.
T Consensus         1 pla~~~RP~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~-----~~~~~~l~a~~~-~~   74 (413)
T PRK13342          1 PLAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT-----DAPFEALSAVTS-GV   74 (413)
T ss_pred             ChhhhhCCCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEecccc-cH
Confidence            89999999999999999999776   9999999988899999999999999999999986     456677776643 55


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe--eccccCchhhhccceEEE
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTRFR  196 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~--~~~~~l~~~l~sr~~~i~  196 (364)
                      +.++..+........  .   +.+++|+|||+|.++...++.|+..+++.  ...+|.++  +....+.+++++||.++.
T Consensus        75 ~~ir~ii~~~~~~~~--~---g~~~vL~IDEi~~l~~~~q~~LL~~le~~--~iilI~att~n~~~~l~~aL~SR~~~~~  147 (413)
T PRK13342         75 KDLREVIEEARQRRS--A---GRRTILFIDEIHRFNKAQQDALLPHVEDG--TITLIGATTENPSFEVNPALLSRAQVFE  147 (413)
T ss_pred             HHHHHHHHHHHHhhh--c---CCceEEEEechhhhCHHHHHHHHHHhhcC--cEEEEEeCCCChhhhccHHHhccceeeE
Confidence            666666555433211  1   14789999999999999999999999862  34444444  234478899999999999


Q ss_pred             ecCCChHHHHHHHHHHHHHc--CC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCC--------
Q 017884          197 FAPLEPVHVTERLKHVIEAE--GL-DVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNP--------  265 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~--~~-~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~--------  265 (364)
                      |++++.+++..++...+...  ++ .+++++++.|++.++||+|.+++.++.+......|+.+++..+++..        
T Consensus       148 ~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~~~~It~~~v~~~~~~~~~~~d~~~  227 (413)
T PRK13342        148 LKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQKRAARYDKDG  227 (413)
T ss_pred             eCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCCHHHHHHHHhhhhhccCCCc
Confidence            99999999999999987653  44 89999999999999999999999999887666689999998877642        


Q ss_pred             --ChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-hcCCChHHHHHHHHHHHHHHHHHhcCCChH
Q 017884          266 --LPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVF-KIKMPSDVRVRLMNDLADIEYRLSFGCNDK  342 (364)
Q Consensus       266 --~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~-~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~  342 (364)
                        ..+.+..+.+++.+.|...++.++..++ ..|+++..|.+.+..... ..++.+.....+.....+.-..+..- .-+
T Consensus       228 ~~~~~~isa~~ks~rgsd~~aal~~l~~~l-~~G~d~~~i~rrl~~~a~edig~a~~~~~~~~~~~~~~~~~~g~p-e~~  305 (413)
T PRK13342        228 DEHYDLISALHKSIRGSDPDAALYYLARML-EAGEDPLFIARRLVIIASEDIGLADPNALQVAVAAADAVERIGMP-EGR  305 (413)
T ss_pred             cHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHhhcccCHHHHHHHHHHHHHHHHhCCc-HHH
Confidence              2234556667777799999999999999 999999999998877774 44555555555554444444443221 336


Q ss_pred             HHHHHHHHHHHH
Q 017884          343 LQLGSIISTFTQ  354 (364)
Q Consensus       343 ~~l~~l~~~l~~  354 (364)
                      +.|...+..+|.
T Consensus       306 ~~l~~~~~~l~~  317 (413)
T PRK13342        306 IALAQAVIYLAL  317 (413)
T ss_pred             HHHHHHHHHHHc
Confidence            666666666663

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

Probab=100.00  E-value=9.6e-31  Score=257.04  Aligned_cols=301  Identities=21%  Similarity=0.272  Sum_probs=228.4

Q ss_pred             CCCChhhccCCCCCcchhccHHHHH---HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~---~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      .+.||.++|||.+|++++||++++.   .|+..+..+..+|++||||||+|||++|+++++...     ..++.+++.. 
T Consensus        14 ~~~PLaek~RP~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~-----~~f~~lna~~-   87 (725)
T PRK13341         14 SEAPLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR-----AHFSSLNAVL-   87 (725)
T ss_pred             ccCChHHhcCCCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc-----Ccceeehhhh-
Confidence            4569999999999999999999985   788899999999999999999999999999999863     3445666553 


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe--eccccCchhhhccce
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCT  193 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~--~~~~~l~~~l~sr~~  193 (364)
                      .+...+++.+......... ++   .+.+++|||+|.++...++.|+..+++.  ...+|.++  +....+.+++.|||.
T Consensus        88 ~~i~dir~~i~~a~~~l~~-~~---~~~IL~IDEIh~Ln~~qQdaLL~~lE~g--~IiLI~aTTenp~~~l~~aL~SR~~  161 (725)
T PRK13341         88 AGVKDLRAEVDRAKERLER-HG---KRTILFIDEVHRFNKAQQDALLPWVENG--TITLIGATTENPYFEVNKALVSRSR  161 (725)
T ss_pred             hhhHHHHHHHHHHHHHhhh-cC---CceEEEEeChhhCCHHHHHHHHHHhcCc--eEEEEEecCCChHhhhhhHhhcccc
Confidence            3444555555544322221 11   4679999999999999999999998852  23333333  233468899999999


Q ss_pred             EEEecCCChHHHHHHHHHHHH-------HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----c--cCchHHHH
Q 017884          194 RFRFAPLEPVHVTERLKHVIE-------AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----Q--QITEEAVY  259 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~-------~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----~--~i~~~~v~  259 (364)
                      ++.|+|++.+++..++...+.       .+++.+++++++.|++.++||+|.+++.|+.+....     +  .||.+.+.
T Consensus       162 v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le~a~~~~~~~~~~~i~It~~~~~  241 (725)
T PRK13341        162 LFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDITLAIAE  241 (725)
T ss_pred             ceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCCCCceeccHHHHH
Confidence            999999999999999999887       467899999999999999999999999999865422     1  26666666


Q ss_pred             Hhc----------CCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-hcCCChHHHHHHHHHH
Q 017884          260 LCT----------GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVF-KIKMPSDVRVRLMNDL  328 (364)
Q Consensus       260 ~~~----------~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~-~~~~~~~~~~~i~~~l  328 (364)
                      +.+          +...++.+..+++++.+.|..+++.++.+++ ..|++|..|.+.+..... ..++.+.....+....
T Consensus       242 e~l~~~~~~ydk~gd~hyd~Isa~~ksirgsD~daAl~~la~ml-~~Gedp~~I~Rrl~~~asEdigladp~al~~~~~~  320 (725)
T PRK13341        242 ESIQQRAVLYDKEGDAHFDTISAFIKSLRGSDPDAALYWLARMV-EAGEDPRFIFRRMLIAASEDVGLADPQALVVVEAC  320 (725)
T ss_pred             HHHHHhhhhcccCCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            543          3457788999999999999999999999999 999999999999988887 3455445555555544


Q ss_pred             HHHHHHHhcCCChHHHHHHHHHHHH
Q 017884          329 ADIEYRLSFGCNDKLQLGSIISTFT  353 (364)
Q Consensus       329 ~~~~~~l~~~~~~~~~l~~l~~~l~  353 (364)
                      ...-..+..- .-++.|...+..+|
T Consensus       321 ~~a~~~~g~p-E~~~~laq~~~~la  344 (725)
T PRK13341        321 AAAFERVGLP-EGLYPLAQAALYLA  344 (725)
T ss_pred             HHHHHHhCCc-chhhHHHHHHHHHH
Confidence            4444444322 22333444444443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.97  E-value=8.2e-28  Score=221.76  Aligned_cols=294  Identities=17%  Similarity=0.246  Sum_probs=205.2

Q ss_pred             CCcchhccHHHHHHHHHHHhcCC---------CCc-EEEeCCCCccHHHHHHHHHHHHcCCC------------------
Q 017884           51 SLADVAAHRDIVDTIDRLTSENR---------LPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------  102 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~---------~~~-lll~G~~G~GKt~la~~l~~~l~~~~------------------  102 (364)
                      .|++++||+++++.|++++..++         .+| +||+||+|+|||++|+.+++.+.|..                  
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~   82 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAG   82 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcC
Confidence            58999999999999999999876         778 89999999999999999999998863                  


Q ss_pred             CCCcEEEEeCC-CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          103 YHNMILELNAS-DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       103 ~~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      .+.++..+... ...+++.+++.+...... +. .   ++++|++|||+|.|++..++.|+++||+|+.++.||++|+.+
T Consensus        83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~-p~-~---~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~  157 (394)
T PRK07940         83 THPDVRVVAPEGLSIGVDEVRELVTIAARR-PS-T---GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSP  157 (394)
T ss_pred             CCCCEEEeccccccCCHHHHHHHHHHHHhC-cc-c---CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECCh
Confidence            12334344332 335677888766554432 22 2   258999999999999999999999999999999999999999


Q ss_pred             ccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH---------Hhccc
Q 017884          182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH---------MASQQ  252 (364)
Q Consensus       182 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~---------~~~~~  252 (364)
                      ..+.++|+|||+.+.|++|+.+++.+|+...   .  .++++.+..++..++|+++.|+..+..-.         .....
T Consensus       158 ~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~---~--~~~~~~a~~la~~s~G~~~~A~~l~~~~~~~~~r~~~~~~l~~  232 (394)
T PRK07940        158 EDVLPTIRSRCRHVALRTPSVEAVAEVLVRR---D--GVDPETARRAARASQGHIGRARRLATDEEARARRAEVLNLALR  232 (394)
T ss_pred             HHChHHHHhhCeEEECCCCCHHHHHHHHHHh---c--CCCHHHHHHHHHHcCCCHHHHHHHhcChHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999742   2  36788899999999999999987653211         00000


Q ss_pred             C-ch---------------HHHHHhcCCCChHHHHHHHHHHH--------------------------h--------ccH
Q 017884          253 I-TE---------------EAVYLCTGNPLPKDIEQISYWLL--------------------------N--------ESF  282 (364)
Q Consensus       253 i-~~---------------~~v~~~~~~~~~~~~~~l~~~l~--------------------------~--------~~~  282 (364)
                      + ..               ..+...++.........+.+.+.                          .        ...
T Consensus       233 l~~~~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  312 (394)
T PRK07940        233 LARVSDAVAAAEELVKAAEAEAKALTAERDEAETEELRTALGAGGTGKGPAKALRGAAGALKDLEKRQKRRATRASRDAL  312 (394)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHhhhccccHHHHHHHHHHhccccccccccccchhHHHHHHHHHHHHhhhchhhhhhhH
Confidence            0 00               11112222222222222222210                          0        011


Q ss_pred             HH----HHHHHHHHHH-hcCCC----HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHH
Q 017884          283 AD----SFKRISEMKM-RKGLA----LVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFT  353 (364)
Q Consensus       283 ~~----~~~~l~~l~~-~~~~~----~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~  353 (364)
                      ..    ...++++++. ..|.+    ..+....+.....  .++...+..+++.+.+....+..+.|+.+.+|.++.++.
T Consensus       313 ~~~l~~l~~~~rDll~~~~g~~~~~~n~d~~~~l~~~a~--~~~~~~l~~~~~~~~~a~~~l~~n~n~~L~lE~lll~l~  390 (394)
T PRK07940        313 DRALVDLAGLYRDVLVVQLGAEVGLINPDMADRLAELAA--RSTPEGLLRRIDAVLACRERLAGNVKPLLAVEAMVAALR  390 (394)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCCccccCHHHHHHHHHHHH--hCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            22    2233333331 11211    1112222222221  357788899999999999999999999999999999997


Q ss_pred             HHH
Q 017884          354 QAR  356 (364)
Q Consensus       354 ~~~  356 (364)
                      .+.
T Consensus       391 ~~~  393 (394)
T PRK07940        391 QAL  393 (394)
T ss_pred             Hhc
Confidence            664

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

Probab=99.97  E-value=9.5e-29  Score=215.24  Aligned_cols=289  Identities=22%  Similarity=0.301  Sum_probs=227.5

Q ss_pred             CCCChhhccCCCCCcchhccHHHHH---HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~---~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ...|+.++.||++++|++||++++.   .|+..+++++.|.++||||||+|||++|+.++..-.  .....++++++.. 
T Consensus       124 qh~PLaermRPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk--~~SyrfvelSAt~-  200 (554)
T KOG2028|consen  124 QHKPLAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSK--KHSYRFVELSATN-  200 (554)
T ss_pred             ccCChhhhcCcchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcC--CCceEEEEEeccc-
Confidence            4679999999999999999999987   689999999999999999999999999999998742  3345678887766 


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe--eccccCchhhhccce
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCT  193 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~--~~~~~l~~~l~sr~~  193 (364)
                      .+..++++.+++......+  ..  .+.|++|||+|++.+..|+.|+..+|..  ...+|-+|  |....+..+|.|||.
T Consensus       201 a~t~dvR~ife~aq~~~~l--~k--rkTilFiDEiHRFNksQQD~fLP~VE~G--~I~lIGATTENPSFqln~aLlSRC~  274 (554)
T KOG2028|consen  201 AKTNDVRDIFEQAQNEKSL--TK--RKTILFIDEIHRFNKSQQDTFLPHVENG--DITLIGATTENPSFQLNAALLSRCR  274 (554)
T ss_pred             cchHHHHHHHHHHHHHHhh--hc--ceeEEEeHHhhhhhhhhhhcccceeccC--ceEEEecccCCCccchhHHHHhccc
Confidence            3567788877776554443  22  5789999999999999999999998853  34445444  455688999999999


Q ss_pred             EEEecCCChHHHHHHHHHHHH------Hc-------CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH----hcc-----
Q 017884          194 RFRFAPLEPVHVTERLKHVIE------AE-------GLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQ-----  251 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~------~~-------~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~----~~~-----  251 (364)
                      ++.+.+++.+.+..+|.+-..      +.       .+.+++.++++++..+.||.|.++|.|+....    ..+     
T Consensus       275 VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~~tr~g~~~~~  354 (554)
T KOG2028|consen  275 VFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMFCTRSGQSSRV  354 (554)
T ss_pred             eeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhcCCcccc
Confidence            999999999999999887443      11       12477889999999999999999999986622    122     


Q ss_pred             cCchHHHHHhc----------CCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-hcCCChHH
Q 017884          252 QITEEAVYLCT----------GNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVF-KIKMPSDV  320 (364)
Q Consensus       252 ~i~~~~v~~~~----------~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~-~~~~~~~~  320 (364)
                      .++.++|++.+          +...++.+..+.+.+.++|..+++.|+.+|+ +.|++|..+-+.+.+... .+++.+..
T Consensus       355 ~lSidDvke~lq~s~~~YDr~Ge~HYntISA~HKSmRG~D~nAslY~LaRML-egGEdPLYVARRlvR~ASEDIGlaD~S  433 (554)
T KOG2028|consen  355 LLSIDDVKEGLQRSHILYDRAGEEHYNTISALHKSMRGSDQNASLYWLARML-EGGEDPLYVARRLVRFASEDIGLADPS  433 (554)
T ss_pred             eecHHHHHHHHhhccceecccchhHHHHHHHHHHhhcCCccchHHHHHHHHH-ccCCCcHHHHHHHHHHhhcccCcCCch
Confidence            78889988765          3446678999999999999999999999999 999999999999888875 34554444


Q ss_pred             HHHHHHHHHHHHHHHhcCC
Q 017884          321 RVRLMNDLADIEYRLSFGC  339 (364)
Q Consensus       321 ~~~i~~~l~~~~~~l~~~~  339 (364)
                      ....  ..+-.+.-...|.
T Consensus       434 ~L~~--Avaa~qav~~vGm  450 (554)
T KOG2028|consen  434 ALTQ--AVAAYQAVHFVGM  450 (554)
T ss_pred             hhHH--HHHHHHHHHHhCC
Confidence            4333  3333443444444

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

Probab=99.97  E-value=1.2e-29  Score=210.86  Aligned_cols=198  Identities=18%  Similarity=0.267  Sum_probs=143.8

Q ss_pred             CCCCCCChhhccCCCCCcchhccHHHHHHHHHHHh-----cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~-----~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      ..+.+.++.+++||.+|+|++||++++..++-+++     +...+|++||||||+||||+|+.+++++     ...+...
T Consensus         7 ~~~~~~~l~~~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~-----~~~~~~~   81 (233)
T PF05496_consen    7 EQEEEAPLAERLRPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL-----GVNFKIT   81 (233)
T ss_dssp             -----S-HHHHTS-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC-----T--EEEE
T ss_pred             cCCcchhhHHhcCCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc-----CCCeEec
Confidence            34567889999999999999999999998876654     3457889999999999999999999997     4556667


Q ss_pred             eCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------cCc
Q 017884          111 NASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNT  172 (364)
Q Consensus       111 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~------------------~~~  172 (364)
                      +++......++...+...        .   .+.|++|||+|++++..++.|+.+||...                  +..
T Consensus        82 sg~~i~k~~dl~~il~~l--------~---~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F  150 (233)
T PF05496_consen   82 SGPAIEKAGDLAAILTNL--------K---EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF  150 (233)
T ss_dssp             ECCC--SCHHHHHHHHT-------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----
T ss_pred             cchhhhhHHHHHHHHHhc--------C---CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc
Confidence            765544444544443322        1   36799999999999999999999999742                  123


Q ss_pred             cEEEEeeccccCchhhhccceE-EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          173 RFALICNQVNKIIPALQSRCTR-FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                      .+|.+|+....+.+++++|+-+ .++..++.+++.+++.+-+...++.++++++.+|+..|.|++|-|.++|+.+..+
T Consensus       151 TligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rvrD~  228 (233)
T PF05496_consen  151 TLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPRIANRLLRRVRDF  228 (233)
T ss_dssp             EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHHHHHHHHHHHCCC
T ss_pred             eEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            4566777888999999999955 5899999999999999999999999999999999999999999999999987644

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

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.97  E-value=7.3e-28  Score=216.48  Aligned_cols=273  Identities=18%  Similarity=0.282  Sum_probs=195.2

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------CCCcEEEEeCC---
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------YHNMILELNAS---  113 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------~~~~~~~~~~~---  113 (364)
                      .|++++||+.++..|...+..++.+| +||+||+|+||+++|.++++.+.|.+             .++++..+...   
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~   81 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH   81 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc
Confidence            48899999999999999999999888 89999999999999999999998864             12233333221   


Q ss_pred             --------------------CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCcc
Q 017884          114 --------------------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTR  173 (364)
Q Consensus       114 --------------------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~  173 (364)
                                          ...+++.+++ +.++....|+ .+   +++|+|||++|.|+..++++|+++||+|| ++.
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~id~ir~-i~~~l~~~p~-~~---~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~  155 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIRLEQIRE-IKRFLSRPPL-EA---PRKVVVIEDAETMNEAAANALLKTLEEPG-NGT  155 (314)
T ss_pred             cccccchhhhhhccccccccccCcHHHHHH-HHHHHccCcc-cC---CceEEEEEchhhcCHHHHHHHHHHHhCCC-CCe
Confidence                                0123456665 4555555554 33   59999999999999999999999999999 889


Q ss_pred             EEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccC
Q 017884          174 FALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQI  253 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i  253 (364)
                      ||++++.++++.++|+|||+.+.|++++.+++.++|......++..   .....++..++|+++.|++.++....    +
T Consensus       156 fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~~---~~~~~l~~~a~Gs~~~al~~l~~~~~----~  228 (314)
T PRK07399        156 LILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEILN---INFPELLALAQGSPGAAIANIEQLQS----I  228 (314)
T ss_pred             EEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccch---hHHHHHHHHcCCCHHHHHHHHHHHHH----H
Confidence            9999999999999999999999999999999999999875433222   22467889999999999998865431    1


Q ss_pred             chHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLA-LVDIVREVTMFVFKIKMPSDVRVRLMNDLADIE  332 (364)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~-~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~  332 (364)
                      ..+.+..+..             +. .+...++.+-..+....+.. -.-++.-+...++.    ......+++.+.+..
T Consensus       229 ~~~~~~~~~~-------------~~-~~~~~~~~~a~~~~~~~~~e~Q~~~l~~~~~~~~~----~~~~~~~~~~l~~a~  290 (314)
T PRK07399        229 PPELLQKLEQ-------------PP-KSPLEALELAKDISEELDIEQQLWLIDYLQQHYWQ----KTKNRQLLKQLEKLR  290 (314)
T ss_pred             HHHHHHHHHh-------------cc-cCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH----hhcchHHHHHHHHHH
Confidence            2222222211             11 12222332222221011111 11222222233333    112578899999999


Q ss_pred             HHHhcCCChHHHHHHHHHHHHH
Q 017884          333 YRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       333 ~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                      +.+..+.|+++.++.++.+++.
T Consensus       291 ~~l~~nvn~~lv~e~~~l~l~~  312 (314)
T PRK07399        291 KQLLSYVQPRLAWEVTLLELSQ  312 (314)
T ss_pred             HHHHHcCCcchhHHHHHHHHhc
Confidence            9999999999999999998864

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=4.9e-27  Score=213.87  Aligned_cols=291  Identities=20%  Similarity=0.299  Sum_probs=207.6

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------------
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------------  102 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------------  102 (364)
                      +.|..+++++||+++...|...+..++.+| ++|+||+|+|||++|+.+++.+.|..                       
T Consensus        17 ~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~   96 (351)
T PRK09112         17 PSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIA   96 (351)
T ss_pred             CCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHH
Confidence            689999999999999999999999999999 89999999999999999999998821                       


Q ss_pred             --CCCcEEEEeCC---------CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccC
Q 017884          103 --YHNMILELNAS---------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN  171 (364)
Q Consensus       103 --~~~~~~~~~~~---------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~  171 (364)
                        .+.++..+...         ...+++.++.... +....+.    .++++|+||||+|.|+..++++|++.+|+|+.+
T Consensus        97 ~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~-~l~~~~~----~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~  171 (351)
T PRK09112         97 QGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGH-FLSQTSG----DGNWRIVIIDPADDMNRNAANAILKTLEEPPAR  171 (351)
T ss_pred             cCCCCCEEEeecccccccccccccCCHHHHHHHHH-Hhhhccc----cCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence              01223333321         1234567775443 3333222    236899999999999999999999999999999


Q ss_pred             ccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc
Q 017884          172 TRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ  251 (364)
Q Consensus       172 ~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~  251 (364)
                      +.||++++.+.++.++++|||+.+.|+|++.+++.+|+.......+  ++++.+..+++.++|++|.|+++++.....  
T Consensus       172 ~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~--~~~~~~~~i~~~s~G~pr~Al~ll~~~~~~--  247 (351)
T PRK09112        172 ALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG--SDGEITEALLQRSKGSVRKALLLLNYGGLE--  247 (351)
T ss_pred             ceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC--CCHHHHHHHHHHcCCCHHHHHHHHhcCcHH--
Confidence            9999999999999999999999999999999999999998644333  778999999999999999999998653321  


Q ss_pred             cCchHHHHHhcC--CCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHH
Q 017884          252 QITEEAVYLCTG--NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLA  329 (364)
Q Consensus       252 ~i~~~~v~~~~~--~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~  329 (364)
                       +. ..+...+.  .........+.+.+.+.+....+.++..++       .+.+....+..-..+ +...-..+.+...
T Consensus       248 -~~-~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~~~~~~~~l-------~d~l~~~~~~~~~~g-~~~~~~~~~~~~~  317 (351)
T PRK09112        248 -II-ATIDQLLAGSGPDARKAHKLADALSGRESEVQFDFFRDHL-------LDRIMAEARRAAEAG-DLALAERLARLWS  317 (351)
T ss_pred             -HH-HHHHHHHhhccCCcchHHHHHHHHhCCChHHHHHHHHHHH-------HHHHHHHHHhhcccC-chhhHHHHHHHHH
Confidence             11 12222222  222234567777777777666677766665       334444333321111 1111123444444


Q ss_pred             HHHHHHhcC----CChHHHHHHHHHHHHHHH
Q 017884          330 DIEYRLSFG----CNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       330 ~~~~~l~~~----~~~~~~l~~l~~~l~~~~  356 (364)
                      ++......+    -+++..+..++.++..++
T Consensus       318 ~~~~~~~~~~~~nld~~~~~~~~~~~~~~~~  348 (351)
T PRK09112        318 EIIEEIVEAEAYNLDRKQTVISLLEKLHRAF  348 (351)
T ss_pred             HHHHHHhhhhhhCcCHHHHHHHHHHHHHHHH
Confidence            444444433    467777777777776654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=5.5e-27  Score=212.39  Aligned_cols=285  Identities=22%  Similarity=0.272  Sum_probs=202.2

Q ss_pred             HHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------------CCCcEEEEeCC---CC
Q 017884           59 RDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNAS---DD  115 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~~~---~~  115 (364)
                      ....+.|.+.+..++.+| ++|+||+|+||+++|.++++.+.|..                   .++++..+...   ..
T Consensus         8 ~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~   87 (334)
T PRK07993          8 RPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSS   87 (334)
T ss_pred             hHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccccccc
Confidence            367888999999999999 79999999999999999999998852                   23455555433   24


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEE
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i  195 (364)
                      .+++.+++....+..+..     .+++||+|||++|.|+..+.|+|+++||+||+++.||++|++++++.++|+|||+.+
T Consensus        88 I~idqiR~l~~~~~~~~~-----~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~  162 (334)
T PRK07993         88 LGVDAVREVTEKLYEHAR-----LGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLH  162 (334)
T ss_pred             CCHHHHHHHHHHHhhccc-----cCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccc
Confidence            678899986666554322     236999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHH
Q 017884          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISY  275 (364)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~  275 (364)
                      .|++++.+++..||...     ..++++.+..++..++|++..|+..++.-......--...+......   .+...+..
T Consensus       163 ~~~~~~~~~~~~~L~~~-----~~~~~~~a~~~~~la~G~~~~Al~l~~~~~~~~r~~~~~~l~~~~~~---~~~~~~~~  234 (334)
T PRK07993        163 YLAPPPEQYALTWLSRE-----VTMSQDALLAALRLSAGAPGAALALLQPERWQQREALCQALAYALPS---GDWLSLLP  234 (334)
T ss_pred             cCCCCCHHHHHHHHHHc-----cCCCHHHHHHHHHHcCCCHHHHHHHhcCchHHHHHHHHHHHHHHhcC---CCHHHHHH
Confidence            99999999999999752     24677778888999999999999887532211100000111111111   12222333


Q ss_pred             HHHhccHHHHHHHH----HHHHH-hcCCCH---HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhc--CCChHHHH
Q 017884          276 WLLNESFADSFKRI----SEMKM-RKGLAL---VDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSF--GCNDKLQL  345 (364)
Q Consensus       276 ~l~~~~~~~~~~~l----~~l~~-~~~~~~---~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~--~~~~~~~l  345 (364)
                      .+.+.+....+.++    .+++. ..|...   .+....+ ..+.. .++...+..+++.+.+....+..  +.|.++.+
T Consensus       235 ~~~~~~~~~~L~~l~~~~rD~l~~~~~~~~~~n~d~~~~i-~~~a~-~~~~~~l~~~~~~l~~~~~~l~~~~N~N~~L~l  312 (334)
T PRK07993        235 ALNHEQAPARLHWLATLLMDALKRQHGAAYVTNQDQPPLV-AQLAN-HLSPARLQAILGDVCHCREQLLSVTGVNRELLL  312 (334)
T ss_pred             HHcccCHHHHHHHHHHHHHHHHHHhcCCcceeCHHHHHHH-HHHHH-hCCHHHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            33333333333333    33221 222111   1111111 12222 45788888999999999999985  78999999


Q ss_pred             HHHHHHHHHHHHH
Q 017884          346 GSIISTFTQARSA  358 (364)
Q Consensus       346 ~~l~~~l~~~~~~  358 (364)
                      +.++.++..++..
T Consensus       313 e~lll~~~~~~~~  325 (334)
T PRK07993        313 TDLLLRIEHYLQP  325 (334)
T ss_pred             HHHHHHHHHHHcc
Confidence            9999999877643

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=2.7e-27  Score=215.44  Aligned_cols=289  Identities=19%  Similarity=0.274  Sum_probs=199.0

Q ss_pred             CCcchhc-cHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC-------------------CCcEEE
Q 017884           51 SLADVAA-HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILE  109 (364)
Q Consensus        51 ~~~~~vg-~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~  109 (364)
                      .|+.++| |+.+++.|...+..++.+| ++|+||+|+||+++|+.+++.+.|...                   +.++..
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~   82 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHL   82 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEE
Confidence            4788999 9999999999999999999 699999999999999999999988641                   223333


Q ss_pred             EeC-CCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhh
Q 017884          110 LNA-SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPAL  188 (364)
Q Consensus       110 ~~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l  188 (364)
                      +.. ....+++.+++.+..+... ++ .+   +++|+||||+|.|+..++++|+++||+||.++.||++++.+.++.++|
T Consensus        83 i~~~~~~i~id~ir~l~~~~~~~-~~-~~---~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TI  157 (329)
T PRK08058         83 VAPDGQSIKKDQIRYLKEEFSKS-GV-ES---NKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTI  157 (329)
T ss_pred             eccccccCCHHHHHHHHHHHhhC-Cc-cc---CceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHH
Confidence            322 2234667888776655443 32 33   589999999999999999999999999999999999999999999999


Q ss_pred             hccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChH
Q 017884          189 QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPK  268 (364)
Q Consensus       189 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~  268 (364)
                      +|||++++|.+++.+++.+++..    +|  ++++....++..+ |+++.|+..++........-....+...+......
T Consensus       158 rSRc~~i~~~~~~~~~~~~~L~~----~g--i~~~~~~~l~~~~-g~~~~A~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (329)
T PRK08058        158 LSRCQVVEFRPLPPESLIQRLQE----EG--ISESLATLLAGLT-NSVEEALALSEDDWFAQARALVIKLYEALHEKDLQ  230 (329)
T ss_pred             HhhceeeeCCCCCHHHHHHHHHH----cC--CChHHHHHHHHHc-CCHHHHHHHhcCchHHHHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999888864    34  6667666777664 78999998775322111000000111111111111


Q ss_pred             HHHHHHHHHHh----cc-HHHHH----HHHHHHHH-hcCCCH----HHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH
Q 017884          269 DIEQISYWLLN----ES-FADSF----KRISEMKM-RKGLAL----VDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYR  334 (364)
Q Consensus       269 ~~~~l~~~l~~----~~-~~~~~----~~l~~l~~-~~~~~~----~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~  334 (364)
                      .+..+.+.+..    ++ ....+    .++++++. ..|...    .+....+ ..+.. .++...+..+++.+.++...
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~rD~l~~~~~~~~~~~n~d~~~~l-~~~a~-~~s~~~l~~~~~~~~~~~~~  308 (329)
T PRK08058        231 SFVFVQEKWMPLFKEKDQQQLGLDLLLLIYRDLLYLQLGEEDRLVFREQKEML-QQLAL-SYSQQQIVAALELILEAKRR  308 (329)
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHhcCCcccccCHHHHHHH-HHHHH-hCCHHHHHHHHHHHHHHHHH
Confidence            22222221211    11 11112    23333331 222111    1111111 22222 45788899999999999999


Q ss_pred             HhcCCChHHHHHHHHHHHH
Q 017884          335 LSFGCNDKLQLGSIISTFT  353 (364)
Q Consensus       335 l~~~~~~~~~l~~l~~~l~  353 (364)
                      +..+.|+.+.++.++.++.
T Consensus       309 l~~n~n~~L~le~lll~~~  327 (329)
T PRK08058        309 LNSNVNFQLVMEQLVLRLQ  327 (329)
T ss_pred             HHHcCCHHHHHHHHHHhcc
Confidence            9999999999999998874

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=2.4e-26  Score=210.43  Aligned_cols=294  Identities=21%  Similarity=0.303  Sum_probs=200.3

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC----------------------
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------------  103 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~----------------------  103 (364)
                      .+|.++++++||+.+++.|.+.+..++.+| +||+||+|+||+++|.++++.++|...                      
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c   92 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVA   92 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHH
Confidence            699999999999999999999999999999 899999999999999999999987542                      


Q ss_pred             -------CCcEEEEeCC---------CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHH
Q 017884          104 -------HNMILELNAS---------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK  167 (364)
Q Consensus       104 -------~~~~~~~~~~---------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~  167 (364)
                             +.++..+...         ....++.+++....+. ..+.    .++++|++|||+|.|+...+++|++++++
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~-~~~~----~~~~kVviIDead~m~~~aanaLLK~LEe  167 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFG-LTAA----EGGWRVVIVDTADEMNANAANALLKVLEE  167 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhC-cCcc----cCCCEEEEEechHhcCHHHHHHHHHHHhc
Confidence                   1223333321         1234667776554433 2221    23689999999999999999999999999


Q ss_pred             hccCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017884          168 YTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       168 ~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                      ++.++.||++|+.+..+.++++|||+.+.|++++.+++.+++...    +...+++.+..++..++|+++.++.+++.-.
T Consensus       168 pp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~----~~~~~~~~~~~l~~~s~Gsp~~Al~ll~~~~  243 (365)
T PRK07471        168 PPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAA----GPDLPDDPRAALAALAEGSVGRALRLAGGDG  243 (365)
T ss_pred             CCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHh----cccCCHHHHHHHHHHcCCCHHHHHHHhcccc
Confidence            999999999999999999999999999999999999999999875    3344566668899999999999999885322


Q ss_pred             HhcccCchHHHHHhcC---CCChHHHHHHHHHHHhcc----HHHHHHHHHHHHH---hcCCC---HHHH----HHHHHHH
Q 017884          248 MASQQITEEAVYLCTG---NPLPKDIEQISYWLLNES----FADSFKRISEMKM---RKGLA---LVDI----VREVTMF  310 (364)
Q Consensus       248 ~~~~~i~~~~v~~~~~---~~~~~~~~~l~~~l~~~~----~~~~~~~l~~l~~---~~~~~---~~~i----~~~l~~~  310 (364)
                      ..   .. +.+...+.   ......+..+.+.+...+    +...+.++..++.   ..+..   ....    ...+.. 
T Consensus       244 ~~---~~-~~~~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~l~d~~~~~~~~~~~~~~~~~~~~~l~~-  318 (365)
T PRK07471        244 LA---LY-RRLTALLDTLPRLDRRALHALADAAAGRDRAARFALFLDLLDRWLARLARAGARGAPPPEAVPGEAALLAR-  318 (365)
T ss_pred             hH---HH-HHHHHHHhccccCCHHHHHHHHHHHHccChHHHHHHHHHHHHHHHHHHHHhhccCCCCccccchhhHHHHh-
Confidence            11   11 11112111   222333456666666555    4334444444431   11110   1101    111111 


Q ss_pred             HHhcCCChHHHHHHHHHHHHHHHHHh-cCCChHHHHHHHHHHHHHH
Q 017884          311 VFKIKMPSDVRVRLMNDLADIEYRLS-FGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       311 ~~~~~~~~~~~~~i~~~l~~~~~~l~-~~~~~~~~l~~l~~~l~~~  355 (364)
                      +.. ......+.+..+.+...-.... .+-|.++.++.++..+..+
T Consensus       319 ~~~-~~~~~~~~~~~~~l~~~~~~~~~~~Ln~~l~~~~~l~~~~~~  363 (365)
T PRK07471        319 LAP-DARLRRWAEVWEKIGRRARRTEAVNLDRKALVLDVFGLLAEA  363 (365)
T ss_pred             hcc-chhHHHHHHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHh
Confidence            110 1123334444444444443333 4679999999999888654

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=2.7e-26  Score=207.34  Aligned_cols=281  Identities=20%  Similarity=0.269  Sum_probs=198.2

Q ss_pred             HHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------------CCCcEEEEeCC---CCCChHH
Q 017884           64 TIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNAS---DDRGIDV  120 (364)
Q Consensus        64 ~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~~~---~~~~~~~  120 (364)
                      ...+++..++.+| ++|+||+|+||+++|+.+++.+.|..                   .++++..+...   ...+++.
T Consensus        11 ~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~   90 (328)
T PRK05707         11 LWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQ   90 (328)
T ss_pred             HHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHH
Confidence            3444566788899 89999999999999999999999853                   23345555432   3467889


Q ss_pred             HHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCC
Q 017884          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL  200 (364)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~  200 (364)
                      +++.+..+..+ +.    .++++|+|||++|.|+..++++|+++||+||.++.||++|+.+..+.++|+|||+.+.|+++
T Consensus        91 iR~l~~~~~~~-~~----~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~  165 (328)
T PRK05707         91 VRELVSFVVQT-AQ----LGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLP  165 (328)
T ss_pred             HHHHHHHHhhc-cc----cCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCc
Confidence            99866555443 22    22689999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHHhc
Q 017884          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNE  280 (364)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~  280 (364)
                      +.+++.+|+....    ...+++.+..++..++|++..|+..++........--.+.+..+...  ......+.+.+.+.
T Consensus       166 ~~~~~~~~L~~~~----~~~~~~~~~~~l~la~Gsp~~A~~l~~~~~~~~r~~~~~~l~~~~~~--~~~~~~~~~~~~k~  239 (328)
T PRK05707        166 SNEESLQWLQQAL----PESDERERIELLTLAGGSPLRALQLHEQGVREQRARVLDGVKKLLKQ--QQSASQLAESWLKV  239 (328)
T ss_pred             CHHHHHHHHHHhc----ccCChHHHHHHHHHcCCCHHHHHHHHCcchHHHHHHHHHHHHHHhcC--cccHHHHHHHHccC
Confidence            9999999998643    13456677788899999999999876432211111111122222221  11344555555444


Q ss_pred             cHHHHHHHHH----HHHH-hcCCC-----HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHh--cCCChHHHHHHH
Q 017884          281 SFADSFKRIS----EMKM-RKGLA-----LVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLS--FGCNDKLQLGSI  348 (364)
Q Consensus       281 ~~~~~~~~l~----~l~~-~~~~~-----~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~--~~~~~~~~l~~l  348 (364)
                      +....+.++.    +++. ..+..     ..+....+.... . .++...+..+++.+.++...+.  .+.|..+.++.+
T Consensus       240 ~~~~~l~~l~~~~~D~l~~~~~~~~~~~~n~d~~~~l~~~a-~-~~~~~~L~~~~~~l~~~~~~l~~~~NvN~~L~le~l  317 (328)
T PRK05707        240 PLLLLFDWFCDWAHDILRYQLTQDEEGLGLADMRKVLQYLA-Q-KSPQAKVLALQDWLLEQRQKVLGKANLNRQLLLEAL  317 (328)
T ss_pred             CHHHHHHHHHHHHHHHHHHHcCCCcccccCHHHHHHHHHHH-H-hCCHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHH
Confidence            5444444433    3321 22211     122233332222 2 4578889999999999999885  678999999999


Q ss_pred             HHHHHHHHH
Q 017884          349 ISTFTQARS  357 (364)
Q Consensus       349 ~~~l~~~~~  357 (364)
                      +.++...++
T Consensus       318 ll~~~~~~~  326 (328)
T PRK05707        318 LVQWAGLPG  326 (328)
T ss_pred             HHHHHHHhc
Confidence            999977654

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=5.3e-26  Score=203.75  Aligned_cols=280  Identities=18%  Similarity=0.196  Sum_probs=194.7

Q ss_pred             HHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------------CCCcEEEEeC--CCCC
Q 017884           59 RDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNA--SDDR  116 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~~--~~~~  116 (364)
                      ....+.|.+.+..++.+| ++|+||+|+||+++|+.+++.+.|..                   .++++..+..  ....
T Consensus         8 ~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I   87 (325)
T PRK06871          8 QPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDI   87 (325)
T ss_pred             HHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCC
Confidence            367888999999999999 79999999999999999999999853                   2344555543  2346


Q ss_pred             ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEE
Q 017884          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR  196 (364)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~  196 (364)
                      +++.+++........ +.    .+++||+|||++|.|+..++|+|+++||+||+++.||++|+.+.++.++++|||+.+.
T Consensus        88 ~id~iR~l~~~~~~~-~~----~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~  162 (325)
T PRK06871         88 GVDQVREINEKVSQH-AQ----QGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWL  162 (325)
T ss_pred             CHHHHHHHHHHHhhc-cc----cCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEe
Confidence            788888865554433 22    2368999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHH
Q 017884          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYW  276 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~  276 (364)
                      |.+++.+++.+||....     ..+...+..++..++|.+..|+..++........   +.+..........+...+...
T Consensus       163 ~~~~~~~~~~~~L~~~~-----~~~~~~~~~~~~l~~g~p~~A~~~~~~~~~~~r~---~~~~~l~~~~~~~~~~~~~~~  234 (325)
T PRK06871        163 IHPPEEQQALDWLQAQS-----SAEISEILTALRINYGRPLLALTFLEQGLLEQRK---TFLRQFWLFYRRRSPLELLPL  234 (325)
T ss_pred             CCCCCHHHHHHHHHHHh-----ccChHHHHHHHHHcCCCHHHHHHHhhCChHHHHH---HHHHHHHHHhccCCHHHHHHH
Confidence            99999999999998753     2344456777889999999998877432211110   111111100001122333333


Q ss_pred             HHhccHHHHH----HHHHHHHH-hcCCC----HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcC--CChHHHH
Q 017884          277 LLNESFADSF----KRISEMKM-RKGLA----LVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFG--CNDKLQL  345 (364)
Q Consensus       277 l~~~~~~~~~----~~l~~l~~-~~~~~----~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~--~~~~~~l  345 (364)
                      +.+.+....+    .++.+++. ..|..    ..+....+.....  +++...+..+++.+.++..++..+  .|..+.|
T Consensus       235 ~~k~~~~~~l~~l~~~~rD~l~~~~~~~~~~~n~D~~~~i~~~a~--~~s~~~L~~~i~~i~~~r~~L~~~~~iN~~L~l  312 (325)
T PRK06871        235 FDKELVLQQLDWLLAFLSDALKAKLDIASGWICQDLQRGILQFSQ--QQSAQGLLKAHQIIQKVRSDLLQINAVNQELIL  312 (325)
T ss_pred             HhhccHHHHHHHHHHHHHHHHHHHcCCCcccccHhHHHHHHHHHH--hCCHHHHHHHHHHHHHHHHHHHcccccCHHHHH
Confidence            3322333222    33344331 22221    1222222222222  568889999999999999999655  5888888


Q ss_pred             HHHHHHHH
Q 017884          346 GSIISTFT  353 (364)
Q Consensus       346 ~~l~~~l~  353 (364)
                      +..+..+.
T Consensus       313 ~~~l~~~~  320 (325)
T PRK06871        313 LDGLTRLV  320 (325)
T ss_pred             HHHHHHHH
Confidence            88877653

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.95  E-value=2.7e-25  Score=198.98  Aligned_cols=276  Identities=18%  Similarity=0.226  Sum_probs=193.6

Q ss_pred             cHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC----------------CCcEEEEe--CC-----
Q 017884           58 HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY----------------HNMILELN--AS-----  113 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~----------------~~~~~~~~--~~-----  113 (364)
                      +....+.|...+..++.|| ++|+||+|+||+++|.++++.+.|.+.                +.++..+.  ..     
T Consensus         9 ~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k   88 (319)
T PRK08769          9 QQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDK   88 (319)
T ss_pred             HHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCccccc
Confidence            4578889999999999999 899999999999999999999988641                23344442  21     


Q ss_pred             --CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhcc
Q 017884          114 --DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR  191 (364)
Q Consensus       114 --~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr  191 (364)
                        ...+++.+++.......+ +.    .++++|+|||++|.|+..+.|+|+++||+||.++.||++++.++++.++|+||
T Consensus        89 ~~~~I~idqIR~l~~~~~~~-p~----~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR  163 (319)
T PRK08769         89 LRTEIVIEQVREISQKLALT-PQ----YGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR  163 (319)
T ss_pred             ccccccHHHHHHHHHHHhhC-cc----cCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence              123466777655444332 22    22589999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHHHHhcCCCChHHH
Q 017884          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAVYLCTGNPLPKDI  270 (364)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~~~~~~~~~~~~  270 (364)
                      |+.+.|.+|+.+++.+||...    +  ++++.+..++..++|++..|+..++...... ..+ ...+..+..  ...++
T Consensus       164 Cq~i~~~~~~~~~~~~~L~~~----~--~~~~~a~~~~~l~~G~p~~A~~~~~~~~~~~r~~~-~~~l~~~~~--~~~~~  234 (319)
T PRK08769        164 CQRLEFKLPPAHEALAWLLAQ----G--VSERAAQEALDAARGHPGLAAQWLREDGLALRRAV-AQDLEQIAS--GRAGA  234 (319)
T ss_pred             heEeeCCCcCHHHHHHHHHHc----C--CChHHHHHHHHHcCCCHHHHHHHhcCchHHHHHHH-HHHHHHhcc--CcccH
Confidence            999999999999999999752    3  5666677789999999999988774322111 111 122222111  11234


Q ss_pred             HHHHHHHHhcc-HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHH
Q 017884          271 EQISYWLLNES-FADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSII  349 (364)
Q Consensus       271 ~~l~~~l~~~~-~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~  349 (364)
                      ..+.+.+.+.+ ....+.++.+++. ......         ... .-....+..+...+.+....+.++.|.++.+|.++
T Consensus       235 ~~~a~~~~~~~~~~~l~~~~~Dll~-~~~~~~---------~~~-~~~~~~L~~~~~~l~~~~~~~~~~lN~~L~le~ll  303 (319)
T PRK08769        235 VDVAQRWTNDGQADQRLRHAADLAL-AQASAG---------LTD-PSRLHKLATWFDAANRTRDLLRTTVRADLAVTELL  303 (319)
T ss_pred             HHHHHHHccCCcHHHHHHHHHHHHH-HhcCCc---------ccC-hhhHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHH
Confidence            55555555433 2223344444441 111000         000 00344566667777777778888999999999999


Q ss_pred             HHHHHHHHH
Q 017884          350 STFTQARSA  358 (364)
Q Consensus       350 ~~l~~~~~~  358 (364)
                      ..+..++..
T Consensus       304 l~~~~~~~~  312 (319)
T PRK08769        304 LAWREGERQ  312 (319)
T ss_pred             HHHHHHhcc
Confidence            999876543

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.95  E-value=1.2e-25  Score=206.37  Aligned_cols=290  Identities=32%  Similarity=0.502  Sum_probs=211.7

Q ss_pred             cchhccHHHHHHHHHHHh-cCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------------CCCcEEEEe
Q 017884           53 ADVAAHRDIVDTIDRLTS-ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELN  111 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~-~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~  111 (364)
                      +++++++.....+..+.. .++.|| ++|+||||+|||++|.++++.+.|..                   .+.++++++
T Consensus         1 ~~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~   80 (325)
T COG0470           1 DELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELN   80 (325)
T ss_pred             CCcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEec
Confidence            357888888888888877 677999 99999999999999999999999876                   457899999


Q ss_pred             CCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhcc
Q 017884          112 ASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR  191 (364)
Q Consensus       112 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr  191 (364)
                      +++....+...+.+..+...... .+..++.+||+|||+|.|+.+++++|++++++|+.+++||++||.+.++.++|+||
T Consensus        81 ~s~~~~~~i~~~~vr~~~~~~~~-~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SR  159 (325)
T COG0470          81 PSDLRKIDIIVEQVRELAEFLSE-SPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSR  159 (325)
T ss_pred             ccccCCCcchHHHHHHHHHHhcc-CCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhc
Confidence            99887765556666666555443 33234699999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChH---
Q 017884          192 CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPK---  268 (364)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~---  268 (364)
                      |+.+.|+|++......+..           ++.+..+++.+.||+|.+++.++.....  ......+..........   
T Consensus       160 c~~i~f~~~~~~~~i~~~e-----------~~~l~~i~~~~~gd~r~~i~~lq~~~~~--~~~~~~~~~~~~~~~~~~~~  226 (325)
T COG0470         160 CQRIRFKPPSRLEAIAWLE-----------DQGLEEIAAVAEGDARKAINPLQALAAL--EIGEESIYEALLLALPESLA  226 (325)
T ss_pred             ceeeecCCchHHHHHHHhh-----------ccchhHHHHHHHHHHHcCCCHHHHHHHh--cccHHHHHHHHHhhChhhcc
Confidence            9999999954444433332           5678889999999999999999988754  33333333333322222   


Q ss_pred             --HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcC---CChHHHHHHHHHHHHHHHHHhcCCChHH
Q 017884          269 --DIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIK---MPSDVRVRLMNDLADIEYRLSFGCNDKL  343 (364)
Q Consensus       269 --~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~---~~~~~~~~i~~~l~~~~~~l~~~~~~~~  343 (364)
                        ....++..... +...+...........+.........+...+....   ............+...+.++..+....+
T Consensus       227 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  305 (325)
T COG0470         227 QLAALELLKLAEN-KFLEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQARRRLLDGLLALI  305 (325)
T ss_pred             cccHHHHHHHHHh-cchhHHHHHHHHHHHcCcchhHHHHHHHHHHhhchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              44444444432 22333333333333444444445555445544321   3455566777888888889988989999


Q ss_pred             HHHHHHHHHHHHHH
Q 017884          344 QLGSIISTFTQARS  357 (364)
Q Consensus       344 ~l~~l~~~l~~~~~  357 (364)
                      ++..++..+.....
T Consensus       306 ~~~~~~~~~~~~~~  319 (325)
T COG0470         306 QLENLLAELLLLQL  319 (325)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999888876543

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.94  E-value=5.1e-24  Score=192.32  Aligned_cols=275  Identities=18%  Similarity=0.227  Sum_probs=191.2

Q ss_pred             HHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC--------------------CCcEEEEeCC-----
Q 017884           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------------HNMILELNAS-----  113 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~--------------------~~~~~~~~~~-----  113 (364)
                      ...+.|...  .++.+| ++|+||+|+||+++|+.+++.+.|...                    +.++..+...     
T Consensus         8 ~~~~~l~~~--~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~   85 (342)
T PRK06964          8 DDWNRLQAL--RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAE   85 (342)
T ss_pred             HHHHHHHHh--cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccccccc
Confidence            556666664  568888 899999999999999999999998541                    2334444221     


Q ss_pred             ------------------------CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc
Q 017884          114 ------------------------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT  169 (364)
Q Consensus       114 ------------------------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~  169 (364)
                                              ...+++.+++.+... ...+.    .++++|+|||++|.|+..+.|+|++++|+||
T Consensus        86 ~~~~~~~~~~~~~~~~~~k~~~~~~~I~idqiR~l~~~~-~~~~~----~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp  160 (342)
T PRK06964         86 APGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFC-GVGTH----RGGARVVVLYPAEALNVAAANALLKTLEEPP  160 (342)
T ss_pred             ccccccccccchhhcccccccccccccCHHHHHHHHHHh-ccCCc----cCCceEEEEechhhcCHHHHHHHHHHhcCCC
Confidence                                    134567777755443 33222    2368999999999999999999999999999


Q ss_pred             cCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          170 KNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       170 ~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                      +++.||++|+.++++.++|+|||+.+.|++++.+++.+||...    +  +++.  +.++..++|++..|+..++.... 
T Consensus       161 ~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~----~--~~~~--~~~l~~~~Gsp~~Al~~~~~~~~-  231 (342)
T PRK06964        161 PGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ----G--VADA--DALLAEAGGAPLAALALASDENR-  231 (342)
T ss_pred             cCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc----C--CChH--HHHHHHcCCCHHHHHHHHCCChH-
Confidence            9999999999999999999999999999999999999999763    3  3332  34577889999999987732111 


Q ss_pred             cccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHH----HHHHH-hcCCCH---HHHHHHHHHHHHhcCCChHHH
Q 017884          250 SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRI----SEMKM-RKGLAL---VDIVREVTMFVFKIKMPSDVR  321 (364)
Q Consensus       250 ~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l----~~l~~-~~~~~~---~~i~~~l~~~~~~~~~~~~~~  321 (364)
                        .. .+.+...+.......+..+.+.+.+.+....+.++    .+++. ..+...   .+....+.... . +++...+
T Consensus       232 --~~-~~~~~~~l~~~~~~~~~~~~~~~~k~~~~~~l~~l~~~lrD~l~~~~~~~~~~~~d~~~~l~~~a-~-~~~~~~L  306 (342)
T PRK06964        232 --PL-RDWTLGQLAAGAACDAFACAETLQKLPVPAVLGWLQRWLYDLLAQRLAGAPRYFPAQRAALARCA-A-AVDANAL  306 (342)
T ss_pred             --HH-HHHHHHHHhccCchhHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHcCCCceecHhHHHHHHHHH-H-cCCHHHH
Confidence              00 11111122222223445555555555554444444    33321 222211   12222232222 2 4578889


Q ss_pred             HHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          322 VRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       322 ~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                      ..+++.+.+....+..+.|..+.++.++..+..+
T Consensus       307 ~~~~~~i~~~~~~~~~nvn~~L~le~lll~~~~~  340 (342)
T PRK06964        307 ARFAKAVTRQRAVENHPLAARLVFEELFLGYREL  340 (342)
T ss_pred             HHHHHHHHHHHHHhHCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999988654

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.94  E-value=3.7e-24  Score=191.37  Aligned_cols=276  Identities=17%  Similarity=0.202  Sum_probs=188.5

Q ss_pred             HHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC------------------CCCcEEEEeCC---CCC
Q 017884           59 RDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ------------------YHNMILELNAS---DDR  116 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~------------------~~~~~~~~~~~---~~~  116 (364)
                      ....+.|.+.+..++.+| ++|+||.|+||+++|+.+++.+.|.+                  .++++..+...   ...
T Consensus         9 ~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I   88 (319)
T PRK06090          9 VPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSI   88 (319)
T ss_pred             HHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcC
Confidence            377889999999999999 89999999999999999999998863                  23455555442   335


Q ss_pred             ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEE
Q 017884          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR  196 (364)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~  196 (364)
                      +++.+++.... ....+.    .+++||+|||++|.|+..+.|+|++++|+||.++.||++|+.++++.++|+|||+.+.
T Consensus        89 ~vdqiR~l~~~-~~~~~~----~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~  163 (319)
T PRK06090         89 TVEQIRQCNRL-AQESSQ----LNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWV  163 (319)
T ss_pred             CHHHHHHHHHH-HhhCcc----cCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEe
Confidence            77888875443 333232    2268999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHH
Q 017884          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYW  276 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~  276 (364)
                      |++|+.+++.+|+...    ++.    ....++..++|++..|+..++.-......--...+...+.... .+++.+...
T Consensus       164 ~~~~~~~~~~~~L~~~----~~~----~~~~~l~l~~G~p~~A~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~~~~a~~  234 (319)
T PRK06090        164 VTPPSTAQAMQWLKGQ----GIT----VPAYALKLNMGSPLKTLAMMKEGGLEKYHKLERQLVDALSGPV-SDQLKCASL  234 (319)
T ss_pred             CCCCCHHHHHHHHHHc----CCc----hHHHHHHHcCCCHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCc-ccHHHHHHH
Confidence            9999999999999752    433    2356788899999999988742211111101122222222222 344555555


Q ss_pred             HHhccHHHHHHHHH----HHHH-hcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcC--CChHHHHHHHH
Q 017884          277 LLNESFADSFKRIS----EMKM-RKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFG--CNDKLQLGSII  349 (364)
Q Consensus       277 l~~~~~~~~~~~l~----~l~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~--~~~~~~l~~l~  349 (364)
                      +...+ ...+.++.    +++. ..|....+....+ ..+.  ..+...+...++.+.+....+..+  -|..+.++.++
T Consensus       235 ~~~~~-~~~l~~L~~ll~Dll~~~~g~~~~~~~~~~-~~l~--~~~~~~l~~~~~~l~~~~~~L~~~~~ln~elll~~ll  310 (319)
T PRK06090        235 IAADP-LTHLSWLWLLLTDAQKVHFGVQNEYYLPGS-AALG--PFTYSGLYVSTAKLERLKEQLQQFSGLNTELLIMNWL  310 (319)
T ss_pred             HhcCc-HHHHHHHHHHHHHHHHHHhCCcchhhhHHH-HHHH--hhCHHHHHHHHHHHHHHHHHHHhccccCHHHHHHHHH
Confidence            43322 22333332    2221 2222222222222 1121  236666777888888888888644  37777777777


Q ss_pred             HHH
Q 017884          350 STF  352 (364)
Q Consensus       350 ~~l  352 (364)
                      ..+
T Consensus       311 l~~  313 (319)
T PRK06090        311 IES  313 (319)
T ss_pred             HHH
Confidence            665

>PRK05907 hypothetical protein; Provisional

Probab=99.94  E-value=6.9e-24  Score=189.90  Aligned_cols=272  Identities=11%  Similarity=0.102  Sum_probs=222.2

Q ss_pred             HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccce
Q 017884           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV  142 (364)
Q Consensus        63 ~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~  142 (364)
                      ..+.+.+++|. |.+++||..-   ....+.+...+..++.    ..+++... .    -+.+.+.+++.|+ |++   +
T Consensus         8 ~~~~~~~~~~~-~~y~~~g~~~---~~~~~~l~~~~~~~~~----~~fdg~~~-~----~~~ii~~aetlPf-Fae---r   70 (311)
T PRK05907          8 KDFSQYYEEKR-PAVIVIGSSS---EEDKDIFIELLVSGRK----SEFDGQGL-L----QQELLSWTEHFGL-FAS---Q   70 (311)
T ss_pred             HHHHHHHhcCC-ceEEEecCCc---HHHHHHHHHHhCCCcc----ceecCCCC-C----HHHHHHHHhcCCc-ccC---e
Confidence            44555677887 8899999987   6677777666543322    23444332 1    2345556888888 886   8


Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhccCccEE-EEeeccc---cCchhhhccceE---EEecCCChHHHHHHHHHHHHH
Q 017884          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA-LICNQVN---KIIPALQSRCTR---FRFAPLEPVHVTERLKHVIEA  215 (364)
Q Consensus       143 ~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~I-l~~~~~~---~l~~~l~sr~~~---i~~~~~~~~~~~~~l~~~~~~  215 (364)
                      ++|++.+.+.+.....+.|..++++|++++.+| ++. ..+   ++.+.+...+.+   +.|+++.+.++.+|+.+++++
T Consensus        71 RlV~v~~~~~~~~~~~~~L~~Yl~np~~~~~liv~~~-~~d~~kkl~K~i~k~~~v~~~~e~~~l~e~~L~~Wi~~~~~~  149 (311)
T PRK05907         71 ETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTT-KQECFSSLSKKLSSALCLSLFGEWFADRDKRIAQLLIQRAKE  149 (311)
T ss_pred             EEEEEecccccccccHHHHHHHHhCCCCCeEEEEEEe-cccHHHHHHHHHhhcceeccccccCCCCHHHHHHHHHHHHHH
Confidence            899999888887777889999999999876666 554 222   233444433333   489999999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc---ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHH
Q 017884          216 EGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS---QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISE  291 (364)
Q Consensus       216 ~~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~---~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~  291 (364)
                      .|..+++++++.+++.+ +||+..+.++++++..+.   +.||.++|.+++..+.+.++|++++++..++...|++.+++
T Consensus       150 ~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e~nIF~L~dai~~~~~~~Al~il~~  229 (311)
T PRK05907        150 LGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEAASLWKLRDALLRRDRVEGHSLLRS  229 (311)
T ss_pred             cCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcccccHHHHHHHHHccCHHHHHHHHHH
Confidence            99999999999999999 699999999999999883   48999999999999999999999999999999999999999


Q ss_pred             HHHhc-CCCHHHHHHHHHHHHHhc--------------C----CChHHHHHHHHHHHHHHHHHhcCC-ChHHHHHHHHHH
Q 017884          292 MKMRK-GLALVDIVREVTMFVFKI--------------K----MPSDVRVRLMNDLADIEYRLSFGC-NDKLQLGSIIST  351 (364)
Q Consensus       292 l~~~~-~~~~~~i~~~l~~~~~~~--------------~----~~~~~~~~i~~~l~~~~~~l~~~~-~~~~~l~~l~~~  351 (364)
                      +. .. |++|..|++.+.+++ .+              .    ++...+..+++.+.++|+.+|+|. ++.+.+|.|+.+
T Consensus       230 Ll-~~~ge~p~~ILall~rQf-l~~~k~l~~~g~~~~~p~~vafs~~~L~~~~~~l~~~D~~iKtg~~d~~~~lElli~~  307 (311)
T PRK05907        230 LL-SDMGEDPLGIIAFLRSQC-LYGLRSIEEQSKERKHRIFVAYGKERLLQALNLLFYAESLIKNNVQDPILAVETLVIR  307 (311)
T ss_pred             HH-HhcCCChHHHHHHHHHHH-HHHHHHHHHhcCCCCCCeEEEECHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            99 78 999999999999998 44              2    567889999999999999999986 889999999999


Q ss_pred             HHH
Q 017884          352 FTQ  354 (364)
Q Consensus       352 l~~  354 (364)
                      +|.
T Consensus       308 ~~~  310 (311)
T PRK05907        308 MTN  310 (311)
T ss_pred             Hhc
Confidence            874

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.94  E-value=7.1e-25  Score=200.50  Aligned_cols=210  Identities=18%  Similarity=0.238  Sum_probs=165.3

Q ss_pred             CCCCChhhccCCCCCcchhccHHHHHHHHHHHhc-----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      .....|..+|||.+|++++|+++.+..+..++..     ...+|++||||||+|||++|+++++.+.     ..+...++
T Consensus        10 ~~~~~~~~~~rP~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~-----~~~~~~~~   84 (328)
T PRK00080         10 EEEDEIERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG-----VNIRITSG   84 (328)
T ss_pred             cccchhhhhcCcCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhC-----CCeEEEec
Confidence            3446788999999999999999999998877752     3345699999999999999999999983     23333333


Q ss_pred             CCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------cCccE
Q 017884          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRF  174 (364)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~------------------~~~~~  174 (364)
                      ........+...+..        .+   .+.+++|||+|.++...++.|+..|+...                  +...+
T Consensus        85 ~~~~~~~~l~~~l~~--------l~---~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~l  153 (328)
T PRK00080         85 PALEKPGDLAAILTN--------LE---EGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTL  153 (328)
T ss_pred             ccccChHHHHHHHHh--------cc---cCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceE
Confidence            322222233222221        11   36799999999999888888988888652                  23557


Q ss_pred             EEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----
Q 017884          175 ALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----  249 (364)
Q Consensus       175 Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----  249 (364)
                      |++++....+.+++++|| ..+.|++++.+++.+++...+...++.++++++..|++.++|++|.+.+.++.+...    
T Consensus       154 i~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~  233 (328)
T PRK00080        154 IGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVK  233 (328)
T ss_pred             EeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHc
Confidence            778888888999999998 679999999999999999999999999999999999999999999999999875532    


Q ss_pred             -cccCchHHHHHhcC
Q 017884          250 -SQQITEEAVYLCTG  263 (364)
Q Consensus       250 -~~~i~~~~v~~~~~  263 (364)
                       ...|+.+.+...+.
T Consensus       234 ~~~~I~~~~v~~~l~  248 (328)
T PRK00080        234 GDGVITKEIADKALD  248 (328)
T ss_pred             CCCCCCHHHHHHHHH
Confidence             24788888776653

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=99.93  E-value=3.8e-23  Score=181.23  Aligned_cols=258  Identities=13%  Similarity=0.156  Sum_probs=183.2

Q ss_pred             HHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------CCCcEEEEeCCC---CCChHHHHHH
Q 017884           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------YHNMILELNASD---DRGIDVVRQQ  124 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------~~~~~~~~~~~~---~~~~~~~~~~  124 (364)
                      ...+.|...+..++.+| ++|+||+|+||+.+|..+++.+.|..           .++++..+....   ..+++.+++.
T Consensus         4 ~~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l   83 (290)
T PRK05917          4 AAWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAI   83 (290)
T ss_pred             HHHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHH
Confidence            45678999999999999 89999999999999999999999853           345555553322   2468888876


Q ss_pred             HHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCChHH
Q 017884          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH  204 (364)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~  204 (364)
                      ....... |+    +++++|++||++|.|+.+++++|++++|+||+++.||++|++++.+.++++|||+.+.|++++   
T Consensus        84 ~~~~~~~-p~----e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~~---  155 (290)
T PRK05917         84 KKQIWIH-PY----ESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPMEE---  155 (290)
T ss_pred             HHHHhhC-cc----CCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccchh---
Confidence            6555433 22    226999999999999999999999999999999999999999999999999999999998861   


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHH--HHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHHhccH
Q 017884          205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMR--KALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESF  282 (364)
Q Consensus       205 ~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r--~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~  282 (364)
                                  ...++++.+..++..++|+++  .+...+...        .+......    ...+..+++.+     
T Consensus       156 ------------~~~i~~~~~~~l~~~~~g~~~~~~~~~~l~~~--------~~~~~~~~----re~~~~~L~~l-----  206 (290)
T PRK05917        156 ------------KTLVSKEDIAYLIGYAQGKESVTEVGQIVKGS--------ADTDKQVL----RDKTKAMLEVL-----  206 (290)
T ss_pred             ------------ccCCCHHHHHHHHHHhCCChhHHHHHHHHhcc--------hHHHHHHH----HHHHHHHHHHH-----
Confidence                        224788899999999999986  222222210        01111111    22223333222     


Q ss_pred             HHHHHHHHHHHH-hcCCCHH-HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHH
Q 017884          283 ADSFKRISEMKM-RKGLALV-DIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQARSAI  359 (364)
Q Consensus       283 ~~~~~~l~~l~~-~~~~~~~-~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~~~~  359 (364)
                         +.++++++. ..|.+.. -+.......+...  +...+..+++.+.+...++..+.|.++.++.++.++..+++..
T Consensus       207 ---l~~~RD~l~~~~~~~~~~l~~~d~~~~l~~~--~~~~l~~~i~~i~~a~~~l~~N~N~~l~le~l~l~l~~~~~~~  280 (290)
T PRK05917        207 ---LQLFRDRFLLALKVPASALAYPDLLKEILTL--PVLPLEKVLSIIERAVQALDNSSSAPSCLEWVALQLWSLKNRQ  280 (290)
T ss_pred             ---HHHHHHHHHHHcCCchhhhccHHHHHHHHhc--ccccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Confidence               234444331 2222221 1222333333322  2223778999999999999999999999999999999887754

>PRK05629 hypothetical protein; Validated

Probab=99.93  E-value=2.4e-23  Score=189.56  Aligned_cols=271  Identities=14%  Similarity=0.134  Sum_probs=225.5

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l  153 (364)
                      |.++|||+...........+.+.+...+ ...++..+++.+.. .   . .+.+.. +.|+ |++   +++|++++.+..
T Consensus         7 ~vyL~~G~e~~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~e~~-~---~-~l~~~~-t~sl-F~~---~rlV~v~~~~~~   76 (318)
T PRK05629          7 PVHLVLGDDEFLAERARLNIVHDIRSSMADSLQVTTLKASEVS-Q---G-ELLDAL-SPSL-FGE---DRVIVLTNMEQA   76 (318)
T ss_pred             ceEEEEeCHHHHHHHHHHHHHHHHhccCCCCCceEEeecccCC-H---H-HHHHhh-CcCc-cCC---ceEEEEeChHhc
Confidence            4489999987777667776776665443 35677777766532 2   2 233433 6676 775   899999998887


Q ss_pred             CHHHHHHHHHHHHHhccCccEEEEeeccc---cCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 017884          154 TKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR  230 (364)
Q Consensus       154 ~~~~~~~L~~~le~~~~~~~~Il~~~~~~---~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~  230 (364)
                      .+...+.++.++..+++++.+|+++....   ++.+.++..+.+++|.++.+.++..|+.+++++.|..++++++++|++
T Consensus        77 ~~~~~~~l~~~l~~~~~~~~Lil~~~~~~~~kk~~K~l~k~~~~ve~~~~~~~~l~~wi~~~~~~~g~~i~~~A~~~L~~  156 (318)
T PRK05629         77 GKEPTDLALSAAVDPSPGIYLIIMHSGGGRTKSMVPKLEKIAVVHEAAKLKPRERPGWVTQEFKNHGVRPTPDVVHALLE  156 (318)
T ss_pred             ChhHHHHHHHHHhCCCCCeEEEEEcCCcchhhHHHHHHHhcceEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            66677889999999988888888875332   345577778899999999999999999999999999999999999999


Q ss_pred             HcCCCHHHHHHHHHHHHHhc-ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 017884          231 LCNGDMRKALNILQSTHMAS-QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTM  309 (364)
Q Consensus       231 ~~~g~~r~a~~~l~~~~~~~-~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~  309 (364)
                      .+++|+..+.++++++..+. +.||.++|.+++....+.++|++++++..++...++..+.++. ..|.+|..++..+.+
T Consensus       157 ~~g~dl~~l~~EleKL~~~~~~~It~e~V~~~v~~~~~~~iF~l~dAv~~g~~~~Al~~l~~l~-~~g~~pi~il~~l~~  235 (318)
T PRK05629        157 GVGSDLRELASAISQLVEDTQGNVTVEKVRAYYVGVAEVSGFDIADLACAGQVSKAVASTRRAL-QLGVSPVALAAALSM  235 (318)
T ss_pred             HHCccHHHHHHHHHHHHhcCCCCcCHHHHHHHhCCCccchHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCcHHHHHHHHH
Confidence            99999999999999988663 5899999999999999999999999999999999999999998 889999999888876


Q ss_pred             HHHhc----------------------------------CCChHHHHHHHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHH
Q 017884          310 FVFKI----------------------------------KMPSDVRVRLMNDLADIEYRLSFGC-NDKLQLGSIISTFTQ  354 (364)
Q Consensus       310 ~~~~~----------------------------------~~~~~~~~~i~~~l~~~~~~l~~~~-~~~~~l~~l~~~l~~  354 (364)
                      +++.+                                  +++...+.+++..+.++|..+|+|. ++.+.||.++.++++
T Consensus       236 ~~r~l~~l~~~~~~~~~~~ia~~l~i~p~~~~~~~~~ar~~s~~~L~~~l~~l~~~D~~~K~~~~d~~~~lE~~i~~~~~  315 (318)
T PRK05629        236 KVGQIARLYSTRGRIDSFELAKELGMPPFVVEKTAKVARNWSGDAVSEAVILMADLDAAVKGQGGDPEFAIESAVRRVAE  315 (318)
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHcCCChHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHh
Confidence            64432                                  5677788999999999999999865 999999999999987


Q ss_pred             HH
Q 017884          355 AR  356 (364)
Q Consensus       355 ~~  356 (364)
                      +.
T Consensus       316 ~~  317 (318)
T PRK05629        316 LA  317 (318)
T ss_pred             hc
Confidence            53

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=99.93  E-value=3.8e-23  Score=189.39  Aligned_cols=272  Identities=18%  Similarity=0.191  Sum_probs=220.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l  153 (364)
                      |.++|||+....+...+..+.+.+..+. ...++..+++.+.   +.+.+.+ ..+.+.|+ |+.   +++|+|++++.+
T Consensus         2 ~~yll~G~e~~l~~~~~~~l~~~~~~~~~~~fn~~~~d~~~~---~~~~~~~-~~~~t~pf-f~~---~rlVvv~~~~~~   73 (326)
T PRK07452          2 PIYLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDA---DQAIQAL-NEAMTPPF-GSG---GRLVWLKNSPLC   73 (326)
T ss_pred             CEEEEEcChHHHHHHHHHHHHHHhCCchhhhcchhhcCCccc---hHHHHHH-HHhcCCCC-CCC---ceEEEEeCchhh
Confidence            5689999999999999999988775433 2344555554432   2233333 33556666 554   899999998655


Q ss_pred             ---CHHHHHHHHHHHHHhccCccEEEEee-cc---ccCchhhhccceEEEecCC---ChHHHHHHHHHHHHHcCCCCCHH
Q 017884          154 ---TKDAQFALRRVIEKYTKNTRFALICN-QV---NKIIPALQSRCTRFRFAPL---EPVHVTERLKHVIEAEGLDVTEG  223 (364)
Q Consensus       154 ---~~~~~~~L~~~le~~~~~~~~Il~~~-~~---~~l~~~l~sr~~~i~~~~~---~~~~~~~~l~~~~~~~~~~i~~~  223 (364)
                         .++..+.|.++++.+++++++|+++. ..   .+..+.+...+.+..|.++   +.+++..|+..++++.|+.++++
T Consensus        74 ~~~~~~~~~~L~~~l~~~~~~~~li~~~~~~~d~r~k~~k~l~k~~~~~~~~~~~~~~~~~l~~~i~~~~~~~g~~i~~~  153 (326)
T PRK07452         74 QGCSEELLAELERTLPLIPENTHLLLTNTKKPDGRLKSTKLLQKLAEEKEFSLIPPWDTEGLKQLVERTAQELGVKLTPE  153 (326)
T ss_pred             ccCCHHHHHHHHHHHcCCCCCcEEEEEeCCCcchHHHHHHHHHHceeEEEecCCCcccHHHHHHHHHHHHHHcCCCCCHH
Confidence               56778899999999998998888753 22   2455667777888888765   34679999999999999999999


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhc----ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCC
Q 017884          224 GLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLA  299 (364)
Q Consensus       224 ~~~~l~~~~~g~~r~a~~~l~~~~~~~----~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~  299 (364)
                      +++.|++.+++|++.+.+++++++.+.    +.||.++|..++... ..++|++++++..++...++..++.+. ..|++
T Consensus       154 a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~-~~~if~l~dai~~~~~~~A~~~l~~L~-~~g~~  231 (326)
T PRK07452        154 AAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNT-TQNSLQLADALLQGNTGKALALLDDLL-DANEP  231 (326)
T ss_pred             HHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccC-cCcHHHHHHHHHCCCHHHHHHHHHHHH-HCCCc
Confidence            999999999999999999999999872    379999999999876 578999999999999999999999998 89999


Q ss_pred             HHHHHHHHHHHHHhc-------------------------------------CCChHHHHHHHHHHHHHHHHHhcCCChH
Q 017884          300 LVDIVREVTMFVFKI-------------------------------------KMPSDVRVRLMNDLADIEYRLSFGCNDK  342 (364)
Q Consensus       300 ~~~i~~~l~~~~~~~-------------------------------------~~~~~~~~~i~~~l~~~~~~l~~~~~~~  342 (364)
                      |..++..+.++++.+                                     +++...+..++..+.++|..+|+|.++.
T Consensus       232 p~~il~~l~~~~r~l~~~k~~~~~G~~~~~~ia~~lgi~~p~~~~~~~~~~~~~s~~~L~~~l~~L~~~D~~iK~g~~~~  311 (326)
T PRK07452        232 ALRIVATLTGQFRTWLWVKLLVESGERDVKVIAKAAGIGNPKRIYFLRKEVQGLSSQQLLKLLPLLLDLEASLKQGANPI  311 (326)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHhCCCCcHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCChH
Confidence            999999888887754                                     3444557899999999999999999888


Q ss_pred             HHHHHHHHHHHHHH
Q 017884          343 LQLGSIISTFTQAR  356 (364)
Q Consensus       343 ~~l~~l~~~l~~~~  356 (364)
                      ..|+.++.++|...
T Consensus       312 ~~le~~i~~~~~~~  325 (326)
T PRK07452        312 NALQDKLIELCQLL  325 (326)
T ss_pred             HHHHHHHHHHHHhh
Confidence            89999999999764

>PRK07914 hypothetical protein; Reviewed

Probab=99.93  E-value=8.7e-23  Score=185.87  Aligned_cols=270  Identities=14%  Similarity=0.135  Sum_probs=228.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcC-CC-CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYG-AQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA  152 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~-~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~  152 (364)
                      |.++|||+.-.........+.+.+.. .+ ...++..+++.+.. .   .+ +.+.. +.|+ |++   +++|+++++..
T Consensus         6 ~iYll~G~E~~l~~~~~~~i~~~~~~~~~~~~~n~~~~d~~~~~-~---~~-i~~~~-t~pl-F~~---rRlV~v~~~~~   75 (320)
T PRK07914          6 PLHLVLGDEELLVERAVAAVLRSARQRAGTADVPVSRMRAGDVS-T---YE-LAELL-SPSL-FAE---ERVVVLEAAAE   75 (320)
T ss_pred             ceEEEEecHHHHHHHHHHHHHHHHhcCcCCCCCceEEeccccCC-H---HH-HHHhc-CCCC-CCC---ceEEEEeChHh
Confidence            44899999989888888888877654 23 35677777765532 2   22 44444 6676 765   99999999877


Q ss_pred             CCHHHHHHHHHHHHHhccCccEEEEeecc---ccCchhhhccc-eEEEecCC-ChHHHHHHHHHHHHHcCCCCCHHHHHH
Q 017884          153 MTKDAQFALRRVIEKYTKNTRFALICNQV---NKIIPALQSRC-TRFRFAPL-EPVHVTERLKHVIEAEGLDVTEGGLAA  227 (364)
Q Consensus       153 l~~~~~~~L~~~le~~~~~~~~Il~~~~~---~~l~~~l~sr~-~~i~~~~~-~~~~~~~~l~~~~~~~~~~i~~~~~~~  227 (364)
                      +.+...+.|..+++.+++++.+|++++..   .++.+.++..+ .++.|.++ +..++..|+.+++++.|+.+++++++.
T Consensus        76 ~~~~~~~~l~~~l~~~~~~t~lil~~~~~~~~kk~~K~L~k~g~~~v~~~~~~~~~~l~~wi~~~a~~~g~~i~~~A~~~  155 (320)
T PRK07914         76 AGKDAAALILSAAADLPPGTVLVVVHSGGGRAKALANQLRKLGAEVHPCARITKAAERADFVRKEFRSLRVKVDDDTVTA  155 (320)
T ss_pred             ccHHHHHHHHHHHhCCCCCeEEEEEecCCcchhHHHHHHHHCCCEEEecCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            77777788999999999888888876432   23445676665 58999998 999999999999999999999999999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHh-cccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHH
Q 017884          228 LVRLCNGDMRKALNILQSTHMA-SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVRE  306 (364)
Q Consensus       228 l~~~~~g~~r~a~~~l~~~~~~-~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~  306 (364)
                      |++.++||+..+.++++++..+ .+.||.++|.+++..+...++|++++++..++...++..+..+. ..|++|..++..
T Consensus       156 L~~~~g~dl~~l~~EleKL~~~~~~~It~e~V~~~v~~~~~~~vf~L~dAi~~g~~~~A~~~l~~L~-~~ge~p~~il~~  234 (320)
T PRK07914        156 LLDAVGSDLRELASACSQLVADTGGAVDAAAVRRYHSGKAEVKGFDIADKAVAGDVAGAAEALRWAM-MRGEPHVVLADA  234 (320)
T ss_pred             HHHHHCccHHHHHHHHHHHhcCCCCCcCHHHHHHHcCCCeechHHHHHHHHHCCCHHHHHHHHHHHH-HCCCchHHHHHH
Confidence            9999999999999999998764 46899999999999999999999999999999999999999998 899999999999


Q ss_pred             HHHHHHhc--------------------------------CCChHHHHHHHHHHHHHHHHHhcCC-ChHHHHHHHHHHHH
Q 017884          307 VTMFVFKI--------------------------------KMPSDVRVRLMNDLADIEYRLSFGC-NDKLQLGSIISTFT  353 (364)
Q Consensus       307 l~~~~~~~--------------------------------~~~~~~~~~i~~~l~~~~~~l~~~~-~~~~~l~~l~~~l~  353 (364)
                      +.++++.+                                +++...+..++..+.++|..+|+|. ++.+.||.++.++|
T Consensus       235 l~~~~r~L~~~k~~~~~~~~i~~~l~i~p~~~~~~~~~~~~~s~~~L~~~l~~l~~~D~~lK~~~~~~~~~lE~~i~~~~  314 (320)
T PRK07914        235 LAEAVHTIARVGPLSGDPYRLAGELGMPPWRVQKAQKQARRWSRDTVATAMRVVAALNADVKGAAADADYALESAVRRVA  314 (320)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHH
Confidence            99988875                                6788889999999999999999884 89999999999999


Q ss_pred             HH
Q 017884          354 QA  355 (364)
Q Consensus       354 ~~  355 (364)
                      .+
T Consensus       315 ~~  316 (320)
T PRK07914        315 EL  316 (320)
T ss_pred             HH
Confidence            75

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=99.92  E-value=1.8e-22  Score=179.40  Aligned_cols=278  Identities=15%  Similarity=0.123  Sum_probs=186.2

Q ss_pred             HHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC--------CCCcEEEEeC-CCCCChHHHHHHHHHH
Q 017884           59 RDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ--------YHNMILELNA-SDDRGIDVVRQQIQDF  128 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~--------~~~~~~~~~~-~~~~~~~~~~~~i~~~  128 (364)
                      ..+++.+++.+++++.+| ++|+|++|+||+.++..+++.+.|..        .+.++..++. ....+.+.+++.++.+
T Consensus         2 ~~~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~   81 (299)
T PRK07132          2 NNWIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKL   81 (299)
T ss_pred             chHHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHh
Confidence            357788999999999999 68999999999999999999997742        1224444541 1224556666544443


Q ss_pred             HhcCccccC-CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCChHHHHH
Q 017884          129 ASTQSFSFG-VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTE  207 (364)
Q Consensus       129 ~~~~~~~~~-~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~  207 (364)
                          ++ ++ ..++++|++||+++.++..++++|++++|+||+++.+|++++.+.++.++++|||+++.|.+++.+++.+
T Consensus        82 ----~~-~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~  156 (299)
T PRK07132         82 ----YF-SSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILA  156 (299)
T ss_pred             ----cc-CCcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHH
Confidence                33 22 1136999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCC--ChHHHHHHHHHHHhc-cHHH
Q 017884          208 RLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNP--LPKDIEQISYWLLNE-SFAD  284 (364)
Q Consensus       208 ~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~--~~~~~~~l~~~l~~~-~~~~  284 (364)
                      |+...    +  ++++....++..++ ++++|+..+.......    ...+.+.+...  ....+....+...++ +...
T Consensus       157 ~l~~~----~--~~~~~a~~~a~~~~-~~~~a~~~~~~~~~~~----~~~~~~~l~~~~~~~~~l~~~~~~~~~ke~~~~  225 (299)
T PRK07132        157 KLLSK----N--KEKEYNWFYAYIFS-NFEQAEKYINKESENL----LKKFEEALNKSLKEKYELILFLNKKLTKENALF  225 (299)
T ss_pred             HHHHc----C--CChhHHHHHHHHcC-CHHHHHHHHhcCCHHH----HHHHHHHHHHhhhhHHHHHHHHHhhcChhhHHH
Confidence            98753    3  67777777777777 5999988864321100    00111111000  111111222211111 0111


Q ss_pred             ----HHHHHHHHHHh-cCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          285 ----SFKRISEMKMR-KGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       285 ----~~~~l~~l~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                          ..-++++++.. .+.+...+... ...+....++...+   ++.+.+...++..+.|..++++.|+.++.++.
T Consensus       226 ll~~l~~~~rd~l~~~~~~~~~~i~~~-~~~i~~~~~s~~~l---i~~i~~~~~~L~~N~N~~l~~e~lll~l~e~~  298 (299)
T PRK07132        226 LLKLLKFFFKSIFANKKKKNPKNIKVA-FSKKKKFKIEFFEL---ITIIDEFLNSLETNENFNLQKQAFLVKIYEIY  298 (299)
T ss_pred             HHHHHHHHHHHHHHHhccCChHhHhhH-HHHHHHHhcCHHHH---HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence                11233333322 22233223333 34444333444433   78888999999999999999999999998764

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

Probab=99.92  E-value=1.2e-23  Score=178.16  Aligned_cols=204  Identities=16%  Similarity=0.245  Sum_probs=162.5

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHh-----cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~-----~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  117 (364)
                      .-...||++|+|++||++++++|.-.++     +....|+|||||||.||||+|+.+|+++     ..++...++.....
T Consensus        16 ~e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em-----gvn~k~tsGp~leK   90 (332)
T COG2255          16 IERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL-----GVNLKITSGPALEK   90 (332)
T ss_pred             hhcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh-----cCCeEecccccccC
Confidence            3456899999999999999999887775     3467789999999999999999999998     33433334443334


Q ss_pred             hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------cCccEEEEee
Q 017884          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICN  179 (364)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~------------------~~~~~Il~~~  179 (364)
                      ..++...+...        .   .+.|++|||+|++++...+.|...||.+.                  +...+|-+|+
T Consensus        91 ~gDlaaiLt~L--------e---~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATT  159 (332)
T COG2255          91 PGDLAAILTNL--------E---EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATT  159 (332)
T ss_pred             hhhHHHHHhcC--------C---cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeecc
Confidence            44444433321        1   37899999999999999999999999752                  1233566777


Q ss_pred             ccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----ccC
Q 017884          180 QVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQI  253 (364)
Q Consensus       180 ~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----~~i  253 (364)
                      ....+..+|++|| .+.++.-++.+++..++.+-+...++.++++++..|+..+.|.+|-|..+|.++..++     +.|
T Consensus       160 r~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~~~~~I  239 (332)
T COG2255         160 RAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDI  239 (332)
T ss_pred             ccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHHhcCCcc
Confidence            8889999999997 7888999999999999999999999999999999999999999999999998776543     355


Q ss_pred             chHHHHHhc
Q 017884          254 TEEAVYLCT  262 (364)
Q Consensus       254 ~~~~v~~~~  262 (364)
                      +.+....++
T Consensus       240 ~~~ia~~aL  248 (332)
T COG2255         240 DRDIADKAL  248 (332)
T ss_pred             cHHHHHHHH
Confidence            555544443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.92  E-value=7.5e-24  Score=178.56  Aligned_cols=166  Identities=29%  Similarity=0.450  Sum_probs=136.7

Q ss_pred             HHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------------CCCcEEEEeCC-CCCChHHH
Q 017884           63 DTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNAS-DDRGIDVV  121 (364)
Q Consensus        63 ~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~~~-~~~~~~~~  121 (364)
                      +.|++.+..++.+| ++|+||+|+|||++++.+++.+.|..                   ...++..+... ...+.+.+
T Consensus         2 ~~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i   81 (188)
T TIGR00678         2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQV   81 (188)
T ss_pred             hHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHH
Confidence            46788889999988 89999999999999999999998751                   11222233221 22456777


Q ss_pred             HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCC
Q 017884          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLE  201 (364)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~  201 (364)
                      ++.+.. +...++ ++   +++++||||+|.+++..++.|+++|++++.++.+|++++...++.+++++||.++.|.|++
T Consensus        82 ~~i~~~-~~~~~~-~~---~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~  156 (188)
T TIGR00678        82 RELVEF-LSRTPQ-ES---GRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLS  156 (188)
T ss_pred             HHHHHH-HccCcc-cC---CeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCC
Confidence            765544 444443 33   5899999999999999999999999999999999999988899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHH
Q 017884          202 PVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKA  239 (364)
Q Consensus       202 ~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a  239 (364)
                      .+++.+|+.+.    |  +++++++.++..++|++|.|
T Consensus       157 ~~~~~~~l~~~----g--i~~~~~~~i~~~~~g~~r~~  188 (188)
T TIGR00678       157 EEALLQWLIRQ----G--ISEEAAELLLALAGGSPGAA  188 (188)
T ss_pred             HHHHHHHHHHc----C--CCHHHHHHHHHHcCCCcccC
Confidence            99999999876    4  78999999999999999874

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

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.92  E-value=9.2e-23  Score=192.08  Aligned_cols=208  Identities=25%  Similarity=0.436  Sum_probs=173.8

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhc--------------------------------CCCCc--EEEeCCCC
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE--------------------------------NRLPH--LLLYGPPG   84 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~--------------------------------~~~~~--lll~G~~G   84 (364)
                      +..+|+++|+|+.|.|++|.+.+-..+..|++.                                ++++.  ++|+||||
T Consensus       257 h~kLWVdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppG  336 (877)
T KOG1969|consen  257 HDKLWVDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPG  336 (877)
T ss_pred             CcceeecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCC
Confidence            455999999999999999988887777777651                                12233  79999999


Q ss_pred             ccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHH
Q 017884           85 TGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRV  164 (364)
Q Consensus        85 ~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~  164 (364)
                      .||||+|+.+|++.     ++.++++|+++.+....+.+.|......... .+....+..+||||+|--.....+.++.+
T Consensus       337 lGKTTLAHViAkqa-----GYsVvEINASDeRt~~~v~~kI~~avq~~s~-l~adsrP~CLViDEIDGa~~~~Vdvilsl  410 (877)
T KOG1969|consen  337 LGKTTLAHVIAKQA-----GYSVVEINASDERTAPMVKEKIENAVQNHSV-LDADSRPVCLVIDEIDGAPRAAVDVILSL  410 (877)
T ss_pred             CChhHHHHHHHHhc-----CceEEEecccccccHHHHHHHHHHHHhhccc-cccCCCcceEEEecccCCcHHHHHHHHHH
Confidence            99999999999996     7889999999999999999999998877665 43223688999999999998889999998


Q ss_pred             HHHh------c---------------cCccEEEEeecccc-CchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCH
Q 017884          165 IEKY------T---------------KNTRFALICNQVNK-IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE  222 (364)
Q Consensus       165 le~~------~---------------~~~~~Il~~~~~~~-l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~  222 (364)
                      ++.-      +               -.-.+|.+||.... ...+|+--|.++.|.+|+...+.+.|+.+|.++|+.++.
T Consensus       411 v~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYaPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d~  490 (877)
T KOG1969|consen  411 VKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYAPALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRADS  490 (877)
T ss_pred             HHhhcchhhcCcccchhhhhhhccccccCCEEEEecCccchhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCCH
Confidence            8721      1               11247888886542 334555668999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHhccc
Q 017884          223 GGLAALVRLCNGDMRKALNILQSTHMASQQ  252 (364)
Q Consensus       223 ~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~  252 (364)
                      .++..|++++.+|+|.++|.||.+......
T Consensus       491 ~aL~~L~el~~~DIRsCINtLQfLa~~~~r  520 (877)
T KOG1969|consen  491 KALNALCELTQNDIRSCINTLQFLASNVDR  520 (877)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHhccc
Confidence            999999999999999999999999877654

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.92  E-value=1.5e-23  Score=201.79  Aligned_cols=225  Identities=23%  Similarity=0.332  Sum_probs=170.6

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC-----CCCCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-----QYHNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~-----~~~~~~~~~~~~~  114 (364)
                      ..||.++|||.+|++++|++..++.++..+......|++|+||||+|||++|+++++.....     .....++++++..
T Consensus        52 ~~~~~~~~rp~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~  131 (531)
T TIGR02902        52 TEPLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATT  131 (531)
T ss_pred             cchHHHhhCcCCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccc
Confidence            47999999999999999999999999988877777789999999999999999998764221     1134677777653


Q ss_pred             CCCh-HHHHH-HHH-------HHHhc--------CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh---------
Q 017884          115 DRGI-DVVRQ-QIQ-------DFAST--------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY---------  168 (364)
Q Consensus       115 ~~~~-~~~~~-~i~-------~~~~~--------~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~---------  168 (364)
                      .... ..+.+ .+.       .....        .....-...++++++|||++.|+...|+.|+++|++.         
T Consensus       132 ~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~  211 (531)
T TIGR02902       132 ARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYY  211 (531)
T ss_pred             ccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccc
Confidence            1100 00110 010       00000        0000001235689999999999999999999999862         


Q ss_pred             -------------------ccCccEEEEe-eccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 017884          169 -------------------TKNTRFALIC-NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAAL  228 (364)
Q Consensus       169 -------------------~~~~~~Il~~-~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l  228 (364)
                                         +.++++|++| +.+..+++++++||..+.|++++.+++..+++..+++.++.+++++++.|
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrsR~~~I~f~pL~~eei~~Il~~~a~k~~i~is~~al~~I  291 (531)
T TIGR02902       212 NSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALELI  291 (531)
T ss_pred             cccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhhhhheeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHH
Confidence                               2244666655 56788999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCHHHHHHHHHHHHHhc-----ccCchHHHHHhcCCC
Q 017884          229 VRLCNGDMRKALNILQSTHMAS-----QQITEEAVYLCTGNP  265 (364)
Q Consensus       229 ~~~~~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~~~~  265 (364)
                      ..++. |.|.+.+.++.++..+     ..|+.+++..++...
T Consensus       292 ~~y~~-n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~~  332 (531)
T TIGR02902       292 VKYAS-NGREAVNIVQLAAGIALGEGRKRILAEDIEWVAENG  332 (531)
T ss_pred             HHhhh-hHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCCc
Confidence            88775 8999999998876433     369999999887654

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=99.91  E-value=1.9e-21  Score=179.35  Aligned_cols=283  Identities=16%  Similarity=0.195  Sum_probs=226.0

Q ss_pred             HHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccc
Q 017884           65 IDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKAS  141 (364)
Q Consensus        65 l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  141 (364)
                      +...+..  +..|.++|||+........+..+.+.+...+ ..+++..+++.+...  .+ ..+.+.+.+.|+ |+.   
T Consensus         9 ~~~~l~~~~~~~~~yll~G~e~~li~~~~~~l~~~~~~~~~~~fn~~~~~~~e~~~--~~-~~~~~~~~t~sl-F~~---   81 (343)
T PRK06585          9 VDRFLARPDPKIRAVLLYGPDRGLVRERARRLAKSVVPDLDDPFAVVRLDGDDLDA--DP-ARLEDEANAISL-FGG---   81 (343)
T ss_pred             HHHHHhCCCCCCeEEEEeCCchHHHHHHHHHHHHHhcCCCCCCcceeeccHHHhhc--CH-HHHHHHHhCCCC-CCC---
Confidence            3444443  3455589999999999999999988875433 234455554432110  12 234456777787 775   


Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc---cCchhhh--ccceEEEecCCChHHHHHHHHHHHHHc
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN---KIIPALQ--SRCTRFRFAPLEPVHVTERLKHVIEAE  216 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~---~l~~~l~--sr~~~i~~~~~~~~~~~~~l~~~~~~~  216 (364)
                      +++|++++.+   +...+.|..+++.+++++.+|+.+...+   ++.+.+.  ..+..+.|.+++..++..|+.+++++.
T Consensus        82 ~rlViv~~~~---~~~~~~L~~~l~~~~~~~~lil~~~~~~~~~kl~k~~~~~~~~~~v~~~~~~~~~l~~~i~~~~~~~  158 (343)
T PRK06585         82 RRLIWVRAGS---KNLAAALKALLESPPGDAFIVIEAGDLKKGSSLRKLFETAAYAAAIPCYADDERDLARLIDDELAEA  158 (343)
T ss_pred             ceEEEEECCc---hhHHHHHHHHHcCCCCCcEEEEEcCCCCcccHHHHHHhcCCCeeEEecCCCCHHHHHHHHHHHHHHC
Confidence            8899999653   3456678899999888888887764432   2233332  235678899999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc---ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHH
Q 017884          217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS---QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMK  293 (364)
Q Consensus       217 ~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~---~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~  293 (364)
                      |+.+++++++.|++.++||++.+.++++++..+.   +.||.++|..+++...+.++|++++++..++...++..+..++
T Consensus       159 g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~e~~if~l~dai~~~~~~~a~~~l~~ll  238 (343)
T PRK06585        159 GLRITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASALSLDDAADAALAGDLAAFERALDRAL  238 (343)
T ss_pred             CCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCcccccHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999875   4799999999999999999999999999999999999999998


Q ss_pred             HhcCCCHHHHHHHHHHHHHhc-------------------------------------CCChHHHHHHHHHHHHHHHHHh
Q 017884          294 MRKGLALVDIVREVTMFVFKI-------------------------------------KMPSDVRVRLMNDLADIEYRLS  336 (364)
Q Consensus       294 ~~~~~~~~~i~~~l~~~~~~~-------------------------------------~~~~~~~~~i~~~l~~~~~~l~  336 (364)
                       ..|++|..|+..+.++++.+                                     .++...+.+++..+.++|..+|
T Consensus       239 -~~g~~p~~il~~L~~~~r~L~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~a~~~s~~~L~~~l~~l~~~d~~lK  317 (343)
T PRK06585        239 -AEGTAPVLILRAALRHFQRLHIVRLKVENGKSAEQAIASLRPPVFFKRKPDFEKALRRWSLERLLRALERLQAAELDCR  317 (343)
T ss_pred             -HcCCCHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhCCCCCcchHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHh
Confidence             89999999999999988865                                     4455567899999999999999


Q ss_pred             cCC-ChHHHHHHHHHHHHHHHHH
Q 017884          337 FGC-NDKLQLGSIISTFTQARSA  358 (364)
Q Consensus       337 ~~~-~~~~~l~~l~~~l~~~~~~  358 (364)
                      .|. ++.+.++.++.++|....+
T Consensus       318 ~~~~~~~~~le~~i~~~~~~~~~  340 (343)
T PRK06585        318 RNPALADAIARRVLLSIAVRARR  340 (343)
T ss_pred             cCCCcHHHHHHHHHHHHHHHHHh
Confidence            876 7788899999999975554

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.91  E-value=8.2e-23  Score=185.66  Aligned_cols=198  Identities=15%  Similarity=0.226  Sum_probs=154.8

Q ss_pred             CCCcchhccHHHHHHHHHHHh-----cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~-----~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (364)
                      ++|++++|++++++.|..++.     .+..+|++|+||||+|||++++++++.+..     .+...++........+...
T Consensus         1 ~~~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~-----~~~~~~~~~~~~~~~l~~~   75 (305)
T TIGR00635         1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGV-----NLKITSGPALEKPGDLAAI   75 (305)
T ss_pred             CCHHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----CEEEeccchhcCchhHHHH
Confidence            479999999999999998887     344567999999999999999999999742     2233333322222333332


Q ss_pred             HHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------cCccEEEEeeccccCch
Q 017884          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICNQVNKIIP  186 (364)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~------------------~~~~~Il~~~~~~~l~~  186 (364)
                      +..        .+   .+.+++|||+|.+++..++.|+.++++..                  +...+|.+++....+.+
T Consensus        76 l~~--------~~---~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~  144 (305)
T TIGR00635        76 LTN--------LE---EGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTS  144 (305)
T ss_pred             HHh--------cc---cCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCH
Confidence            222        11   36799999999999999999998887543                  22556777788888999


Q ss_pred             hhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----ccCchHHHHH
Q 017884          187 ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEAVYL  260 (364)
Q Consensus       187 ~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~  260 (364)
                      ++++|| ..+.|.+++.+++.+++...+...++.+++++++.|++.++|++|.+.+.++.+...+     ..|+.+.+..
T Consensus       145 ~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~  224 (305)
T TIGR00635       145 PLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALK  224 (305)
T ss_pred             HHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHH
Confidence            999998 6789999999999999999999999999999999999999999999999888765332     3588888776


Q ss_pred             hcC
Q 017884          261 CTG  263 (364)
Q Consensus       261 ~~~  263 (364)
                      .+.
T Consensus       225 ~l~  227 (305)
T TIGR00635       225 ALE  227 (305)
T ss_pred             HHH
Confidence            654

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

>PRK08487 DNA polymerase III subunit delta; Validated

Probab=99.91  E-value=2.4e-21  Score=176.96  Aligned_cols=279  Identities=21%  Similarity=0.247  Sum_probs=219.6

Q ss_pred             HHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccc
Q 017884           63 DTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKAS  141 (364)
Q Consensus        63 ~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  141 (364)
                      ..+...++++..++ ++|||+.-.........+.+.+...+...+ +.++  . ..    -+.+.+.+.+.|+ |+.   
T Consensus         4 ~~l~~~lk~~~l~~vyll~GeE~yli~~~~~~i~~~~~~~~~~~~-~~~~--~-~~----~~~i~~~~~t~pl-F~~---   71 (328)
T PRK08487          4 KELDTLLKQNKLPNAFLLYGEDEFQIELYAKKISEKFKPENELKT-LYFD--E-YD----FEQAKDFLSQSSL-FGG---   71 (328)
T ss_pred             HHHHHHHhcCCCCceEEEecCchhHHHHHHHHHHHHhcCchHhhh-hchh--h-cc----HHHHHHHHhcccc-cCC---
Confidence            35667788876656 799999999998888888887643332211 2222  1 11    2345556777787 776   


Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecccc---Cchhhhcc--ceEEEecCCChHHHHHHHHHHHHHc
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK---IIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAE  216 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~---l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~  216 (364)
                      +++|++++.........+.|..+++.+++.+.+|++.....+   +.+.+...  +..+.|.++++.++..|+..++++.
T Consensus        72 ~rlViv~~~~~~~~~~~~~L~~~l~~~~~~~~lv~~~~~~~k~kkl~k~~~~~k~~~~v~~~~~~~~~l~~~i~~~~~~~  151 (328)
T PRK08487         72 KNLLIIKLDKKIPKKELKLLIELCEKNSDNYFIIELYGADSKTKDIEKLFQKKDEAVFVRFFKPNAREALELLQERAKEL  151 (328)
T ss_pred             ceEEEEecccccCHHHHHHHHHHHhcCCCCEEEEEecCCcchhHHHHHHhccCCCceEEEeeCCCHHHHHHHHHHHHHHh
Confidence            899999988777776778899999998877766665433321   22333323  5689999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhc
Q 017884          217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRK  296 (364)
Q Consensus       217 ~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~  296 (364)
                      |+.+++++++.|+..+++|+..+.++++++..+.+.||.++|..++..+.+.++|++++++..++  .++..+.++. ..
T Consensus       152 g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~~It~edV~~~v~~~~e~~vF~l~dai~~g~--~a~~~l~~L~-~~  228 (328)
T PRK08487        152 GLDIDQNALNHLYFIHNEDLALAANELEKLAILNEPITLKDIQELVFGLGSVSFEDFFEKLLNKK--DIKDDLEKLL-EE  228 (328)
T ss_pred             CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcCCCCHHHHHHHhcccccccHHHHHHHHHCCC--cHHHHHHHHH-HC
Confidence            99999999999999999999999999999999988999999999999999999999999999988  4778888888 79


Q ss_pred             CCCHHHHHHHHHHHHHhc------------------------------------CCChHHHHHHHHHHHHHHHHHhcCCC
Q 017884          297 GLALVDIVREVTMFVFKI------------------------------------KMPSDVRVRLMNDLADIEYRLSFGCN  340 (364)
Q Consensus       297 ~~~~~~i~~~l~~~~~~~------------------------------------~~~~~~~~~i~~~l~~~~~~l~~~~~  340 (364)
                      |.+|..++..+.++++.+                                    +++...+..++..+.++|+.+|+|..
T Consensus       229 g~~pi~Il~~L~r~~~~L~~i~~~~~~~~~~~~a~~~~~~~~~f~~~~~~~q~~~~s~~~L~~~l~~L~e~D~~lK~g~~  308 (328)
T PRK08487        229 GFNEIALLNSLERFFYQLFLFFAYIKINGKPDAKEILGYKPPKQIAENLAKQAIKIKEAQYKEIFELLLEWELELKTGQK  308 (328)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHhCCCCCHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHcCCC
Confidence            999999999998887654                                    44555678999999999999999964


Q ss_pred             h--HHHHHHHHHHHHHHH
Q 017884          341 D--KLQLGSIISTFTQAR  356 (364)
Q Consensus       341 ~--~~~l~~l~~~l~~~~  356 (364)
                      +  .+-++..+.+|...+
T Consensus       309 ~~~~~~~~~~~~~~~~~~  326 (328)
T PRK08487        309 IDKNLFLLSTLIKIQKIL  326 (328)
T ss_pred             ccHHHHHHHHHHHHHHHh
Confidence            3  444555577776554

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=99.90  E-value=8.2e-23  Score=166.98  Aligned_cols=140  Identities=36%  Similarity=0.592  Sum_probs=110.5

Q ss_pred             ccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC------------------CCcEEEEeCCCC--
Q 017884           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY------------------HNMILELNASDD--  115 (364)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~------------------~~~~~~~~~~~~--  115 (364)
                      ||+.+++.|...+..++.|| ++|+||+|+||+++|..+++.++|...                  +.++..++....  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            78999999999999999999 799999999999999999999988643                  456777766543  


Q ss_pred             -CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceE
Q 017884          116 -RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (364)
Q Consensus       116 -~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  194 (364)
                       .+.+.+++.+.. ....+. .   ++++|+|||++|.|+.+++++|+++||+||.++.||++|+++.++.++++|||+.
T Consensus        81 ~i~i~~ir~i~~~-~~~~~~-~---~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~  155 (162)
T PF13177_consen   81 SIKIDQIREIIEF-LSLSPS-E---GKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQV  155 (162)
T ss_dssp             SBSHHHHHHHHHH-CTSS-T-T---SSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEE
T ss_pred             hhhHHHHHHHHHH-HHHHHh-c---CCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceE
Confidence             577888854444 444333 2   2599999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCC
Q 017884          195 FRFAPLE  201 (364)
Q Consensus       195 i~~~~~~  201 (364)
                      +.|++++
T Consensus       156 i~~~~ls  162 (162)
T PF13177_consen  156 IRFRPLS  162 (162)
T ss_dssp             EEE----
T ss_pred             EecCCCC
Confidence            9998874

...

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.90  E-value=7.2e-21  Score=171.91  Aligned_cols=274  Identities=17%  Similarity=0.194  Sum_probs=183.1

Q ss_pred             HHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC--------------------CCcEEEEeCCC----
Q 017884           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------------HNMILELNASD----  114 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~--------------------~~~~~~~~~~~----  114 (364)
                      ...+.+...  .++.+| ++|+||+|+|||++|+.+++.+.|...                    +.++.+++...    
T Consensus         8 ~~w~~l~~~--~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~   85 (325)
T PRK08699          8 EQWRQIAEH--WERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPE   85 (325)
T ss_pred             HHHHHHHHh--cCCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEeccccccc
Confidence            445555544  468888 899999999999999999999988532                    35566776532    


Q ss_pred             ------CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhh
Q 017884          115 ------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPAL  188 (364)
Q Consensus       115 ------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l  188 (364)
                            ..+++.+++.+... ...+. .   ++++|++||+++.|+...++.|++++++++.++.||++|+.+..+.+++
T Consensus        86 ~g~~~~~I~id~iR~l~~~~-~~~p~-~---~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti  160 (325)
T PRK08699         86 NGRKLLQIKIDAVREIIDNV-YLTSV-R---GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTI  160 (325)
T ss_pred             ccccCCCcCHHHHHHHHHHH-hhCcc-c---CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHH
Confidence                  24688888855444 33332 2   2589999999999999999999999999998888999999999999999


Q ss_pred             hccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChH
Q 017884          189 QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPK  268 (364)
Q Consensus       189 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~  268 (364)
                      +|||+.+.|++++.+++..||...    ++  +... ..+ ..++|.+..+... +...      ..+.+...+......
T Consensus       161 ~SRc~~~~~~~~~~~~~~~~L~~~----~~--~~~~-~~l-~~~~g~p~~~~~~-~~~~------~r~~~~~~l~~~~~~  225 (325)
T PRK08699        161 KSRCRKMVLPAPSHEEALAYLRER----GV--AEPE-ERL-AFHSGAPLFDEEP-ELRA------LRIKLLDILAEPRLL  225 (325)
T ss_pred             HHHhhhhcCCCCCHHHHHHHHHhc----CC--CcHH-HHH-HHhCCChhhhcCc-hHHH------HHHHHHHHHHccChh
Confidence            999999999999999999999753    43  2221 223 4567777433210 0000      001111112222333


Q ss_pred             HHHHHHHHHHhc--cHHHHHH----HHHHHHH-hcCCC---HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcC
Q 017884          269 DIEQISYWLLNE--SFADSFK----RISEMKM-RKGLA---LVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFG  338 (364)
Q Consensus       269 ~~~~l~~~l~~~--~~~~~~~----~l~~l~~-~~~~~---~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~  338 (364)
                      .+..+.+.+...  +....+.    ++.+++. ..+..   ..+....+.....  +++...+..+++.+.+....+..+
T Consensus       226 ~~l~~~~~~~~~k~~~~~~l~~l~~~~rDll~~~~~~~~~~~~d~~~~l~~~a~--~~~~~~L~~~~~~l~~~~~~l~~n  303 (325)
T PRK08699        226 KILDYAALFDKEKLPLAVFVGWMQKWLVDLGLCLQHMKPVYYPAYEDRLLQTAS--GFRPRNVFAAEDMLKQLAPYGFHT  303 (325)
T ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHcCCCcccCHhHHHHHHHHHH--hcCHHHHHHHHHHHHHHHHHhhCC
Confidence            444555555432  2333333    3333331 11111   1122222222221  457888999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHHHH
Q 017884          339 CNDKLQLGSIISTFTQARS  357 (364)
Q Consensus       339 ~~~~~~l~~l~~~l~~~~~  357 (364)
                      .|..+.++.++..+..+++
T Consensus       304 ~n~~L~le~lll~~~~~~~  322 (325)
T PRK08699        304 LNVKMQIEHLLINYLELKK  322 (325)
T ss_pred             CCHHHHHHHHHHHHHHHhc
Confidence            9999999999999987765

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=99.89  E-value=8.3e-21  Score=167.21  Aligned_cols=261  Identities=15%  Similarity=0.250  Sum_probs=174.4

Q ss_pred             ccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC-------------------CCcEEEEeCC-CC
Q 017884           57 AHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILELNAS-DD  115 (364)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~-~~  115 (364)
                      .|+.++..|...+..++.+| ++|+||  .||+++|..+++.+.|.+.                   ++++..+... ..
T Consensus         6 ~q~~~~~~L~~~~~~~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~   83 (290)
T PRK07276          6 KQPKVFQRFQTILEQDRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQV   83 (290)
T ss_pred             HHHHHHHHHHHHHHcCCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCc
Confidence            46788999999999999999 799996  6899999999999988641                   3445555432 23


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEE
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i  195 (364)
                      .+++.+++.+..+..+ |. .   ++++|+|||++|.|+..+.|+|++++|+||+++.+|++|+++..+.++|+|||+.+
T Consensus        84 I~idqIR~l~~~~~~~-p~-~---~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i  158 (290)
T PRK07276         84 IKTDTIRELVKNFSQS-GY-E---GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIF  158 (290)
T ss_pred             CCHHHHHHHHHHHhhC-cc-c---CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceee
Confidence            5678888876666543 32 2   25899999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHH
Q 017884          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISY  275 (364)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~  275 (364)
                      .|++ +.+++.+++..    .|  ++.+....++..+ |+++.|+..++.-....  + ...+            ..+.+
T Consensus       159 ~f~~-~~~~~~~~L~~----~g--~~~~~a~~la~~~-~s~~~A~~l~~~~~~~~--~-~~~~------------~~~~~  215 (290)
T PRK07276        159 HFPK-NEAYLIQLLEQ----KG--LLKTQAELLAKLA-QSTSEAEKLAQNKKFLE--L-IDQA------------ERFVT  215 (290)
T ss_pred             eCCC-cHHHHHHHHHH----cC--CChHHHHHHHHHC-CCHHHHHHHhCChhHHH--H-HHHH------------HHHHH
Confidence            9976 67777777753    35  4555555555554 58999998873211100  0 0111            11111


Q ss_pred             HHHhccHHHHHHHHHHHHH--hcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHH
Q 017884          276 WLLNESFADSFKRISEMKM--RKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSII  349 (364)
Q Consensus       276 ~l~~~~~~~~~~~l~~l~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~  349 (364)
                      .+...+....+ .+.++..  .....-..++..+...++. ++........++.+.+.+.....+.|....++.++
T Consensus       216 ~l~~~~~~~~l-~~~~l~~~~~~~e~q~~~l~~l~~~~~~-~~~~~~~~~~L~~~~~~r~~w~~Nv~~~~~le~l~  289 (290)
T PRK07276        216 ILLKDKDEAYL-QVARLVQLADEKEEQDQVLTLLTLLLAQ-ERMQVNVRTQLEAVYQARKMWQSNVSFQNALEYMV  289 (290)
T ss_pred             HhccChHHHHH-HHHHHHHhhhcHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHHHHHHhccCHHHHHHHHh
Confidence            11111111111 1111110  0001111222222222322 23445567778888889999999999999998875

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=99.89  E-value=4.3e-20  Score=170.52  Aligned_cols=281  Identities=14%  Similarity=0.192  Sum_probs=221.5

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccce
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV  142 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~  142 (364)
                      .+...+.++-.+.++|||+.-.-+...+..+.+.+...+ ...++..+++... ..    +.+...+.+.++ |++   +
T Consensus         7 ~~~~~~~~~~~~~~li~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~d~~~~-~~----~~l~~~~~t~~l-F~~---~   77 (340)
T PRK05574          7 QLEKQLKKGLAPLYLLYGDEPLLLQEAKDAIRAAARAQGFDERNVFTFDGSET-DW----DDVLEACQSLPL-FSD---R   77 (340)
T ss_pred             HHHHHHhCCCCceEEEEcCcHHHHHHHHHHHHHHHHcCCCceeeEEEeecCCC-CH----HHHHHHhhccCc-ccc---C
Confidence            445556666333489999997777777777777654332 3445556655532 22    334455677776 765   8


Q ss_pred             EEEEEeCCCCCCHHH----HHHHHHHHHHhccC--ccEEEEeeccc---cC---chhhhccceEEEecCCChHHHHHHHH
Q 017884          143 KLVLLDEADAMTKDA----QFALRRVIEKYTKN--TRFALICNQVN---KI---IPALQSRCTRFRFAPLEPVHVTERLK  210 (364)
Q Consensus       143 ~viiiDe~~~l~~~~----~~~L~~~le~~~~~--~~~Il~~~~~~---~l---~~~l~sr~~~i~~~~~~~~~~~~~l~  210 (364)
                      ++|+|++++.+....    ...+..++ +++++  ..+++.++..+   ++   .+.+.+++.++.|.+++..++..|+.
T Consensus        78 klvii~~~~~l~~~~~~~~l~~l~~~l-~~~~~~~~~li~~~~~~~~~~k~~k~~k~~~~~~~~~~~~~~~~~~~~~~i~  156 (340)
T PRK05574         78 KLVELRLPEFLTGAKGEKALKRLEAYL-NPLPHPDLLLIVRLPKLDKAKKKSAWFKALKKKAVVVEAQPPKEAELPQWIQ  156 (340)
T ss_pred             eEEEEECCCCCCchhHHHHHHHHHHhc-cCCCCCcEEEEEECCcCCHHHHhhHHHHHHHhCceEEEcCCCCHHHHHHHHH
Confidence            999999999997542    33344444 34443  33444443322   23   56777889999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHH
Q 017884          211 HVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKR  288 (364)
Q Consensus       211 ~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~  288 (364)
                      ..+++.|+.++++++++|++.++||+..+.+++++++.+.  +.||.++|..++......++|.+++++..++...++..
T Consensus       157 ~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~~~~~f~l~dai~~~~~~~a~~~  236 (340)
T PRK05574        157 QRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSARFDVFDLVDAILAGKIKRALRI  236 (340)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999999999999999999999999999875  35999999999999889999999999999999999999


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHhc-----------------------------------CCChHHHHHHHHHHHHHHH
Q 017884          289 ISEMKMRKGLALVDIVREVTMFVFKI-----------------------------------KMPSDVRVRLMNDLADIEY  333 (364)
Q Consensus       289 l~~l~~~~~~~~~~i~~~l~~~~~~~-----------------------------------~~~~~~~~~i~~~l~~~~~  333 (364)
                      +..+. ..|.+|..++..+.++++.+                                   .++...+..+++.+.++|.
T Consensus       237 l~~l~-~~~~~~~~il~~l~~~~~~l~~~k~~~~~g~~~~~~~~~~~i~~~~~~~~~~~~~~~s~~~L~~~l~~L~~~d~  315 (340)
T PRK05574        237 LDGLR-LEGEEPIKLLAALQREFRLLLQLKILSQQGYPLQQLAKELRVWPYRVKLALRALQRLSLKQLKQAIQLLAETDY  315 (340)
T ss_pred             HHHHH-HCCCcHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHcCCChhHHHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence            99998 78999999999998888754                                   5677788999999999999


Q ss_pred             HHhcCC--ChHHHHHHHHHHHHHH
Q 017884          334 RLSFGC--NDKLQLGSIISTFTQA  355 (364)
Q Consensus       334 ~l~~~~--~~~~~l~~l~~~l~~~  355 (364)
                      ++|+|.  ++.+.++.++.++|..
T Consensus       316 ~iK~~~~~~~~~~le~~ii~l~~~  339 (340)
T PRK05574        316 QIKTGYGGDKWLELELLLLKLAGA  339 (340)
T ss_pred             HHhCCCCCCHHHHHHHHHHHhccC
Confidence            999994  9999999999999853

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=99.89  E-value=1.5e-20  Score=170.75  Aligned_cols=253  Identities=13%  Similarity=0.170  Sum_probs=209.1

Q ss_pred             HHHHHHHHcCCCC-CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-HHHHHHHHHHHHh
Q 017884           91 ILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-DAQFALRRVIEKY  168 (364)
Q Consensus        91 a~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-~~~~~L~~~le~~  168 (364)
                      +.++...+...++ ..+++.+++.+. ..+.    +...+.+.++ |+.   +++++|++++.+.. ...+.|.++++++
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~e~-~~~~----l~~~~~~~sl-f~~---~kliii~~~~~~~~~~~~~~L~~~l~~~   74 (302)
T TIGR01128         4 ADAIRAAALAQGFDEFNVFRIDGEEF-DWNQ----LLEEAQTLPL-FSE---RRLVELRNPEGKPGAKGLKALEEYLANP   74 (302)
T ss_pred             HHHHHHHHHhCCCchheeeeeccCCC-CHHH----HHHHhhccCc-ccC---CeEEEEECCCCCCCHHHHHHHHHHHhcC
Confidence            4555555544333 456666665542 2222    4555666666 664   89999999999874 5678999999999


Q ss_pred             ccCccEEEEeecccc---Cchhhh--ccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 017884          169 TKNTRFALICNQVNK---IIPALQ--SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (364)
Q Consensus       169 ~~~~~~Il~~~~~~~---l~~~l~--sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l  243 (364)
                      ++++.+|++++..++   +.+.+.  ++|.++.|.+++..++..|+...+++.|+.++++++++|+..++||++.+.+++
T Consensus        75 ~~~~~~i~~~~~~~~~~~~~k~~~~~~~~~~i~~~~~~~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el  154 (302)
T TIGR01128        75 PPDTLLLIEAPKLDKRKKLTKWLKALKNAQIVECKTPKEQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQEL  154 (302)
T ss_pred             CCCEEEEEecCCCCHhHHHHHHHHHhcCeeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHH
Confidence            988888888864432   223343  489999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc--ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-------
Q 017884          244 QSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-------  314 (364)
Q Consensus       244 ~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-------  314 (364)
                      ++++.+.  +.||.++|..++......+++++++++..++...++..++.+. ..|.+|..++..+.++++.+       
T Consensus       155 ~KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal~~~~~~~a~~~l~~l~-~~~~~~~~il~~l~~~~~~L~~~k~~~  233 (302)
T TIGR01128       155 EKLALYAPDGKITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILKGLL-GEGEEPLILLALLQRQLRLLLQLKRLA  233 (302)
T ss_pred             HHHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHH-HCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999874  4799999999999888899999999999999999999999988 88999999999998888765       


Q ss_pred             ----------------------------CCChHHHHHHHHHHHHHHHHHh-cC-CChHHHHHHHHHHHH
Q 017884          315 ----------------------------KMPSDVRVRLMNDLADIEYRLS-FG-CNDKLQLGSIISTFT  353 (364)
Q Consensus       315 ----------------------------~~~~~~~~~i~~~l~~~~~~l~-~~-~~~~~~l~~l~~~l~  353 (364)
                                                  .++.+.+..++..+.++|..+| +| .++.+.+|.++.++|
T Consensus       234 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~s~~~L~~~l~~l~~~d~~~K~~~~~~~~~~le~~i~~~~  302 (302)
T TIGR01128       234 QQGGPLAQLASKLGIWPYRRKLALKALRRLSLAKLEQALQELAEADLQLKGTGGGDPWLALERLLLKLA  302 (302)
T ss_pred             HcCCCHHHHHHHcCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHhC
Confidence                                        4567778899999999999999 45 599999999999886

subunit around DNA forming a DNA sliding clamp.

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.88  E-value=3.1e-21  Score=167.75  Aligned_cols=209  Identities=14%  Similarity=0.188  Sum_probs=153.2

Q ss_pred             CCChhhccCCC-CCcchh--ccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           40 ASPWVEKYRPQ-SLADVA--AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        40 ~~~~~~~~~p~-~~~~~v--g~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      +.|+.-.+.|. +|++++  ++..++..+.++......++++||||+|+|||++++++++.+...+....++.++.... 
T Consensus         8 Ql~l~~~~~~~~~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~-   86 (235)
T PRK08084          8 QLSLPLYLPDDETFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW-   86 (235)
T ss_pred             ceecCCCCCCcCCccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh-
Confidence            45554344443 678887  36778888888887666667999999999999999999998765443333333322111 


Q ss_pred             ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC--HHHHHHHHHHHHHhcc--CccEEEEeeccc----cCchhh
Q 017884          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK--NTRFALICNQVN----KIIPAL  188 (364)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~~--~~~~Il~~~~~~----~l~~~l  188 (364)
                         ...+.++.+        .   ...+++|||++.+.  +..+..|+.++.....  ...+|++++.+.    .+.+.|
T Consensus        87 ---~~~~~~~~~--------~---~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L  152 (235)
T PRK08084         87 ---FVPEVLEGM--------E---QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDL  152 (235)
T ss_pred             ---hhHHHHHHh--------h---hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHH
Confidence               111111111        1   24599999999996  4456677777776543  346788876543    357899


Q ss_pred             hccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cccCchHHHHHh
Q 017884          189 QSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLC  261 (364)
Q Consensus       189 ~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----~~~i~~~~v~~~  261 (364)
                      +||+   .++.+.+|+.+++.+++++.+..+|+.++++++++|++.++||+|.+.+.++.+...    ..+||.+.++++
T Consensus       153 ~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~k~~  232 (235)
T PRK08084        153 ASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIPFVKEI  232 (235)
T ss_pred             HHHHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            9998   899999999999999999989989999999999999999999999999999886522    357888888776


Q ss_pred             cC
Q 017884          262 TG  263 (364)
Q Consensus       262 ~~  263 (364)
                      ++
T Consensus       233 l~  234 (235)
T PRK08084        233 LK  234 (235)
T ss_pred             Hc
Confidence            53

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.87  E-value=8e-20  Score=176.99  Aligned_cols=296  Identities=18%  Similarity=0.192  Sum_probs=189.3

Q ss_pred             hhccCCCCCcchhccHHHHHHHHHHHh----cCCCCc-EEEeCCCCccHHHHHHHHHHHHcCC----C-CCCcEEEEeCC
Q 017884           44 VEKYRPQSLADVAAHRDIVDTIDRLTS----ENRLPH-LLLYGPPGTGKTSTILAVARKLYGA----Q-YHNMILELNAS  113 (364)
Q Consensus        44 ~~~~~p~~~~~~vg~~~~~~~l~~~~~----~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~----~-~~~~~~~~~~~  113 (364)
                      ...|.|   +.++|+++.+..|...+.    +....+ ++|+|+||+|||++++.+.+++...    . ..+.++++|+.
T Consensus       749 ~~DYVP---D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm  825 (1164)
T PTZ00112        749 QLDVVP---KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM  825 (1164)
T ss_pred             CcccCC---CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence            334556   678999999887766654    333334 5799999999999999999887421    2 23678899986


Q ss_pred             CCCChHHHHHHHHHHH-hcCccc-----------c----CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc---cCccE
Q 017884          114 DDRGIDVVRQQIQDFA-STQSFS-----------F----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRF  174 (364)
Q Consensus       114 ~~~~~~~~~~~i~~~~-~~~~~~-----------~----~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~---~~~~~  174 (364)
                      .......+...+.... ...+..           |    .......||+|||+|.|....++.|+.+++.+.   ..+.+
T Consensus       826 ~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiL  905 (1164)
T PTZ00112        826 NVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVL  905 (1164)
T ss_pred             ccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEE
Confidence            6444433322222111 111100           0    011124599999999998777888888888653   23445


Q ss_pred             EEEeec---cccCchhhhccce--EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHH---HcCCCHHHHHHHHHHH
Q 017884          175 ALICNQ---VNKIIPALQSRCT--RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR---LCNGDMRKALNILQST  246 (364)
Q Consensus       175 Il~~~~---~~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~---~~~g~~r~a~~~l~~~  246 (364)
                      |.++|.   +..+.+.+++|+.  .+.|+|++.+++.++|..++......+++++++++|+   ..+||+|.|+++|..+
T Consensus       906 IGISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrA  985 (1164)
T PTZ00112        906 IAISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKA  985 (1164)
T ss_pred             EEecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHH
Confidence            566654   4567788999974  4899999999999999999986555689999999998   5679999999999877


Q ss_pred             HHhc--ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHH---HHHHHHHHHHhc---CCCHHHHHHHHHHHHH----hc
Q 017884          247 HMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFAD---SFKRISEMKMRK---GLALVDIVREVTMFVF----KI  314 (364)
Q Consensus       247 ~~~~--~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~---~~~~l~~l~~~~---~~~~~~i~~~l~~~~~----~~  314 (364)
                      ....  ..|+.++|.++........+   .+.+..-.+..   .+.++..+. ..   .....+|+..+...+.    .+
T Consensus       986 gEikegskVT~eHVrkAleeiE~srI---~e~IktLPlHqKLVLlALIlLlk-~tg~~~i~TGEVYerYk~Lce~~Gk~i 1061 (1164)
T PTZ00112        986 FENKRGQKIVPRDITEATNQLFDSPL---TNAINYLPWPFKMFLTCLIVELR-MLNDFIIPYKKVLNRYKVLVETSGKYI 1061 (1164)
T ss_pred             HhhcCCCccCHHHHHHHHHHHHhhhH---HHHHHcCCHHHHHHHHHHHHHHh-hcCCCceeHHHHHHHHHHHHHhhhhhc
Confidence            6532  37888999888754433333   33333333333   222222222 21   2445566655555554    34


Q ss_pred             CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHH
Q 017884          315 KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGS  347 (364)
Q Consensus       315 ~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~  347 (364)
                      +..+... ++.+.+.+++..=..-..+.+-|+.
T Consensus      1062 Gv~plTq-RV~d~L~eL~~LGIIl~ep~~~~~~ 1093 (1164)
T PTZ00112       1062 GMCSNNE-LFKIMLDKLVKMGILLIRPYIPLES 1093 (1164)
T ss_pred             CCCCcHH-HHHHHHHHHHhcCeEEecCCCchhh
Confidence            4555544 6777777776533333345554444

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.86  E-value=6.7e-21  Score=184.18  Aligned_cols=211  Identities=22%  Similarity=0.388  Sum_probs=141.0

Q ss_pred             CCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-----EEEeCCCCccHHHHHHHHHHHHcCCCCCC-cEE-EE
Q 017884           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-----LLLYGPPGTGKTSTILAVARKLYGAQYHN-MIL-EL  110 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-----lll~G~~G~GKt~la~~l~~~l~~~~~~~-~~~-~~  110 (364)
                      +...||++||||.++++++||++.+..++.++.....++     ++|+||+|+|||++++.+++.+......+ +.+ ..
T Consensus        69 ~~~~pW~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~~  148 (637)
T TIGR00602        69 DGNEPWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPD  148 (637)
T ss_pred             cccCchHHHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhhc
Confidence            456899999999999999999999999999998654333     89999999999999999999874321000 000 00


Q ss_pred             eCCC---------------CCChHHHHHHHHHHHhcCccccC--CccceEEEEEeCCCCCCHHHHHHHHHHHH-Hh--cc
Q 017884          111 NASD---------------DRGIDVVRQQIQDFASTQSFSFG--VKASVKLVLLDEADAMTKDAQFALRRVIE-KY--TK  170 (364)
Q Consensus       111 ~~~~---------------~~~~~~~~~~i~~~~~~~~~~~~--~~~~~~viiiDe~~~l~~~~~~~L~~~le-~~--~~  170 (364)
                      ....               ....+.+...+......... .+  ....++||+|||++.+.......+..++. .+  ..
T Consensus       149 ~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~-~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~  227 (637)
T TIGR00602       149 FQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQM-LGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIG  227 (637)
T ss_pred             ccccccccchhhhhccccccchHHHHHHHHHHHHhhhcc-cccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCC
Confidence            0000               11223333333332211111 10  12258899999997776433333333333 12  23


Q ss_pred             CccEEEEeeccc--------c-------Cchhhhc--cceEEEecCCChHHHHHHHHHHHHHcCCC------C-CHHHHH
Q 017884          171 NTRFALICNQVN--------K-------IIPALQS--RCTRFRFAPLEPVHVTERLKHVIEAEGLD------V-TEGGLA  226 (364)
Q Consensus       171 ~~~~Il~~~~~~--------~-------l~~~l~s--r~~~i~~~~~~~~~~~~~l~~~~~~~~~~------i-~~~~~~  226 (364)
                      .+.+|++++...        .       +.+.+.+  |+.++.|.|+...++.+.|..++..++..      + +++++.
T Consensus       228 ~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~  307 (637)
T TIGR00602       228 RCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVE  307 (637)
T ss_pred             CceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHH
Confidence            455677665211        1       2267877  56779999999999999999999876432      2 468899


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHh
Q 017884          227 ALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       227 ~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                      .|+..++||+|.|++.||.++..
T Consensus       308 ~I~~~s~GDiRsAIn~LQf~~~~  330 (637)
T TIGR00602       308 LLCQGCSGDIRSAINSLQFSSSK  330 (637)
T ss_pred             HHHHhCCChHHHHHHHHHHHHhc
Confidence            99999999999999999987653

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

>PRK08727 hypothetical protein; Validated

Probab=99.86  E-value=5.1e-20  Score=159.89  Aligned_cols=209  Identities=20%  Similarity=0.287  Sum_probs=149.1

Q ss_pred             CCChhhccCCC-CCcchhccH-HHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC
Q 017884           40 ASPWVEKYRPQ-SLADVAAHR-DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (364)
Q Consensus        40 ~~~~~~~~~p~-~~~~~vg~~-~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  117 (364)
                      +.|+--.++|. +|+++++.+ +....+.....+.....++|+||+|+|||+++++++..+...+.  .+..++....  
T Consensus         5 Ql~l~~~~~~~~~f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~--~~~y~~~~~~--   80 (233)
T PRK08727          5 QLPLALRYPSDQRFDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAGR--SSAYLPLQAA--   80 (233)
T ss_pred             CccccCCCCCcCChhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--cEEEEeHHHh--
Confidence            45555555554 788887754 44444444444333344999999999999999999999765544  3334433221  


Q ss_pred             hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC--HHHHHHHHHHHHHhcc-CccEEEEeeccc----cCchhhhc
Q 017884          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQS  190 (364)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~~-~~~~Il~~~~~~----~l~~~l~s  190 (364)
                      ...+.+.+..+        .   ...+|+|||++.+.  +..+..++++++.... ...+|++++.+.    .+.+.++|
T Consensus        81 ~~~~~~~~~~l--------~---~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~S  149 (233)
T PRK08727         81 AGRLRDALEAL--------E---GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRS  149 (233)
T ss_pred             hhhHHHHHHHH--------h---cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHH
Confidence            11122222211        1   35699999999996  4456778888876443 345788876433    35689999


Q ss_pred             c---ceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH----hcccCchHHHHHhcC
Q 017884          191 R---CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCTG  263 (364)
Q Consensus       191 r---~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~----~~~~i~~~~v~~~~~  263 (364)
                      |   |.++.|++|+.+++..+++.++..+++.++++++++|++.++||+|.+++.++.+..    ....||.+.+++++.
T Consensus       150 Rl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~~it~~~~~~~l~  229 (233)
T PRK08727        150 RLAQCIRIGLPVLDDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKRRVTVPFLRRVLE  229 (233)
T ss_pred             HHhcCceEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHh
Confidence            9   789999999999999999999999999999999999999999999999998887653    234677777776654

>PRK06893 DNA replication initiation factor; Validated

Probab=99.86  E-value=4e-20  Score=160.19  Aligned_cols=201  Identities=16%  Similarity=0.250  Sum_probs=141.6

Q ss_pred             CCCCCcchhccHHHHH--HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           48 RPQSLADVAAHRDIVD--TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~--~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      .+.+|++++++++...  .+.........|.++||||||+|||++++++++++...+....++..+......    .+.+
T Consensus        11 ~~~~fd~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~~----~~~~   86 (229)
T PRK06893         11 DDETLDNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYFS----PAVL   86 (229)
T ss_pred             CcccccccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhhh----HHHH
Confidence            3468999997654432  233333344445589999999999999999999986555444444433211111    1111


Q ss_pred             HHHHhcCccccCCccceEEEEEeCCCCCC--HHHHHHHHHHHHHhccC-cc-EEEEeecc-c---cCchhhhccce---E
Q 017884          126 QDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTKN-TR-FALICNQV-N---KIIPALQSRCT---R  194 (364)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~~~-~~-~Il~~~~~-~---~l~~~l~sr~~---~  194 (364)
                      ..        +.   +..+++|||++.+.  ...+..|+.+++..... .. +|++++.. .   ...+.++||+.   +
T Consensus        87 ~~--------~~---~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~  155 (229)
T PRK06893         87 EN--------LE---QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEI  155 (229)
T ss_pred             hh--------cc---cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCe
Confidence            11        11   36799999999985  34456788888765443 23 44555432 2   24478999974   8


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cccCchHHHHHhcC
Q 017884          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTG  263 (364)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----~~~i~~~~v~~~~~  263 (364)
                      +.+++|+.++..+++++.+...++.++++++++|++.++||+|.+.+.++.+...    ..+||...++++++
T Consensus       156 ~~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~v~~~L~  228 (229)
T PRK06893        156 YQLNDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQRKLTIPFVKEILG  228 (229)
T ss_pred             eeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999876422    24688888877653

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.85  E-value=6.8e-19  Score=164.08  Aligned_cols=287  Identities=16%  Similarity=0.218  Sum_probs=176.7

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCC----CCCcEEEEeC
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNA  112 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~  112 (364)
                      .++...|.|.   +++|++..++.|..++..    +..++++|+||||+|||++++.+++.+....    ....++++++
T Consensus         6 ~~l~~~~~p~---~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~   82 (365)
T TIGR02928         6 DLLEPDYVPD---RIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNC   82 (365)
T ss_pred             hhCCCCCCCC---CCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEEC
Confidence            3456778885   689999999888777753    4445699999999999999999999875321    2256778887


Q ss_pred             CCCCChHHHH-HHHHHHHh--c-Ccc---c-----------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHH-----hc
Q 017884          113 SDDRGIDVVR-QQIQDFAS--T-QSF---S-----------FGVKASVKLVLLDEADAMTKDAQFALRRVIEK-----YT  169 (364)
Q Consensus       113 ~~~~~~~~~~-~~i~~~~~--~-~~~---~-----------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~-----~~  169 (364)
                      ........+. ........  . .+.   .           ......+.||+|||+|.+....+..|..++..     .+
T Consensus        83 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~  162 (365)
T TIGR02928        83 QILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLD  162 (365)
T ss_pred             CCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCC
Confidence            6644433222 22222210  0 000   0           00112467999999999953333333333322     22


Q ss_pred             -cCccEEEEeeccc---cCchhhhccc--eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHH---cCCCHHH
Q 017884          170 -KNTRFALICNQVN---KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRL---CNGDMRK  238 (364)
Q Consensus       170 -~~~~~Il~~~~~~---~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~---~~g~~r~  238 (364)
                       ..+.+|+++|.+.   .+.+.+.+|+  ..+.|+|++.+++.+++..++..  .+..+++++++.++..   ++||+|.
T Consensus       163 ~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~  242 (365)
T TIGR02928       163 NAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARK  242 (365)
T ss_pred             CCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHH
Confidence             4566788887664   5777888887  57999999999999999999863  2335788887776554   4799999


Q ss_pred             HHHHHHHHHHhc-----ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHH--HHHHHHHHH--hcCCCHHHHHHHHHH
Q 017884          239 ALNILQSTHMAS-----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADS--FKRISEMKM--RKGLALVDIVREVTM  309 (364)
Q Consensus       239 a~~~l~~~~~~~-----~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~--~~~l~~l~~--~~~~~~~~i~~~l~~  309 (364)
                      +++.+..+...+     ..|+.++|..+.......   .+.+.+..-+....  +..+..+..  .......+++.....
T Consensus       243 al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~~~---~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~  319 (365)
T TIGR02928       243 AIDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKD---RLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKE  319 (365)
T ss_pred             HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH---HHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Confidence            999998765432     469999998776544222   22333333333332  333333321  122344555554444


Q ss_pred             HHHhcCCChHHHHHHHHHHHHHHH
Q 017884          310 FVFKIKMPSDVRVRLMNDLADIEY  333 (364)
Q Consensus       310 ~~~~~~~~~~~~~~i~~~l~~~~~  333 (364)
                      .....+..+....++.+.+.+++.
T Consensus       320 ~~~~~~~~~~~~~~~~~~l~~l~~  343 (365)
T TIGR02928       320 VCEDIGVDPLTQRRISDLLNELDM  343 (365)
T ss_pred             HHHhcCCCCCcHHHHHHHHHHHHh
Confidence            444445444555555555555543

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.84  E-value=1.3e-19  Score=157.54  Aligned_cols=198  Identities=15%  Similarity=0.234  Sum_probs=148.3

Q ss_pred             CCCCCcchhc--cHHHHHHHHHHHhcC-CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH
Q 017884           48 RPQSLADVAA--HRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (364)
Q Consensus        48 ~p~~~~~~vg--~~~~~~~l~~~~~~~-~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (364)
                      +|.+|+++++  ...++..++.+.... ...+++|+||+|+|||++++++++.....+.  .+..+++....      ..
T Consensus        13 ~~~~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~--~~~~i~~~~~~------~~   84 (227)
T PRK08903         13 PPPTFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGR--NARYLDAASPL------LA   84 (227)
T ss_pred             ChhhhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCC--cEEEEehHHhH------HH
Confidence            4567888883  467777888877643 3345999999999999999999998755443  34444443311      11


Q ss_pred             HHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCcc--EEEEeeccc---cCchhhhccc---eEEE
Q 017884          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTR--FALICNQVN---KIIPALQSRC---TRFR  196 (364)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~--~Il~~~~~~---~l~~~l~sr~---~~i~  196 (364)
                      +       .  +..  ...+++|||+|.++...+..|+.+++.......  +|++++...   .+.+.+.+|+   ..+.
T Consensus        85 ~-------~--~~~--~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~  153 (227)
T PRK08903         85 F-------D--FDP--EAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYE  153 (227)
T ss_pred             H-------h--hcc--cCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEE
Confidence            1       0  111  367999999999998889999999987554433  555554322   3457788784   7899


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cccCchHHHHHhcCC
Q 017884          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTGN  264 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----~~~i~~~~v~~~~~~  264 (364)
                      ++||+.++...++...+.+.++.++++++++|++.++||++.+.+.++.+..+    ...||...++++++.
T Consensus       154 l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~~~i~~~~~~~~l~~  225 (227)
T PRK08903        154 LKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQKRPVTLPLLREMLAQ  225 (227)
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhc
Confidence            99999999999999999899999999999999999999999999999876543    357999888887653

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=99.84  E-value=3.7e-19  Score=152.66  Aligned_cols=160  Identities=19%  Similarity=0.188  Sum_probs=124.8

Q ss_pred             CCc-EEEeCCCCccHHHHHHHHHHHHcCCC-----------------CCCcEEEEeCC-CCCChHHHHHHHHHHHhcCcc
Q 017884           74 LPH-LLLYGPPGTGKTSTILAVARKLYGAQ-----------------YHNMILELNAS-DDRGIDVVRQQIQDFASTQSF  134 (364)
Q Consensus        74 ~~~-lll~G~~G~GKt~la~~l~~~l~~~~-----------------~~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~  134 (364)
                      .|| ++|+||+|+||..+|.++++.+.|..                 .++++..+... ...+++.+++....+... ++
T Consensus         6 ~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~-s~   84 (261)
T PRK05818          6 KTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRP-SV   84 (261)
T ss_pred             CCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccC-ch
Confidence            466 89999999999999999999998863                 23344443322 235678888766665432 21


Q ss_pred             ccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCC----------ChHH
Q 017884          135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL----------EPVH  204 (364)
Q Consensus       135 ~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~----------~~~~  204 (364)
                         ..++++|++|+++|.|+..+.++|++++|+||+++.||++|+.++.+.++++|||+.+.|+++          ++.+
T Consensus        85 ---e~~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~~~~~~~  161 (261)
T PRK05818         85 ---ESNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSKEKKVPFKVESNDRY  161 (261)
T ss_pred             ---hcCCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCChhhhcccccccChHH
Confidence               112589999999999999999999999999999999999999999999999999999999888          5555


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q 017884          205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQST  246 (364)
Q Consensus       205 ~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~  246 (364)
                      +.+++...   .  .+++    .++..++|++.+++..++.+
T Consensus       162 i~~~L~~~---~--~~d~----~i~~~a~g~~~~a~~l~~~l  194 (261)
T PRK05818        162 FQYILLSF---Y--SVDE----QLQAYNNGSFSKLKNIIETL  194 (261)
T ss_pred             HHHHHHHc---c--CccH----HHHHHcCCCHHHHHHHHHHH
Confidence            55555432   1  2444    67777899999999998854

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.84  E-value=2.2e-18  Score=162.24  Aligned_cols=288  Identities=18%  Similarity=0.266  Sum_probs=181.1

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHh----cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTS----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~----~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  117 (364)
                      ++...|.|   +.++|+++.++.|...+.    ++..++++|+||||+|||++++.+++.+........++++++.....
T Consensus        22 ~l~~~~~P---~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~   98 (394)
T PRK00411         22 VLEPDYVP---ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRT   98 (394)
T ss_pred             hCCCCCcC---CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCC
Confidence            34445555   568899999888877764    33445699999999999999999999886554456777888765433


Q ss_pred             hHHHH-HHHHHHHh-cCcc-c-------------cCCccceEEEEEeCCCCCC----HHHHHHHHHHHHHhcc-CccEEE
Q 017884          118 IDVVR-QQIQDFAS-TQSF-S-------------FGVKASVKLVLLDEADAMT----KDAQFALRRVIEKYTK-NTRFAL  176 (364)
Q Consensus       118 ~~~~~-~~i~~~~~-~~~~-~-------------~~~~~~~~viiiDe~~~l~----~~~~~~L~~~le~~~~-~~~~Il  176 (364)
                      ...+. ........ ..+. .             ....+.+.||+|||+|.+.    .+....|++.++..+. ++.+|+
T Consensus        99 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~  178 (394)
T PRK00411         99 RYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIG  178 (394)
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEE
Confidence            22222 21221111 0000 0             0111235799999999996    3344555555554433 455788


Q ss_pred             Eeeccc---cCchhhhccc--eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q 017884          177 ICNQVN---KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLC---NGDMRKALNILQST  246 (364)
Q Consensus       177 ~~~~~~---~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~~~~~l~~~~---~g~~r~a~~~l~~~  246 (364)
                      +++...   .+.+.+.+|+  ..+.|+|++.+++.+++..++...  ...+++++++.+++.+   .||+|.+++.+..+
T Consensus       179 i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a  258 (394)
T PRK00411        179 ISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRA  258 (394)
T ss_pred             EECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            887543   4567777775  578999999999999999988653  3368999999999888   79999999999765


Q ss_pred             HHhc-----ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHhcCCChH
Q 017884          247 HMAS-----QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMR--KGLALVDIVREVTMFVFKIKMPSD  319 (364)
Q Consensus       247 ~~~~-----~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~--~~~~~~~i~~~l~~~~~~~~~~~~  319 (364)
                      ...+     ..|+.++|..+............+..+...... .+..+......  ......+++..+.......+.++.
T Consensus       259 ~~~a~~~~~~~I~~~~v~~a~~~~~~~~~~~~~~~L~~~~k~-~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~  337 (394)
T PRK00411        259 GLIAEREGSRKVTEEDVRKAYEKSEIVHLSEVLRTLPLHEKL-LLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPR  337 (394)
T ss_pred             HHHHHHcCCCCcCHHHHHHHHHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcC
Confidence            4322     479999998877654333333333332222111 22222222211  234566777666666666666554


Q ss_pred             HHHHHHHHHHHHHH
Q 017884          320 VRVRLMNDLADIEY  333 (364)
Q Consensus       320 ~~~~i~~~l~~~~~  333 (364)
                      ....+.+.+.+++.
T Consensus       338 ~~~~~~~~l~~L~~  351 (394)
T PRK00411        338 THTRFYEYINKLDM  351 (394)
T ss_pred             cHHHHHHHHHHHHh
Confidence            44445555555554

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.84  E-value=1.4e-19  Score=160.34  Aligned_cols=189  Identities=19%  Similarity=0.247  Sum_probs=135.6

Q ss_pred             CcchhccHHHHHHHHHHHh----------c-----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCC--CCCcEEEEeCCC
Q 017884           52 LADVAAHRDIVDTIDRLTS----------E-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ--YHNMILELNASD  114 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~----------~-----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~--~~~~~~~~~~~~  114 (364)
                      +++++|.+.+++.++....          .     +..+|++|+||||||||++|+.+++.+...+  ....++++++++
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~   84 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD   84 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH
Confidence            5679999999987764432          1     2345689999999999999999999875433  223455555433


Q ss_pred             CCCh--HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC--------HHHHHHHHHHHHHhccCccEEEEeecc---
Q 017884          115 DRGI--DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------KDAQFALRRVIEKYTKNTRFALICNQV---  181 (364)
Q Consensus       115 ~~~~--~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~--------~~~~~~L~~~le~~~~~~~~Il~~~~~---  181 (364)
                      ..+.  ......+.+....     .   .++||+|||+|.|.        .+.++.|++.|++...+.++|+++...   
T Consensus        85 l~~~~~g~~~~~~~~~~~~-----a---~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~  156 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKK-----A---LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMD  156 (261)
T ss_pred             hhhhhccchHHHHHHHHHh-----c---cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhH
Confidence            2111  0011112222211     1   24699999999986        346788999999877677777765322   


Q ss_pred             --ccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH----------cCCCHHHHHHHHHHHHH
Q 017884          182 --NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL----------CNGDMRKALNILQSTHM  248 (364)
Q Consensus       182 --~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~----------~~g~~r~a~~~l~~~~~  248 (364)
                        ..+.+++++|+ ..+.|++++.+++.+++...+...+..++++++..|++.          +.||.|.+.+.++.+..
T Consensus       157 ~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~e~a~~  236 (261)
T TIGR02881       157 YFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNIIEKAIR  236 (261)
T ss_pred             HHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHHHHHHH
Confidence              24678999998 779999999999999999999999999999999988654          25899999999987653

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

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.82  E-value=1.1e-18  Score=151.70  Aligned_cols=199  Identities=19%  Similarity=0.253  Sum_probs=145.5

Q ss_pred             CCCCcchhc--cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHH
Q 017884           49 PQSLADVAA--HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (364)
Q Consensus        49 p~~~~~~vg--~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (364)
                      |.+|++++.  +...+..+++++......+++|+||+|+|||++++++++.....+.  .++.+++.....      ...
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~--~~~~i~~~~~~~------~~~   82 (226)
T TIGR03420        11 DPTFDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGK--SAIYLPLAELAQ------ADP   82 (226)
T ss_pred             chhhcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCC--cEEEEeHHHHHH------hHH
Confidence            456777773  6778899999887666667999999999999999999998754433  345555433211      111


Q ss_pred             HHHhcCccccCCccceEEEEEeCCCCCCHHH--HHHHHHHHHHhc-cCccEEEEeeccc-c--Cc-hhhhccc---eEEE
Q 017884          127 DFASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYT-KNTRFALICNQVN-K--II-PALQSRC---TRFR  196 (364)
Q Consensus       127 ~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~--~~~L~~~le~~~-~~~~~Il~~~~~~-~--l~-~~l~sr~---~~i~  196 (364)
                      .....    +.   ...+|+|||++.+....  ++.|..+++... ....+|++++... .  .. +.+.+|+   ..+.
T Consensus        83 ~~~~~----~~---~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~  155 (226)
T TIGR03420        83 EVLEG----LE---QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQ  155 (226)
T ss_pred             HHHhh----cc---cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEe
Confidence            11111    11   35699999999998643  788888887643 2346777765332 2  22 6777775   5799


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH----hcccCchHHHHHhc
Q 017884          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM----ASQQITEEAVYLCT  262 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~----~~~~i~~~~v~~~~  262 (364)
                      +++++.++...+++..+.+.++.+++++++.|++.++||+|.+.+.++.+..    ..+.||.+.+.+++
T Consensus       156 l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~~~i~~~~~~~~~  225 (226)
T TIGR03420       156 LPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAKRKITIPFVKEVL  225 (226)
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHh
Confidence            9999999999999998888899999999999999999999999999876553    22478888777654

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]

Probab=99.82  E-value=1.7e-17  Score=151.82  Aligned_cols=280  Identities=15%  Similarity=0.237  Sum_probs=218.6

Q ss_pred             HHHHHhcC-CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceE
Q 017884           65 IDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (364)
Q Consensus        65 l~~~~~~~-~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (364)
                      +...+..+ ..|-+++||+.-.-....+..+.+...+.+.......+...+     ..-..+...+.+.++ |+.   ++
T Consensus         6 ~~~~l~~~~~~~v~ll~G~d~~l~~e~~~~i~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~s~~l-F~~---~~   76 (334)
T COG1466           6 LAKHLKKKNLMPVYLLYGEDEGLLEEAADAILKRALADGFDENYSFFDDSE-----LDWADLLSELESPSL-FGE---KR   76 (334)
T ss_pred             HHHHHhcCCCccEEEEecCChhHHHHHHHHHHHHHhccchhhHHhhccccc-----CCHHHHHHHhhcccc-ccC---Ce
Confidence            34445554 444489999998888888888888775433333333222221     112234444666666 776   68


Q ss_pred             EEEEeCCCCCC-HHHHHHHHHHHHHhc-cCccEEEEeeccc---cCchhhhcc--ceEEEecCCChHHHHHHHHHHHHHc
Q 017884          144 LVLLDEADAMT-KDAQFALRRVIEKYT-KNTRFALICNQVN---KIIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAE  216 (364)
Q Consensus       144 viiiDe~~~l~-~~~~~~L~~~le~~~-~~~~~Il~~~~~~---~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~  216 (364)
                      +++|....... .+....+......+| .+..+++.++..+   +..+.+..-  +.++.+.+++..++.+|+..++++.
T Consensus        77 ~v~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~kl~~~~~~~k~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~  156 (334)
T COG1466          77 LVVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWLKKLAKAVVVECKPLDEAELPQWIKKRAKEL  156 (334)
T ss_pred             eEEEECCCCCcCchhHHHHHHHHcCCCCCCEEEEEecCCcchHHHHHHHHHHhccCceEecCCCCHHHHHHHHHHHHHHc
Confidence            99999988876 555566666666666 4444444443333   233333332  5689999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc--cCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHH
Q 017884          217 GLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ--QITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKM  294 (364)
Q Consensus       217 ~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~--~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~  294 (364)
                      |+.+++++++.|+...+||++.+.++++++..+..  .||.++|..++......+.|++++++.+++...++..++++. 
T Consensus       157 ~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~~~f~l~dail~g~~~~a~~~l~~L~-  235 (334)
T COG1466         157 GLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEFNIFDLADALLKGDVKKALRLLRDLL-  235 (334)
T ss_pred             CCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccCCHHHHHHHHHCCCHHHHHHHHHHHH-
Confidence            99999999999999999999999999999998775  699999999999999999999999999999999999999999 


Q ss_pred             hcCCCHHHHHHHHHHHHHhc-----------------------------------CCChHHHHHHHHHHHHHHHHHhcCC
Q 017884          295 RKGLALVDIVREVTMFVFKI-----------------------------------KMPSDVRVRLMNDLADIEYRLSFGC  339 (364)
Q Consensus       295 ~~~~~~~~i~~~l~~~~~~~-----------------------------------~~~~~~~~~i~~~l~~~~~~l~~~~  339 (364)
                      ..|++|..++..+.++++.+                                   +++.+.+..++..+.++|..+|++.
T Consensus       236 ~~ge~p~~il~~l~~~f~~~~~l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~r~s~~~l~~~l~~l~~~d~~~K~~~  315 (334)
T COG1466         236 LEGEEPLKLLAALTRQFRLLLQLKALAEKGKSLQQAAKSLGIPYRRKKLFKKAARRLSLKQLLKALRLLAQLDYQIKTGY  315 (334)
T ss_pred             HcCCcHHHHHHHHHHHHHHHHHHHHHHHcCcCHHHHHHHhcCcHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHhcCC
Confidence            79999999999999999844                                   3788889999999999999999998


Q ss_pred             -ChHHHHHHHHHHHHH
Q 017884          340 -NDKLQLGSIISTFTQ  354 (364)
Q Consensus       340 -~~~~~l~~l~~~l~~  354 (364)
                       ++...++.++..++.
T Consensus       316 ~d~~~~l~~~l~~~~~  331 (334)
T COG1466         316 GDPVWALELFLLRLLE  331 (334)
T ss_pred             ccchHHHHHHHHHHhh
Confidence             688888888887764

>PRK05642 DNA replication initiation factor; Validated

Probab=99.81  E-value=4.8e-18  Score=147.51  Aligned_cols=210  Identities=17%  Similarity=0.233  Sum_probs=146.8

Q ss_pred             CCCChhhccCCC-CCcchhc--cHHHHHHHHHHHhcC---CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           39 KASPWVEKYRPQ-SLADVAA--HRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        39 ~~~~~~~~~~p~-~~~~~vg--~~~~~~~l~~~~~~~---~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      .+.|+--.+.|. +|++++.  +..++..+.++....   ..++++||||+|+|||++++++++++...+  ..+++++.
T Consensus         4 ~Ql~l~~~~~~~~tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~--~~v~y~~~   81 (234)
T PRK05642          4 IQLPLGVRLRDDATFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRG--EPAVYLPL   81 (234)
T ss_pred             cccccCCCCCCcccccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEeeH
Confidence            455665566654 7888874  233333444443321   124589999999999999999999875443  34455544


Q ss_pred             CCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC--HHHHHHHHHHHHHhcc-CccEEEEeecc----ccCc
Q 017884          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTK-NTRFALICNQV----NKII  185 (364)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~~-~~~~Il~~~~~----~~l~  185 (364)
                      .+..      .....+...    +.   ...+++|||++.+.  +..+..|+.+++.... +..+|++++..    ....
T Consensus        82 ~~~~------~~~~~~~~~----~~---~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~  148 (234)
T PRK05642         82 AELL------DRGPELLDN----LE---QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKL  148 (234)
T ss_pred             HHHH------hhhHHHHHh----hh---hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccC
Confidence            3211      111111111    11   24699999999885  3456779999987654 45566666532    2346


Q ss_pred             hhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cccCchHHH
Q 017884          186 PALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAV  258 (364)
Q Consensus       186 ~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----~~~i~~~~v  258 (364)
                      +.++||+   .++.+.+|+.++...+++.++...++.++++++++|++.++||+|.+.+.++.+...    ..+||...+
T Consensus       149 ~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~  228 (234)
T PRK05642        149 PDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLERLDQASLQAQRKLTIPFL  228 (234)
T ss_pred             ccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCcCCHHHH
Confidence            8999997   889999999999999999888888999999999999999999999999988776532    257888888


Q ss_pred             HHhcC
Q 017884          259 YLCTG  263 (364)
Q Consensus       259 ~~~~~  263 (364)
                      +++++
T Consensus       229 ~~~L~  233 (234)
T PRK05642        229 KETLG  233 (234)
T ss_pred             HHHhc
Confidence            77653

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

Probab=99.81  E-value=1.6e-17  Score=152.09  Aligned_cols=280  Identities=18%  Similarity=0.279  Sum_probs=185.6

Q ss_pred             hhccCCCCCcchhccHHHHHHHHHH----HhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH
Q 017884           44 VEKYRPQSLADVAAHRDIVDTIDRL----TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (364)
Q Consensus        44 ~~~~~p~~~~~~vg~~~~~~~l~~~----~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  119 (364)
                      ...|-|..   +.+++..+.++...    +.++.+.++++||+||+|||++++.+++++........++++||.......
T Consensus        11 ~~~~iP~~---l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~   87 (366)
T COG1474          11 LEDYIPEE---LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPY   87 (366)
T ss_pred             CCCCCccc---ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHH
Confidence            34455544   78888888866555    445666669999999999999999999999776555558899998776665


Q ss_pred             HHHHHHHHHHhcCccc--------------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccC---ccEEEEeecc-
Q 017884          120 VVRQQIQDFASTQSFS--------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN---TRFALICNQV-  181 (364)
Q Consensus       120 ~~~~~i~~~~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~---~~~Il~~~~~-  181 (364)
                      .+...+-......|..              +......-||++||+|.|....++.|..++..+...   +.+|+++|.. 
T Consensus        88 ~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~  167 (366)
T COG1474          88 QVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDK  167 (366)
T ss_pred             HHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHH
Confidence            5554444433222210              111235779999999999877556666666554333   3466666654 


Q ss_pred             --ccCchhhhccc--eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHH---cCCCHHHHHHHHHHHHHhc--
Q 017884          182 --NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRL---CNGDMRKALNILQSTHMAS--  250 (364)
Q Consensus       182 --~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~---~~g~~r~a~~~l~~~~~~~--  250 (364)
                        ..+.+.++|+.  ..+.|+|++.+|+..+|..+++.  ....+++++++.++..   .+||.|.|+..|..+...+  
T Consensus       168 ~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~  247 (366)
T COG1474         168 FLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAER  247 (366)
T ss_pred             HHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHh
Confidence              36778888875  45889999999999999999885  2446788888877754   4789999999998776543  


Q ss_pred             ---ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHh-cCCCHHHHHHHHHHHHHhcCCChHHHHHHHH
Q 017884          251 ---QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMR-KGLALVDIVREVTMFVFKIKMPSDVRVRLMN  326 (364)
Q Consensus       251 ---~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~  326 (364)
                         ..++.++|..+..........+.++.+.   ..+.+. +..+... .......++..+.........   ...++.+
T Consensus       248 ~~~~~v~~~~v~~a~~~~~~~~~~~~~~~L~---~~~ki~-L~~i~~~~~~~~~~~~y~~y~~~~~~~~~---~~~~~~~  320 (366)
T COG1474         248 EGSRKVSEDHVREAQEEIERDVLEEVLKTLP---LHQKIV-LLAIVELTVEISTGELYDVYESLCERLRT---SQRRFSD  320 (366)
T ss_pred             hCCCCcCHHHHHHHHHHhhHHHHHHHHHcCC---HhHHHH-HHHHHHhcCCCChHHHHHHHHHHHhhhCc---hHHHHHH
Confidence               4899999998855544444444444332   222221 2222212 455666666666555554444   4445555


Q ss_pred             HHHHHHH
Q 017884          327 DLADIEY  333 (364)
Q Consensus       327 ~l~~~~~  333 (364)
                      .+.+++.
T Consensus       321 ii~~L~~  327 (366)
T COG1474         321 IISELEG  327 (366)
T ss_pred             HHHHHHh
Confidence            5555554

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.81  E-value=9.4e-19  Score=146.61  Aligned_cols=204  Identities=20%  Similarity=0.230  Sum_probs=143.5

Q ss_pred             hccCCCCCcchhccHHHHHHHHHH---HhcC------CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRL---TSEN------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~---~~~~------~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      +-.+-.+|+|++||++++...+-.   +.+.      .+.++|||||||+|||.+|++++++.     ...++.+.++..
T Consensus       113 e~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~-----kvp~l~vkat~l  187 (368)
T COG1223         113 EIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA-----KVPLLLVKATEL  187 (368)
T ss_pred             hhhccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc-----CCceEEechHHH
Confidence            445556899999999998865444   4332      34459999999999999999999986     556666666553


Q ss_pred             CC------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC------------HHHHHHHHHHHHHhcc--CccEE
Q 017884          116 RG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT------------KDAQFALRRVIEKYTK--NTRFA  175 (364)
Q Consensus       116 ~~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~------------~~~~~~L~~~le~~~~--~~~~I  175 (364)
                      .|      ...+++..+...+.         .++|++|||+|.+.            .+..|+|+.-|+....  .++.|
T Consensus       188 iGehVGdgar~Ihely~rA~~~---------aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtI  258 (368)
T COG1223         188 IGEHVGDGARRIHELYERARKA---------APCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTI  258 (368)
T ss_pred             HHHHhhhHHHHHHHHHHHHHhc---------CCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEE
Confidence            22      22233322222221         47899999999985            2356788888876543  45667


Q ss_pred             EEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHH------HHHH
Q 017884          176 LICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNIL------QSTH  247 (364)
Q Consensus       176 l~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l------~~~~  247 (364)
                      .+||++..++++++||+ ..++|.-|+.++...++...+++..+.++.. ++++++.+.| +-|.+..-.      +.+.
T Consensus       259 aaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~-~~~~~~~t~g~SgRdikekvlK~aLh~Ai~  337 (368)
T COG1223         259 AATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD-LRYLAAKTKGMSGRDIKEKVLKTALHRAIA  337 (368)
T ss_pred             eecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC-HHHHHHHhCCCCchhHHHHHHHHHHHHHHH
Confidence            77899999999999999 7799999999999999999999988887776 7888888865 333333222      2222


Q ss_pred             HhcccCchHHHHHhcC
Q 017884          248 MASQQITEEAVYLCTG  263 (364)
Q Consensus       248 ~~~~~i~~~~v~~~~~  263 (364)
                      .....|+.+++..++.
T Consensus       338 ed~e~v~~edie~al~  353 (368)
T COG1223         338 EDREKVEREDIEKALK  353 (368)
T ss_pred             hchhhhhHHHHHHHHH
Confidence            2234566666655443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.81  E-value=2.8e-18  Score=167.91  Aligned_cols=226  Identities=23%  Similarity=0.330  Sum_probs=162.4

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  114 (364)
                      ..|..+.+||.+|++++|++..+..+...+.....++++|+||+|+|||++|+.+++......     ....++.+++..
T Consensus       141 ~~~~~~~~rp~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~  220 (615)
T TIGR02903       141 HKSAQSLLRPRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTT  220 (615)
T ss_pred             hhHHhhhcCcCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechh
Confidence            356788899999999999999999988888777777899999999999999999987753211     134567777654


Q ss_pred             CC-ChHHHHHHH------------H-HHHhc--Cc--cccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-------
Q 017884          115 DR-GIDVVRQQI------------Q-DFAST--QS--FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------  169 (364)
Q Consensus       115 ~~-~~~~~~~~i------------~-~~~~~--~~--~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-------  169 (364)
                      .. ....+...+            . .....  ..  ...-...++++++|||++.|....++.|++++++..       
T Consensus       221 l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~  300 (615)
T TIGR02903       221 LRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSY  300 (615)
T ss_pred             ccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecce
Confidence            21 111110000            0 00000  00  000111246799999999999999999999998631       


Q ss_pred             -------------------cCccEEEE--e-eccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHH
Q 017884          170 -------------------KNTRFALI--C-NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA  227 (364)
Q Consensus       170 -------------------~~~~~Il~--~-~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~  227 (364)
                                         ..+.++++  + +.+..+.+++++||..+.|+|++.+++..++...+.+.++.+++++++.
T Consensus       301 ~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls~eal~~  380 (615)
T TIGR02903       301 YDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLAAGVEEL  380 (615)
T ss_pred             eccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence                               11223443  3 4566788999999999999999999999999999998888899999999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHhc-------------ccCchHHHHHhcCCCC
Q 017884          228 LVRLCNGDMRKALNILQSTHMAS-------------QQITEEAVYLCTGNPL  266 (364)
Q Consensus       228 l~~~~~g~~r~a~~~l~~~~~~~-------------~~i~~~~v~~~~~~~~  266 (364)
                      |++++. +.|++++.|+.+..+.             ..|+.++|.++++...
T Consensus       381 L~~ys~-~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r  431 (615)
T TIGR02903       381 IARYTI-EGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQISR  431 (615)
T ss_pred             HHHCCC-cHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCCc
Confidence            998764 6799999886553221             1578888888877653

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

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=99.80  E-value=2.9e-18  Score=163.22  Aligned_cols=207  Identities=27%  Similarity=0.468  Sum_probs=137.3

Q ss_pred             CCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcC---CC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN---RL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~---~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      .....||+++|+|.+.+|++.|++.++.++.|++..   ..  ..++|+||+|+|||++++.+++++.     ..+.+..
T Consensus         3 ~~~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg-----~~v~Ew~   77 (519)
T PF03215_consen    3 DDESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG-----FEVQEWI   77 (519)
T ss_pred             CcccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC-----CeeEEec
Confidence            356789999999999999999999999999999853   21  1279999999999999999999983     3333331


Q ss_pred             CCCC-----------C----ChHHHHHH---HHHH-HhcCcc-cc---C--CccceEEEEEeCCCCCCHHHHHHHHHHHH
Q 017884          112 ASDD-----------R----GIDVVRQQ---IQDF-ASTQSF-SF---G--VKASVKLVLLDEADAMTKDAQFALRRVIE  166 (364)
Q Consensus       112 ~~~~-----------~----~~~~~~~~---i~~~-~~~~~~-~~---~--~~~~~~viiiDe~~~l~~~~~~~L~~~le  166 (364)
                      ....           .    ..+.....   +.++ ...... ..   +  ....++||+|||+..+.......|...|.
T Consensus        78 np~~~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~~~~f~~~L~  157 (519)
T PF03215_consen   78 NPVSFRESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRDTSRFREALR  157 (519)
T ss_pred             CCCCccccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchhHHHHHHHHH
Confidence            1110           0    00001111   2222 111010 00   1  11258899999998876444456666555


Q ss_pred             Hhc--cCc-cEEE-Eee--c------cc--------cCchhhhcc--ceEEEecCCChHHHHHHHHHHHHHc-----CC-
Q 017884          167 KYT--KNT-RFAL-ICN--Q------VN--------KIIPALQSR--CTRFRFAPLEPVHVTERLKHVIEAE-----GL-  218 (364)
Q Consensus       167 ~~~--~~~-~~Il-~~~--~------~~--------~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~-----~~-  218 (364)
                      .+-  ..+ .+|+ +++  .      ..        -+.+.+...  +..|.|.|..+.-+.+.|.+++.++     +. 
T Consensus       158 ~~l~~~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~FNpIa~T~mkKaL~rI~~~E~~~~~~~~  237 (519)
T PF03215_consen  158 QYLRSSRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKFNPIAPTFMKKALKRILKKEARSSSGKN  237 (519)
T ss_pred             HHHHcCCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEecCCCHHHHHHHHHHHHHHHhhhhcCCc
Confidence            432  223 4444 331  1      00        233455553  5889999999999999999999987     22 


Q ss_pred             CCC--HHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017884          219 DVT--EGGLAALVRLCNGDMRKALNILQSTHM  248 (364)
Q Consensus       219 ~i~--~~~~~~l~~~~~g~~r~a~~~l~~~~~  248 (364)
                      ..+  .+.++.|++.++||+|.|++.||..+.
T Consensus       238 ~~p~~~~~l~~I~~~s~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  238 KVPDKQSVLDSIAESSNGDIRSAINNLQFWCL  269 (519)
T ss_pred             cCCChHHHHHHHHHhcCchHHHHHHHHHHHhc
Confidence            222  345899999999999999999999887

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.80  E-value=5.4e-18  Score=160.11  Aligned_cols=208  Identities=14%  Similarity=0.213  Sum_probs=149.2

Q ss_pred             CCCCCcchhcc---HHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH
Q 017884           48 RPQSLADVAAH---RDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (364)
Q Consensus        48 ~p~~~~~~vg~---~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  122 (364)
                      .+.+|+.++..   ..+......+.....  .++++|||++|+|||++++++++.+........++++++...  ...+.
T Consensus       110 ~~~tFdnFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f--~~~~~  187 (450)
T PRK14087        110 NENTFENFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEF--ARKAV  187 (450)
T ss_pred             cccchhcccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH--HHHHH
Confidence            34688888742   224445555555422  244999999999999999999998765444556666665331  11111


Q ss_pred             H-------HHHHHHhcCccccCCccceEEEEEeCCCCCC--HHHHHHHHHHHHHhccC-ccEEEEeeccc----cCchhh
Q 017884          123 Q-------QIQDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYTKN-TRFALICNQVN----KIIPAL  188 (364)
Q Consensus       123 ~-------~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~~~-~~~Il~~~~~~----~l~~~l  188 (364)
                      .       .+..+...    +.   ...+++|||++.+.  ...++.|+.++...... ..+|++++.+.    .+.+.|
T Consensus       188 ~~l~~~~~~~~~~~~~----~~---~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL  260 (450)
T PRK14087        188 DILQKTHKEIEQFKNE----IC---QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRL  260 (450)
T ss_pred             HHHHHhhhHHHHHHHH----hc---cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHH
Confidence            1       11222111    11   36699999999997  56788899998876543 35777776443    456788


Q ss_pred             hccc---eEEEecCCChHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc------ccCchHH
Q 017884          189 QSRC---TRFRFAPLEPVHVTERLKHVIEAEGL--DVTEGGLAALVRLCNGDMRKALNILQSTHMAS------QQITEEA  257 (364)
Q Consensus       189 ~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~--~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~------~~i~~~~  257 (364)
                      .+|+   .++.+.+|+.+++.++|++.++..|.  .++++++++|+..++||+|.+.+.+..+...+      ..||.+.
T Consensus       261 ~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~  340 (450)
T PRK14087        261 ITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEI  340 (450)
T ss_pred             HHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHH
Confidence            8885   68999999999999999999998775  69999999999999999999999997765322      4799999


Q ss_pred             HHHhcCC
Q 017884          258 VYLCTGN  264 (364)
Q Consensus       258 v~~~~~~  264 (364)
                      +.+++..
T Consensus       341 v~~~l~~  347 (450)
T PRK14087        341 VSDLFRD  347 (450)
T ss_pred             HHHHHhh
Confidence            8887753

>CHL00181 cbbX CbbX; Provisional

Probab=99.79  E-value=6.2e-18  Score=150.65  Aligned_cols=188  Identities=22%  Similarity=0.285  Sum_probs=133.6

Q ss_pred             cchhccHHHHHHHHHHHh----------c-----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC--CCcEEEEeCCCC
Q 017884           53 ADVAAHRDIVDTIDRLTS----------E-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILELNASDD  115 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~----------~-----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~~  115 (364)
                      ++++|.+.+++++..++.          .     ....|++|+||||||||++|+++++.+...+.  ...+++++..+.
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l  102 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDL  102 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHH
Confidence            479999999987766542          0     12335899999999999999999998754332  123555553321


Q ss_pred             CChH--HHHHHHHHHHhcCccccCCccceEEEEEeCCCCC---------CHHHHHHHHHHHHHhccCccEEEEeecc--c
Q 017884          116 RGID--VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIEKYTKNTRFALICNQV--N  182 (364)
Q Consensus       116 ~~~~--~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l---------~~~~~~~L~~~le~~~~~~~~Il~~~~~--~  182 (364)
                      .+.-  ............        ..++|++|||++.+         ..+.++.|+..|+....++++|++++..  .
T Consensus       103 ~~~~~g~~~~~~~~~l~~--------a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~  174 (287)
T CHL00181        103 VGQYIGHTAPKTKEVLKK--------AMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMD  174 (287)
T ss_pred             HHHHhccchHHHHHHHHH--------ccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHH
Confidence            0000  000011111111        13579999999987         3567889999999887777777776421  1


Q ss_pred             ---cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHHH
Q 017884          183 ---KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL--------CNGDMRKALNILQSTHM  248 (364)
Q Consensus       183 ---~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~--------~~g~~r~a~~~l~~~~~  248 (364)
                         ...|.+++|+ ..+.|++++.+++.+++...+++.+..+++++...+..+        ..||.|.+.+.++.+..
T Consensus       175 ~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~~~  252 (287)
T CHL00181        175 KFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDRARM  252 (287)
T ss_pred             HHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHH
Confidence               3458999998 689999999999999999999999999999988777765        23899999999987664

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

Probab=99.79  E-value=9.6e-18  Score=147.00  Aligned_cols=197  Identities=22%  Similarity=0.331  Sum_probs=139.5

Q ss_pred             CCCcchhccHHHHHHHHHHHhc-----------C-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC-
Q 017884           50 QSLADVAAHRDIVDTIDRLTSE-----------N-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-  115 (364)
                      .+++++-|-++.++.++..+.-           | .+|. +|||||||||||.+|+++|++.     ...|+.+.++.. 
T Consensus       148 vtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T-----~AtFIrvvgSElV  222 (406)
T COG1222         148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT-----DATFIRVVGSELV  222 (406)
T ss_pred             CChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CceEEEeccHHHH
Confidence            4889999999999999998862           1 2333 9999999999999999999986     677888876542 


Q ss_pred             -----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHH-----hccCccE
Q 017884          116 -----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEK-----YTKNTRF  174 (364)
Q Consensus       116 -----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~-----~~~~~~~  174 (364)
                           .+...+++.+.-         +.+..+.||||||+|.+.           .+.|-.++++|.+     +..++.+
T Consensus       223 qKYiGEGaRlVRelF~l---------ArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKV  293 (406)
T COG1222         223 QKYIGEGARLVRELFEL---------AREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKV  293 (406)
T ss_pred             HHHhccchHHHHHHHHH---------HhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEE
Confidence                 233344443322         222357899999999994           2456667766665     3468899


Q ss_pred             EEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC----HHHHHHHHHHHH
Q 017884          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD----MRKALNILQSTH  247 (364)
Q Consensus       175 Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~----~r~a~~~l~~~~  247 (364)
                      |++||.++-++|+|.+  |+ +.++|+.|+.+...++++-+..+.++. ++-.++.|+..+.|-    ++....+.-..+
T Consensus       294 I~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~-~dvd~e~la~~~~g~sGAdlkaictEAGm~A  372 (406)
T COG1222         294 IMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLA-DDVDLELLARLTEGFSGADLKAICTEAGMFA  372 (406)
T ss_pred             EEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCc-cCcCHHHHHHhcCCCchHHHHHHHHHHhHHH
Confidence            9999999999999988  44 679999999999999999888766542 223467788877653    333333332222


Q ss_pred             Hh--cccCchHHHHHh
Q 017884          248 MA--SQQITEEAVYLC  261 (364)
Q Consensus       248 ~~--~~~i~~~~v~~~  261 (364)
                      .-  ...+|.+|..++
T Consensus       373 iR~~R~~Vt~~DF~~A  388 (406)
T COG1222         373 IRERRDEVTMEDFLKA  388 (406)
T ss_pred             HHhccCeecHHHHHHH
Confidence            21  136776665544

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.79  E-value=8.8e-17  Score=153.74  Aligned_cols=214  Identities=13%  Similarity=0.161  Sum_probs=148.8

Q ss_pred             hhhccCCC-CCcchhc-cHH--HHHHHHHHHhcC-CC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           43 WVEKYRPQ-SLADVAA-HRD--IVDTIDRLTSEN-RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        43 ~~~~~~p~-~~~~~vg-~~~--~~~~l~~~~~~~-~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      +...+.|. +|++|+. ..+  +...+..++... .. ..++|||++|+|||+|++++++.+........++++++....
T Consensus       277 ~~a~L~~~~TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~  356 (617)
T PRK14086        277 PTARLNPKYTFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFT  356 (617)
T ss_pred             ccCCCCCCCCHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH
Confidence            33444443 7888874 222  333555555432 22 238999999999999999999997543334556666553311


Q ss_pred             --ChHHHHH-HHHHHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhcc-CccEEEEeeccc----cCch
Q 017884          117 --GIDVVRQ-QIQDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQVN----KIIP  186 (364)
Q Consensus       117 --~~~~~~~-~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~~-~~~~Il~~~~~~----~l~~  186 (364)
                        ....+.+ .+..+...    +.   ...+|+|||++.+..  ..++.|+.+++.... +..+|++++...    .+.+
T Consensus       357 ~el~~al~~~~~~~f~~~----y~---~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~  429 (617)
T PRK14086        357 NEFINSIRDGKGDSFRRR----YR---EMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLED  429 (617)
T ss_pred             HHHHHHHHhccHHHHHHH----hh---cCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccH
Confidence              0011111 11112111    11   367999999999953  447888899887655 355777776542    4678


Q ss_pred             hhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----ccCchHHHH
Q 017884          187 ALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVY  259 (364)
Q Consensus       187 ~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~----~~i~~~~v~  259 (364)
                      .|+||+   .++.+.+|+.+...++|+..+...++.++++++++|+....+|+|.+...|.++..++    ..||.+.++
T Consensus       430 rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~  509 (617)
T PRK14086        430 RLRNRFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTE  509 (617)
T ss_pred             HHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHH
Confidence            899995   6799999999999999999999999999999999999999999999998887765433    478887776


Q ss_pred             HhcC
Q 017884          260 LCTG  263 (364)
Q Consensus       260 ~~~~  263 (364)
                      .++.
T Consensus       510 ~vL~  513 (617)
T PRK14086        510 IVLR  513 (617)
T ss_pred             HHHH
Confidence            6654

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

Probab=99.78  E-value=2.1e-17  Score=150.75  Aligned_cols=265  Identities=15%  Similarity=0.243  Sum_probs=175.5

Q ss_pred             CCcchhc---cHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC--ChHHHHH
Q 017884           51 SLADVAA---HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQ  123 (364)
Q Consensus        51 ~~~~~vg---~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~  123 (364)
                      +|+.++.   +.-+......+....  ..+.++||||+|.|||++++++++.....+....+++++.....  .+..+++
T Consensus        85 tFdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~  164 (408)
T COG0593          85 TFDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRD  164 (408)
T ss_pred             chhheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHh
Confidence            5666665   333444555555543  24459999999999999999999999887777777777654321  1111111


Q ss_pred             -HHHHHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhccCc-cEEEEeeccc----cCchhhhcc---c
Q 017884          124 -QIQDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTKNT-RFALICNQVN----KIIPALQSR---C  192 (364)
Q Consensus       124 -~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~-~~Il~~~~~~----~l~~~l~sr---~  192 (364)
                       .+.+|...    +    ...+++|||++.+..  ..++.|+.++.....+. .+|++++.+.    .+.+.|+||   +
T Consensus       165 ~~~~~Fk~~----y----~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~G  236 (408)
T COG0593         165 NEMEKFKEK----Y----SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWG  236 (408)
T ss_pred             hhHHHHHHh----h----ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhce
Confidence             22223222    2    267999999999964  45899999998876555 5677775443    355789998   4


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----ccCchHHHHHhcCCCCh-
Q 017884          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTGNPLP-  267 (364)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~----~~i~~~~v~~~~~~~~~-  267 (364)
                      .++.+.||+.+....+|...+...++.++++++.+++.....|+|.+...+.++..++    ..||.+.+.+++..... 
T Consensus       237 l~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~  316 (408)
T COG0593         237 LVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRA  316 (408)
T ss_pred             eEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHhhcc
Confidence            7899999999999999999999999999999999999999999999988887766543    47888888777643221 


Q ss_pred             ---HHHHHHHHHHHhccHHHHHH-HHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHH
Q 017884          268 ---KDIEQISYWLLNESFADSFK-RISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLA  329 (364)
Q Consensus       268 ---~~~~~l~~~l~~~~~~~~~~-~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~  329 (364)
                         ..+..+.+.+.+     -+. .+.+++...........+++++++.+ .+.+.++++|-+..+
T Consensus       317 ~~~itie~I~~~Va~-----~y~v~~~dl~s~~R~~~i~~~RqiamyL~r-~lt~~Slp~IG~~Fg  376 (408)
T COG0593         317 GEKITIEDIQKIVAE-----YYNVKVSDLLSKSRTRNIVRPRQIAMYLAR-ELTNLSLPEIGKAFG  376 (408)
T ss_pred             cccCCHHHHHHHHHH-----HhCCCHHHhhccccccccchHHHHHHHHHH-HHccCcHHHHHHHhC
Confidence               222222222221     111 23444433333444455566666654 233444555544433

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.78  E-value=8.7e-17  Score=151.85  Aligned_cols=205  Identities=12%  Similarity=0.205  Sum_probs=144.3

Q ss_pred             CCcchh-ccH--HHHHHHHHHHhcC-CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH-
Q 017884           51 SLADVA-AHR--DIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI-  125 (364)
Q Consensus        51 ~~~~~v-g~~--~~~~~l~~~~~~~-~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i-  125 (364)
                      +|++++ |..  .+......+..+. ..++++||||+|+|||++++++++.+........++++++.+.  ...+...+ 
T Consensus       103 tFdnFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f--~~~~~~~~~  180 (440)
T PRK14088        103 TFENFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LNDLVDSMK  180 (440)
T ss_pred             cccccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH--HHHHHHHHh
Confidence            788887 432  2334555555433 2345999999999999999999999866555556666665321  11111111 


Q ss_pred             ----HHHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhccC-ccEEEEeecc----ccCchhhhccce-
Q 017884          126 ----QDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTKN-TRFALICNQV----NKIIPALQSRCT-  193 (364)
Q Consensus       126 ----~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~-~~~Il~~~~~----~~l~~~l~sr~~-  193 (364)
                          ..+...    +..  ...+++|||++.+..  ..+..|+.++...... ..+|++++..    ..+.+.+.||+. 
T Consensus       181 ~~~~~~f~~~----~~~--~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~  254 (440)
T PRK14088        181 EGKLNEFREK----YRK--KVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQM  254 (440)
T ss_pred             cccHHHHHHH----HHh--cCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhc
Confidence                111111    100  367999999998853  3467788888765443 4566666432    245678889864 


Q ss_pred             --EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----ccCchHHHHHhcC
Q 017884          194 --RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTG  263 (364)
Q Consensus       194 --~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~----~~i~~~~v~~~~~  263 (364)
                        ++.+.+|+.+....++++.+...++.++++++++|++.+.||+|.+...+.++..++    .+||.+.+.+++.
T Consensus       255 gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~  330 (440)
T PRK14088        255 GLVAKLEPPDEETRKKIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLK  330 (440)
T ss_pred             CceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence              899999999999999999999999999999999999999999999998887765433    5788888776654

>PRK09087 hypothetical protein; Validated

Probab=99.78  E-value=1.1e-17  Score=144.09  Aligned_cols=200  Identities=19%  Similarity=0.194  Sum_probs=141.2

Q ss_pred             CCCCChhhccCCC-CCcchhc---cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           38 IKASPWVEKYRPQ-SLADVAA---HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        38 ~~~~~~~~~~~p~-~~~~~vg---~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ..+.++--.+.|. +|++++.   +..++..+.++. ....+.++|+||+|+||||+++++++..     ...  .++..
T Consensus         5 ~~Ql~l~~~~~~~~~~~~Fi~~~~N~~a~~~l~~~~-~~~~~~l~l~G~~GsGKThLl~~~~~~~-----~~~--~i~~~   76 (226)
T PRK09087          5 PEQLPLNFSHDPAYGRDDLLVTESNRAAVSLVDHWP-NWPSPVVVLAGPVGSGKTHLASIWREKS-----DAL--LIHPN   76 (226)
T ss_pred             CcceeeCCCCCCCCChhceeecCchHHHHHHHHhcc-cCCCCeEEEECCCCCCHHHHHHHHHHhc-----CCE--EecHH
Confidence            3455555555544 7888885   444566555544 2223459999999999999999998764     222  22221


Q ss_pred             CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc----cCchhh
Q 017884          114 DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPAL  188 (364)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~----~l~~~l  188 (364)
                      . ...+.    +.. .           ...+++|||++.+. ..+..|+.++..... ...+|++++...    ...+.+
T Consensus        77 ~-~~~~~----~~~-~-----------~~~~l~iDDi~~~~-~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL  138 (226)
T PRK09087         77 E-IGSDA----ANA-A-----------AEGPVLIEDIDAGG-FDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDL  138 (226)
T ss_pred             H-cchHH----HHh-h-----------hcCeEEEECCCCCC-CCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccH
Confidence            1 01111    111 0           12489999999885 345678888876554 455666665332    346889


Q ss_pred             hccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cccCchHHHHHh
Q 017884          189 QSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLC  261 (364)
Q Consensus       189 ~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----~~~i~~~~v~~~  261 (364)
                      +||+   .++++.+|+.+++..++++.++..++.++++++++|++.++|+++.+...+..+...    ..+||...++++
T Consensus       139 ~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~  218 (226)
T PRK09087        139 KSRLKAATVVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEV  218 (226)
T ss_pred             HHHHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            9997   899999999999999999999999999999999999999999999999877655432    357888888776


Q ss_pred             cC
Q 017884          262 TG  263 (364)
Q Consensus       262 ~~  263 (364)
                      +.
T Consensus       219 l~  220 (226)
T PRK09087        219 LN  220 (226)
T ss_pred             HH
Confidence            64

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.78  E-value=1.1e-16  Score=152.62  Aligned_cols=205  Identities=16%  Similarity=0.220  Sum_probs=147.6

Q ss_pred             CCcchh-c--cHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           51 SLADVA-A--HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        51 ~~~~~v-g--~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      +|++++ |  +..+...+..+....  ..++++||||+|+|||++++++++++...+....++++++...  ...+...+
T Consensus       120 tfd~fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~--~~~~~~~~  197 (450)
T PRK00149        120 TFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKF--TNDFVNAL  197 (450)
T ss_pred             cccccccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHH--HHHHHHHH
Confidence            788865 4  333555666666543  2234999999999999999999999876555566667765432  11111111


Q ss_pred             H-----HHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhccC-ccEEEEeeccc----cCchhhhccc-
Q 017884          126 Q-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTKN-TRFALICNQVN----KIIPALQSRC-  192 (364)
Q Consensus       126 ~-----~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~-~~~Il~~~~~~----~l~~~l~sr~-  192 (364)
                      .     .+...    +.   ...+|+|||+|.+..  ..++.|+.+++..... ..+|++++.+.    .+.+.++||+ 
T Consensus       198 ~~~~~~~~~~~----~~---~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~  270 (450)
T PRK00149        198 RNNTMEEFKEK----YR---SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFE  270 (450)
T ss_pred             HcCcHHHHHHH----Hh---cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhc
Confidence            1     11111    11   366999999999854  3567888888765433 44667765432    3667899997 


Q ss_pred             --eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cccCchHHHHHhcCC
Q 017884          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCTGN  264 (364)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----~~~i~~~~v~~~~~~  264 (364)
                        .++.+.+|+.+++.++++..+...++.++++++++|++.++||+|.+...+..+..+    ...||.+.+.+++..
T Consensus       271 ~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~  348 (450)
T PRK00149        271 WGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKD  348 (450)
T ss_pred             CCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Confidence              589999999999999999999999999999999999999999999988888766543    357898888877653

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.78  E-value=1.3e-17  Score=156.89  Aligned_cols=206  Identities=16%  Similarity=0.227  Sum_probs=146.3

Q ss_pred             cCCC-CCcchh-ccHH--HHHHHHHHHhc-----C-CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           47 YRPQ-SLADVA-AHRD--IVDTIDRLTSE-----N-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        47 ~~p~-~~~~~v-g~~~--~~~~l~~~~~~-----~-~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      +.|. +|+.++ |...  +...+..+...     + ...+++||||+|+|||++++++++.+.+.+  ..+++++.... 
T Consensus       104 l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~--~~v~yi~~~~f-  180 (445)
T PRK12422        104 LDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESG--GKILYVRSELF-  180 (445)
T ss_pred             CCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcC--CCEEEeeHHHH-
Confidence            4453 788887 4332  33455555542     1 224499999999999999999999986543  34455543221 


Q ss_pred             ChHHHHHHHH-----HHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhc-cCccEEEEeecc----ccC
Q 017884          117 GIDVVRQQIQ-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQV----NKI  184 (364)
Q Consensus       117 ~~~~~~~~i~-----~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~-~~~~~Il~~~~~----~~l  184 (364)
                       ...+...+.     .+...    +.   ...+++|||++.+..  ..++.|+.++.... ....+|++++..    ..+
T Consensus       181 -~~~~~~~l~~~~~~~f~~~----~~---~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l  252 (445)
T PRK12422        181 -TEHLVSAIRSGEMQRFRQF----YR---NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAM  252 (445)
T ss_pred             -HHHHHHHHhcchHHHHHHH----cc---cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhh
Confidence             111111111     11111    11   367999999999964  45778888877543 345677777653    246


Q ss_pred             chhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH---Hh----cccCc
Q 017884          185 IPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH---MA----SQQIT  254 (364)
Q Consensus       185 ~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~---~~----~~~i~  254 (364)
                      .+.++||+   .++.+.+|+.+++..+|+..+...++.++++++++|+....+|+|.+.+.++.++   .+    ...||
T Consensus       253 ~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~  332 (445)
T PRK12422        253 EERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLY  332 (445)
T ss_pred             HHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCC
Confidence            78999997   7899999999999999999999999999999999999999999999999998774   22    24788


Q ss_pred             hHHHHHhcC
Q 017884          255 EEAVYLCTG  263 (364)
Q Consensus       255 ~~~v~~~~~  263 (364)
                      .+.+++++.
T Consensus       333 ~~~~~~~l~  341 (445)
T PRK12422        333 VDDIKALLH  341 (445)
T ss_pred             HHHHHHHHH
Confidence            888877764

>PRK06620 hypothetical protein; Validated

Probab=99.77  E-value=2.7e-17  Score=140.43  Aligned_cols=182  Identities=13%  Similarity=0.128  Sum_probs=126.7

Q ss_pred             CCcchhc---cHHHHHHHHHHHhcC-C-C--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH
Q 017884           51 SLADVAA---HRDIVDTIDRLTSEN-R-L--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (364)
Q Consensus        51 ~~~~~vg---~~~~~~~l~~~~~~~-~-~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  123 (364)
                      +|++++.   +..+...++.+.... . .  ++++||||+|+|||++++++++...     ..+  .....  ..     
T Consensus        14 tfd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~-----~~~--~~~~~--~~-----   79 (214)
T PRK06620         14 HPDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSN-----AYI--IKDIF--FN-----   79 (214)
T ss_pred             CchhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhccC-----CEE--cchhh--hc-----
Confidence            4555554   456677778777532 1 1  4499999999999999999887641     111  11000  00     


Q ss_pred             HHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccC-ccEEEEeeccc---cCchhhhccce---EEE
Q 017884          124 QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKN-TRFALICNQVN---KIIPALQSRCT---RFR  196 (364)
Q Consensus       124 ~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~-~~~Il~~~~~~---~l~~~l~sr~~---~i~  196 (364)
                        ..+       +.   ...+++|||+|.+..   ..|+.++.....+ ..++++++.+.   .+ +.++||+.   ++.
T Consensus        80 --~~~-------~~---~~d~lliDdi~~~~~---~~lf~l~N~~~e~g~~ilits~~~p~~l~l-~~L~SRl~~gl~~~  143 (214)
T PRK06620         80 --EEI-------LE---KYNAFIIEDIENWQE---PALLHIFNIINEKQKYLLLTSSDKSRNFTL-PDLSSRIKSVLSIL  143 (214)
T ss_pred             --hhH-------Hh---cCCEEEEeccccchH---HHHHHHHHHHHhcCCEEEEEcCCCccccch-HHHHHHHhCCceEe
Confidence              011       11   246999999997743   3455554443323 34555553222   34 88999975   899


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cccCchHHHHHhc
Q 017884          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----SQQITEEAVYLCT  262 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----~~~i~~~~v~~~~  262 (364)
                      +.+|+.+++..++.+.+...++.++++++++|+..++||+|.+.+.++.+...    ...||.+.+++++
T Consensus       144 l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~~~~~l  213 (214)
T PRK06620        144 LNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKRKITISLVKEVL  213 (214)
T ss_pred             eCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHh
Confidence            99999999999999999989999999999999999999999999999886532    2458877776654

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.77  E-value=2.8e-17  Score=151.11  Aligned_cols=208  Identities=22%  Similarity=0.384  Sum_probs=141.0

Q ss_pred             CCCCCCCChhhccCCCCCcchhccHHHHHHHHHHHh-----cCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcE
Q 017884           35 PPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTS-----ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (364)
Q Consensus        35 ~~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~-----~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~  107 (364)
                      .......+|.++|+|.+.+++..|+..+..++.|++     ....++  +||+||+||||||+++.+++++     ...+
T Consensus        64 ~~~d~~elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel-----g~~~  138 (634)
T KOG1970|consen   64 EKEDEFELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL-----GYQL  138 (634)
T ss_pred             CCccccchhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh-----Ccee
Confidence            344556889999999999999999999999999998     555665  7999999999999999999998     3334


Q ss_pred             EEEeCCC-------------CCC--hHHHHHHHHHHHhcC----ccc-cC--CccceEEEEEeCCCCCCHH-HHHHHHHH
Q 017884          108 LELNASD-------------DRG--IDVVRQQIQDFASTQ----SFS-FG--VKASVKLVLLDEADAMTKD-AQFALRRV  164 (364)
Q Consensus       108 ~~~~~~~-------------~~~--~~~~~~~i~~~~~~~----~~~-~~--~~~~~~viiiDe~~~l~~~-~~~~L~~~  164 (364)
                      .+.....             ...  ........+.|....    ... .+  ....+++|+|||+...... ....|...
T Consensus       139 ~Ew~Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d~~~~f~ev  218 (634)
T KOG1970|consen  139 IEWSNPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRDDSETFREV  218 (634)
T ss_pred             eeecCCccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhhhhHHHHHHH
Confidence            4433110             011  111111222222211    110 01  1124679999998777533 44455555


Q ss_pred             HHHhcc---CccEEEEeecc--------ccCchhhh--ccceEEEecCCChHHHHHHHHHHHHHcCCCCC------HHHH
Q 017884          165 IEKYTK---NTRFALICNQV--------NKIIPALQ--SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT------EGGL  225 (364)
Q Consensus       165 le~~~~---~~~~Il~~~~~--------~~l~~~l~--sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~------~~~~  225 (364)
                      |..+..   ...++++|+..        ......+.  -|...+.|.|..+.-+++.|..+|..++...+      ...+
T Consensus       219 L~~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MKK~L~ric~~e~~~~s~~k~~~~~~v  298 (634)
T KOG1970|consen  219 LRLYVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAEV  298 (634)
T ss_pred             HHHHHhcCCCcEEEEEeccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHHH
Confidence            554432   22333344211        12333333  34578999999999999999999998877766      6778


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHH
Q 017884          226 AALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       226 ~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                      +.++..++||+|.|++.||...
T Consensus       299 ~~i~~~s~GDIRsAInsLQlss  320 (634)
T KOG1970|consen  299 ELICQGSGGDIRSAINSLQLSS  320 (634)
T ss_pred             HHHHHhcCccHHHHHhHhhhhc
Confidence            9999999999999999999875

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.77  E-value=2.4e-17  Score=147.03  Aligned_cols=187  Identities=17%  Similarity=0.233  Sum_probs=134.4

Q ss_pred             chhccHHHHHHHHHHHh----------cC-----CCCcEEEeCCCCccHHHHHHHHHHHHcCCCC--CCcEEEEeCCCCC
Q 017884           54 DVAAHRDIVDTIDRLTS----------EN-----RLPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILELNASDDR  116 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~----------~~-----~~~~lll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~~~  116 (364)
                      +++|.+++++.+..+..          .|     ...|++|+||||||||++|+++++.+...+.  ...++.+++....
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            68999888888766532          11     1125999999999999999999998854432  2245566543211


Q ss_pred             Ch--HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC---------CHHHHHHHHHHHHHhccCccEEEEeecc--c-
Q 017884          117 GI--DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRVIEKYTKNTRFALICNQV--N-  182 (364)
Q Consensus       117 ~~--~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l---------~~~~~~~L~~~le~~~~~~~~Il~~~~~--~-  182 (364)
                      +.  ......+......        ..+++++|||++.+         ..+.++.|++.|+....++++|++++..  . 
T Consensus       103 ~~~~g~~~~~~~~~~~~--------a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~  174 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKR--------AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDS  174 (284)
T ss_pred             HhhcccchHHHHHHHHH--------ccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHH
Confidence            00  0000111111111        13579999999987         2456789999999877777777776432  2 


Q ss_pred             --cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHHH
Q 017884          183 --KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL--------CNGDMRKALNILQSTHM  248 (364)
Q Consensus       183 --~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~--------~~g~~r~a~~~l~~~~~  248 (364)
                        .+.+.+.+|+ ..++|++++.+++..++...+++.+..+++++.+.+..+        +.||.|.+.+.++.+..
T Consensus       175 ~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~~~  251 (284)
T TIGR02880       175 FFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRARL  251 (284)
T ss_pred             HHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHH
Confidence              3478999998 689999999999999999999999899999999988876        36999999999987764

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>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=99.76  E-value=1.1e-17  Score=143.69  Aligned_cols=190  Identities=18%  Similarity=0.300  Sum_probs=131.4

Q ss_pred             CCcchh-c--cHHHHHHHHHHHhcCCC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           51 SLADVA-A--HRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        51 ~~~~~v-g--~~~~~~~l~~~~~~~~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      +|+.++ |  +..+.............  ..++||||+|+|||++++++++++........++++++...  ...+.+.+
T Consensus         6 tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f--~~~~~~~~   83 (219)
T PF00308_consen    6 TFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEF--IREFADAL   83 (219)
T ss_dssp             SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHH--HHHHHHHH
T ss_pred             ccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHH--HHHHHHHH
Confidence            688875 4  44555566666655432  34899999999999999999999865545566777764321  11111111


Q ss_pred             -----HHHHhcCccccCCccceEEEEEeCCCCCCHH--HHHHHHHHHHHhccC-ccEEEEeecc----ccCchhhhcc--
Q 017884          126 -----QDFASTQSFSFGVKASVKLVLLDEADAMTKD--AQFALRRVIEKYTKN-TRFALICNQV----NKIIPALQSR--  191 (364)
Q Consensus       126 -----~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--~~~~L~~~le~~~~~-~~~Il~~~~~----~~l~~~l~sr--  191 (364)
                           ..+...    +.   ...+++|||++.+...  .++.|+.+++....+ ..+|++++..    ..+.+.+.||  
T Consensus        84 ~~~~~~~~~~~----~~---~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~  156 (219)
T PF00308_consen   84 RDGEIEEFKDR----LR---SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLS  156 (219)
T ss_dssp             HTTSHHHHHHH----HC---TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHH
T ss_pred             Hcccchhhhhh----hh---cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHh
Confidence                 111111    11   3679999999999764  488999999876544 4577777433    2456789998  


Q ss_pred             -ceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          192 -CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       192 -~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                       +.++.+.+|+.++..+++.+.+...|+.++++++++|++...+|+|.+...++++..+
T Consensus       157 ~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~~~~~r~L~~~l~~l~~~  215 (219)
T PF00308_consen  157 WGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFRRDVRELEGALNRLDAY  215 (219)
T ss_dssp             CSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTTSSHHHHHHHHHHHHHH
T ss_pred             hcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhcCCHHHHHHHHHHHHHH
Confidence             4789999999999999999999999999999999999999999999999999887654

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.

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

Probab=99.76  E-value=4.1e-17  Score=163.79  Aligned_cols=216  Identities=16%  Similarity=0.186  Sum_probs=157.7

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-----CCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~  114 (364)
                      ..++.++.||..+++++|+++.+..+...+.....++++|+||||+|||++++.+++.+.....     ...++.++...
T Consensus       169 ~~~l~~~~r~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~  248 (731)
T TIGR02639       169 TVDLTEKAKNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS  248 (731)
T ss_pred             hhhHHHHHhcCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH
Confidence            5678899999999999999999999999888888888999999999999999999999744321     33455555322


Q ss_pred             C----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH---------HHHHHHHHHHHHhccCccEEEEeecc
Q 017884          115 D----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       115 ~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~---------~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      .    .....+.+.+.........     ..+.|++|||+|.+..         +.++.|...++.  ....+|.+|+..
T Consensus       249 l~a~~~~~g~~e~~l~~i~~~~~~-----~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~--g~i~~IgaTt~~  321 (731)
T TIGR02639       249 LLAGTKYRGDFEERLKAVVSEIEK-----EPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSS--GKLRCIGSTTYE  321 (731)
T ss_pred             HhhhccccchHHHHHHHHHHHHhc-----cCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhC--CCeEEEEecCHH
Confidence            1    1112333344443322110     1367999999998852         346677777763  356677777642


Q ss_pred             -----ccCchhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC---C---HHHHHHHHHHH
Q 017884          182 -----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG---D---MRKALNILQST  246 (364)
Q Consensus       182 -----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g---~---~r~a~~~l~~~  246 (364)
                           ...++++.+||+.+.+++|+.++...+++.....    .++.++++++..++..++.   +   |++|+++++.+
T Consensus       322 e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a  401 (731)
T TIGR02639       322 EYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAIDVIDEA  401 (731)
T ss_pred             HHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHHHHHHHh
Confidence                 2568899999999999999999999999977654    4678999999999988853   3   88999999766


Q ss_pred             HHhc---------ccCchHHHHHhc
Q 017884          247 HMAS---------QQITEEAVYLCT  262 (364)
Q Consensus       247 ~~~~---------~~i~~~~v~~~~  262 (364)
                      +...         ..++.++|..++
T Consensus       402 ~a~~~~~~~~~~~~~v~~~~i~~~i  426 (731)
T TIGR02639       402 GASFRLRPKAKKKANVSVKDIENVV  426 (731)
T ss_pred             hhhhhcCcccccccccCHHHHHHHH
Confidence            5421         136666666554

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.76  E-value=6.4e-17  Score=152.37  Aligned_cols=204  Identities=15%  Similarity=0.221  Sum_probs=143.1

Q ss_pred             CCcchh-ccHH--HHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           51 SLADVA-AHRD--IVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        51 ~~~~~v-g~~~--~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      +|++++ |...  +...+..+.....  ..+++||||+|+|||++++++++++........++++++...  ...+...+
T Consensus       108 tfd~fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~--~~~~~~~~  185 (405)
T TIGR00362       108 TFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKF--TNDFVNAL  185 (405)
T ss_pred             cccccccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHH--HHHHHHHH
Confidence            677744 5333  3445555555422  234899999999999999999999865544556667665431  11111111


Q ss_pred             -----HHHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhc-cCccEEEEeeccc----cCchhhhccc-
Q 017884          126 -----QDFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC-  192 (364)
Q Consensus       126 -----~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~-~~~~~Il~~~~~~----~l~~~l~sr~-  192 (364)
                           ..+...    +.   ...+|+|||++.+..  ..++.|+.+++... .+..+|++++...    .+.+.++||+ 
T Consensus       186 ~~~~~~~~~~~----~~---~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~  258 (405)
T TIGR00362       186 RNNKMEEFKEK----YR---SVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFE  258 (405)
T ss_pred             HcCCHHHHHHH----HH---hCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhcc
Confidence                 111111    11   356999999999864  35677888887653 3456777776432    4567888986 


Q ss_pred             --eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----ccCchHHHHHhcC
Q 017884          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLCTG  263 (364)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~----~~i~~~~v~~~~~  263 (364)
                        ..+.|++|+.++...++...+...++.++++++++|++.+.||+|.+...+..+..++    ..||.+.+.+++.
T Consensus       259 ~g~~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~  335 (405)
T TIGR00362       259 WGLVVDIEPPDLETRLAILQKKAEEEGLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALK  335 (405)
T ss_pred             CCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence              5799999999999999999999999999999999999999999999877776665432    5788887777654

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=99.73  E-value=1.1e-15  Score=128.34  Aligned_cols=178  Identities=16%  Similarity=0.169  Sum_probs=138.9

Q ss_pred             HHHHHHHHhcCCCCc-EEEeCCCC-ccHHHHHHHHHHHHcCCC----CCCcEEEEeCC-------CCCChHHHHHHHHHH
Q 017884           62 VDTIDRLTSENRLPH-LLLYGPPG-TGKTSTILAVARKLYGAQ----YHNMILELNAS-------DDRGIDVVRQQIQDF  128 (364)
Q Consensus        62 ~~~l~~~~~~~~~~~-lll~G~~G-~GKt~la~~l~~~l~~~~----~~~~~~~~~~~-------~~~~~~~~~~~i~~~  128 (364)
                      +..|...++.++..| ++|.|..+ +||..++..+++.+.|.+    .++++..+...       ...+++.+|+.....
T Consensus         2 ~~~L~~~iq~~kLshAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l   81 (263)
T PRK06581          2 IERLEFNLKHNKLYNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFL   81 (263)
T ss_pred             hHHHHHHHHcCcchheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcccHHHHHHHHHHH
Confidence            457888999999999 89999997 999999999999987742    33455555432       245788888855544


Q ss_pred             HhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCChHHHHHH
Q 017884          129 ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTER  208 (364)
Q Consensus       129 ~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~  208 (364)
                      .. .+.    .++++|++|+++|.|+..+.++|++++|+||.++.+|++|+.+..+.++++|||+.+.|..+......++
T Consensus        82 ~~-~p~----~g~~KViII~~ae~mt~~AANALLKtLEEPP~~t~fILit~~~~~LLpTIrSRCq~i~~~~p~~~~~~e~  156 (263)
T PRK06581         82 SK-TSA----ISGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSRAASIISTIRSRCFKINVRSSILHAYNEL  156 (263)
T ss_pred             hh-Ccc----cCCcEEEEEechHHhCHHHHHHHHHhhcCCCCCeEEEEEeCChhhCchhHhhceEEEeCCCCCHHHHHHH
Confidence            33 232    2369999999999999999999999999999999999999999999999999999999999999887777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017884          209 LKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       209 l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                      ....+.   ...+...++.|.+...-|....+...+.+.
T Consensus       157 ~~~~~~---p~~~~~~l~~i~~~~~~d~~~w~~~~~~~~  192 (263)
T PRK06581        157 YSQFIQ---PIADNKTLDFINRFTTKDRELWLDFIDNLL  192 (263)
T ss_pred             HHHhcc---cccccHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            665542   234556678888776666666555555443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.72  E-value=3.5e-16  Score=150.77  Aligned_cols=206  Identities=22%  Similarity=0.261  Sum_probs=136.3

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHh-----------cCCCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTS-----------ENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~-----------~~~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      +.+.....+|++++|.++++..+..++.           +...| +++|+||||||||+++++++.+.     ...++.+
T Consensus        45 ~~~~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~-----~~~~~~i  119 (495)
T TIGR01241        45 LNEEKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSI  119 (495)
T ss_pred             ccCCCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCeeec
Confidence            3444456699999999999888776654           12223 49999999999999999999986     3445555


Q ss_pred             eCCCC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------------HHHHHHHHHHHhcc
Q 017884          111 NASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYTK  170 (364)
Q Consensus       111 ~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------------~~~~L~~~le~~~~  170 (364)
                      +++..      .+...++..+......         .+.||+|||+|.+...              ..+.|+..|+....
T Consensus       120 ~~~~~~~~~~g~~~~~l~~~f~~a~~~---------~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~  190 (495)
T TIGR01241       120 SGSDFVEMFVGVGASRVRDLFEQAKKN---------APCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGT  190 (495)
T ss_pred             cHHHHHHHHhcccHHHHHHHHHHHHhc---------CCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccC
Confidence            54321      1222333333332211         3679999999998531              23455666654432


Q ss_pred             --CccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Q 017884          171 --NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQ  244 (364)
Q Consensus       171 --~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~  244 (364)
                        .+.+|.+||.+..+++++.+  |+ ..+.++.|+.++..++++..+...+.. ++..+..++..+.| +.+.+.++++
T Consensus       191 ~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~G~sgadl~~l~~  269 (495)
T TIGR01241       191 NTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGADLANLLN  269 (495)
T ss_pred             CCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCC-cchhHHHHHHhCCCCCHHHHHHHHH
Confidence              35577778999999999987  55 679999999999999999888755443 34456778877754 3344444443


Q ss_pred             HHHH-----hcccCchHHHHHhcC
Q 017884          245 STHM-----ASQQITEEAVYLCTG  263 (364)
Q Consensus       245 ~~~~-----~~~~i~~~~v~~~~~  263 (364)
                      .+..     ....|+.+++..++.
T Consensus       270 eA~~~a~~~~~~~i~~~~l~~a~~  293 (495)
T TIGR01241       270 EAALLAARKNKTEITMNDIEEAID  293 (495)
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHH
Confidence            3322     224689998877654

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.72  E-value=2.4e-16  Score=159.31  Aligned_cols=203  Identities=15%  Similarity=0.185  Sum_probs=147.8

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-----CCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~  114 (364)
                      ..++.++.||..+++++|+++.+..+...+.....++.+|+||||+|||++++.+++.+.....     ...++.++...
T Consensus       174 ~~~L~~~~r~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~  253 (852)
T TIGR03345       174 TTDLTAQAREGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL  253 (852)
T ss_pred             hhhHHHHhcCCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh
Confidence            3467888899999999999999999999888888889999999999999999999999853321     23344333322


Q ss_pred             C----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----H---HHHHHHHHHHHhccCccEEEEeecc-
Q 017884          115 D----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----D---AQFALRRVIEKYTKNTRFALICNQV-  181 (364)
Q Consensus       115 ~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----~---~~~~L~~~le~~~~~~~~Il~~~~~-  181 (364)
                      .    .....+...+........- .   ..+.|++|||+|.+..     .   ..+.|...++.  ....+|.+|+.. 
T Consensus       254 l~ag~~~~ge~e~~lk~ii~e~~~-~---~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~--G~l~~IgaTT~~e  327 (852)
T TIGR03345       254 LQAGASVKGEFENRLKSVIDEVKA-S---PQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR--GELRTIAATTWAE  327 (852)
T ss_pred             hhcccccchHHHHHHHHHHHHHHh-c---CCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC--CCeEEEEecCHHH
Confidence            1    1222333333333222110 0   1467999999999963     2   23457777664  356677777642 


Q ss_pred             ----ccCchhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHH
Q 017884          182 ----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTH  247 (364)
Q Consensus       182 ----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~a~~~l~~~~  247 (364)
                          ...+++|.+||+.+.+++|+.++...+|+.....    .++.++++++..++..+.+      -|.+|+++++.++
T Consensus       328 ~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAIdlldea~  407 (852)
T TIGR03345       328 YKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAVSLLDTAC  407 (852)
T ss_pred             HhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHHHHHHHHH
Confidence                3578999999999999999999999997666543    4688999999999999863      4888999998765


Q ss_pred             H
Q 017884          248 M  248 (364)
Q Consensus       248 ~  248 (364)
                      .
T Consensus       408 a  408 (852)
T TIGR03345       408 A  408 (852)
T ss_pred             H
Confidence            4

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

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.70  E-value=1.7e-15  Score=143.60  Aligned_cols=202  Identities=16%  Similarity=0.172  Sum_probs=135.8

Q ss_pred             CCCcchhccHHHHHHHHHHHh--------cC-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC---
Q 017884           50 QSLADVAAHRDIVDTIDRLTS--------EN-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---  116 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~--------~~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---  116 (364)
                      .+|+++.|.+.+++.+.....        .| ..| ++|||||||||||.+|+++++++     +..++.++.....   
T Consensus       225 ~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~-----~~~~~~l~~~~l~~~~  299 (489)
T CHL00195        225 EKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW-----QLPLLRLDVGKLFGGI  299 (489)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEEhHHhcccc
Confidence            579999999988887765321        12 223 39999999999999999999997     4455565543211   


Q ss_pred             ---ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH------------HHHHHHHHHHHHhccCccEEEEeecc
Q 017884          117 ---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       117 ---~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~------------~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                         +...+++.+.. +..        ..+.||+|||+|.+..            .....|+..|++....+.+|.+||.+
T Consensus       300 vGese~~l~~~f~~-A~~--------~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~  370 (489)
T CHL00195        300 VGESESRMRQMIRI-AEA--------LSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNI  370 (489)
T ss_pred             cChHHHHHHHHHHH-HHh--------cCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCCh
Confidence               11223333322 211        1468999999997742            12345677777666566677888999


Q ss_pred             ccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCC----CHHHHHHHHHHHHH-hccc
Q 017884          182 NKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLCNG----DMRKALNILQSTHM-ASQQ  252 (364)
Q Consensus       182 ~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~~~~l~~~~~g----~~r~a~~~l~~~~~-~~~~  252 (364)
                      +.+++++.+  |+ ..+.++.|+.++..++++..+.+.+.. .++..++.|++.+.|    |++.++...-..+. ....
T Consensus       371 ~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~~~~  450 (489)
T CHL00195        371 DLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEKRE  450 (489)
T ss_pred             hhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHcCCC
Confidence            999999976  77 678999999999999999998876433 345567888888754    45444443322222 2357


Q ss_pred             CchHHHHHhcCCC
Q 017884          253 ITEEAVYLCTGNP  265 (364)
Q Consensus       253 i~~~~v~~~~~~~  265 (364)
                      ++.+++..++...
T Consensus       451 lt~~dl~~a~~~~  463 (489)
T CHL00195        451 FTTDDILLALKQF  463 (489)
T ss_pred             cCHHHHHHHHHhc
Confidence            7888777665443

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

Probab=99.70  E-value=7.5e-16  Score=143.81  Aligned_cols=208  Identities=19%  Similarity=0.258  Sum_probs=133.4

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhc-----------C--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCc
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------N--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNM  106 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~  106 (364)
                      +.++++++.+.+|+++.|.+..++.+...+..           +  ...+++||||||||||++|+++++.+.     ..
T Consensus       170 ~~~~~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~-----~~  244 (438)
T PTZ00361        170 SVMKVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS-----AT  244 (438)
T ss_pred             hhcccccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhC-----CC
Confidence            34567777788999999999999998887742           1  222489999999999999999999873     34


Q ss_pred             EEEEeCCCCC------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHh-
Q 017884          107 ILELNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-  168 (364)
Q Consensus       107 ~~~~~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~-  168 (364)
                      ++.+.++...      +...++..+.....         ..+.+|+|||+|.+..           ..+..++.++... 
T Consensus       245 fi~V~~seL~~k~~Ge~~~~vr~lF~~A~~---------~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ld  315 (438)
T PTZ00361        245 FLRVVGSELIQKYLGDGPKLVRELFRVAEE---------NAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLD  315 (438)
T ss_pred             EEEEecchhhhhhcchHHHHHHHHHHHHHh---------CCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHh
Confidence            5555544321      11112222221111         1467999999988741           2234444444332 


Q ss_pred             ----ccCccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc----CCCHH
Q 017884          169 ----TKNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC----NGDMR  237 (364)
Q Consensus       169 ----~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~----~g~~r  237 (364)
                          ..++.+|++||.++.+++++.+  |+ ..+.|++|+.++..+++...+.+..+.- +-.++.++..+    +.+++
T Consensus       316 g~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~-dvdl~~la~~t~g~sgAdI~  394 (438)
T PTZ00361        316 GFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAE-DVDLEEFIMAKDELSGADIK  394 (438)
T ss_pred             hhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCc-CcCHHHHHHhcCCCCHHHHH
Confidence                3467788999999999998875  55 6799999999999999998876554321 12345556554    33444


Q ss_pred             HHHHHHHHHHHh--cccCchHHHHHhc
Q 017884          238 KALNILQSTHMA--SQQITEEAVYLCT  262 (364)
Q Consensus       238 ~a~~~l~~~~~~--~~~i~~~~v~~~~  262 (364)
                      .++......+..  ...|+.+++..++
T Consensus       395 ~i~~eA~~~Alr~~r~~Vt~~D~~~A~  421 (438)
T PTZ00361        395 AICTEAGLLALRERRMKVTQADFRKAK  421 (438)
T ss_pred             HHHHHHHHHHHHhcCCccCHHHHHHHH
Confidence            444333222222  2356777665543

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.69  E-value=1.2e-15  Score=143.44  Aligned_cols=185  Identities=21%  Similarity=0.260  Sum_probs=131.8

Q ss_pred             CCCCCcchhccHHHHHHHHHHHh-----------cC-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTS-----------EN-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~-----------~~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ...+|+++-|.++++..|++.+.           -| ..| .+|||||||||||++|++++++.     +.+|+.+.+..
T Consensus       429 p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~-----~~nFlsvkgpE  503 (693)
T KOG0730|consen  429 PNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA-----GMNFLSVKGPE  503 (693)
T ss_pred             CCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh-----cCCeeeccCHH
Confidence            44689999999999999987764           22 222 39999999999999999999996     55666664432


Q ss_pred             ------CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-----------HHHHHHHHHHHhc--cCccEE
Q 017884          115 ------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYT--KNTRFA  175 (364)
Q Consensus       115 ------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-----------~~~~L~~~le~~~--~~~~~I  175 (364)
                            ..+...+++.+....+.         .+.||++||+|.+...           ..+.|+.-|+...  .++.+|
T Consensus       504 L~sk~vGeSEr~ir~iF~kAR~~---------aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~Vi  574 (693)
T KOG0730|consen  504 LFSKYVGESERAIREVFRKARQV---------APCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVI  574 (693)
T ss_pred             HHHHhcCchHHHHHHHHHHHhhc---------CCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEE
Confidence                  22334555544443332         3579999999999532           3455666666433  456677


Q ss_pred             EEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCC-HHHHHHHHHHHHH
Q 017884          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGD-MRKALNILQSTHM  248 (364)
Q Consensus       176 l~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g~-~r~a~~~l~~~~~  248 (364)
                      .+||.++.+++++.+  |+ +++++++|+.+...++++..+++..  ++++ .++.|++.+.|- -..+..+++.++.
T Consensus       575 AATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp--~~~~vdl~~La~~T~g~SGAel~~lCq~A~~  650 (693)
T KOG0730|consen  575 AATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMP--FSEDVDLEELAQATEGYSGAEIVAVCQEAAL  650 (693)
T ss_pred             eccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCC--CCccccHHHHHHHhccCChHHHHHHHHHHHH
Confidence            788999999999999  77 7899999999999999998887554  4555 678888877543 3333344444443

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.69  E-value=1.1e-15  Score=142.07  Aligned_cols=178  Identities=23%  Similarity=0.283  Sum_probs=131.8

Q ss_pred             CCcchhccHHHHHHHHHHHhc----------CC-CCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC---
Q 017884           51 SLADVAAHRDIVDTIDRLTSE----------NR-LPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD---  115 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~----------~~-~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---  115 (364)
                      +|.++-|.+..+..|...+..          |- +|. +||+||||||||.+|++++.++     ...++.++++..   
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel-----~vPf~~isApeivSG  262 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL-----GVPFLSISAPEIVSG  262 (802)
T ss_pred             chhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc-----CCceEeecchhhhcc
Confidence            599999999999988777642          22 222 9999999999999999999998     667777766442   


Q ss_pred             ---CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-----------HHHHHHHHHHHhcc------CccEE
Q 017884          116 ---RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYTK------NTRFA  175 (364)
Q Consensus       116 ---~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-----------~~~~L~~~le~~~~------~~~~I  175 (364)
                         .....+++.+.+....         .++|+||||+|.+++.           ....|+..|++...      .+.+|
T Consensus       263 vSGESEkkiRelF~~A~~~---------aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVI  333 (802)
T KOG0733|consen  263 VSGESEKKIRELFDQAKSN---------APCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVI  333 (802)
T ss_pred             cCcccHHHHHHHHHHHhcc---------CCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEE
Confidence               2344566655554432         4789999999999743           23557888887542      35577


Q ss_pred             EEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 017884          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (364)
Q Consensus       176 l~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l  243 (364)
                      .+||.++.++++|++  |+ ..|.+.-|++....++|+.+|+...+.- +=....|+..+.|-++.-+..|
T Consensus       334 gATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g-~~d~~qlA~lTPGfVGADL~AL  403 (802)
T KOG0733|consen  334 GATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSG-DFDFKQLAKLTPGFVGADLMAL  403 (802)
T ss_pred             ecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCC-CcCHHHHHhcCCCccchhHHHH
Confidence            788999999999988  45 5699999999999999999998544432 2236778998887666555444

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.69  E-value=2.7e-15  Score=139.87  Aligned_cols=171  Identities=23%  Similarity=0.341  Sum_probs=117.4

Q ss_pred             CCCCcchhccHHHHHHHHHHHhc-------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ..+|+++.|.+..++.+...+..             ..+.+++||||||||||++|+++++.+.     ..++.++++..
T Consensus       127 ~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~-----~~~i~v~~~~l  201 (389)
T PRK03992        127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN-----ATFIRVVGSEL  201 (389)
T ss_pred             CCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC-----CCEEEeehHHH
Confidence            34789999999999998887632             1233499999999999999999999873     44566655432


Q ss_pred             C------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHhc-----cCcc
Q 017884          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYT-----KNTR  173 (364)
Q Consensus       116 ~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~~-----~~~~  173 (364)
                      .      +...++..+. .+..        ..+.+|+|||+|.+.           ...+..+..++....     .++.
T Consensus       202 ~~~~~g~~~~~i~~~f~-~a~~--------~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~  272 (389)
T PRK03992        202 VQKFIGEGARLVRELFE-LARE--------KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVK  272 (389)
T ss_pred             hHhhccchHHHHHHHHH-HHHh--------cCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEE
Confidence            1      1112222221 1111        136799999999983           234455666654422     3567


Q ss_pred             EEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      +|++||.++.+++++.+  |+ ..+.|++|+.++..++++..+....+. .+..+..++..+.|
T Consensus       273 VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~-~~~~~~~la~~t~g  335 (389)
T PRK03992        273 IIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLA-DDVDLEELAELTEG  335 (389)
T ss_pred             EEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCC-CcCCHHHHHHHcCC
Confidence            88889999999999886  66 679999999999999999887654432 12346677777654

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.68  E-value=2.3e-15  Score=131.80  Aligned_cols=119  Identities=18%  Similarity=0.240  Sum_probs=100.9

Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee------------ccccCchhhhccceEEEecCCChHHHHHHH
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~------------~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  209 (364)
                      ++|+||||+|.|.-++...|.+.||..- .+.+|++||            .|+-++..+..|..++.-.|++.++++.+|
T Consensus       292 pGVLFIDEvHmLDIE~FsFlnrAlEse~-aPIii~AtNRG~~kiRGTd~~sPhGIP~DlLDRllII~t~py~~~EireIi  370 (450)
T COG1224         292 PGVLFIDEVHMLDIECFSFLNRALESEL-APIIILATNRGMTKIRGTDIESPHGIPLDLLDRLLIISTRPYSREEIREII  370 (450)
T ss_pred             cceEEEechhhhhHHHHHHHHHHhhccc-CcEEEEEcCCceeeecccCCcCCCCCCHhhhhheeEEecCCCCHHHHHHHH
Confidence            6799999999999999999999999743 455777775            567888999999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHH----h-cccCchHHHHHh
Q 017884          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHM----A-SQQITEEAVYLC  261 (364)
Q Consensus       210 ~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~----~-~~~i~~~~v~~~  261 (364)
                      +.+++.+++.++++++++|+... ..++|.++++|.-...    . ...+..++|+.+
T Consensus       371 ~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a  428 (450)
T COG1224         371 RIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERA  428 (450)
T ss_pred             HHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHH
Confidence            99999999999999999999986 5789999999963322    1 247777887654

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=99.68  E-value=1.1e-15  Score=135.99  Aligned_cols=104  Identities=19%  Similarity=0.279  Sum_probs=81.3

Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee------------ccccCchhhhccceEEEecCCChHHHHHHH
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~------------~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  209 (364)
                      ++|++|||+|.|.-++...|.+.+|..- .+.+|++||            .++-++..+.+||.++...|++.+++++++
T Consensus       279 pGVLFIDEvHmLDiEcFsfLnralEs~~-sPiiIlATNRg~~~irGt~~~sphGiP~DlLDRllII~t~py~~~ei~~Il  357 (398)
T PF06068_consen  279 PGVLFIDEVHMLDIECFSFLNRALESEL-SPIIILATNRGITKIRGTDIISPHGIPLDLLDRLLIIRTKPYSEEEIKQIL  357 (398)
T ss_dssp             E-EEEEESGGGSBHHHHHHHHHHHTSTT---EEEEEES-SEEE-BTTS-EEETT--HHHHTTEEEEEE----HHHHHHHH
T ss_pred             cceEEecchhhccHHHHHHHHHHhcCCC-CcEEEEecCceeeeccCccCcCCCCCCcchHhhcEEEECCCCCHHHHHHHH
Confidence            7799999999999999999999998643 456778886            456788899999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHH
Q 017884          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQST  246 (364)
Q Consensus       210 ~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~  246 (364)
                      .-+|+.+++.+++++++.|.... ..++|.|++++.-+
T Consensus       358 ~iR~~~E~v~i~~~al~~L~~ig~~~SLRYAiqLi~~a  395 (398)
T PF06068_consen  358 KIRAKEEDVEISEDALDLLTKIGVETSLRYAIQLITPA  395 (398)
T ss_dssp             HHHHHHCT--B-HHHHHHHHHHHHHS-HHHHHHCHHHH
T ss_pred             HhhhhhhcCcCCHHHHHHHHHHhhhccHHHHHHhhhhh
Confidence            99999999999999999999876 57899999988654

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>CHL00176 ftsH cell division protein; Validated

Probab=99.67  E-value=3.8e-15  Score=145.54  Aligned_cols=199  Identities=21%  Similarity=0.258  Sum_probs=133.9

Q ss_pred             CCCcchhccHHHHHHHHHHHhc-----------CC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC-
Q 017884           50 QSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-  116 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~-----------~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-  116 (364)
                      .+|++++|.++.+..+...+..           .. ..+++|+||||+|||++|++++.+.     ...++.++++... 
T Consensus       180 ~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~-----~~p~i~is~s~f~~  254 (638)
T CHL00176        180 ITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----EVPFFSISGSEFVE  254 (638)
T ss_pred             CCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCeeeccHHHHHH
Confidence            5899999999988887776531           11 2349999999999999999999986     3445555544321 


Q ss_pred             -----ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HH---HHHHHHHHHHhc--cCccEE
Q 017884          117 -----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DA---QFALRRVIEKYT--KNTRFA  175 (364)
Q Consensus       117 -----~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~---~~~L~~~le~~~--~~~~~I  175 (364)
                           +...++..+.....         ..+.||+|||+|.+..           ..   .+.|+..++...  .++.+|
T Consensus       255 ~~~g~~~~~vr~lF~~A~~---------~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVI  325 (638)
T CHL00176        255 MFVGVGAARVRDLFKKAKE---------NSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVI  325 (638)
T ss_pred             HhhhhhHHHHHHHHHHHhc---------CCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEE
Confidence                 11222333332221         1467999999998842           22   334444444433  345677


Q ss_pred             EEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHH---
Q 017884          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM---  248 (364)
Q Consensus       176 l~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~~---  248 (364)
                      .+||.++.+++++.+  |+ ..+.|++|+.++..++++..++.... .++..+..+++.+.| +.+.+.+++..++.   
T Consensus       326 aaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~-~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~  404 (638)
T CHL00176        326 AATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL-SPDVSLELIARRTPGFSGADLANLLNEAAILTA  404 (638)
T ss_pred             EecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc-chhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            788888889999987  44 77999999999999999998876432 345567889988876 55555555543332   


Q ss_pred             --hcccCchHHHHHhcC
Q 017884          249 --ASQQITEEAVYLCTG  263 (364)
Q Consensus       249 --~~~~i~~~~v~~~~~  263 (364)
                        ....|+.+++..++.
T Consensus       405 r~~~~~It~~dl~~Ai~  421 (638)
T CHL00176        405 RRKKATITMKEIDTAID  421 (638)
T ss_pred             HhCCCCcCHHHHHHHHH
Confidence              124688888877653

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

Probab=99.67  E-value=7.2e-15  Score=136.38  Aligned_cols=200  Identities=21%  Similarity=0.268  Sum_probs=127.7

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhc-----------C--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSE-----------N--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~-----------~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ....+|+++.|.+..++.++..+..           |  .+.+++||||||||||++++++++.+     ...++.+.++
T Consensus       139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l-----~~~fi~i~~s  213 (398)
T PTZ00454        139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT-----TATFIRVVGS  213 (398)
T ss_pred             CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehH
Confidence            3345899999999999988887641           1  12339999999999999999999986     3344555432


Q ss_pred             CC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHH---HHh--ccC
Q 017884          114 DD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVI---EKY--TKN  171 (364)
Q Consensus       114 ~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~l---e~~--~~~  171 (364)
                      ..      .+...+++.+.. +.        ...+.||+|||+|.+..           ..+..+..++   +..  ..+
T Consensus       214 ~l~~k~~ge~~~~lr~lf~~-A~--------~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~  284 (398)
T PTZ00454        214 EFVQKYLGEGPRMVRDVFRL-AR--------ENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTN  284 (398)
T ss_pred             HHHHHhcchhHHHHHHHHHH-HH--------hcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCC
Confidence            21      111122222221 11        11478999999998742           2233444444   332  235


Q ss_pred             ccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH
Q 017884          172 TRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (364)
Q Consensus       172 ~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~  247 (364)
                      +.+|++||.++.+++++.+  |+ ..++|++|+.++...+++..+.+.++.- +-.+..++..+.| +...+.+++..+.
T Consensus       285 v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~-dvd~~~la~~t~g~sgaDI~~l~~eA~  363 (398)
T PTZ00454        285 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSE-EVDLEDFVSRPEKISAADIAAICQEAG  363 (398)
T ss_pred             EEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCc-ccCHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            6788899999999999876  65 6699999999999999998877655432 2346677777644 4444444444433


Q ss_pred             Hhc-----ccCchHHHHHh
Q 017884          248 MAS-----QQITEEAVYLC  261 (364)
Q Consensus       248 ~~~-----~~i~~~~v~~~  261 (364)
                      ..+     ..|+.+++.++
T Consensus       364 ~~A~r~~~~~i~~~df~~A  382 (398)
T PTZ00454        364 MQAVRKNRYVILPKDFEKG  382 (398)
T ss_pred             HHHHHcCCCccCHHHHHHH
Confidence            221     24555555443

>TIGR00763 lon ATP-dependent protease La

Probab=99.63  E-value=3.7e-15  Score=150.55  Aligned_cols=179  Identities=22%  Similarity=0.286  Sum_probs=121.5

Q ss_pred             chhccHHHHHHHHHHHhc------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH-----
Q 017884           54 DVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-----  122 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-----  122 (364)
                      ++.|++++++.+..++..      ...++++|+||||+|||++|+++++.+.     ..+..++.........+.     
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~-----~~~~~i~~~~~~~~~~i~g~~~~  395 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALN-----RKFVRFSLGGVRDEAEIRGHRRT  395 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhc-----CCeEEEeCCCcccHHHHcCCCCc
Confidence            478999999988876542      2345699999999999999999999983     334444433211111110     


Q ss_pred             ------HHHH-HHHhcCccccCCccceEEEEEeCCCCCCHHH----HHHHHHHHHHh---------------ccCccEEE
Q 017884          123 ------QQIQ-DFASTQSFSFGVKASVKLVLLDEADAMTKDA----QFALRRVIEKY---------------TKNTRFAL  176 (364)
Q Consensus       123 ------~~i~-~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~----~~~L~~~le~~---------------~~~~~~Il  176 (364)
                            ..+. .+...     ..  ...||+|||+|.+....    .++|+.+|+..               .+++.||+
T Consensus       396 ~~g~~~g~i~~~l~~~-----~~--~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~  468 (775)
T TIGR00763       396 YVGAMPGRIIQGLKKA-----KT--KNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIA  468 (775)
T ss_pred             eeCCCCchHHHHHHHh-----Cc--CCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEE
Confidence                  0111 11111     00  23499999999997532    47788888741               13567788


Q ss_pred             EeeccccCchhhhccceEEEecCCChHHHHHHHHHHH-----HHc-----CCCCCHHHHHHHHHHcC--CCHHHHHHHHH
Q 017884          177 ICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVI-----EAE-----GLDVTEGGLAALVRLCN--GDMRKALNILQ  244 (364)
Q Consensus       177 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~-----~~~-----~~~i~~~~~~~l~~~~~--g~~r~a~~~l~  244 (364)
                      ++|..+.+++++++||.++.|++++.++...+++..+     ...     ++.++++++..|++...  ...|.+...++
T Consensus       469 TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r~i~  548 (775)
T TIGR00763       469 TANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLERQIE  548 (775)
T ss_pred             ecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHHHHH
Confidence            8899999999999999999999999999888887654     222     45789999999997542  34455444443

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.62  E-value=1.8e-14  Score=133.88  Aligned_cols=205  Identities=20%  Similarity=0.244  Sum_probs=127.6

Q ss_pred             ccCCCCCcchhccHHHHHHHHHHHhcC-------------CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           46 KYRPQSLADVAAHRDIVDTIDRLTSEN-------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        46 ~~~p~~~~~~vg~~~~~~~l~~~~~~~-------------~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      .....+|+++.|.++.++.+...+...             .+.+++||||||+|||++|+++++.+.     ..++.+.+
T Consensus       115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~-----~~~~~v~~  189 (364)
T TIGR01242       115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN-----ATFIRVVG  189 (364)
T ss_pred             cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCC-----CCEEecch
Confidence            344558899999999999998876421             123499999999999999999999873     33444432


Q ss_pred             CCCCC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----ccCccE
Q 017884          113 SDDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRF  174 (364)
Q Consensus       113 ~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~-----~~~~~~  174 (364)
                      .....  .......+......     .....+.+|+|||+|.+.           ...+..+..++...     ..++.+
T Consensus       190 ~~l~~~~~g~~~~~i~~~f~~-----a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~v  264 (364)
T TIGR01242       190 SELVRKYIGEGARLVREIFEL-----AKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKV  264 (364)
T ss_pred             HHHHHHhhhHHHHHHHHHHHH-----HHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEE
Confidence            21100  00101111111111     011136799999999884           22345555555442     246778


Q ss_pred             EEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHcCC----CHHHHHHHHHHH
Q 017884          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTE-GGLAALVRLCNG----DMRKALNILQST  246 (364)
Q Consensus       175 Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~-~~~~~l~~~~~g----~~r~a~~~l~~~  246 (364)
                      |++||.++.+++++.+  |+ ..+.|++|+.++..++++..+....  +++ ..+..+++.+.|    |++.+....-..
T Consensus       265 I~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~--l~~~~~~~~la~~t~g~sg~dl~~l~~~A~~~  342 (364)
T TIGR01242       265 IAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMK--LAEDVDLEAIAKMTEGASGADLKAICTEAGMF  342 (364)
T ss_pred             EEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCC--CCccCCHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            8889999999999876  55 6799999999999999988775443  322 246777777754    343333332222


Q ss_pred             HH--hcccCchHHHHHhc
Q 017884          247 HM--ASQQITEEAVYLCT  262 (364)
Q Consensus       247 ~~--~~~~i~~~~v~~~~  262 (364)
                      +.  ....|+.+++..++
T Consensus       343 a~~~~~~~i~~~d~~~a~  360 (364)
T TIGR01242       343 AIREERDYVTMDDFIKAV  360 (364)
T ss_pred             HHHhCCCccCHHHHHHHH
Confidence            21  12356766665544

Many proteins may score above the trusted cutoff because an internal

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.61  E-value=8.5e-15  Score=138.63  Aligned_cols=175  Identities=19%  Similarity=0.242  Sum_probs=116.3

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc-----------C--CCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------N--RLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----  102 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----  102 (364)
                      ....+++.+.+|+++.|.+..++.++..+..           +  ...+++||||||||||++++++++.+....     
T Consensus       170 ~l~~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~  249 (512)
T TIGR03689       170 DLVLEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETG  249 (512)
T ss_pred             cceeecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccC
Confidence            3345667778999999999999988887641           1  223399999999999999999999985431     


Q ss_pred             CCCcEEEEeCCCCC------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH------------HHHHHHHH
Q 017884          103 YHNMILELNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRV  164 (364)
Q Consensus       103 ~~~~~~~~~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~------------~~~~L~~~  164 (364)
                      ....++.+..+...      ....++..+......     ...+.+.||+|||+|.+...            ..+.|+..
T Consensus       250 ~~~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~-----a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       250 DKSYFLNIKGPELLNKYVGETERQIRLIFQRAREK-----ASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             CceeEEeccchhhcccccchHHHHHHHHHHHHHHH-----hhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            12223333322210      111222222221111     11114779999999988421            13466666


Q ss_pred             HHHhc--cCccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCC
Q 017884          165 IEKYT--KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVT  221 (364)
Q Consensus       165 le~~~--~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~  221 (364)
                      |+...  .++.+|.+||.++.+++++.+  |+ ..++|++|+.++..+++..++.. .+.++
T Consensus       325 LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~-~l~l~  385 (512)
T TIGR03689       325 LDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD-SLPLD  385 (512)
T ss_pred             hcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc-cCCch
Confidence            66543  456678888999999999988  76 56999999999999999988754 33443

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.61  E-value=1.1e-14  Score=148.30  Aligned_cols=203  Identities=16%  Similarity=0.216  Sum_probs=145.1

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  114 (364)
                      ..++.++.||..++.++|+++.+..+...+.....++.+|+||||+|||++++.++..+....     ....++.++...
T Consensus       160 ~~~l~~~~~~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~  239 (852)
T TIGR03346       160 ARDLTERAREGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA  239 (852)
T ss_pred             hhhHHHHhhCCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH
Confidence            357889999999999999999999999998888878899999999999999999999874321     123344443221


Q ss_pred             C----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------HHHHHHHHHHHHhccCccEEEEeecc-
Q 017884          115 D----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIEKYTKNTRFALICNQV-  181 (364)
Q Consensus       115 ~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------~~~~~L~~~le~~~~~~~~Il~~~~~-  181 (364)
                      .    .........+........    ...++.|+||||+|.+..        +..+.|...+..  ....+|.+|+.. 
T Consensus       240 l~a~~~~~g~~e~~l~~~l~~~~----~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~--g~i~~IgaTt~~e  313 (852)
T TIGR03346       240 LIAGAKYRGEFEERLKAVLNEVT----KSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR--GELHCIGATTLDE  313 (852)
T ss_pred             HhhcchhhhhHHHHHHHHHHHHH----hcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc--CceEEEEeCcHHH
Confidence            1    011122223333222110    001367999999999862        244556655542  356677777544 


Q ss_pred             ----ccCchhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC---C---HHHHHHHHHHHH
Q 017884          182 ----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG---D---MRKALNILQSTH  247 (364)
Q Consensus       182 ----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g---~---~r~a~~~l~~~~  247 (364)
                          ...++++.+||+.+.++.|+.++...++.....+    .++.++++++..++..+.+   +   |.+|+++++.++
T Consensus       314 ~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAidlld~a~  393 (852)
T TIGR03346       314 YRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEAA  393 (852)
T ss_pred             HHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHHHHHHHHH
Confidence                2468999999999999999999999998877654    3677899999999988753   3   889999998766


Q ss_pred             H
Q 017884          248 M  248 (364)
Q Consensus       248 ~  248 (364)
                      .
T Consensus       394 a  394 (852)
T TIGR03346       394 A  394 (852)
T ss_pred             H
Confidence            4

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

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.59  E-value=3.1e-14  Score=130.60  Aligned_cols=196  Identities=21%  Similarity=0.235  Sum_probs=131.0

Q ss_pred             CCCCcchhccHHHHHHHHHHHh-----------cCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           49 PQSLADVAAHRDIVDTIDRLTS-----------ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~-----------~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      -.+|+++.|-++.+..|.+.+.           +|+.|. +||+||||+|||.+|+++|.+.     ...|++..++...
T Consensus       300 nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA-----~VPFF~~sGSEFd  374 (752)
T KOG0734|consen  300 NVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA-----GVPFFYASGSEFD  374 (752)
T ss_pred             ccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc-----CCCeEeccccchh
Confidence            3579999999999998877764           456666 9999999999999999999985     4556666655532


Q ss_pred             ------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHhccC--ccEEEE
Q 017884          117 ------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTKN--TRFALI  177 (364)
Q Consensus       117 ------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~~~~--~~~Il~  177 (364)
                            +...+++.+......         .++||+|||+|.+..           ...+.|+--|+.+..+  ..+|.+
T Consensus       375 Em~VGvGArRVRdLF~aAk~~---------APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigA  445 (752)
T KOG0734|consen  375 EMFVGVGARRVRDLFAAAKAR---------APCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGA  445 (752)
T ss_pred             hhhhcccHHHHHHHHHHHHhc---------CCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEec
Confidence                  333455544443322         378999999999852           2345666666665544  445556


Q ss_pred             eeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC----CHHHHHHHHHHHH--
Q 017884          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG----DMRKALNILQSTH--  247 (364)
Q Consensus       178 ~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g----~~r~a~~~l~~~~--  247 (364)
                      ||.++.++++|.+  |+ ..+..+.|+..-..+++..+..+-  .++++ ....|++-+.|    |+..++|....-+  
T Consensus       446 TNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki--~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAlkAa~  523 (752)
T KOG0734|consen  446 TNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKI--PLDEDVDPKIIARGTPGFSGADLANLVNQAALKAAV  523 (752)
T ss_pred             cCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcC--CcccCCCHhHhccCCCCCchHHHHHHHHHHHHHHHh
Confidence            7999999999987  56 668899999988999998887743  33322 23445655543    4444444332111  


Q ss_pred             HhcccCchHHHHH
Q 017884          248 MASQQITEEAVYL  260 (364)
Q Consensus       248 ~~~~~i~~~~v~~  260 (364)
                      ..+..+|+.+++.
T Consensus       524 dga~~VtM~~LE~  536 (752)
T KOG0734|consen  524 DGAEMVTMKHLEF  536 (752)
T ss_pred             cCcccccHHHHhh
Confidence            1223566666543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.59  E-value=4.1e-14  Score=142.68  Aligned_cols=173  Identities=20%  Similarity=0.261  Sum_probs=121.3

Q ss_pred             CCCCcchhccHHHHHHHHHHHhc------------CCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSE------------NRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~------------~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ..+|+++.|.+.+++.|...+.-            ...|. ++||||||||||++|+++++++     ...++.+.++..
T Consensus       449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~-----~~~fi~v~~~~l  523 (733)
T TIGR01243       449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES-----GANFIAVRGPEI  523 (733)
T ss_pred             ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehHHH
Confidence            35899999999999998887641            12233 8999999999999999999996     455666665431


Q ss_pred             C------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH------------HHHHHHHHHHHH--hccCccEE
Q 017884          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEK--YTKNTRFA  175 (364)
Q Consensus       116 ~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~------------~~~~~L~~~le~--~~~~~~~I  175 (364)
                      .      ....++..+......         .+.||+|||+|.+..            ...+.|+..|+.  ...++.+|
T Consensus       524 ~~~~vGese~~i~~~f~~A~~~---------~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI  594 (733)
T TIGR01243       524 LSKWVGESEKAIREIFRKARQA---------APAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVI  594 (733)
T ss_pred             hhcccCcHHHHHHHHHHHHHhc---------CCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEE
Confidence            1      112233332222211         468999999998842            234556777764  33466778


Q ss_pred             EEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHcCCCHH
Q 017884          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTE-GGLAALVRLCNGDMR  237 (364)
Q Consensus       176 l~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~-~~~~~l~~~~~g~~r  237 (364)
                      .+||.++.+++++.+  || ..+.+++|+.++..++++...++.  .+++ ..++.|++.+.|--.
T Consensus       595 ~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~--~~~~~~~l~~la~~t~g~sg  658 (733)
T TIGR01243       595 AATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSM--PLAEDVDLEELAEMTEGYTG  658 (733)
T ss_pred             EeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCC--CCCccCCHHHHHHHcCCCCH
Confidence            888999999999986  88 779999999999999988665543  3333 347888888765433

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

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

Probab=99.58  E-value=1.2e-13  Score=137.49  Aligned_cols=194  Identities=13%  Similarity=0.165  Sum_probs=132.7

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-----CCcEEEEeCCCC----CCh
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASDD----RGI  118 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~~----~~~  118 (364)
                      +-..++.++|++..+..+...+.....++++|+||||+|||++++.++..+.....     ...++.++....    ...
T Consensus       181 ~~g~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~  260 (758)
T PRK11034        181 RVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYR  260 (758)
T ss_pred             HcCCCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchh
Confidence            45678999999999999999888877788999999999999999999988643321     122222221110    011


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH---------HHHHHHHHHHHHhccCccEEEEeeccc-----cC
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQVN-----KI  184 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~---------~~~~~L~~~le~~~~~~~~Il~~~~~~-----~l  184 (364)
                      ......+........     ..++.+++|||+|.+..         +..+.|..++..  ....+|.+|+...     ..
T Consensus       261 Ge~e~rl~~l~~~l~-----~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~--g~i~vIgATt~~E~~~~~~~  333 (758)
T PRK11034        261 GDFEKRFKALLKQLE-----QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQEFSNIFEK  333 (758)
T ss_pred             hhHHHHHHHHHHHHH-----hcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC--CCeEEEecCChHHHHHHhhc
Confidence            122222332221110     01356999999998831         223334445442  3455666665432     46


Q ss_pred             chhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHHH
Q 017884          185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (364)
Q Consensus       185 ~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~------g~~r~a~~~l~~~~~  248 (364)
                      ++++.+||+.+.+++|+.++...+|+....+    .++.++++++..++..+.      .-|.+|+++++.++.
T Consensus       334 D~AL~rRFq~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~a  407 (758)
T PRK11034        334 DRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGA  407 (758)
T ss_pred             cHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHHH
Confidence            8899999999999999999999999876543    478899999998887764      247799999987764

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.58  E-value=1.2e-13  Score=128.86  Aligned_cols=181  Identities=18%  Similarity=0.223  Sum_probs=127.9

Q ss_pred             CCCcchhccHHHHHHHHHHHhcC------------CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC-
Q 017884           50 QSLADVAAHRDIVDTIDRLTSEN------------RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~------------~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-  115 (364)
                      .+|+++-+.+++..+|...+...            ..|. +|+|||||||||.+|+++|++-     ..+|+.+-+... 
T Consensus       508 VtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEa-----g~NFisVKGPELl  582 (802)
T KOG0733|consen  508 VTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEA-----GANFISVKGPELL  582 (802)
T ss_pred             CChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhc-----cCceEeecCHHHH
Confidence            48999999999999988776421            2333 9999999999999999999995     677777755432 


Q ss_pred             -----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--cCccEEEE
Q 017884          116 -----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALI  177 (364)
Q Consensus       116 -----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~~--~~~~~Il~  177 (364)
                           .+...+++.+......         .++|||+||+|.|.+           ...+.|+.-|+...  ..+.+|.+
T Consensus       583 NkYVGESErAVR~vFqRAR~s---------aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaA  653 (802)
T KOG0733|consen  583 NKYVGESERAVRQVFQRARAS---------APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAA  653 (802)
T ss_pred             HHHhhhHHHHHHHHHHHhhcC---------CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEee
Confidence                 1223444444333222         378999999999963           34667777777553  34567778


Q ss_pred             eeccccCchhhhcc--c-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHc------CCCHHHHHHHHH
Q 017884          178 CNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLC------NGDMRKALNILQ  244 (364)
Q Consensus       178 ~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~------~g~~r~a~~~l~  244 (364)
                      ||.++.+++++.+-  + ..+....|+.++..++|+...+..+..++++ .++.|+...      |.|+..++....
T Consensus       654 TNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreAs  730 (802)
T KOG0733|consen  654 TNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREAS  730 (802)
T ss_pred             cCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHHH
Confidence            89999999999884  4 5678888889999999999888555555444 356666543      445555555443

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

Probab=99.58  E-value=2.5e-13  Score=121.27  Aligned_cols=216  Identities=20%  Similarity=0.258  Sum_probs=133.9

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH-
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID-  119 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~-  119 (364)
                      .|+.....|..|-.-.++..+...+...+..+ .+.++|+||+|+|||++++.+++.+.+...  ....+........+ 
T Consensus        11 ~pF~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~--~~~~~~~~~~~~~~~   87 (269)
T TIGR03015        11 KPFQLLPDPDFFYPSKGHKRAMAYLEYGLSQR-EGFILITGEVGAGKTTLIRNLLKRLDQERV--VAAKLVNTRVDAEDL   87 (269)
T ss_pred             CCCCCCCCHHHhCCCHHHHHHHHHHHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHHhcCCCCe--EEeeeeCCCCCHHHH
Confidence            45555555554444445556666666665543 234899999999999999999998753221  11111111100000 


Q ss_pred             ------------------HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc---cCccEEEEe
Q 017884          120 ------------------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALIC  178 (364)
Q Consensus       120 ------------------~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~---~~~~~Il~~  178 (364)
                                        .....+..+....    ...+...+++|||++.+.....+.|..+.+...   ..+.+++++
T Consensus        88 l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~----~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g  163 (269)
T TIGR03015        88 LRMVAADFGLETEGRDKAALLRELEDFLIEQ----FAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVG  163 (269)
T ss_pred             HHHHHHHcCCCCCCCCHHHHHHHHHHHHHHH----HhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcC
Confidence                              1111111111110    001246799999999999887777665443221   122345555


Q ss_pred             ecc------ccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcC----CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017884          179 NQV------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEG----LDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       179 ~~~------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~----~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                      ...      ......+.+|. ..+++++++.+++.+++...+...+    ..+++++++.|++.++|++|.+...+..+.
T Consensus       164 ~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~  243 (269)
T TIGR03015       164 QPEFRETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLL  243 (269)
T ss_pred             CHHHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHH
Confidence            321      01123566774 6789999999999999999988655    368999999999999999999777766554


Q ss_pred             Hh-----cccCchHHHHHhcC
Q 017884          248 MA-----SQQITEEAVYLCTG  263 (364)
Q Consensus       248 ~~-----~~~i~~~~v~~~~~  263 (364)
                      ..     ...|+.++|..++.
T Consensus       244 ~~a~~~~~~~i~~~~v~~~~~  264 (269)
T TIGR03015       244 LSAFLEEKREIGGEEVREVIA  264 (269)
T ss_pred             HHHHHcCCCCCCHHHHHHHHH
Confidence            32     25788888877654

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.57  E-value=2.8e-13  Score=119.86  Aligned_cols=190  Identities=21%  Similarity=0.205  Sum_probs=122.3

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH---------HHHHHH
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ---------QIQDFA  129 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~i~~~~  129 (364)
                      ..+.+.+..++..+  .+++|+||||+|||++|+++++.+     +..++.+++........+..         ....+.
T Consensus         8 ~~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l-----g~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~   80 (262)
T TIGR02640         8 KRVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR-----DRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFI   80 (262)
T ss_pred             HHHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh-----CCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHH
Confidence            34555666666665  469999999999999999999876     33445555543222121110         011110


Q ss_pred             h--------------cCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc----------------cCccEEEEee
Q 017884          130 S--------------TQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT----------------KNTRFALICN  179 (364)
Q Consensus       130 ~--------------~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~----------------~~~~~Il~~~  179 (364)
                      .              ..+. +.....+.+++|||++.+.++.++.|+.+|++..                ++.++|+++|
T Consensus        81 ~~~~~~~~~~~~~~~~g~l-~~A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN  159 (262)
T TIGR02640        81 HNVVKLEDIVRQNWVDNRL-TLAVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSN  159 (262)
T ss_pred             HHhhhhhcccceeecCchH-HHHHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeC
Confidence            0              0000 0000135699999999999999999999998521                3556778877


Q ss_pred             cc-----ccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC----------CCHHHHHHHHH
Q 017884          180 QV-----NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCN----------GDMRKALNILQ  244 (364)
Q Consensus       180 ~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~----------g~~r~a~~~l~  244 (364)
                      ..     ..+.+.+.+||..+.+..|+.++..+++....     .++++.++.+++...          -.+|.++...+
T Consensus       160 ~~~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~~-----~~~~~~~~~iv~~~~~~R~~~~~~~~~~r~~i~~~~  234 (262)
T TIGR02640       160 PVEYAGVHETQDALLDRLITIFMDYPDIDTETAILRAKT-----DVAEDSAATIVRLVREFRASGDEITSGLRASLMIAE  234 (262)
T ss_pred             CccccceecccHHHHhhcEEEECCCCCHHHHHHHHHHhh-----CCCHHHHHHHHHHHHHHHhhCCccCCcHHHHHHHHH
Confidence            54     25678899999999999999999988888753     467777777765531          12777777776


Q ss_pred             HHHHhc--ccCchHHHHHh
Q 017884          245 STHMAS--QQITEEAVYLC  261 (364)
Q Consensus       245 ~~~~~~--~~i~~~~v~~~  261 (364)
                      .+....  ..++.+++.++
T Consensus       235 ~~~~~~~~~~~~~~~~~~~  253 (262)
T TIGR02640       235 VATQQDIPVDVDDEDFVDL  253 (262)
T ss_pred             HHHHcCCCCCCCcHHHHHH
Confidence            665543  23444444443

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.57  E-value=3.3e-14  Score=144.43  Aligned_cols=203  Identities=14%  Similarity=0.178  Sum_probs=144.1

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  114 (364)
                      ..++.++.||..++.++|+++.+..+...+.....++++|+||||+|||++++.++..+....     ....++.++...
T Consensus       165 ~~~l~~~~r~~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~  244 (857)
T PRK10865        165 TIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA  244 (857)
T ss_pred             hhhHHHHHhcCCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh
Confidence            467888999999999999999999999988888888899999999999999999999974321     123444443322


Q ss_pred             CC----ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------HHHHHHHHHHHhccCccEEEEeeccc
Q 017884          115 DR----GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       115 ~~----~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ..    ....+...+........    ...++.|+||||+|.+...        .++.|...++.  ....+|.+|+...
T Consensus       245 l~ag~~~~g~~e~~lk~~~~~~~----~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~--g~l~~IgaTt~~e  318 (857)
T PRK10865        245 LVAGAKYRGEFEERLKGVLNDLA----KQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDE  318 (857)
T ss_pred             hhhccchhhhhHHHHHHHHHHHH----HcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc--CCCeEEEcCCCHH
Confidence            10    11122222332221100    0013679999999999632        46777777653  3566777776543


Q ss_pred             -----cCchhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHH
Q 017884          183 -----KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTH  247 (364)
Q Consensus       183 -----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~------g~~r~a~~~l~~~~  247 (364)
                           ..++++.+||+.+.+..|+.++...+++....+    .++.++++++...+..++      --+.+|+.+++.++
T Consensus       319 ~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi~LiD~aa  398 (857)
T PRK10865        319 YRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAA  398 (857)
T ss_pred             HHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHHHHHHHHHh
Confidence                 478899999988999999999999998876654    367888998887766663      34677888887665


Q ss_pred             H
Q 017884          248 M  248 (364)
Q Consensus       248 ~  248 (364)
                      .
T Consensus       399 a  399 (857)
T PRK10865        399 S  399 (857)
T ss_pred             c
Confidence            4

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.57  E-value=1e-13  Score=122.89  Aligned_cols=172  Identities=20%  Similarity=0.238  Sum_probs=113.9

Q ss_pred             CCCcchhccHHHHHHHHHHHh----------cCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC--
Q 017884           50 QSLADVAAHRDIVDTIDRLTS----------ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~----------~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  115 (364)
                      ..|+++.|..++++.|+..+-          ..+.|.  +|++||||+|||.+|++++.+.     ...|+.++.+..  
T Consensus       209 ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc-----~tTFFNVSsstltS  283 (491)
T KOG0738|consen  209 IKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC-----GTTFFNVSSSTLTS  283 (491)
T ss_pred             cChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhh-----cCeEEEechhhhhh
Confidence            479999999999998887763          334443  9999999999999999999996     455666655442  


Q ss_pred             --CC-hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH------------HHHHHHHHHHHHhc-----cCccEE
Q 017884          116 --RG-IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEKYT-----KNTRFA  175 (364)
Q Consensus       116 --~~-~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~------------~~~~~L~~~le~~~-----~~~~~I  175 (364)
                        +| .+.+...+.+.+..    +    -+.+|||||+|.+..            ..-..|+-.|+...     ...++|
T Consensus       284 KwRGeSEKlvRlLFemARf----y----APStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmV  355 (491)
T KOG0738|consen  284 KWRGESEKLVRLLFEMARF----Y----APSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMV  355 (491)
T ss_pred             hhccchHHHHHHHHHHHHH----h----CCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEE
Confidence              11 22334444444432    1    257999999999952            22456777777532     123445


Q ss_pred             E-EeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q 017884          176 L-ICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD  235 (364)
Q Consensus       176 l-~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~  235 (364)
                      + +||.++.+++++++|+ ..|.++-|+.+.....|...+ ..-...++-.++.|++.+.|-
T Consensus       356 LAATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l-~~~~~~~~~~~~~lae~~eGy  416 (491)
T KOG0738|consen  356 LAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILL-RSVELDDPVNLEDLAERSEGY  416 (491)
T ss_pred             EeccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhh-ccccCCCCccHHHHHHHhcCC
Confidence            4 4588999999999999 567666666665555554433 333333444567777776553

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.56  E-value=9.3e-14  Score=139.21  Aligned_cols=206  Identities=21%  Similarity=0.239  Sum_probs=133.6

Q ss_pred             cchhccHHHHHHHHHHHhc------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHH
Q 017884           53 ADVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ  126 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~  126 (364)
                      .+..|.+++++.+..++..      ...+.++|+||||+|||++++.+++.+.     ..+..++.........+.....
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~-----~~~~~i~~~~~~d~~~i~g~~~  396 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATG-----RKYVRMALGGVRDEAEIRGHRR  396 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEEcCCCCCHHHhccchh
Confidence            3478999999988876652      2334589999999999999999999873     3444554433222222221111


Q ss_pred             HHHhcCcc-------ccCCccceEEEEEeCCCCCCHHH----HHHHHHHHHHh---------------ccCccEEEEeec
Q 017884          127 DFASTQSF-------SFGVKASVKLVLLDEADAMTKDA----QFALRRVIEKY---------------TKNTRFALICNQ  180 (364)
Q Consensus       127 ~~~~~~~~-------~~~~~~~~~viiiDe~~~l~~~~----~~~L~~~le~~---------------~~~~~~Il~~~~  180 (364)
                      .+....+-       ..+.  ...|++|||+|.+....    +.+|+.+++.-               -+++.||+++|.
T Consensus       397 ~~~g~~~G~~~~~l~~~~~--~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~  474 (784)
T PRK10787        397 TYIGSMPGKLIQKMAKVGV--KNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNS  474 (784)
T ss_pred             ccCCCCCcHHHHHHHhcCC--CCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCC
Confidence            11100000       0011  24599999999998764    58999998741               145566666666


Q ss_pred             cccCchhhhccceEEEecCCChHHHHHHHHHHHHH----------cCCCCCHHHHHHHHHHcC--CCHHHHHHHHHHHHH
Q 017884          181 VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----------EGLDVTEGGLAALVRLCN--GDMRKALNILQSTHM  248 (364)
Q Consensus       181 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----------~~~~i~~~~~~~l~~~~~--g~~r~a~~~l~~~~~  248 (364)
                      . .+++++.+||.++.|.+++.++..++++..+..          ..+.++++++..|++.+.  --.|.+...+++.+.
T Consensus       475 ~-~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~GaR~LeR~I~~i~r  553 (784)
T PRK10787        475 M-NIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRSLEREISKLCR  553 (784)
T ss_pred             C-CCCHHHhcceeeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccCCcHHHHHHHHHHH
Confidence            5 699999999999999999999999988777631          135789999999997542  113333333332221


Q ss_pred             h-------c-----ccCchHHHHHhcCCCC
Q 017884          249 A-------S-----QQITEEAVYLCTGNPL  266 (364)
Q Consensus       249 ~-------~-----~~i~~~~v~~~~~~~~  266 (364)
                      .       .     -.|+.+++.+.++...
T Consensus       554 ~~l~~~~~~~~~~~v~v~~~~~~~~lg~~~  583 (784)
T PRK10787        554 KAVKQLLLDKSLKHIEINGDNLHDYLGVQR  583 (784)
T ss_pred             HHHHHHHhcCCCceeeecHHHHHHHhCCCc
Confidence            1       1     1577888888877543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.55  E-value=8.9e-14  Score=141.41  Aligned_cols=198  Identities=15%  Similarity=0.209  Sum_probs=141.6

Q ss_pred             hhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCCC---
Q 017884           44 VEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD---  115 (364)
Q Consensus        44 ~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~---  115 (364)
                      .++-+...++.++|++..+..+.+++.....++++|+||||+|||++++.++..+....     ....++.++....   
T Consensus       170 ~~~a~~~~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag  249 (821)
T CHL00095        170 TKEAIDGNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAG  249 (821)
T ss_pred             HHHHHcCCCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhcc
Confidence            33446678999999999999999999888888899999999999999999999975322     1245566654321   


Q ss_pred             -CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------HHHHHHHHHHHHhccCccEEEEeeccc----
Q 017884          116 -RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIEKYTKNTRFALICNQVN----  182 (364)
Q Consensus       116 -~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------~~~~~L~~~le~~~~~~~~Il~~~~~~----  182 (364)
                       .....+.+.+.........     .++.|++|||+|.+..        ...+.|...+..  ...++|.+|+...    
T Consensus       250 ~~~~ge~e~rl~~i~~~~~~-----~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r--g~l~~IgaTt~~ey~~~  322 (821)
T CHL00095        250 TKYRGEFEERLKRIFDEIQE-----NNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR--GELQCIGATTLDEYRKH  322 (821)
T ss_pred             CCCccHHHHHHHHHHHHHHh-----cCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC--CCcEEEEeCCHHHHHHH
Confidence             1122333334433322110     1367999999998853        235566666653  3566777776432    


Q ss_pred             -cCchhhhccceEEEecCCChHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHcCC---C---HHHHHHHHHHHHH
Q 017884          183 -KIIPALQSRCTRFRFAPLEPVHVTERLKHVIE----AEGLDVTEGGLAALVRLCNG---D---MRKALNILQSTHM  248 (364)
Q Consensus       183 -~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~i~~~~~~~l~~~~~g---~---~r~a~~~l~~~~~  248 (364)
                       ...+.+.+|+..+.++.|+.++...+++....    ..++.++++++..++..+++   +   |++|+++++.++.
T Consensus       323 ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a~a  399 (821)
T CHL00095        323 IEKDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEAGS  399 (821)
T ss_pred             HhcCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHHHH
Confidence             46789999999999999999998888776543    24677999999999998864   3   8899999987664

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

Probab=99.55  E-value=5e-13  Score=113.35  Aligned_cols=191  Identities=18%  Similarity=0.230  Sum_probs=132.9

Q ss_pred             hhccCCCCCcchhccHHHHHHHH----HHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH
Q 017884           44 VEKYRPQSLADVAAHRDIVDTID----RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (364)
Q Consensus        44 ~~~~~p~~~~~~vg~~~~~~~l~----~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  119 (364)
                      +....|..+++++|-+..++.|.    ..+.+....|+||||+.|||||++++++..+....+  ..++++.........
T Consensus        18 i~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G--LRlIev~k~~L~~l~   95 (249)
T PF05673_consen   18 IKHPDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG--LRLIEVSKEDLGDLP   95 (249)
T ss_pred             cCCCCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC--ceEEEECHHHhccHH
Confidence            34567788999999777777654    444555556699999999999999999999987655  667787766554444


Q ss_pred             HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-HHHHHHHHHHH----HhccCccEEEEeeccccCch--------
Q 017884          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-DAQFALRRVIE----KYTKNTRFALICNQVNKIIP--------  186 (364)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-~~~~~L~~~le----~~~~~~~~Il~~~~~~~l~~--------  186 (364)
                      .+.+.+..    .+       .+=||++||...=.. ..-..|..+|+    ..|.++.+..++|..+-+.+        
T Consensus        96 ~l~~~l~~----~~-------~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~~  164 (249)
T PF05673_consen   96 ELLDLLRD----RP-------YKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDREDI  164 (249)
T ss_pred             HHHHHHhc----CC-------CCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhccCC
Confidence            44443331    12       245999999754433 33445555555    46777777777764432221        


Q ss_pred             ---------------hhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHH-----HHHHHHHcCCCHHHHHHHHHH
Q 017884          187 ---------------ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-----LAALVRLCNGDMRKALNILQS  245 (364)
Q Consensus       187 ---------------~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-----~~~l~~~~~g~~r~a~~~l~~  245 (364)
                                     .|..|| ..+.|.+++.++..+++...+.+.|+.++++.     ++.-....+.+.|.|.+.++.
T Consensus       165 ~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg~RSGRtA~QF~~~  244 (249)
T PF05673_consen  165 QDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRGGRSGRTARQFIDD  244 (249)
T ss_pred             CccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence                           234465 78999999999999999999999999998533     344444445688888887765


Q ss_pred             HH
Q 017884          246 TH  247 (364)
Q Consensus       246 ~~  247 (364)
                      +.
T Consensus       245 l~  246 (249)
T PF05673_consen  245 LA  246 (249)
T ss_pred             Hh
Confidence            54

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.55  E-value=3e-13  Score=122.31  Aligned_cols=211  Identities=16%  Similarity=0.224  Sum_probs=130.0

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCC----CcEEE--------------
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH----NMILE--------------  109 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~----~~~~~--------------  109 (364)
                      .|..|.+++||++++..+.-.+-.....|+||+|+||+|||++++++++.+.+....    +.+..              
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~~~~~~~   82 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTT   82 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcccccccCCc
Confidence            467899999999999988765543445789999999999999999999998431100    00000              


Q ss_pred             ----------E--eCCC--CCChHHHHHHHHHHHhcCccccCC----ccceEEEEEeCCCCCCHHHHHHHHHHHHHhc--
Q 017884          110 ----------L--NASD--DRGIDVVRQQIQDFASTQSFSFGV----KASVKLVLLDEADAMTKDAQFALRRVIEKYT--  169 (364)
Q Consensus       110 ----------~--~~~~--~~~~~~~~~~i~~~~~~~~~~~~~----~~~~~viiiDe~~~l~~~~~~~L~~~le~~~--  169 (364)
                                +  +.+.  ..|.-++...+..    ..+.+..    ..+++++++||++.+++..+..|+..|++..  
T Consensus        83 ~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~----g~~~~~~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~  158 (334)
T PRK13407         83 MIERPTPVVDLPLGVTEDRVVGALDIERALTR----GEKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSGENV  158 (334)
T ss_pred             ccccCCccccCCCCCCcceeecchhhhhhhhc----CCeeecCCceEEcCCCeEEecChHhCCHHHHHHHHHHHHcCCeE
Confidence                      0  0000  0011111111110    0110111    1245799999999999999999999998642  


Q ss_pred             ---------cCccEEEEe--eccc-cCchhhhccc-eEEEecCCCh-HHHHHHHHHHHH---------------------
Q 017884          170 ---------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIE---------------------  214 (364)
Q Consensus       170 ---------~~~~~Il~~--~~~~-~l~~~l~sr~-~~i~~~~~~~-~~~~~~l~~~~~---------------------  214 (364)
                               ....|++++  |... .+.+.+..|+ ..+.+.++.. ++..+++.....                     
T Consensus       159 v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (334)
T PRK13407        159 VEREGLSIRHPARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQLRG  238 (334)
T ss_pred             EEECCeEEecCCCEEEEecCCcccCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHhhcccccchhhhccccccccCCHH
Confidence                     123444443  4322 5778899998 5677776665 554555544211                     


Q ss_pred             --------HcCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHHHHhc-----ccCchHHHHHhc
Q 017884          215 --------AEGLDVTEGGLAALVRLC---N-GDMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (364)
Q Consensus       215 --------~~~~~i~~~~~~~l~~~~---~-g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~  262 (364)
                              -..+.++++.++++++.+   + ..+|..+.++..+...+     ..++.++|..+.
T Consensus       239 ~i~~a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~  303 (334)
T PRK13407        239 RILGARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVA  303 (334)
T ss_pred             HHHHHHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHH
Confidence                    124678888888888765   2 35777777665444322     478888886654

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.54  E-value=1.2e-13  Score=118.03  Aligned_cols=119  Identities=21%  Similarity=0.298  Sum_probs=99.1

Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee-------------ccccCchhhhccceEEEecCCChHHHHHH
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN-------------QVNKIIPALQSRCTRFRFAPLEPVHVTER  208 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~-------------~~~~l~~~l~sr~~~i~~~~~~~~~~~~~  208 (364)
                      ++|+||||+|.|.-++...|.+.++.+- ...+||++|             .++-+++.+..|..++.-.++++++++++
T Consensus       297 PGVLFIDEVhMLDiEcFTyL~kalES~i-aPivifAsNrG~~~irGt~d~~sPhGip~dllDRl~Iirt~~y~~~e~r~I  375 (456)
T KOG1942|consen  297 PGVLFIDEVHMLDIECFTYLHKALESPI-APIVIFASNRGMCTIRGTEDILSPHGIPPDLLDRLLIIRTLPYDEEEIRQI  375 (456)
T ss_pred             CcceEeeehhhhhhHHHHHHHHHhcCCC-CceEEEecCCcceeecCCcCCCCCCCCCHHHhhheeEEeeccCCHHHHHHH
Confidence            6799999999999999999999998754 556788875             45678899999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHH----hc-ccCchHHHHHh
Q 017884          209 LKHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHM----AS-QQITEEAVYLC  261 (364)
Q Consensus       209 l~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~----~~-~~i~~~~v~~~  261 (364)
                      +..+++.+++.++++++..+++.. ..++|.++++|.-+..    +. ..|..++|+++
T Consensus       376 i~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~  434 (456)
T KOG1942|consen  376 IKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEV  434 (456)
T ss_pred             HHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHH
Confidence            999999999999999999999875 5789999998853222    22 26666666554

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.54  E-value=2e-13  Score=121.92  Aligned_cols=147  Identities=16%  Similarity=0.213  Sum_probs=105.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~  150 (364)
                      ++||||||||||.+++++++++     ...++.+++...      .+...+++.+..+.....    ....+.+|+|||+
T Consensus       151 llL~GPPGcGKTllAraiA~el-----g~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~----~~~aPcVLFIDEI  221 (413)
T PLN00020        151 LGIWGGKGQGKSFQCELVFKKM-----GIEPIVMSAGELESENAGEPGKLIRQRYREAADIIK----KKGKMSCLFINDL  221 (413)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHc-----CCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhh----ccCCCeEEEEehh
Confidence            7999999999999999999997     456677766432      223455555554433210    1114789999999


Q ss_pred             CCCCHH-----------H-HHHHHHHHHHh--------------ccCccEEEEeeccccCchhhhc--cceEEEecCCCh
Q 017884          151 DAMTKD-----------A-QFALRRVIEKY--------------TKNTRFALICNQVNKIIPALQS--RCTRFRFAPLEP  202 (364)
Q Consensus       151 ~~l~~~-----------~-~~~L~~~le~~--------------~~~~~~Il~~~~~~~l~~~l~s--r~~~i~~~~~~~  202 (364)
                      |.+...           . ...|+..++.+              ...+.+|.+||.++.++++|++  |+... +..|+.
T Consensus       222 DA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~-i~lPd~  300 (413)
T PLN00020        222 DAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKF-YWAPTR  300 (413)
T ss_pred             hhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCce-eCCCCH
Confidence            988531           1 13566666542              3456678888999999999998  77443 457899


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q 017884          203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD  235 (364)
Q Consensus       203 ~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~  235 (364)
                      ++..++++.++++.  .++...+..|+....|.
T Consensus       301 e~R~eIL~~~~r~~--~l~~~dv~~Lv~~f~gq  331 (413)
T PLN00020        301 EDRIGVVHGIFRDD--GVSREDVVKLVDTFPGQ  331 (413)
T ss_pred             HHHHHHHHHHhccC--CCCHHHHHHHHHcCCCC
Confidence            99999999888865  46788888999888775

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.54  E-value=2.2e-13  Score=137.98  Aligned_cols=185  Identities=27%  Similarity=0.379  Sum_probs=133.3

Q ss_pred             cchhccHHHHHHHHHHHhc-------CCCC--cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH--
Q 017884           53 ADVAAHRDIVDTIDRLTSE-------NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV--  121 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~-------~~~~--~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--  121 (364)
                      ..++||+..+..+.+.+..       ...|  .++|+||+|+|||.+|+++++.++...  ..++.++.+.......+  
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~--~~~~~~dmse~~~~~~~~~  643 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGE--QNLITINMSEFQEAHTVSR  643 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCC--cceEEEeHHHhhhhhhhcc
Confidence            5689999999988887752       1222  279999999999999999999986433  23444443321100000  


Q ss_pred             -------------HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEE
Q 017884          122 -------------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (364)
Q Consensus       122 -------------~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~  177 (364)
                                   ...+.......        ++.||+|||++.+.+..++.|+.++++..           .++.+|++
T Consensus       644 l~g~~~gyvg~~~~g~L~~~v~~~--------p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T  715 (852)
T TIGR03345       644 LKGSPPGYVGYGEGGVLTEAVRRK--------PYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             ccCCCCCcccccccchHHHHHHhC--------CCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence                         01122222211        46799999999999999999999999764           67888888


Q ss_pred             eeccc-----------------------------cCchhhhccceEEEecCCChHHHHHHHHHHHHH-------c-C--C
Q 017884          178 CNQVN-----------------------------KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA-------E-G--L  218 (364)
Q Consensus       178 ~~~~~-----------------------------~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~-------~-~--~  218 (364)
                      ||-..                             .+.|.+.+|+.++.|.|++.+++.+++...+..       . +  +
T Consensus       716 SNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l  795 (852)
T TIGR03345       716 SNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAEL  795 (852)
T ss_pred             CCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceE
Confidence            76210                             256778899999999999999999988776543       1 4  4


Q ss_pred             CCCHHHHHHHHHHcCC---CHHHHHHHHHHHH
Q 017884          219 DVTEGGLAALVRLCNG---DMRKALNILQSTH  247 (364)
Q Consensus       219 ~i~~~~~~~l~~~~~g---~~r~a~~~l~~~~  247 (364)
                      .++++++++|++.+.+   ..|.+.+.++...
T Consensus       796 ~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~~i  827 (852)
T TIGR03345       796 VYSEALVEHIVARCTEVESGARNIDAILNQTL  827 (852)
T ss_pred             EECHHHHHHHHHHcCCCCCChHHHHHHHHHHH
Confidence            6799999999999866   6898888887644

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

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

Probab=99.52  E-value=4.4e-13  Score=133.44  Aligned_cols=180  Identities=19%  Similarity=0.266  Sum_probs=123.9

Q ss_pred             cchhccHHHHHHHHHHHhcC--------C-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH
Q 017884           53 ADVAAHRDIVDTIDRLTSEN--------R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~--------~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  123 (364)
                      ..++||++++..+...+...        + ..+++|+||||+|||++|+.+++.+.     ..++.++++.......+..
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~-----~~~i~id~se~~~~~~~~~  532 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHTVSR  532 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC-----CCcEEeechhhcccccHHH
Confidence            34799999999998887731        1 23489999999999999999999983     3445555543221111111


Q ss_pred             ---------------HHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEE
Q 017884          124 ---------------QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (364)
Q Consensus       124 ---------------~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~  177 (364)
                                     .+......        .+++||++||++.+.++.++.|+++|++..           .++.+|++
T Consensus       533 LiG~~~gyvg~~~~g~L~~~v~~--------~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~T  604 (758)
T PRK11034        533 LIGAPPGYVGFDQGGLLTDAVIK--------HPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMT  604 (758)
T ss_pred             HcCCCCCcccccccchHHHHHHh--------CCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEe
Confidence                           11111111        136799999999999999999999998642           35668888


Q ss_pred             eecc-------------------------ccCchhhhccc-eEEEecCCChHHHHHHHHHHHH-------HcC--CCCCH
Q 017884          178 CNQV-------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE-------AEG--LDVTE  222 (364)
Q Consensus       178 ~~~~-------------------------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~-------~~~--~~i~~  222 (364)
                      ||..                         ..+.|.+..|+ .++.|.|++.+++.+++...+.       ..|  +.+++
T Consensus       605 sN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~  684 (758)
T PRK11034        605 TNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQ  684 (758)
T ss_pred             CCcCHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECH
Confidence            8721                         12457888888 6899999999999888776543       234  45689


Q ss_pred             HHHHHHHHHcC---CCHHHHHHHHHH
Q 017884          223 GGLAALVRLCN---GDMRKALNILQS  245 (364)
Q Consensus       223 ~~~~~l~~~~~---g~~r~a~~~l~~  245 (364)
                      +++++|++..-   ...|.+...++.
T Consensus       685 ~~~~~l~~~~~~~~~GAR~l~r~i~~  710 (758)
T PRK11034        685 EARDWLAEKGYDRAMGARPMARVIQD  710 (758)
T ss_pred             HHHHHHHHhCCCCCCCCchHHHHHHH
Confidence            99999997652   224444444443

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=6.9e-13  Score=128.66  Aligned_cols=201  Identities=20%  Similarity=0.246  Sum_probs=138.1

Q ss_pred             CCCCCcchhccHHHHHHHHHHHh-----------cCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTS-----------ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~-----------~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      .+..|+|+.|.++++..|.+.+.           +.++|. +||+||||||||.+|+++|.+.     ...|+.+++++.
T Consensus       306 t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~svSGSEF  380 (774)
T KOG0731|consen  306 TGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSVSGSEF  380 (774)
T ss_pred             CCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeeechHHH
Confidence            34689999999999998877764           235555 9999999999999999999985     667777777653


Q ss_pred             C------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH---------------HHHHHHHHHHHHhcc--Cc
Q 017884          116 R------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------------DAQFALRRVIEKYTK--NT  172 (364)
Q Consensus       116 ~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~---------------~~~~~L~~~le~~~~--~~  172 (364)
                      -      +...+++.......         ..+.+|+|||+|.+..               ...+.|+--|+.+..  .+
T Consensus       381 vE~~~g~~asrvr~lf~~ar~---------~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~v  451 (774)
T KOG0731|consen  381 VEMFVGVGASRVRDLFPLARK---------NAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGV  451 (774)
T ss_pred             HHHhcccchHHHHHHHHHhhc---------cCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcE
Confidence            1      22233333222221         1478999999998852               124555555665443  34


Q ss_pred             cEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH-HHHHHH
Q 017884          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNI-LQSTHM  248 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~-l~~~~~  248 (364)
                      +++.+||.++-+++++.+  |+ ..+....|+.....+++...+.+.....++..+..++..+.|....-+.. +..++.
T Consensus       452 i~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~  531 (774)
T KOG0731|consen  452 IVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAAL  531 (774)
T ss_pred             EEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHH
Confidence            455567888999999987  55 67999999999999999988877666556666666898887765554433 333222


Q ss_pred             h-----cccCchHHHHHhc
Q 017884          249 A-----SQQITEEAVYLCT  262 (364)
Q Consensus       249 ~-----~~~i~~~~v~~~~  262 (364)
                      .     ...|+..++..++
T Consensus       532 ~a~r~~~~~i~~~~~~~a~  550 (774)
T KOG0731|consen  532 LAARKGLREIGTKDLEYAI  550 (774)
T ss_pred             HHHHhccCccchhhHHHHH
Confidence            1     2366666665544

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=1.4e-13  Score=118.01  Aligned_cols=172  Identities=20%  Similarity=0.255  Sum_probs=114.2

Q ss_pred             CCcchhccHHHHHHHHHHHh----------cCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC--
Q 017884           51 SLADVAAHRDIVDTIDRLTS----------ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--  116 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~----------~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--  116 (364)
                      .|+++.|.+.+++.|+..+-          .++.|.  +|||||||+||+++|++++.+.     ...|+.++.++.-  
T Consensus       131 kWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA-----nSTFFSvSSSDLvSK  205 (439)
T KOG0739|consen  131 KWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA-----NSTFFSVSSSDLVSK  205 (439)
T ss_pred             chhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc-----CCceEEeehHHHHHH
Confidence            79999999999999988752          444444  9999999999999999999986     3445555544321  


Q ss_pred             ---ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-----------HHHHHHHHHHHhc---cCccEEEEee
Q 017884          117 ---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYT---KNTRFALICN  179 (364)
Q Consensus       117 ---~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-----------~~~~L~~~le~~~---~~~~~Il~~~  179 (364)
                         ..+.+...+.+.+        .+..+.||+|||+|.+...           .-..|+-.|+.-.   ..+.++.+||
T Consensus       206 WmGESEkLVknLFemA--------Re~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATN  277 (439)
T KOG0739|consen  206 WMGESEKLVKNLFEMA--------RENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATN  277 (439)
T ss_pred             HhccHHHHHHHHHHHH--------HhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCC
Confidence               1112222222222        2235789999999998521           1233555555432   2233445678


Q ss_pred             ccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Q 017884          180 QVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD  235 (364)
Q Consensus       180 ~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~  235 (364)
                      -++.++.+|++|+ ..|.++-|........+.-.+......+++....+|+..+.|-
T Consensus       278 iPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  278 IPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGY  334 (439)
T ss_pred             CchhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCC
Confidence            8899999999999 5677755555544444444444445578899999999988663

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.51  E-value=7.1e-13  Score=129.31  Aligned_cols=212  Identities=17%  Similarity=0.169  Sum_probs=144.1

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  122 (364)
                      .+++..+|+.++|+...+..+.+.+...  ...+++|+|++||||+++|++++.....  ....++.+||..... ..+.
T Consensus       188 ~~~~~~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r--~~~pfv~i~c~~~~~-~~~~  264 (534)
T TIGR01817       188 ARRRSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPR--AKRPFVKVNCAALSE-TLLE  264 (534)
T ss_pred             cccccCccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeecCCCCH-HHHH
Confidence            3456678999999999888887777643  2334999999999999999999987432  234677888876422 2222


Q ss_pred             HHHHHHHh-----cC--ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc---
Q 017884          123 QQIQDFAS-----TQ--SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV---  181 (364)
Q Consensus       123 ~~i~~~~~-----~~--~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~---  181 (364)
                      ..+.....     ..  ....-....+++++|||++.|+...|..|++++++..           .++++|++++..   
T Consensus       265 ~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~~  344 (534)
T TIGR01817       265 SELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEE  344 (534)
T ss_pred             HHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHHH
Confidence            22211000     00  0000112357899999999999999999999998642           246777777532   


Q ss_pred             ----ccCchhhhccc--eEEEecCCCh--HHHHHHHHHHHH----HcC--CCCCHHHHHHHHHHc-CCCHHHHHHHHHHH
Q 017884          182 ----NKIIPALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEG--LDVTEGGLAALVRLC-NGDMRKALNILQST  246 (364)
Q Consensus       182 ----~~l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~~~----~~~--~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~  246 (364)
                          ..+.+.|..|+  ..+.+||+.+  +++..++...+.    +.+  ..+++++++.|..+. +||+|.+.+.++.+
T Consensus       345 ~~~~~~f~~~L~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~~~WPGNvrEL~~v~~~a  424 (534)
T TIGR01817       345 AVAKGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELENCLERT  424 (534)
T ss_pred             HHHcCCCCHHHHHHhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHH
Confidence                23445565665  4577888873  556555444433    222  578999999999885 99999999999987


Q ss_pred             HHhc--ccCchHHHH
Q 017884          247 HMAS--QQITEEAVY  259 (364)
Q Consensus       247 ~~~~--~~i~~~~v~  259 (364)
                      ....  ..|+.+++.
T Consensus       425 ~~~~~~~~I~~~~l~  439 (534)
T TIGR01817       425 ATLSRSGTITRSDFS  439 (534)
T ss_pred             HHhCCCCcccHHHCc
Confidence            7643  367777764

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.51  E-value=5.6e-13  Score=131.78  Aligned_cols=205  Identities=19%  Similarity=0.210  Sum_probs=137.6

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhc-----------CC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      |.......+|+++.|.+..+..+...+..           +. .++++|+||||+|||+++++++.++     ...++.+
T Consensus       142 ~~~~~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~-----~~~f~~i  216 (644)
T PRK10733        142 LTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTI  216 (644)
T ss_pred             cCchhhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCEEEE
Confidence            33344556899999988888877666532           12 2349999999999999999999987     3455666


Q ss_pred             eCCCC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhcc
Q 017884          111 NASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYTK  170 (364)
Q Consensus       111 ~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~~  170 (364)
                      ++++.      .+...++..+......         .++||+|||+|.+..              ...+.|+..|+....
T Consensus       217 s~~~~~~~~~g~~~~~~~~~f~~a~~~---------~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~  287 (644)
T PRK10733        217 SGSDFVEMFVGVGASRVRDMFEQAKKA---------APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  287 (644)
T ss_pred             ehHHhHHhhhcccHHHHHHHHHHHHhc---------CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccC
Confidence            55431      1223333333332211         367999999999842              123555655665443


Q ss_pred             --CccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHH
Q 017884          171 --NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALN  241 (364)
Q Consensus       171 --~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g----~~r~a~~  241 (364)
                        .+.+|.+||.++.+++++.+  |+ ..+.++.|+.++..+++...+.+..+.- +..+..+++.+.|    |+..+++
T Consensus       288 ~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~-~~d~~~la~~t~G~sgadl~~l~~  366 (644)
T PRK10733        288 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP-DIDAAIIARGTPGFSGADLANLVN  366 (644)
T ss_pred             CCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCC-cCCHHHHHhhCCCCCHHHHHHHHH
Confidence              35567788999999999986  77 7799999999999999998887544321 2235667888776    7777766


Q ss_pred             HHHHHHHh--cccCchHHHHHhc
Q 017884          242 ILQSTHMA--SQQITEEAVYLCT  262 (364)
Q Consensus       242 ~l~~~~~~--~~~i~~~~v~~~~  262 (364)
                      .....+..  ...|+..++..+.
T Consensus       367 eAa~~a~r~~~~~i~~~d~~~a~  389 (644)
T PRK10733        367 EAALFAARGNKRVVSMVEFEKAK  389 (644)
T ss_pred             HHHHHHHHcCCCcccHHHHHHHH
Confidence            66544332  2468888876653

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=99.50  E-value=6.7e-12  Score=119.25  Aligned_cols=174  Identities=25%  Similarity=0.352  Sum_probs=126.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC-----CCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCc-----------cccC--
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG-----AQYHNMILELNASDDRGIDVVRQQIQDFASTQS-----------FSFG--  137 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~-----~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~-----------~~~~--  137 (364)
                      .++++|-||+|||.+++.+.+.|..     .-+.+.++++|+....+...+...|-.......           +.|.  
T Consensus       424 ~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~  503 (767)
T KOG1514|consen  424 CMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTVP  503 (767)
T ss_pred             eEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccC
Confidence            4899999999999999999998752     235678899999877666665555533221111           1111  


Q ss_pred             -CccceEEEEEeCCCCCCHHHHHHHHHHHHHhcc-Ccc--EEEEeeccc---c-Cchhhhcc--ceEEEecCCChHHHHH
Q 017884          138 -VKASVKLVLLDEADAMTKDAQFALRRVIEKYTK-NTR--FALICNQVN---K-IIPALQSR--CTRFRFAPLEPVHVTE  207 (364)
Q Consensus       138 -~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~-~~~--~Il~~~~~~---~-l~~~l~sr--~~~i~~~~~~~~~~~~  207 (364)
                       +.....||+|||.|.|....|+.|..+++++.. +..  +|.++|..+   + +...+-||  +..+.|.|++..++.+
T Consensus       504 k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~  583 (767)
T KOG1514|consen  504 KPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQE  583 (767)
T ss_pred             CCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccccCHHHHhccchhhhccceeeecCCCCHHHHHH
Confidence             233577999999999999999999999998752 333  444444332   2 22345566  4889999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHHhc
Q 017884          208 RLKHVIEAEGLDVTEGGLAALVRLC---NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       208 ~l~~~~~~~~~~i~~~~~~~l~~~~---~g~~r~a~~~l~~~~~~~  250 (364)
                      ++..+++.. ..++.++++.++...   .||.|+|++.++++...+
T Consensus       584 Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic~RA~Eia  628 (767)
T KOG1514|consen  584 IISARLKGL-DAFENKAIELVARKVAAVSGDARRALDICRRAAEIA  628 (767)
T ss_pred             HHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            999888754 457888888887654   699999999998877543

>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=99.49  E-value=1.5e-13  Score=108.66  Aligned_cols=113  Identities=29%  Similarity=0.367  Sum_probs=80.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC--ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~  154 (364)
                      ++|+||||+|||++++.+++.+     ...++.+++....  ........+..+...... ..   .+.|++|||+|.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l-----~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~-~~---~~~vl~iDe~d~l~   71 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL-----GFPFIEIDGSELISSYAGDSEQKIRDFFKKAKK-SA---KPCVLFIDEIDKLF   71 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT-----TSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHH-TS---TSEEEEEETGGGTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhc-----ccccccccccccccccccccccccccccccccc-cc---cceeeeeccchhcc
Confidence            6899999999999999999997     4667788775532  112222223332222110 01   26899999999998


Q ss_pred             HHH-----------HHHHHHHHHHhcc---CccEEEEeeccccCchhhh-ccc-eEEEec
Q 017884          155 KDA-----------QFALRRVIEKYTK---NTRFALICNQVNKIIPALQ-SRC-TRFRFA  198 (364)
Q Consensus       155 ~~~-----------~~~L~~~le~~~~---~~~~Il~~~~~~~l~~~l~-sr~-~~i~~~  198 (364)
                      ...           .+.|+..++....   .+.+|++||..+.+.+++. +|| ..++++
T Consensus        72 ~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~~rf~~~i~~~  131 (132)
T PF00004_consen   72 PKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLRSRFDRRIEFP  131 (132)
T ss_dssp             HHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHSTTSEEEEEE-
T ss_pred             cccccccccccccccceeeecccccccccccceeEEeeCChhhCCHhHHhCCCcEEEEcC
Confidence            765           7788888888765   3778889999999999999 998 456553

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 ....

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=99.49  E-value=2.4e-13  Score=111.20  Aligned_cols=125  Identities=19%  Similarity=0.228  Sum_probs=107.3

Q ss_pred             CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccce
Q 017884          114 DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (364)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  193 (364)
                      +..+++.+++.+...... +.      ..++ +|+++|.|+..++++|++++|+||.++.||++|+.+.++.++++|||+
T Consensus        35 ~~i~Vd~iReii~~~~~~-~~------~~k~-iI~~a~~l~~~A~NaLLK~LEEPp~~~~fiL~t~~~~~llpTI~SRc~  106 (206)
T PRK08485         35 EEFKIEDAKEVIAEAYIA-ES------EEKI-IVIAAPSYGIEAQNALLKILEEPPKNICFIIVAKSKNLLLPTIRSRLI  106 (206)
T ss_pred             CCCCHHHHHHHHHHHhhC-CC------CcEE-EEEchHhhCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCchHHHhhhe
Confidence            357889999877775433 21      2444 578999999999999999999999999999999999999999999998


Q ss_pred             E-------------EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017884          194 R-------------FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       194 ~-------------i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                      +             +.|.+++.+++.+++.. ..++++...+++.+.|+..+.|.+|.++.+.+...
T Consensus       107 ~~~~~~~~~~~~l~l~l~~l~~~~i~~~L~~-~~ke~~~~~~ea~~lIa~la~~s~r~~l~l~~q~l  172 (206)
T PRK08485        107 IEKRKQKKPVKPLDLDLKKLDLKDIYEFLKE-LEKENKLSKEELKELIESLLKECVKYKIPLNEEEL  172 (206)
T ss_pred             eccccccccccccccccCCCCHHHHHHHHHH-HHHcccccHHHHHHHHHHHHHHHHHHHcCccHHHH
Confidence            6             77899999999999998 67888888899999999999999999988776554

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.49  E-value=1e-12  Score=133.75  Aligned_cols=183  Identities=21%  Similarity=0.254  Sum_probs=126.7

Q ss_pred             cchhccHHHHHHHHHHHhcC-------CCC--cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH-
Q 017884           53 ADVAAHRDIVDTIDRLTSEN-------RLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-  122 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~-------~~~--~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-  122 (364)
                      +.++||++++..+...+...       ..|  .++|+||+|+|||++|+++++.+++...  .++.++.+.......+. 
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~--~~~~~d~s~~~~~~~~~~  586 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSED--AMIRLDMSEYMEKHTVSK  586 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCcc--ceEEEEchhccccccHHH
Confidence            56899999999998887632       122  3799999999999999999999986543  34455443321111111 


Q ss_pred             --------------HHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEE
Q 017884          123 --------------QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALI  177 (364)
Q Consensus       123 --------------~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~  177 (364)
                                    ..+......        .+++||++||+|.+.+..++.|+++|++.           ..++.||++
T Consensus       587 l~g~~~gyvg~~~~~~l~~~~~~--------~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~T  658 (821)
T CHL00095        587 LIGSPPGYVGYNEGGQLTEAVRK--------KPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMT  658 (821)
T ss_pred             hcCCCCcccCcCccchHHHHHHh--------CCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEe
Confidence                          112222211        13689999999999999999999999974           257788888


Q ss_pred             eeccc-------------------------------------cCchhhhccc-eEEEecCCChHHHHHHHHHHHHH----
Q 017884          178 CNQVN-------------------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA----  215 (364)
Q Consensus       178 ~~~~~-------------------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~----  215 (364)
                      ||...                                     .+.|.+.+|+ .++.|.|++.+++.+++...+..    
T Consensus       659 sn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~r  738 (821)
T CHL00095        659 SNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKR  738 (821)
T ss_pred             CCcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHHH
Confidence            76321                                     0235677888 88999999999999987766553    


Q ss_pred             ---c--CCCCCHHHHHHHHHHc---CCCHHHHHHHHHH
Q 017884          216 ---E--GLDVTEGGLAALVRLC---NGDMRKALNILQS  245 (364)
Q Consensus       216 ---~--~~~i~~~~~~~l~~~~---~g~~r~a~~~l~~  245 (364)
                         .  .+.+++++.++|++..   ..-.|.+...++.
T Consensus       739 l~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~  776 (821)
T CHL00095        739 LNEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMR  776 (821)
T ss_pred             HHHCCcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHH
Confidence               2  2467999999999874   1224555555543

>PRK14700 recombination factor protein RarA; Provisional

Probab=99.49  E-value=4.1e-12  Score=110.82  Aligned_cols=179  Identities=17%  Similarity=0.197  Sum_probs=135.6

Q ss_pred             ccEEEEe--eccccCchhhhccceEEEecCCChHHHHHHHHHHHHHc------CCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 017884          172 TRFALIC--NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE------GLDVTEGGLAALVRLCNGDMRKALNIL  243 (364)
Q Consensus       172 ~~~Il~~--~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~------~~~i~~~~~~~l~~~~~g~~r~a~~~l  243 (364)
                      ..+|.+|  |+...+.++|+|||+++.|.+++.+++..++++.+...      .+.+++++++.|+..++||.|.++|.|
T Consensus         9 i~LIGATTENP~f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~L   88 (300)
T PRK14700          9 IILIGATTENPTYYLNDALVSRLFILRLKRLSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNLL   88 (300)
T ss_pred             EEEEeecCCCccceecHhhhhhhheeeecCCCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHHH
Confidence            3445544  55568999999999999999999999999999988742      367999999999999999999999999


Q ss_pred             HHHHHh-c--c--cCchHHHHHhcC----------CCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHH
Q 017884          244 QSTHMA-S--Q--QITEEAVYLCTG----------NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT  308 (364)
Q Consensus       244 ~~~~~~-~--~--~i~~~~v~~~~~----------~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~  308 (364)
                      +.+... .  .  .||.+.+++.+.          ..+++.+..+.+++.+.|..+++.|+..|+ +.|++|.-|.+.|.
T Consensus        89 E~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSDpDAAlYyLArml-~~GEDp~~IaRRLi  167 (300)
T PRK14700         89 ERMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTDPDAAIFWLSVML-DNGVDPLVIARRML  167 (300)
T ss_pred             HHHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCCccHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence            985542 1  1  289999887653          346678999999999999999999999999 99999999998887


Q ss_pred             HHHH-hcCCChHHHHHHHHHHHHHHHHHhcCC-ChHHHHHHHHHHHH
Q 017884          309 MFVF-KIKMPSDVRVRLMNDLADIEYRLSFGC-NDKLQLGSIISTFT  353 (364)
Q Consensus       309 ~~~~-~~~~~~~~~~~i~~~l~~~~~~l~~~~-~~~~~l~~l~~~l~  353 (364)
                      .... ..++-+.....+.....+.-..  .|. .-++.|...+..+|
T Consensus       168 i~AsEDIGlAdP~al~~a~aa~~A~~~--iG~PEa~i~La~aviyLA  212 (300)
T PRK14700        168 CIASEDIGNADPQALRVAMDAWNAYEK--LGMPEGRLVLAQAAIYLA  212 (300)
T ss_pred             HHHHhhccCCCHHHHHHHHHHHHHHHH--hCChHHHHHHHHHHHHHH
Confidence            6664 3344444333333333333333  343 33566666666665

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

Probab=99.49  E-value=8.5e-13  Score=132.84  Aligned_cols=181  Identities=18%  Similarity=0.245  Sum_probs=125.2

Q ss_pred             cchhccHHHHHHHHHHHhcC--------CC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH--
Q 017884           53 ADVAAHRDIVDTIDRLTSEN--------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV--  121 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~--------~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--  121 (364)
                      ..++||+++++.+...+...        ++ .+++|+||+|+|||++|+++++.+.     ..++.++.+.......+  
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~-----~~~~~~d~se~~~~~~~~~  528 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG-----VHLERFDMSEYMEKHTVSR  528 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc-----CCeEEEeCchhhhcccHHH
Confidence            56889999999888887632        12 2389999999999999999999983     23444444331110000  


Q ss_pred             -------------HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEE
Q 017884          122 -------------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALI  177 (364)
Q Consensus       122 -------------~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~  177 (364)
                                   ...+.+....        .++.||+|||++.+.++.++.|+++|++.           -.++.+|++
T Consensus       529 lig~~~gyvg~~~~~~l~~~~~~--------~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~T  600 (731)
T TIGR02639       529 LIGAPPGYVGFEQGGLLTEAVRK--------HPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMT  600 (731)
T ss_pred             HhcCCCCCcccchhhHHHHHHHh--------CCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEEC
Confidence                         1112222221        14689999999999999999999999974           235668887


Q ss_pred             eeccc-------------------------cCchhhhccc-eEEEecCCChHHHHHHHHHHHHH-------c--CCCCCH
Q 017884          178 CNQVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------E--GLDVTE  222 (364)
Q Consensus       178 ~~~~~-------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~--~~~i~~  222 (364)
                      ||...                         .+.|.+.+|+ .++.|.|++.+++.+++...+.+       .  .+.+++
T Consensus       601 sn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~~  680 (731)
T TIGR02639       601 SNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELTD  680 (731)
T ss_pred             CCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeCH
Confidence            75321                         2456778888 68999999999999998877653       2  257799


Q ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHH
Q 017884          223 GGLAALVRLC---NGDMRKALNILQST  246 (364)
Q Consensus       223 ~~~~~l~~~~---~g~~r~a~~~l~~~  246 (364)
                      +++++|++..   .-..|.+...++..
T Consensus       681 ~a~~~La~~~~~~~~GaR~l~r~i~~~  707 (731)
T TIGR02639       681 DAKKYLAEKGYDEEFGARPLARVIQEE  707 (731)
T ss_pred             HHHHHHHHhCCCcccCchHHHHHHHHH
Confidence            9999999864   22355555555443

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.49  E-value=1.2e-12  Score=119.11  Aligned_cols=160  Identities=20%  Similarity=0.254  Sum_probs=114.9

Q ss_pred             CCCChhh--ccCCCCCcchhccHHHHHHHHHHHh----c-------CCC--CcEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           39 KASPWVE--KYRPQSLADVAAHRDIVDTIDRLTS----E-------NRL--PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        39 ~~~~~~~--~~~p~~~~~~vg~~~~~~~l~~~~~----~-------~~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      ....|.-  --+|.+|+.++-.+++++.+.+-+.    +       |..  ..+|||||||||||+++.|+|+.+     
T Consensus       185 ~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L-----  259 (457)
T KOG0743|consen  185 KGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL-----  259 (457)
T ss_pred             cCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc-----
Confidence            3455532  2456789999998888876655543    2       211  129999999999999999999998     


Q ss_pred             CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH------------------HHHHHHHHHH
Q 017884          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------------DAQFALRRVI  165 (364)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~------------------~~~~~L~~~l  165 (364)
                      ..++..++.+.....+.++..+...    +       ++.||+|+|+|.-..                  -....|++.+
T Consensus       260 ~ydIydLeLt~v~~n~dLr~LL~~t----~-------~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfi  328 (457)
T KOG0743|consen  260 NYDIYDLELTEVKLDSDLRHLLLAT----P-------NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFL  328 (457)
T ss_pred             CCceEEeeeccccCcHHHHHHHHhC----C-------CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhh
Confidence            4555555555444444555544332    1       478999999987731                  0134588999


Q ss_pred             HHhccCc----cEEEEeeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHH
Q 017884          166 EKYTKNT----RFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIE  214 (364)
Q Consensus       166 e~~~~~~----~~Il~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~  214 (364)
                      +..-+.|    .+||+||..++++|+|.+++   ..+++...+.+.++....+++.
T Consensus       329 DGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~  384 (457)
T KOG0743|consen  329 DGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLG  384 (457)
T ss_pred             ccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcC
Confidence            8876666    58889999999999999965   5699999999999888887763

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.48  E-value=6.3e-12  Score=116.84  Aligned_cols=207  Identities=19%  Similarity=0.241  Sum_probs=142.4

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (364)
                      ..+.+++|+...+..+.+.+.+-..  .+++|+|++||||..+|++|++.-  ......|+.+||... ..+.+...+..
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~S--~R~~~PFVavNcaAi-p~~l~ESELFG  214 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQAS--PRAKGPFIAVNCAAI-PENLLESELFG  214 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhhC--cccCCCceeeecccC-CHHHHHHHhhc
Confidence            3577899999999999888875432  239999999999999999999873  223456788888763 23333333332


Q ss_pred             HHhcCc-------cccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeecc-------c
Q 017884          128 FASTQS-------FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV-------N  182 (364)
Q Consensus       128 ~~~~~~-------~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~-------~  182 (364)
                      ......       ...-..++++.+++||+..|+-+.|..|++++++.           +.++++|.+|+..       .
T Consensus       215 hekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~~~v~~G  294 (464)
T COG2204         215 HEKGAFTGAITRRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLEEEVAAG  294 (464)
T ss_pred             ccccCcCCcccccCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHHHHHHcC
Confidence            111100       00111236889999999999999999999999963           2467788888632       2


Q ss_pred             cCchhhhccceE--EEecCCCh--HHH----HHHHHHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          183 KIIPALQSRCTR--FRFAPLEP--VHV----TERLKHVIEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       183 ~l~~~l~sr~~~--i~~~~~~~--~~~----~~~l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                      ++.+.|-.|..+  +++||+.+  +++    ..++++.++..|   ..+++++++.|..+. .||+|.+.|.++.+....
T Consensus       295 ~FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNVREL~N~ver~~il~  374 (464)
T COG2204         295 RFREDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAYDWPGNVRELENVVERAVILS  374 (464)
T ss_pred             CcHHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCChHHHHHHHHHHHHHhcC
Confidence            455666667655  55555554  333    334444454443   478999999998875 999999999999888755


Q ss_pred             c--cCchHHHH
Q 017884          251 Q--QITEEAVY  259 (364)
Q Consensus       251 ~--~i~~~~v~  259 (364)
                      .  .|+.+++.
T Consensus       375 ~~~~i~~~~l~  385 (464)
T COG2204         375 EGPEIEVEDLP  385 (464)
T ss_pred             Cccccchhhcc
Confidence            3  57766644

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

Probab=99.47  E-value=3.1e-12  Score=116.33  Aligned_cols=195  Identities=20%  Similarity=0.270  Sum_probs=137.4

Q ss_pred             cchhccHHHHHHHHHHHhc----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH-HH
Q 017884           53 ADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI-QD  127 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i-~~  127 (364)
                      ..++|++.....++.++..    .....+++.|.||+|||.+...+...+.+.......+.+|+........+-..+ ..
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~  229 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSS  229 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHH
Confidence            4588999998888888764    344459999999999999999999988877777778888887633222222111 11


Q ss_pred             HHhcCcc-------------ccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc---cCccEEEEeecc---ccCchhh
Q 017884          128 FASTQSF-------------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQV---NKIIPAL  188 (364)
Q Consensus       128 ~~~~~~~-------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~---~~~~~Il~~~~~---~~l~~~l  188 (364)
                      +.+....             .+......-|+++||.|.|....+..|+.+++.+.   ....+|.++|..   +++.+.|
T Consensus       230 ~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~LprL  309 (529)
T KOG2227|consen  230 LLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLPRL  309 (529)
T ss_pred             HHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhhhh
Confidence            1000000             01111135699999999999888888888888753   334445555654   4677777


Q ss_pred             hccc----eEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHc---CCCHHHHHHHHHHHH
Q 017884          189 QSRC----TRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLC---NGDMRKALNILQSTH  247 (364)
Q Consensus       189 ~sr~----~~i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~~~~l~~~~---~g~~r~a~~~l~~~~  247 (364)
                      ..|+    .++.|+||+.+++.+++..++..+...+. +.+++.+|+.+   .||+|+|+..++.+.
T Consensus       310 ~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~ai  376 (529)
T KOG2227|consen  310 NLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAI  376 (529)
T ss_pred             hhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            7753    67999999999999999999987765443 45778887665   699999999987443

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.47  E-value=7.5e-12  Score=120.12  Aligned_cols=208  Identities=16%  Similarity=0.197  Sum_probs=137.0

Q ss_pred             CCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHc------CCCCCCcEEEEeCCCCCChHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY------GAQYHNMILELNASDDRGIDVV  121 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~------~~~~~~~~~~~~~~~~~~~~~~  121 (364)
                      .+|++++|+...+..+.+.+..-  ...+++|+|++||||+.+|+.+.+.+.      .......++.+||..... ..+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e-~ll  294 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAE-SLL  294 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCCh-hhH
Confidence            46899999999888888887632  234599999999999999999998732      222345688888876432 223


Q ss_pred             HHHHHHHHhc--------CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeeccc
Q 017884          122 RQQIQDFAST--------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN  182 (364)
Q Consensus       122 ~~~i~~~~~~--------~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~~  182 (364)
                      ...+......        ....+-...+++.++|||++.|+...|..|++++++.           +.++++|++|+..-
T Consensus       295 eseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~~~L  374 (538)
T PRK15424        295 EAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDL  374 (538)
T ss_pred             HHHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecCCCH
Confidence            3322211100        0000111235779999999999999999999999863           23457888775331


Q ss_pred             -------cCchhhhccc--eEEEecCCCh--HHHHHHHHHHHH----HcCCCCCHHHH-------HHHHHH-cCCCHHHH
Q 017884          183 -------KIIPALQSRC--TRFRFAPLEP--VHVTERLKHVIE----AEGLDVTEGGL-------AALVRL-CNGDMRKA  239 (364)
Q Consensus       183 -------~l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~~~----~~~~~i~~~~~-------~~l~~~-~~g~~r~a  239 (364)
                             .+.+.+-.|.  ..+++||+.+  +++..++...+.    ..+..++++++       +.|..+ ++||+|.+
T Consensus       375 ~~~v~~g~Fr~dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~a~~~L~~y~WPGNvREL  454 (538)
T PRK15424        375 EEDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQSLAALSAPFSAALRQGLQQCETLLLHYDWPGNVREL  454 (538)
T ss_pred             HHHHhcccchHHHHHHhcCCeecCCChhhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHhhHHHHHHHHhCCCCchHHHH
Confidence                   2333444554  5677788765  455555544443    35667888776       445444 48999999


Q ss_pred             HHHHHHHHHhc-----ccCchHHH
Q 017884          240 LNILQSTHMAS-----QQITEEAV  258 (364)
Q Consensus       240 ~~~l~~~~~~~-----~~i~~~~v  258 (364)
                      .+.++.++...     ..|+.+++
T Consensus       455 ~nvier~~i~~~~~~~~~i~~~~l  478 (538)
T PRK15424        455 RNLMERLALFLSVEPTPDLTPQFL  478 (538)
T ss_pred             HHHHHHHHHhcCCCCcCccCHHHh
Confidence            99999887653     24565554

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.47  E-value=2.7e-12  Score=131.08  Aligned_cols=185  Identities=19%  Similarity=0.280  Sum_probs=131.7

Q ss_pred             cchhccHHHHHHHHHHHhcCC--------C-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH
Q 017884           53 ADVAAHRDIVDTIDRLTSENR--------L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~--------~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  123 (364)
                      ..++||+.++..+...+....        + ..++|+||+|+|||++|+++++.+.+...  .++.++++..........
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~--~~i~~d~s~~~~~~~~~~  642 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDED--AMVRIDMSEYMEKHSVAR  642 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCC--cEEEEechhhcccchHHH
Confidence            568999999999988886421        1 23899999999999999999999876543  445555443211111111


Q ss_pred             ---------------HHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEE
Q 017884          124 ---------------QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (364)
Q Consensus       124 ---------------~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~  177 (364)
                                     .+......        .++.||++||++.+.+..++.|+++|++..           .++.+|++
T Consensus       643 l~g~~~g~~g~~~~g~l~~~v~~--------~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~T  714 (852)
T TIGR03346       643 LIGAPPGYVGYEEGGQLTEAVRR--------KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMT  714 (852)
T ss_pred             hcCCCCCccCcccccHHHHHHHc--------CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEe
Confidence                           11111111        135799999999999999999999998752           45668888


Q ss_pred             eeccc-------------------------cCchhhhccc-eEEEecCCChHHHHHHHHHHHH-------Hc--CCCCCH
Q 017884          178 CNQVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE-------AE--GLDVTE  222 (364)
Q Consensus       178 ~~~~~-------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~-------~~--~~~i~~  222 (364)
                      ||...                         .+.|.+..|+ .++.|.|++.+++.+++.....       ..  .+.+++
T Consensus       715 Sn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~  794 (852)
T TIGR03346       715 SNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSD  794 (852)
T ss_pred             CCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCH
Confidence            86421                         1335666777 7899999999998887666543       22  257899


Q ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHHH
Q 017884          223 GGLAALVRLC---NGDMRKALNILQSTH  247 (364)
Q Consensus       223 ~~~~~l~~~~---~g~~r~a~~~l~~~~  247 (364)
                      +++++|++..   .++.|.+.+.++...
T Consensus       795 ~a~~~L~~~~~~~~~gaR~L~~~i~~~i  822 (852)
T TIGR03346       795 AALDFLAEAGYDPVYGARPLKRAIQREI  822 (852)
T ss_pred             HHHHHHHHhCCCCCCCchhHHHHHHHHH
Confidence            9999999873   578898888887654

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

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

Probab=99.47  E-value=1.2e-12  Score=124.76  Aligned_cols=203  Identities=21%  Similarity=0.278  Sum_probs=132.5

Q ss_pred             hccHHHHHHHHHHHh------cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHH
Q 017884           56 AAHRDIVDTIDRLTS------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (364)
Q Consensus        56 vg~~~~~~~l~~~~~------~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (364)
                      .|-+++++++.+++.      +-..|-++|+||||+|||++++.+|+.+     +-.|+.++-...+....++..-+.+.
T Consensus       326 YGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al-----~RkfvR~sLGGvrDEAEIRGHRRTYI  400 (782)
T COG0466         326 YGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL-----GRKFVRISLGGVRDEAEIRGHRRTYI  400 (782)
T ss_pred             cCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh-----CCCEEEEecCccccHHHhcccccccc
Confidence            566778887777664      2233448999999999999999999998     34445554433222223322211111


Q ss_pred             hcCccc-------cCCccceEEEEEeCCCCCCHH----HHHHHHHHHHHh---------------ccCccEEEEeecccc
Q 017884          130 STQSFS-------FGVKASVKLVLLDEADAMTKD----AQFALRRVIEKY---------------TKNTRFALICNQVNK  183 (364)
Q Consensus       130 ~~~~~~-------~~~~~~~~viiiDe~~~l~~~----~~~~L~~~le~~---------------~~~~~~Il~~~~~~~  183 (364)
                      .++|-.       .+.  ..-++++||+|.|+.+    -..+|+++|+--               -+++.||.++|..+.
T Consensus       401 GamPGrIiQ~mkka~~--~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~t  478 (782)
T COG0466         401 GAMPGKIIQGMKKAGV--KNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLDT  478 (782)
T ss_pred             ccCChHHHHHHHHhCC--cCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCcccc
Confidence            111100       011  3459999999999743    356777777621               145678888899999


Q ss_pred             CchhhhccceEEEecCCChHHHHHHHHHHH-----HHc-----CCCCCHHHHHHHHHHc--CCCHHHHHHHHHHHHHhc-
Q 017884          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVI-----EAE-----GLDVTEGGLAALVRLC--NGDMRKALNILQSTHMAS-  250 (364)
Q Consensus       184 l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~-----~~~-----~~~i~~~~~~~l~~~~--~g~~r~a~~~l~~~~~~~-  250 (364)
                      ++.+|..|..++++..+++++=.++.++++     +..     .+.++++++..|+++.  ..-+|.+-..+.+++... 
T Consensus       479 IP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~LeR~i~ki~RK~~  558 (782)
T COG0466         479 IPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLEREIAKICRKAA  558 (782)
T ss_pred             CChHHhcceeeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHH
Confidence            999999999999999999998877766643     223     3578999999888765  223555555554443321 


Q ss_pred             ----------c-cCchHHHHHhcCCC
Q 017884          251 ----------Q-QITEEAVYLCTGNP  265 (364)
Q Consensus       251 ----------~-~i~~~~v~~~~~~~  265 (364)
                                . .|+..++.+.++..
T Consensus       559 ~~i~~~~~k~~~~i~~~~l~~yLG~~  584 (782)
T COG0466         559 KKILLKKEKSIVKIDEKNLKKYLGVP  584 (782)
T ss_pred             HHHHhcCcccceeeCHHHHHHHhCCc
Confidence                      1 46777777776653

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=2.2e-12  Score=124.89  Aligned_cols=171  Identities=20%  Similarity=0.281  Sum_probs=122.5

Q ss_pred             CCCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           50 QSLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      .+|+++.|.+.+...++..+..           + ..+ .+|||||||||||.+|++++...     ...++.+..+...
T Consensus       239 v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~-----~~~fi~v~~~~l~  313 (494)
T COG0464         239 VTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES-----RSRFISVKGSELL  313 (494)
T ss_pred             cceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC-----CCeEEEeeCHHHh
Confidence            5789999988888877776541           1 223 38999999999999999999975     5667777665322


Q ss_pred             C------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHH--HhccCccEEEE
Q 017884          117 G------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIE--KYTKNTRFALI  177 (364)
Q Consensus       117 ~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le--~~~~~~~~Il~  177 (364)
                      +      ...+++.+......         .+.+|+|||+|.+..           ...+.|+..++  +...++.+|.+
T Consensus       314 sk~vGesek~ir~~F~~A~~~---------~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~a  384 (494)
T COG0464         314 SKWVGESEKNIRELFEKARKL---------APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAA  384 (494)
T ss_pred             ccccchHHHHHHHHHHHHHcC---------CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEec
Confidence            1      12233322222211         478999999999942           35566777775  33445667888


Q ss_pred             eeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCC
Q 017884          178 CNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLD-VTEGGLAALVRLCNG  234 (364)
Q Consensus       178 ~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~~~~l~~~~~g  234 (364)
                      ||.++.+++++.+  |+ ..+.+++|+..+..+++...+...+.. .++-.++.+++.+.|
T Consensus       385 TN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~  445 (494)
T COG0464         385 TNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEG  445 (494)
T ss_pred             CCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcC
Confidence            8999999999999  87 779999999999999999988765553 345567777776654

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.46  E-value=4e-12  Score=115.33  Aligned_cols=211  Identities=15%  Similarity=0.210  Sum_probs=128.3

Q ss_pred             CcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc-------CCCC----CC-------cE------
Q 017884           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-------GAQY----HN-------MI------  107 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~-------~~~~----~~-------~~------  107 (364)
                      |..++||++++..|.-.+-.....|++|.|++|+|||+++++++..+.       ++..    ..       ..      
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~   82 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVRIRVDSQE   82 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHhhhhhccc
Confidence            788999999999887776676677899999999999999999998762       1110    00       00      


Q ss_pred             -----------EEE--eCCC--CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc---
Q 017884          108 -----------LEL--NASD--DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---  169 (364)
Q Consensus       108 -----------~~~--~~~~--~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~---  169 (364)
                                 ..+  +.+.  ..|.-++...+..-........-...+++++++||++.+++..|..|+..|++..   
T Consensus        83 ~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~v  162 (337)
T TIGR02030        83 PLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLEDHLVDVLLDVAASGWNVV  162 (337)
T ss_pred             ccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCHHHHHHHHHHHHhCCeEE
Confidence                       000  0000  0011111111111000000000011246899999999999999999999998642   


Q ss_pred             --------cCccEEEEe--eccc-cCchhhhccc-eEEEecCCCh-HHHHHHHHHHHH----------------------
Q 017884          170 --------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIE----------------------  214 (364)
Q Consensus       170 --------~~~~~Il~~--~~~~-~l~~~l~sr~-~~i~~~~~~~-~~~~~~l~~~~~----------------------  214 (364)
                              ..+++++++  |... .+.+.+..|+ ..+.+.++.. ++..+++.....                      
T Consensus       163 ~r~G~~~~~~~r~iviat~np~eg~l~~~LldRf~l~i~l~~p~~~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~~~~~  242 (337)
T TIGR02030       163 EREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVELRVEIVERRTEYDADPHAFCEKWQTEQEALQAK  242 (337)
T ss_pred             EECCEEEEcCCCEEEEeccccccCCCCHHHHhhcceEEECCCCCCHHHHHHHHHhhhhcccCchhhhhhhhhhhhcCHHH
Confidence                    123444444  3222 5778899998 5577777765 555555544211                      


Q ss_pred             -------HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHhc-----ccCchHHHHHhc
Q 017884          215 -------AEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (364)
Q Consensus       215 -------~~~~~i~~~~~~~l~~~~---~g-~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~  262 (364)
                             -..+.++++.++++++.+   +. .+|..+.++..+...+     ..++.+||..+.
T Consensus       243 I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a  306 (337)
T TIGR02030       243 IVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVA  306 (337)
T ss_pred             HHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence                   135678888888887764   33 4788777775444322     478888887643

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.46  E-value=4.5e-12  Score=128.97  Aligned_cols=186  Identities=18%  Similarity=0.266  Sum_probs=128.6

Q ss_pred             CCcchhccHHHHHHHHHHHhcC-------CC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSEN-------RL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~-------~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  121 (364)
                      -...++||+.++..+...+...       ..  .+++|+||+|+|||++|+++++.+.+.+.  .++.++++........
T Consensus       566 l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~--~~i~id~se~~~~~~~  643 (857)
T PRK10865        566 LHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDD--AMVRIDMSEFMEKHSV  643 (857)
T ss_pred             hCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCC--cEEEEEhHHhhhhhhH
Confidence            3567899999999888887632       11  24899999999999999999999865433  3455555432111111


Q ss_pred             HHH---------------HHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEE
Q 017884          122 RQQ---------------IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFA  175 (364)
Q Consensus       122 ~~~---------------i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~I  175 (364)
                      ...               +......        ..+.+|+|||++.+.+..++.|++++++.           ..++.+|
T Consensus       644 ~~LiG~~pgy~g~~~~g~l~~~v~~--------~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI  715 (857)
T PRK10865        644 SRLVGAPPGYVGYEEGGYLTEAVRR--------RPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVI  715 (857)
T ss_pred             HHHhCCCCcccccchhHHHHHHHHh--------CCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEE
Confidence            111               1111111        13579999999999999999999999874           2345588


Q ss_pred             EEeecc-------------------------ccCchhhhccc-eEEEecCCChHHHHHHHHHHHHH-------cC--CCC
Q 017884          176 LICNQV-------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------EG--LDV  220 (364)
Q Consensus       176 l~~~~~-------------------------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~i  220 (364)
                      ++||..                         ..+.|.+.+|+ .++.|.|++.+++..++...+..       .+  +.+
T Consensus       716 ~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~i  795 (857)
T PRK10865        716 MTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHI  795 (857)
T ss_pred             EeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcC
Confidence            888742                         12456788898 88999999999988887766543       23  467


Q ss_pred             CHHHHHHHHHHcC---CCHHHHHHHHHHH
Q 017884          221 TEGGLAALVRLCN---GDMRKALNILQST  246 (364)
Q Consensus       221 ~~~~~~~l~~~~~---g~~r~a~~~l~~~  246 (364)
                      ++++++.|+.+..   -..|.+.+.++..
T Consensus       796 s~~al~~L~~~gy~~~~GARpL~r~I~~~  824 (857)
T PRK10865        796 SDEALKLLSENGYDPVYGARPLKRAIQQQ  824 (857)
T ss_pred             CHHHHHHHHHcCCCccCChHHHHHHHHHH
Confidence            9999999998652   1356666666544

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.46  E-value=7.8e-12  Score=121.01  Aligned_cols=208  Identities=18%  Similarity=0.190  Sum_probs=138.7

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      ...+|++++|....+..+...+...  ...+++|+|++||||+++|+++...-.  .....++.+||.... .+.+...+
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s~--r~~~pfv~inca~~~-~~~~e~el  275 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSP--RGKKPFLALNCASIP-DDVVESEL  275 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhCC--CCCCCeEEeccccCC-HHHHHHHh
Confidence            3458999999988777776666532  234499999999999999999876532  223456788887643 22222222


Q ss_pred             HHHHh-cC------ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeecc------
Q 017884          126 QDFAS-TQ------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV------  181 (364)
Q Consensus       126 ~~~~~-~~------~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~------  181 (364)
                      ..... ..      ...+-..+.++.++|||++.|+...|..|++++++.           +.++++|++|+..      
T Consensus       276 FG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~~  355 (520)
T PRK10820        276 FGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQ  355 (520)
T ss_pred             cCCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHHH
Confidence            11110 00      000001124679999999999999999999999863           1345777776432      


Q ss_pred             -ccCchhhhccc--eEEEecCCCh--HHHHHH----HHHHHHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHH
Q 017884          182 -NKIIPALQSRC--TRFRFAPLEP--VHVTER----LKHVIEAEG---LDVTEGGLAALVRL-CNGDMRKALNILQSTHM  248 (364)
Q Consensus       182 -~~l~~~l~sr~--~~i~~~~~~~--~~~~~~----l~~~~~~~~---~~i~~~~~~~l~~~-~~g~~r~a~~~l~~~~~  248 (364)
                       ..+.+.|..|.  ..+.+||+.+  +++..+    +...+.+.|   ..+++++++.|..+ ++||+|.+.+.++.+..
T Consensus       356 ~g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNvreL~nvl~~a~~  435 (520)
T PRK10820        356 KGEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALT  435 (520)
T ss_pred             cCCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence             13445566774  5677888876  344433    444455544   36899999999988 79999999999988776


Q ss_pred             hc--ccCchHHH
Q 017884          249 AS--QQITEEAV  258 (364)
Q Consensus       249 ~~--~~i~~~~v  258 (364)
                      ..  ..|+.+++
T Consensus       436 ~~~~~~i~~~~~  447 (520)
T PRK10820        436 QLEGYELRPQDI  447 (520)
T ss_pred             hCCCCcccHHHc
Confidence            43  36777775

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=1.6e-12  Score=124.36  Aligned_cols=174  Identities=22%  Similarity=0.287  Sum_probs=116.7

Q ss_pred             ccCCCCCcchhccHHHHHHHHHHHhc----------C-C-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           46 KYRPQSLADVAAHRDIVDTIDRLTSE----------N-R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        46 ~~~p~~~~~~vg~~~~~~~l~~~~~~----------~-~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      |.--.+|+|+-|-++++..+...++-          | + -..++||||||||||.+|+++|.+.     ...|+.+-+.
T Consensus       665 KIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc-----sL~FlSVKGP  739 (953)
T KOG0736|consen  665 KIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC-----SLNFLSVKGP  739 (953)
T ss_pred             CCCccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc-----eeeEEeecCH
Confidence            44446899999999999999888763          2 2 2239999999999999999999996     5666666544


Q ss_pred             CC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-------------HHHHHHHHHHHhc----c
Q 017884          114 DD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-------------AQFALRRVIEKYT----K  170 (364)
Q Consensus       114 ~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-------------~~~~L~~~le~~~----~  170 (364)
                      ..      .+...+|+.++.+...         .++||++||+|.+.+.             ....|+.-|+..+    .
T Consensus       740 ELLNMYVGqSE~NVR~VFerAR~A---------~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~  810 (953)
T KOG0736|consen  740 ELLNMYVGQSEENVREVFERARSA---------APCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQ  810 (953)
T ss_pred             HHHHHHhcchHHHHHHHHHHhhcc---------CCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCC
Confidence            32      2233455544443322         5789999999999642             3445666666544    2


Q ss_pred             CccEEEEeeccccCchhhhc--cc-eEEEecCCChHHH-HHHHHHHHHHcCCCCCHH-HHHHHHHHcCCC
Q 017884          171 NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHV-TERLKHVIEAEGLDVTEG-GLAALVRLCNGD  235 (364)
Q Consensus       171 ~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~-~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g~  235 (364)
                      .+.+|.+||.|+-++++|.+  |+ ..+...+.+..+- .++|+...++.  .++++ .+..+++.+.-+
T Consensus       811 ~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkF--kLdedVdL~eiAk~cp~~  878 (953)
T KOG0736|consen  811 DVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKF--KLDEDVDLVEIAKKCPPN  878 (953)
T ss_pred             ceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHc--cCCCCcCHHHHHhhCCcC
Confidence            34466678999999999988  56 5567777666544 44455444443  34433 356777776543

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=4.2e-12  Score=106.60  Aligned_cols=154  Identities=24%  Similarity=0.337  Sum_probs=108.6

Q ss_pred             CCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC--
Q 017884           51 SLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  115 (364)
                      +..++-|.+-.++.++..+.-           | .+| .+++|||||||||.++++++++-     ...|+.+.++..  
T Consensus       153 sy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t-----~a~firvvgsefvq  227 (408)
T KOG0727|consen  153 SYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT-----TAAFIRVVGSEFVQ  227 (408)
T ss_pred             cccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc-----chheeeeccHHHHH
Confidence            678888877777777666541           1 233 39999999999999999999974     456677766541  


Q ss_pred             ----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHH-----hccCccEE
Q 017884          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEK-----YTKNTRFA  175 (364)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~-----~~~~~~~I  175 (364)
                          .+...+++.+.-..+         +.+.+|+|||+|.+..           +.|..|++++..     ...++.+|
T Consensus       228 kylgegprmvrdvfrlake---------napsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvi  298 (408)
T KOG0727|consen  228 KYLGEGPRMVRDVFRLAKE---------NAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVI  298 (408)
T ss_pred             HHhccCcHHHHHHHHHHhc---------cCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEE
Confidence                344455554333222         2467999999998852           345556555553     24578899


Q ss_pred             EEeeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHcCC
Q 017884          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGL  218 (364)
Q Consensus       176 l~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~  218 (364)
                      ++||..+-++|++.+-+   ..++|+-|+..+-+-.+..+..+.++
T Consensus       299 matnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~l  344 (408)
T KOG0727|consen  299 MATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNL  344 (408)
T ss_pred             EecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccC
Confidence            99999999999998854   56999988887777777777666554

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=99.45  E-value=9.3e-13  Score=131.36  Aligned_cols=203  Identities=25%  Similarity=0.419  Sum_probs=156.0

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcC------------C--CCc--EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN------------R--LPH--LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~------------~--~~~--lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      ...|.++|+|.+..+++|.......+..|+...            .  ...  ++++||||+|||+.++..++.+     
T Consensus       307 ~~~~~~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~-----  381 (871)
T KOG1968|consen  307 GAGWTEKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKEL-----  381 (871)
T ss_pred             ccccccccccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhc-----
Confidence            578999999999999999888777777777643            1  112  4899999999999999999997     


Q ss_pred             CCcEEEEeCCCCCChHHHHHHHHHHHhcCccc--c-------CCccceEEEEEeCCCCCCHHH---HHHHHHHHHHhccC
Q 017884          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFS--F-------GVKASVKLVLLDEADAMTKDA---QFALRRVIEKYTKN  171 (364)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~-------~~~~~~~viiiDe~~~l~~~~---~~~L~~~le~~~~~  171 (364)
                      ...++++|+++.++...+.+.+..+.......  +       .......||++||+|-+..+.   ...+-.++.  ...
T Consensus       382 g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~~~~~dRg~v~~l~~l~~--ks~  459 (871)
T KOG1968|consen  382 GFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDGMFGEDRGGVSKLSSLCK--KSS  459 (871)
T ss_pred             ccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccccccchhhhhHHHHHHHHH--hcc
Confidence            67889999988776666666665544333221  1       001134499999999998733   444555555  234


Q ss_pred             ccEEEEeeccccCc-hhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          172 TRFALICNQVNKII-PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       172 ~~~Il~~~~~~~l~-~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                      ..+|++||....-. .++.+-|..++|..|+...+...|..++..+++.|+++.++.+.+.++||+|..++.++.....
T Consensus       460 ~Piv~~cndr~~p~sr~~~~~~~~l~f~kP~~~~i~~ri~si~~se~~ki~~~~l~~~s~~~~~DiR~~i~~lq~~~~~  538 (871)
T KOG1968|consen  460 RPLVCTCNDRNLPKSRALSRACSDLRFSKPSSELIRSRIMSICKSEGIKISDDVLEEISKLSGGDIRQIIMQLQFWSLS  538 (871)
T ss_pred             CCeEEEecCCCCccccchhhhcceeeecCCcHHHHHhhhhhhhcccceecCcHHHHHHHHhcccCHHHHHHHHhhhhcc
Confidence            55778887655333 3555557999999999999999999999999999999999999999999999999999987543

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=3.2e-12  Score=107.16  Aligned_cols=177  Identities=23%  Similarity=0.318  Sum_probs=116.8

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhc-------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      .+++..-.+.+-+-|-+..++.++..+.-             .++..+++|||||+|||.+|++++..-     .+.++.
T Consensus       137 mVeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht-----~c~fir  211 (404)
T KOG0728|consen  137 MVEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT-----DCTFIR  211 (404)
T ss_pred             hhhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc-----ceEEEE
Confidence            34443333344444467778888777752             133449999999999999999999985     556677


Q ss_pred             EeCCCC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHH-----
Q 017884          110 LNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEK-----  167 (364)
Q Consensus       110 ~~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~-----  167 (364)
                      ++++..      .+...+++.+--         +.+..+.+|+.||+|.+.           .+.|...++++..     
T Consensus       212 vsgselvqk~igegsrmvrelfvm---------arehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfe  282 (404)
T KOG0728|consen  212 VSGSELVQKYIGEGSRMVRELFVM---------AREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFE  282 (404)
T ss_pred             echHHHHHHHhhhhHHHHHHHHHH---------HHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccc
Confidence            765431      122223332222         222246799999999994           2345555555553     


Q ss_pred             hccCccEEEEeeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          168 YTKNTRFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       168 ~~~~~~~Il~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      ...+..+|++||..+-+++++.+-+   ..++|+||+++...++++-..++.+..-. -.+..+++...|
T Consensus       283 atknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rg-i~l~kiaekm~g  351 (404)
T KOG0728|consen  283 ATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRG-INLRKIAEKMPG  351 (404)
T ss_pred             cccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcc-cCHHHHHHhCCC
Confidence            2457789999999999999998855   45999999999999998877665433111 124556666544

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.45  E-value=4.8e-12  Score=115.27  Aligned_cols=200  Identities=16%  Similarity=0.160  Sum_probs=131.2

Q ss_pred             hhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHh--
Q 017884           55 VAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS--  130 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~--  130 (364)
                      ++|+...+..+.+.+..-  ...+++|+|++||||+++|++++..-.  .....++.+||.... .+.+...+.....  
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~--r~~~pfv~vnc~~~~-~~~l~~~lfG~~~g~   77 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSK--RWQGPLVKLNCAALS-ENLLDSELFGHEAGA   77 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcC--ccCCCeEEEeCCCCC-hHHHHHHHhcccccc
Confidence            356666666655555432  223499999999999999999987642  234567788887542 2222222211100  


Q ss_pred             ---c--CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------ccCchh
Q 017884          131 ---T--QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIPA  187 (364)
Q Consensus       131 ---~--~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~l~~~  187 (364)
                         .  ....+-....+++++|||++.|+...|..|++++++..           .++++|++++..       ..+.+.
T Consensus        78 ~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~~~g~fr~d  157 (329)
T TIGR02974        78 FTGAQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRAD  157 (329)
T ss_pred             ccCcccccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHhhcCchHHH
Confidence               0  00001112357899999999999999999999998642           456788887532       234566


Q ss_pred             hhccc--eEEEecCCCh--HHHHHHHHHH----HHHcC----CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc--cc
Q 017884          188 LQSRC--TRFRFAPLEP--VHVTERLKHV----IEAEG----LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (364)
Q Consensus       188 l~sr~--~~i~~~~~~~--~~~~~~l~~~----~~~~~----~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~--~~  252 (364)
                      |..|+  ..+.+||+.+  +++..++...    +.+.+    ..+++++++.|..+. .||+|.+.+.++.++...  ..
T Consensus       158 L~~rl~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~~y~WPGNvrEL~n~i~~~~~~~~~~~  237 (329)
T TIGR02974       158 LLDRLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLLEYHWPGNVRELKNVVERSVYRHGLEE  237 (329)
T ss_pred             HHHHhcchhcCCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHhCCCCchHHHHHHHHHHHHHhCCCCc
Confidence            77776  4578888874  5555554443    33333    468999999999886 999999999998887654  34


Q ss_pred             CchHH
Q 017884          253 ITEEA  257 (364)
Q Consensus       253 i~~~~  257 (364)
                      ++.++
T Consensus       238 ~~~~~  242 (329)
T TIGR02974       238 APIDE  242 (329)
T ss_pred             cchhh
Confidence            54444

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.45  E-value=3.3e-12  Score=128.96  Aligned_cols=176  Identities=20%  Similarity=0.292  Sum_probs=121.1

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhc-----------C--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSE-----------N--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~-----------~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ...+|+++.|.+..++.++..+..           +  ...+++||||||+|||++++++++.+     ...++.+++..
T Consensus       173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~-----~~~~i~i~~~~  247 (733)
T TIGR01243       173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA-----GAYFISINGPE  247 (733)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh-----CCeEEEEecHH
Confidence            346899999999999998887742           1  12348999999999999999999987     34456666532


Q ss_pred             C----CC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHhccC--ccEE
Q 017884          115 D----RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTKN--TRFA  175 (364)
Q Consensus       115 ~----~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~~~~--~~~I  175 (364)
                      .    .+  ...++..+......         .+.+|+|||+|.+..           ..++.|+..|+.....  +.+|
T Consensus       248 i~~~~~g~~~~~l~~lf~~a~~~---------~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI  318 (733)
T TIGR01243       248 IMSKYYGESEERLREIFKEAEEN---------APSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVI  318 (733)
T ss_pred             HhcccccHHHHHHHHHHHHHHhc---------CCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEE
Confidence            1    11  11223322222211         357999999998852           3456788888765443  3455


Q ss_pred             EEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHH
Q 017884          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKA  239 (364)
Q Consensus       176 l~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~~~~l~~~~~g~~r~a  239 (364)
                      .++|.+..+++.+++  |+ ..+.++.|+.++..+++.....  +..+. +..++.+++.+.|-...-
T Consensus       319 ~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~--~~~l~~d~~l~~la~~t~G~~gad  384 (733)
T TIGR01243       319 GATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR--NMPLAEDVDLDKLAEVTHGFVGAD  384 (733)
T ss_pred             eecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhc--CCCCccccCHHHHHHhCCCCCHHH
Confidence            577888889999887  55 6789999999999999986554  33343 345788888887754443

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.44  E-value=8.5e-13  Score=116.76  Aligned_cols=184  Identities=21%  Similarity=0.323  Sum_probs=121.2

Q ss_pred             CCCcchhccHHHHHHHHHHHh----------cC---CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           50 QSLADVAAHRDIVDTIDRLTS----------EN---RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~----------~~---~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      .+|+|+-|-+.+++.++..+-          .+   +.+ .+++|||||||||.+|++++++.     ...++.+..+..
T Consensus        89 v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akea-----ga~fInv~~s~l  163 (386)
T KOG0737|consen   89 VSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEA-----GANFINVSVSNL  163 (386)
T ss_pred             eehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHc-----CCCcceeecccc
Confidence            379999999999999888763          11   222 38999999999999999999997     344455544432


Q ss_pred             CC-----hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-------HH----HHHHHHHHHhc--cC--ccEE
Q 017884          116 RG-----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-------AQ----FALRRVIEKYT--KN--TRFA  175 (364)
Q Consensus       116 ~~-----~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-------~~----~~L~~~le~~~--~~--~~~I  175 (364)
                      .+     .......+..++        ..-.+.+|+|||++.+...       +.    +.|.-.=+...  .+  +.++
T Consensus       164 t~KWfgE~eKlv~AvFslA--------sKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVl  235 (386)
T KOG0737|consen  164 TSKWFGEAQKLVKAVFSLA--------SKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVL  235 (386)
T ss_pred             chhhHHHHHHHHHHHHhhh--------hhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEE
Confidence            21     011111222222        2225789999999998621       11    11111111111  12  2334


Q ss_pred             EEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017884          176 LICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       176 l~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                      .+||.+..+++++.+|. .++++.-|+..+..++++-+++.+++. ++-.+..++..+.|--+.-+.++...+
T Consensus       236 gATNRP~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDLkelC~~A  307 (386)
T KOG0737|consen  236 GATNRPFDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDLKELCRLA  307 (386)
T ss_pred             eCCCCCccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhcccccC-cccCHHHHHHhcCCCcHHHHHHHHHHH
Confidence            45699999999999995 889999999999999999999988765 344578888888775555444444433

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.44  E-value=2.1e-12  Score=120.30  Aligned_cols=187  Identities=20%  Similarity=0.265  Sum_probs=113.1

Q ss_pred             chhccHHHHHHHHHHHhc-------C---------CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC
Q 017884           54 DVAAHRDIVDTIDRLTSE-------N---------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~-------~---------~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  117 (364)
                      .++||+.+++.+...+.+       +         ...+++|+||||+|||++|+.+++.+.     ..++.++++....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~-----~pf~~id~~~l~~  146 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD-----VPFAIADATTLTE  146 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC-----CCceecchhhccc
Confidence            479999999988655421       0         124699999999999999999999873     3344444432111


Q ss_pred             ----hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhc----------
Q 017884          118 ----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT----------  169 (364)
Q Consensus       118 ----~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~----------  169 (364)
                          .......+........... ....+++|+|||+|.+..              ..|++|+++|+...          
T Consensus       147 ~gyvG~d~e~~l~~l~~~~~~~~-~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~  225 (412)
T PRK05342        147 AGYVGEDVENILLKLLQAADYDV-EKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRK  225 (412)
T ss_pred             CCcccchHHHHHHHHHHhccccH-HHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcC
Confidence                0112222222222111101 112478999999999975              37899999998421          


Q ss_pred             ---cCccEEEEeec------------------------------c--------c--------------cCchhhhccc-e
Q 017884          170 ---KNTRFALICNQ------------------------------V--------N--------------KIIPALQSRC-T  193 (364)
Q Consensus       170 ---~~~~~Il~~~~------------------------------~--------~--------------~l~~~l~sr~-~  193 (364)
                         .++.+|.++|-                              .        .              .+.|.+..|. .
T Consensus       226 ~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflgRld~  305 (412)
T PRK05342        226 HPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIGRLPV  305 (412)
T ss_pred             cCCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhCCCCe
Confidence               01112222111                              0        0              1355666776 6


Q ss_pred             EEEecCCChHHHHHHHHH----HH-------HHcCC--CCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q 017884          194 RFRFAPLEPVHVTERLKH----VI-------EAEGL--DVTEGGLAALVRLC---NGDMRKALNILQST  246 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~~-------~~~~~--~i~~~~~~~l~~~~---~g~~r~a~~~l~~~  246 (364)
                      ++.|.+++.+++.+++..    ..       ...++  .++++++++|++.+   ..-.|.+...++..
T Consensus       306 iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~  374 (412)
T PRK05342        306 VATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEI  374 (412)
T ss_pred             eeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHH
Confidence            789999999999988872    22       23343  57999999999874   12244444444443

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.44  E-value=5.3e-12  Score=114.44  Aligned_cols=211  Identities=12%  Similarity=0.178  Sum_probs=131.3

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC----------------
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD----------------  114 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----------------  114 (364)
                      .|.+++||++.+..|...+.+....+++|.|++|+|||++++.+++.+.+...-... .+++..                
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~-pf~~~p~~p~~~~~~~~~~~~~   93 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDD-PFNSHPSDPELMSDEVREAIQN   93 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCC-CCCCCCCChhhhchhhhhhhcc
Confidence            699999999999999999888888889999999999999999998887532200000 000000                


Q ss_pred             ------------------CCChHH------HHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-
Q 017884          115 ------------------DRGIDV------VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-  169 (364)
Q Consensus       115 ------------------~~~~~~------~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-  169 (364)
                                        ....+.      +...+...........-...+++++++||++.+++..|..|++.|++.. 
T Consensus        94 ~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LLeam~e~~~  173 (350)
T CHL00081         94 GETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDILLDSAASGWN  173 (350)
T ss_pred             cccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHHHHHHHHHHhCCe
Confidence                              000000      0111111000000000012357899999999999999999999998621 


Q ss_pred             ----------cCccEEEEe--eccc-cCchhhhccc-eEEEecCCCh-HHHHHHHHHHHH--------------------
Q 017884          170 ----------KNTRFALIC--NQVN-KIIPALQSRC-TRFRFAPLEP-VHVTERLKHVIE--------------------  214 (364)
Q Consensus       170 ----------~~~~~Il~~--~~~~-~l~~~l~sr~-~~i~~~~~~~-~~~~~~l~~~~~--------------------  214 (364)
                                ..++|++++  |... .+.+.+..|+ ..+.+..++. +...+++.+...                    
T Consensus       174 ~ier~G~s~~~p~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~~~~~~~~~  253 (350)
T CHL00081        174 TVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVEQRTSFDKNPQEFREKYEESQEELR  253 (350)
T ss_pred             EEeeCCeeeecCCCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHHHHHHHhhhccccChhhhhhhhccccccCH
Confidence                      123455554  3222 5788888997 5677777763 544444443211                    


Q ss_pred             ---------HcCCCCCHHHHHHHHHHc---C-CCHHHHHHHHHHHHHhc-----ccCchHHHHHhc
Q 017884          215 ---------AEGLDVTEGGLAALVRLC---N-GDMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (364)
Q Consensus       215 ---------~~~~~i~~~~~~~l~~~~---~-g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~  262 (364)
                               -..+.++++.++++++.+   + -.+|..+.+++.+...+     ..++.+||..+.
T Consensus       254 ~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a  319 (350)
T CHL00081        254 SKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVI  319 (350)
T ss_pred             HHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence                     125678888888888775   2 25888777775444322     477888876654

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.44  E-value=2.3e-12  Score=108.64  Aligned_cols=168  Identities=20%  Similarity=0.347  Sum_probs=111.6

Q ss_pred             CCcchhccHHHHHHHHHHHh-----------cC-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC---
Q 017884           51 SLADVAAHRDIVDTIDRLTS-----------EN-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---  114 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~-----------~~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~---  114 (364)
                      ..+++-|-+..++.|...+-           -| ++|. +++|||||+|||.+|++++..-.     ..|+.+.+..   
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~-----aTFLKLAgPQLVQ  243 (424)
T KOG0652|consen  169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTN-----ATFLKLAGPQLVQ  243 (424)
T ss_pred             cccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhcc-----chHHHhcchHHHh
Confidence            56778888888888877653           11 2333 99999999999999999998742     2222222211   


Q ss_pred             ---CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHH---Hhc--cCccEE
Q 017884          115 ---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIE---KYT--KNTRFA  175 (364)
Q Consensus       115 ---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le---~~~--~~~~~I  175 (364)
                         ..+...+++.+.         ++.+..+.+|+|||+|.+..           +.|..++.++.   .++  ..+.+|
T Consensus       244 MfIGdGAkLVRDAFa---------LAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKvi  314 (424)
T KOG0652|consen  244 MFIGDGAKLVRDAFA---------LAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVI  314 (424)
T ss_pred             hhhcchHHHHHHHHH---------HhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEE
Confidence               112233333222         22333578999999999842           34555555554   333  346688


Q ss_pred             EEeeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Q 017884          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCN  233 (364)
Q Consensus       176 l~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~  233 (364)
                      .+||..+-++|++.+.+   +.++|+.|+++...++++-..++.++. ++-..+.|++.+.
T Consensus       315 AATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~-~DvNfeELaRsTd  374 (424)
T KOG0652|consen  315 AATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVS-DDVNFEELARSTD  374 (424)
T ss_pred             eecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCC-CCCCHHHHhhccc
Confidence            88999999999987754   569999999998888888777766543 2334677777664

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.44  E-value=1.5e-11  Score=122.72  Aligned_cols=208  Identities=13%  Similarity=0.140  Sum_probs=137.4

Q ss_pred             CCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (364)
                      .+|++++|....+..+...+...  ...+++|+|++|+||+++|+++++....  ....++.+|+..... +.+...+..
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r--~~~pfv~vnc~~~~~-~~~~~elfg  398 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESER--AAGPYIAVNCQLYPD-EALAEEFLG  398 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCCc--cCCCeEEEECCCCCh-HHHHHHhcC
Confidence            36999999888887766666532  2234999999999999999999987432  234677788876432 222222211


Q ss_pred             HH-hcCc---cccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------ccCc
Q 017884          128 FA-STQS---FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKII  185 (364)
Q Consensus       128 ~~-~~~~---~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~l~  185 (364)
                      .. ....   ...-..+.+++++|||++.|+...|..|++++++..           .++++|++|+..       ..+.
T Consensus       399 ~~~~~~~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l~~~~~~~~f~  478 (638)
T PRK11388        399 SDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVEQNRFS  478 (638)
T ss_pred             CCCcCccCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCHHHHHhcCCCh
Confidence            11 0000   000011257799999999999999999999998642           246677777532       1333


Q ss_pred             hhhhccc--eEEEecCCChH--HHHHHHHHHHH----Hc--CCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc--cc
Q 017884          186 PALQSRC--TRFRFAPLEPV--HVTERLKHVIE----AE--GLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (364)
Q Consensus       186 ~~l~sr~--~~i~~~~~~~~--~~~~~l~~~~~----~~--~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~--~~  252 (364)
                      +.|-.|.  ..+.+||+.+.  ++..++...+.    +.  .+.+++++++.|..+. +||+|.+.+.++.+....  ..
T Consensus       479 ~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvreL~~~l~~~~~~~~~~~  558 (638)
T PRK11388        479 RQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLVSYRWPGNDFELRSVIENLALSSDNGR  558 (638)
T ss_pred             HHHhhhhceeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHHHcCCCCChHHHHHHHHHHHHHhCCCCe
Confidence            4444453  45777887763  45444444433    22  3568999999999887 999999999999876543  36


Q ss_pred             CchHHHHH
Q 017884          253 ITEEAVYL  260 (364)
Q Consensus       253 i~~~~v~~  260 (364)
                      |+.+++..
T Consensus       559 i~~~~lp~  566 (638)
T PRK11388        559 IRLSDLPE  566 (638)
T ss_pred             ecHHHCch
Confidence            77777644

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.43  E-value=2.9e-12  Score=133.59  Aligned_cols=123  Identities=13%  Similarity=0.114  Sum_probs=83.0

Q ss_pred             ceEEEEEeCCCCCCHH-----HHHHHHHHHHHh-----ccCccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHH
Q 017884          141 SVKLVLLDEADAMTKD-----AQFALRRVIEKY-----TKNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTE  207 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-----~~~~L~~~le~~-----~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~  207 (364)
                      .++||+|||+|.+...     ....|+..|+..     ..++.+|.+||.++.++|+|.+  |+ ..+.++.|+..+..+
T Consensus      1732 SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATNRPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~k 1811 (2281)
T CHL00206       1732 SPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHIPQKVDPALIAPNKLNTCIKIRRLLIPQQRK 1811 (2281)
T ss_pred             CCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCCCcccCCHhHcCCCCCCeEEEeCCCCchhHHH
Confidence            4789999999999743     245677777643     2345677788999999999998  66 678888888877777


Q ss_pred             HHHHHHHHcCCCCCHH--HHHHHHHHcCC----CHHHHHHHHHHHHHhc--ccCchHHHHHhcC
Q 017884          208 RLKHVIEAEGLDVTEG--GLAALVRLCNG----DMRKALNILQSTHMAS--QQITEEAVYLCTG  263 (364)
Q Consensus       208 ~l~~~~~~~~~~i~~~--~~~~l~~~~~g----~~r~a~~~l~~~~~~~--~~i~~~~v~~~~~  263 (364)
                      ++.......++.+.++  .++.+++.+.|    |+..+++++-..+...  ..|+.+++..++.
T Consensus      1812 iL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliAirq~ks~Id~~~I~~Al~ 1875 (2281)
T CHL00206       1812 HFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSISITQKKSIIDTNTIRSALH 1875 (2281)
T ss_pred             HHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence            7665445556666543  36788888855    3444444333332222  4678887766653

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.43  E-value=1.8e-11  Score=117.57  Aligned_cols=208  Identities=17%  Similarity=0.184  Sum_probs=139.8

Q ss_pred             CCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (364)
                      .+|++++|....+..+.+.+..-  ...+++|+|++||||+.+|+.++..-.  .....++.+||..... ..+...+..
T Consensus       209 ~~f~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~S~--r~~~pfv~inC~~l~e-~lleseLFG  285 (526)
T TIGR02329       209 YRLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLSG--RRDFPFVAINCGAIAE-SLLEAELFG  285 (526)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHhcC--cCCCCEEEeccccCCh-hHHHHHhcC
Confidence            56899999999888888887532  234599999999999999999987632  2345677888876432 222222221


Q ss_pred             HHhc--------CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeeccc------
Q 017884          128 FAST--------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN------  182 (364)
Q Consensus       128 ~~~~--------~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~~------  182 (364)
                      ....        ....+-...+++.++|||++.|+...|..|++++++..           .++++|++++..-      
T Consensus       286 ~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~l~~~v~~  365 (526)
T TIGR02329       286 YEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQ  365 (526)
T ss_pred             CcccccccccccccccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCCHHHHhhh
Confidence            1100        00001112357899999999999999999999998642           2457888775432      


Q ss_pred             -cCchhhhccc--eEEEecCCCh--HHHHHHHHH----HHHHcCCCCCHHHHHH-------HHHH-cCCCHHHHHHHHHH
Q 017884          183 -KIIPALQSRC--TRFRFAPLEP--VHVTERLKH----VIEAEGLDVTEGGLAA-------LVRL-CNGDMRKALNILQS  245 (364)
Q Consensus       183 -~l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~----~~~~~~~~i~~~~~~~-------l~~~-~~g~~r~a~~~l~~  245 (364)
                       .+.+.+-.|.  ..+.+||+.+  +++..++..    .+...++.+++++++.       |..+ ++||+|.+.+.++.
T Consensus       366 g~fr~dL~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~~~~~L~~y~WPGNvrEL~nvier  445 (526)
T TIGR02329       366 GRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAAQVLAGVADPLQRYPWPGNVRELRNLVER  445 (526)
T ss_pred             cchhHHHHHhcCCcEEeCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHHhHHHHHHHHhCCCCchHHHHHHHHHH
Confidence             2333444453  5678888876  455444444    3444466789999887       6665 49999999999998


Q ss_pred             HHHhc-----ccCchHHHHH
Q 017884          246 THMAS-----QQITEEAVYL  260 (364)
Q Consensus       246 ~~~~~-----~~i~~~~v~~  260 (364)
                      ++...     ..|+.+++..
T Consensus       446 ~~i~~~~~~~~~I~~~~l~~  465 (526)
T TIGR02329       446 LALELSAMPAGALTPDVLRA  465 (526)
T ss_pred             HHHhcccCCCCccCHHHhhh
Confidence            87642     4678777653

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>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=99.43  E-value=2.6e-12  Score=103.25  Aligned_cols=138  Identities=30%  Similarity=0.358  Sum_probs=93.5

Q ss_pred             hccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHH---HHHhcC
Q 017884           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ---DFASTQ  132 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~---~~~~~~  132 (364)
                      +|++..+..+...+......+++++||+|+|||++++.+++.+...  ...++.+++..............   ......
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHFLVRLLFE   78 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhhhHhHHHH
Confidence            3667788888888877656679999999999999999999998533  34455555544322222111111   000000


Q ss_pred             ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc------cCccEEEEeeccc--cCchhhhccc-eEEEec
Q 017884          133 SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------KNTRFALICNQVN--KIIPALQSRC-TRFRFA  198 (364)
Q Consensus       133 ~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~------~~~~~Il~~~~~~--~l~~~l~sr~-~~i~~~  198 (364)
                         ......+.++++||++.+.......+...++...      ..+.+|++++...  .+.+.+.+|+ ..+.++
T Consensus        79 ---~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~r~~~~i~~~  150 (151)
T cd00009          79 ---LAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP  150 (151)
T ss_pred             ---hhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHhhhccEeecC
Confidence               0111147899999999998778888888888763      5677888887665  6778888998 666665

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.43  E-value=6.8e-12  Score=114.41  Aligned_cols=197  Identities=18%  Similarity=0.164  Sum_probs=131.9

Q ss_pred             CCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      .+++++|....+..+.+.+..-  ...+++|+|++||||+++|+++...-  ......++.++|.... .+.+...+...
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s--~r~~~pfv~v~c~~~~-~~~~~~~lfg~   80 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS--SRWQGPFISLNCAALN-ENLLDSELFGH   80 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC--CccCCCeEEEeCCCCC-HHHHHHHHccc
Confidence            3677999888888777766543  22349999999999999999998653  2234467788887643 23333222111


Q ss_pred             Hhc-----C--ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------cc
Q 017884          129 AST-----Q--SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NK  183 (364)
Q Consensus       129 ~~~-----~--~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~  183 (364)
                      ...     .  ....-....++.++|||++.|+...|..|+.+++...           .++++|++++..       ..
T Consensus        81 ~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l~~l~~~g~  160 (326)
T PRK11608         81 EAGAFTGAQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGK  160 (326)
T ss_pred             cccccCCcccccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhHHHHHHcCC
Confidence            100     0  0000112357799999999999999999999998632           246777777532       24


Q ss_pred             Cchhhhccc--eEEEecCCCh--HHHHHHHHHH----HHHcC----CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKHV----IEAEG----LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       184 l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~----~~~~~----~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                      +.+.|..|+  ..+.++|+.+  +++..++...    +.+.+    ..+++++++.|..+. .||+|.+.+.++.+...+
T Consensus       161 f~~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~vl~~a~~~~  240 (326)
T PRK11608        161 FRADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRH  240 (326)
T ss_pred             chHHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhc
Confidence            556676775  4678888875  4554444433    44433    358999999999875 999999999998877643

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.42  E-value=3.7e-12  Score=116.33  Aligned_cols=199  Identities=17%  Similarity=0.202  Sum_probs=135.9

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (364)
                      ..++++||.....+.+++.++.-..  .+++++|++|+||+.+|+.++.. ........++.+||..........+ +..
T Consensus        75 ~~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~~-s~r~~~~PFI~~NCa~~~en~~~~e-LFG  152 (403)
T COG1221          75 EALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHAL-SARRAEAPFIAFNCAAYSENLQEAE-LFG  152 (403)
T ss_pred             hhhhhhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHHh-hhcccCCCEEEEEHHHhCcCHHHHH-Hhc
Confidence            3688999988888888777776322  23999999999999999999933 2222567789999876543222222 211


Q ss_pred             HHhc-------CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHH-----------hccCccEEEEeec--cccCch-
Q 017884          128 FAST-------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK-----------YTKNTRFALICNQ--VNKIIP-  186 (364)
Q Consensus       128 ~~~~-------~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~-----------~~~~~~~Il~~~~--~~~l~~-  186 (364)
                      ....       .....-...+++.+++||++.|+...|..|+++|++           .+.++++|.+|+.  ...+.. 
T Consensus       153 ~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~~g  232 (403)
T COG1221         153 HEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLAG  232 (403)
T ss_pred             cccceeecccCCcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccccCHHHHHHhh
Confidence            1111       000111224688999999999999999999999997           4567888888753  334555 


Q ss_pred             -hhhccc--eEEEecCCChH--HHH----HHHHHHHHHcCCCC---CHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          187 -ALQSRC--TRFRFAPLEPV--HVT----ERLKHVIEAEGLDV---TEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       187 -~l~sr~--~~i~~~~~~~~--~~~----~~l~~~~~~~~~~i---~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                       ++..|.  ..+++||+.+.  ++.    -++...+.+.+..+   +++++..|..+. .||+|.+.|.++.++...
T Consensus       233 ~dl~~rl~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~~~~  309 (403)
T COG1221         233 ADLTRRLNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQA  309 (403)
T ss_pred             cchhhhhcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHHh
Confidence             666654  56788887763  333    33555555555543   356777777664 999999999999888755

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.42  E-value=1.2e-11  Score=106.37  Aligned_cols=119  Identities=13%  Similarity=0.217  Sum_probs=96.1

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee------------ccccCchhhhccceEEEecCCChHHHHHH
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAPLEPVHVTER  208 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~------------~~~~l~~~l~sr~~~i~~~~~~~~~~~~~  208 (364)
                      -++|++|||+|.|.-++...|.+.+++-- .+.+|+++|            +++-++-.+..|..++...|++.++++++
T Consensus       288 vpGVLFIDEvHMLDIEcFsFlNrAlE~d~-~PiiimaTNrgit~iRGTn~~SphGiP~D~lDR~lII~t~py~~~d~~~I  366 (454)
T KOG2680|consen  288 VPGVLFIDEVHMLDIECFSFLNRALENDM-APIIIMATNRGITRIRGTNYRSPHGIPIDLLDRMLIISTQPYTEEDIKKI  366 (454)
T ss_pred             ccceEEEeeehhhhhHHHHHHHHHhhhcc-CcEEEEEcCCceEEeecCCCCCCCCCcHHHhhhhheeecccCcHHHHHHH
Confidence            37799999999999999999999998642 334555553            45678889999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc-----ccCchHHHHH
Q 017884          209 LKHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-----QQITEEAVYL  260 (364)
Q Consensus       209 l~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~  260 (364)
                      |+-+|..+++.+++++++.|.... ..++|.+++++......+     ..+..++|..
T Consensus       367 L~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r  424 (454)
T KOG2680|consen  367 LRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIER  424 (454)
T ss_pred             HHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHH
Confidence            999999999999999999999876 568999999886544322     2455555544

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.41  E-value=2e-12  Score=115.46  Aligned_cols=152  Identities=23%  Similarity=0.297  Sum_probs=108.2

Q ss_pred             CcchhccHHHHHHHHHHHh--------cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC--C---h
Q 017884           52 LADVAAHRDIVDTIDRLTS--------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--G---I  118 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~--------~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~---~  118 (364)
                      |+++|-++.....+..+..        +....+++||||||+|||.+|+.+++.-     +.++--+++.+..  +   +
T Consensus       354 l~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~S-----GlDYA~mTGGDVAPlG~qaV  428 (630)
T KOG0742|consen  354 LEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHS-----GLDYAIMTGGDVAPLGAQAV  428 (630)
T ss_pred             cCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhc-----CCceehhcCCCccccchHHH
Confidence            8999999999998888753        2233359999999999999999999984     3444444444432  2   2


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC---------HHH---HHHHHHHHHHhccCccEEEEeeccccCch
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDA---QFALRRVIEKYTKNTRFALICNQVNKIIP  186 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~---------~~~---~~~L~~~le~~~~~~~~Il~~~~~~~l~~  186 (364)
                      ..+. .+.+++...       ..+-+++|||+|.+.         +..   .++|+----..+.+.++++++|.+..++.
T Consensus       429 TkiH-~lFDWakkS-------~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgdlDs  500 (630)
T KOG0742|consen  429 TKIH-KLFDWAKKS-------RRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGDLDS  500 (630)
T ss_pred             HHHH-HHHHHHhhc-------ccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccCCccchhH
Confidence            2222 234444321       147799999998873         222   33333222344567788999999999999


Q ss_pred             hhhccc-eEEEecCCChHHHHHHHHHHHHHc
Q 017884          187 ALQSRC-TRFRFAPLEPVHVTERLKHVIEAE  216 (364)
Q Consensus       187 ~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~  216 (364)
                      ++-.|. .+++|+-|..++..++|..++.++
T Consensus       501 AV~DRide~veFpLPGeEERfkll~lYlnky  531 (630)
T KOG0742|consen  501 AVNDRIDEVVEFPLPGEEERFKLLNLYLNKY  531 (630)
T ss_pred             HHHhhhhheeecCCCChHHHHHHHHHHHHHH
Confidence            999998 899999999999999998887654

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=99.40  E-value=1.8e-12  Score=110.92  Aligned_cols=200  Identities=21%  Similarity=0.331  Sum_probs=127.8

Q ss_pred             hhccCCCCCcchhccHHHHHHHHHHHhc-----------C-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           44 VEKYRPQSLADVAAHRDIVDTIDRLTSE-----------N-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        44 ~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      .++-...++.++-|-+..++.++..+.-           | .+|. +++||+||+|||.+|+++|+.-     +..|+.+
T Consensus       176 ~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT-----SATFlRv  250 (440)
T KOG0726|consen  176 VEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT-----SATFLRV  250 (440)
T ss_pred             cccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc-----chhhhhh
Confidence            3444445899999999999999988762           1 2333 9999999999999999999874     3444444


Q ss_pred             eCCC------CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHh-----
Q 017884          111 NASD------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-----  168 (364)
Q Consensus       111 ~~~~------~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~-----  168 (364)
                      -++.      ..+...+++.+.-.-..         .+.++||||+|.+..           +.|..++.++...     
T Consensus       251 vGseLiQkylGdGpklvRqlF~vA~e~---------apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFds  321 (440)
T KOG0726|consen  251 VGSELIQKYLGDGPKLVRELFRVAEEH---------APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDS  321 (440)
T ss_pred             hhHHHHHHHhccchHHHHHHHHHHHhc---------CCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccc
Confidence            3332      12444555543332222         367999999999952           3455666666543     


Q ss_pred             ccCccEEEEeeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHH----HHcCCCHHHHH
Q 017884          169 TKNTRFALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALV----RLCNGDMRKAL  240 (364)
Q Consensus       169 ~~~~~~Il~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~----~~~~g~~r~a~  240 (364)
                      ..++.+|++||....++|+|.+-+   ..+.|+.|+...-++++.-...  +..+.++ .++.++    ..++.|+....
T Consensus       322 rgDvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs--~Mtl~~dVnle~li~~kddlSGAdIkAic  399 (440)
T KOG0726|consen  322 RGDVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTS--RMTLAEDVNLEELIMTKDDLSGADIKAIC  399 (440)
T ss_pred             cCCeEEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEEeec--ccchhccccHHHHhhcccccccccHHHHH
Confidence            356889999999999999998854   5599999988877766543322  2233222 233333    33556666666


Q ss_pred             HHHHHHHHhc--ccCchHHHH
Q 017884          241 NILQSTHMAS--QQITEEAVY  259 (364)
Q Consensus       241 ~~l~~~~~~~--~~i~~~~v~  259 (364)
                      ...-.+++-.  ..++.++..
T Consensus       400 tEaGllAlRerRm~vt~~DF~  420 (440)
T KOG0726|consen  400 TEAGLLALRERRMKVTMEDFK  420 (440)
T ss_pred             HHHhHHHHHHHHhhccHHHHH
Confidence            5554444322  244444443

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

Probab=99.40  E-value=1.1e-12  Score=114.19  Aligned_cols=183  Identities=18%  Similarity=0.322  Sum_probs=107.3

Q ss_pred             hhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH---------H
Q 017884           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ---------I  125 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---------i  125 (364)
                      ++|++..++.|.+++..+...+++++||.|+|||++++.+.+.+...+.  .++.+..............         +
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~--~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKGY--KVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--EE--CCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCC--cEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            5799999999999999887778999999999999999999998733222  1112222111111111111         0


Q ss_pred             HH-HHhcCcc-c----------------------cCCccceEEEEEeCCCCCC------HHHHHHHHHHHHHh--ccCcc
Q 017884          126 QD-FASTQSF-S----------------------FGVKASVKLVLLDEADAMT------KDAQFALRRVIEKY--TKNTR  173 (364)
Q Consensus       126 ~~-~~~~~~~-~----------------------~~~~~~~~viiiDe~~~l~------~~~~~~L~~~le~~--~~~~~  173 (364)
                      .. +....+- .                      +.....+.+|+|||++.+.      +.....|..+++..  ..+..
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  158 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS  158 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce
Confidence            00 1000000 0                      0001124899999999998      45566777777762  33455


Q ss_pred             EEEEeeccc------cCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHH
Q 017884          174 FALICNQVN------KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV--TEGGLAALVRLCNGDMRKAL  240 (364)
Q Consensus       174 ~Il~~~~~~------~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i--~~~~~~~l~~~~~g~~r~a~  240 (364)
                      +|+++....      .-..++..|+..+.++|++.++..+++...+... ..+  +++.++.+...+||+|+.+.
T Consensus       159 ~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~  232 (234)
T PF01637_consen  159 IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQ  232 (234)
T ss_dssp             EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHH
T ss_pred             EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHh
Confidence            666654321      2234566778779999999999999999987766 555  99999999999999998764

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

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.39  E-value=6.6e-11  Score=114.58  Aligned_cols=197  Identities=15%  Similarity=0.122  Sum_probs=132.9

Q ss_pred             CCcchhccHHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      .+.+++|+...+..+.+.+..-.  ..+++|+|++||||+++|++++..-..  ....++.+||..... ..+...+...
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r--~~~p~v~v~c~~~~~-~~~e~~lfG~  261 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPR--ADKPLVYLNCAALPE-SLAESELFGH  261 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCc--CCCCeEEEEcccCCh-HHHHHHhcCc
Confidence            56789999988888877776432  234999999999999999999987432  244677888876432 2222222111


Q ss_pred             Hhc-----C--ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------cc
Q 017884          129 AST-----Q--SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NK  183 (364)
Q Consensus       129 ~~~-----~--~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~  183 (364)
                      ...     .  ....-....++.++|||++.|+...|..|++++++..           .++++|++++..       ..
T Consensus       262 ~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~~  341 (509)
T PRK05022        262 VKGAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGR  341 (509)
T ss_pred             cccccCCCcccCCcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCCHHHHHHcCC
Confidence            000     0  0000112356789999999999999999999998632           356888888543       23


Q ss_pred             Cchhhhccc--eEEEecCCCh--HHHHHHHH----HHHHHc---CCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          184 IIPALQSRC--TRFRFAPLEP--VHVTERLK----HVIEAE---GLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       184 l~~~l~sr~--~~i~~~~~~~--~~~~~~l~----~~~~~~---~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                      +.+.+-.|.  ..+.+||+.+  +++..++.    +.+.+.   ...+++++++.|..+. .||+|.+.+.++.++..+
T Consensus       342 f~~dL~~rl~~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvrEL~~~i~ra~~~~  420 (509)
T PRK05022        342 FRADLYHRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAYDWPGNVRELEHVISRAALLA  420 (509)
T ss_pred             ccHHHHhcccccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhc
Confidence            455555564  4577777765  34444333    333333   3578999999999875 899999999999887644

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=2.1e-12  Score=118.21  Aligned_cols=177  Identities=18%  Similarity=0.225  Sum_probs=125.0

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhc----------CC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSE----------NR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~----------~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      +.-++..|+++.|.+.+.+.+...+.-          -+  ...+|+.||||+|||.+++++|.+.     ...++.+++
T Consensus       145 ~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~-----~atff~iSa  219 (428)
T KOG0740|consen  145 DTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATES-----GATFFNISA  219 (428)
T ss_pred             ccCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhh-----cceEeeccH
Confidence            456678899999988888877766531          12  2238999999999999999999996     455666665


Q ss_pred             CCCCC-----hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-----------H-HHHHHHHHH---HhccCc
Q 017884          113 SDDRG-----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------A-QFALRRVIE---KYTKNT  172 (364)
Q Consensus       113 ~~~~~-----~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-----------~-~~~L~~~le---~~~~~~  172 (364)
                      +...+     .+.....+...+...        .+.|++|||+|.+...           . .+.|+.+.-   .+.+++
T Consensus       220 ssLtsK~~Ge~eK~vralf~vAr~~--------qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drv  291 (428)
T KOG0740|consen  220 SSLTSKYVGESEKLVRALFKVARSL--------QPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRV  291 (428)
T ss_pred             HHhhhhccChHHHHHHHHHHHHHhc--------CCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeE
Confidence            44211     112222233333332        3679999999998521           1 222333222   123355


Q ss_pred             cEEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          173 RFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      .+|.+||.++.++.++++|+ .++.++.|+.+....++.+.+...+..+.+..++.|++.+.|
T Consensus       292 lvigaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Teg  354 (428)
T KOG0740|consen  292 LVIGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEG  354 (428)
T ss_pred             EEEecCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcC
Confidence            66777899999999999998 567788888888888999999888888899999999988754

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=7.9e-12  Score=118.80  Aligned_cols=184  Identities=19%  Similarity=0.288  Sum_probs=121.2

Q ss_pred             cchhccHHHHHHHHHHHhcCC------CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH----
Q 017884           53 ADVAAHRDIVDTIDRLTSENR------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR----  122 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~------~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~----  122 (364)
                      ++=.|.+++++++...+.-++      .+-++|+||||+|||++++.+|+++..     .|+.++-........++    
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnR-----kFfRfSvGG~tDvAeIkGHRR  485 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNR-----KFFRFSVGGMTDVAEIKGHRR  485 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCC-----ceEEEeccccccHHhhcccce
Confidence            344677888888888876432      223799999999999999999999943     33344332222222222    


Q ss_pred             -------HHHHHHHhcCccccCCccceEEEEEeCCCCCCH----HHHHHHHHHHHHh-------------c--cCccEEE
Q 017884          123 -------QQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----DAQFALRRVIEKY-------------T--KNTRFAL  176 (364)
Q Consensus       123 -------~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~----~~~~~L~~~le~~-------------~--~~~~~Il  176 (364)
                             ..+.+......    .  ..-+++|||+|.+..    +-..+|+++|+--             -  +.+.||.
T Consensus       486 TYVGAMPGkiIq~LK~v~----t--~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFic  559 (906)
T KOG2004|consen  486 TYVGAMPGKIIQCLKKVK----T--ENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFIC  559 (906)
T ss_pred             eeeccCChHHHHHHHhhC----C--CCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEE
Confidence                   12222222211    1  355999999999963    2356777776521             1  3455677


Q ss_pred             EeeccccCchhhhccceEEEecCCChHHHHHHHHHHHH-----H-----cCCCCCHHHHHHHHHHc--CCCHHHHHHHHH
Q 017884          177 ICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE-----A-----EGLDVTEGGLAALVRLC--NGDMRKALNILQ  244 (364)
Q Consensus       177 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~-----~-----~~~~i~~~~~~~l~~~~--~g~~r~a~~~l~  244 (364)
                      ++|..+.++++|+.|..+|+++.+..++-.++..+++-     +     +.++++++++..|+++.  ..-+|.+-..++
T Consensus       560 TAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk~ie  639 (906)
T KOG2004|consen  560 TANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQKQIE  639 (906)
T ss_pred             eccccccCChhhhhhhheeeccCccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            77999999999999999999999999988777666543     2     24678899887777554  233565555554


Q ss_pred             HHH
Q 017884          245 STH  247 (364)
Q Consensus       245 ~~~  247 (364)
                      +++
T Consensus       640 kI~  642 (906)
T KOG2004|consen  640 KIC  642 (906)
T ss_pred             HHH
Confidence            443

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.38  E-value=6.2e-11  Score=110.70  Aligned_cols=201  Identities=14%  Similarity=0.120  Sum_probs=119.1

Q ss_pred             cchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC---CCChHHHHHHH--HH
Q 017884           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---DRGIDVVRQQI--QD  127 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~---~~~~~~~~~~i--~~  127 (364)
                      ..++|++++++.+...+..+  .|++|+||||+|||++|+++++.....+ .+.+.....+.   ..|...+....  ..
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~-~F~~~~~~fttp~DLfG~l~i~~~~~~g~   96 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNAR-AFEYLMTRFSTPEEVFGPLSIQALKDEGR   96 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccC-cceeeeeeecCcHHhcCcHHHhhhhhcCc
Confidence            45889999999988888776  6799999999999999999999864322 22222221111   11111111110  00


Q ss_pred             HHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc---------cCccEEEEe-eccc---cCchhhhccc-e
Q 017884          128 FASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---------KNTRFALIC-NQVN---KIIPALQSRC-T  193 (364)
Q Consensus       128 ~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~---------~~~~~Il~~-~~~~---~l~~~l~sr~-~  193 (364)
                      +....   -+.-....++++||+..+++..++.|+..|++..         -..++++++ |...   ...+++..|+ .
T Consensus        97 f~r~~---~G~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~DRFli  173 (498)
T PRK13531         97 YQRLT---SGYLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYDRMLI  173 (498)
T ss_pred             hhhhc---CCccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHhhEEE
Confidence            10000   0100023499999999999999999999997632         223454444 4322   2334788898 4


Q ss_pred             EEEecCCCh-HHHHHHHHHHHH-----------------------HcCCCCCHHHHHHHHHHcC----------CCHHHH
Q 017884          194 RFRFAPLEP-VHVTERLKHVIE-----------------------AEGLDVTEGGLAALVRLCN----------GDMRKA  239 (364)
Q Consensus       194 ~i~~~~~~~-~~~~~~l~~~~~-----------------------~~~~~i~~~~~~~l~~~~~----------g~~r~a  239 (364)
                      .+.+++++. ++..++|.....                       -..+.+++...+++.....          -++|..
T Consensus       174 ri~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~~  253 (498)
T PRK13531        174 RLWLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITLPDHVFELIFQLRQQLDALPNAPYVSDRRW  253 (498)
T ss_pred             EEECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHHH
Confidence            577788864 555666654211                       1245667777777765531          356666


Q ss_pred             HHHHHHHHH---hc--ccCchHHHH
Q 017884          240 LNILQSTHM---AS--QQITEEAVY  259 (364)
Q Consensus       240 ~~~l~~~~~---~~--~~i~~~~v~  259 (364)
                      +.++..+..   ..  ..++.+||.
T Consensus       254 ~~l~~~akA~A~l~GR~~V~p~Dv~  278 (498)
T PRK13531        254 KKAIRLLQASAFFSGRDAIAPIDLI  278 (498)
T ss_pred             HHHHHHHHHHHHHCCCCCCCHHHHH
Confidence            665543332   22  367777776

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.38  E-value=1.1e-10  Score=108.73  Aligned_cols=209  Identities=17%  Similarity=0.204  Sum_probs=139.8

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhcCCC-C-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSENRL-P-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~~~~-~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (364)
                      ..+.+|++++|....+..+...++.... + .+++.|++||||..+|+++++.-  +-....|+.+||... ....+...
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S--~R~~~PFIaiNCaAi-Pe~LlESE  315 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLS--PRANGPFIAINCAAI-PETLLESE  315 (560)
T ss_pred             ccccchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcC--cccCCCeEEEecccC-CHHHHHHH
Confidence            3456899999988888877777765432 2 39999999999999999998873  334556788888763 22333333


Q ss_pred             HHHHHhcCccc---------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeeccc--
Q 017884          125 IQDFASTQSFS---------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN--  182 (364)
Q Consensus       125 i~~~~~~~~~~---------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~~--  182 (364)
                      +...... .|.         .-..++++.+|+||+..|+...|..|++++++.           +.++++|.+||..-  
T Consensus       316 LFGye~G-AFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~  394 (560)
T COG3829         316 LFGYEKG-AFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEK  394 (560)
T ss_pred             HhCcCCc-cccccccCCCCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHH
Confidence            3222111 110         011235779999999999999999999999973           45778888887432  


Q ss_pred             -----cCchhhhccceE--EEecCCCh--HHHHHH----HHHHHHHcC--C-CCCHHHHHHHHHHc-CCCHHHHHHHHHH
Q 017884          183 -----KIIPALQSRCTR--FRFAPLEP--VHVTER----LKHVIEAEG--L-DVTEGGLAALVRLC-NGDMRKALNILQS  245 (364)
Q Consensus       183 -----~l~~~l~sr~~~--i~~~~~~~--~~~~~~----l~~~~~~~~--~-~i~~~~~~~l~~~~-~g~~r~a~~~l~~  245 (364)
                           .+.+.|--|..+  +.+||+.+  +++...    |.+..++.+  + .++++++..|.++. +||+|.+-|.++.
T Consensus       395 ~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L~~y~WPGNVRELeNviER  474 (560)
T COG3829         395 MIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALLLRYDWPGNVRELENVIER  474 (560)
T ss_pred             HHhcCcchhhheeeeceeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHhCCCCchHHHHHHHHHH
Confidence                 333444445544  55566654  344333    333344443  2 48899999998874 9999999999998


Q ss_pred             HHHhc---ccCchHHHH
Q 017884          246 THMAS---QQITEEAVY  259 (364)
Q Consensus       246 ~~~~~---~~i~~~~v~  259 (364)
                      +....   ..|+.+++-
T Consensus       475 ~v~~~~~~~~I~~~~lp  491 (560)
T COG3829         475 AVNLVESDGLIDADDLP  491 (560)
T ss_pred             HHhccCCcceeehhhcc
Confidence            88532   346665543

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.37  E-value=1e-11  Score=121.60  Aligned_cols=186  Identities=18%  Similarity=0.291  Sum_probs=128.8

Q ss_pred             cchhccHHHHHHHHHHHhcC-------C--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH
Q 017884           53 ADVAAHRDIVDTIDRLTSEN-------R--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~-------~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  123 (364)
                      ..++||++++..+.+.++..       .  ...++|.||+|+|||.+|+++|..+++..  ...+.++.+.......   
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~DMSEy~EkHs---  565 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRIDMSEYMEKHS---  565 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceeechHHHHHHHH---
Confidence            45899999999998887632       2  22389999999999999999999997543  3445565544321111   


Q ss_pred             HHHHHHhcCccccCC------------ccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeec
Q 017884          124 QIQDFASTQSFSFGV------------KASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQ  180 (364)
Q Consensus       124 ~i~~~~~~~~~~~~~------------~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~  180 (364)
                       +......+|- +-.            ..++.||++||+++-.++..+.|+.+|+...           .++.+|++||-
T Consensus       566 -VSrLIGaPPG-YVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~  643 (786)
T COG0542         566 -VSRLIGAPPG-YVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNA  643 (786)
T ss_pred             -HHHHhCCCCC-CceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEeccc
Confidence             2222222221 111            1247899999999999999999999999742           57888999851


Q ss_pred             cc----------------------------cCchhhhccc-eEEEecCCChHHHHHHHHHHHH-------HcC--CCCCH
Q 017884          181 VN----------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE-------AEG--LDVTE  222 (364)
Q Consensus       181 ~~----------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~-------~~~--~~i~~  222 (364)
                      -.                            .+.|.+.+|. .++.|.+++.+.+.+++...+.       ..+  +.+++
T Consensus       644 Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~  723 (786)
T COG0542         644 GSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSD  723 (786)
T ss_pred             chHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECH
Confidence            10                            2345667777 4899999999998888766544       233  46789


Q ss_pred             HHHHHHHHHcC---CCHHHHHHHHHH
Q 017884          223 GGLAALVRLCN---GDMRKALNILQS  245 (364)
Q Consensus       223 ~~~~~l~~~~~---g~~r~a~~~l~~  245 (364)
                      ++.++|++.+.   .-.|-+...++.
T Consensus       724 ~a~~~l~~~gyd~~~GARpL~R~Iq~  749 (786)
T COG0542         724 EAKDFLAEKGYDPEYGARPLRRAIQQ  749 (786)
T ss_pred             HHHHHHHHhccCCCcCchHHHHHHHH
Confidence            99999998863   234555555543

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.37  E-value=2.3e-11  Score=115.51  Aligned_cols=180  Identities=21%  Similarity=0.225  Sum_probs=123.4

Q ss_pred             CCCcchhccHHHHHHHHHHHhcC------------CC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC-
Q 017884           50 QSLADVAAHRDIVDTIDRLTSEN------------RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~------------~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-  115 (364)
                      ..|+++.|..++++.|.+.+.-.            +. ..+++|||||||||.+|.+++...     ...++.+-++.. 
T Consensus       664 i~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~-----~~~fisvKGPElL  738 (952)
T KOG0735|consen  664 IRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNS-----NLRFISVKGPELL  738 (952)
T ss_pred             CCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhC-----CeeEEEecCHHHH
Confidence            46899999999999888887622            11 239999999999999999999974     666776655431 


Q ss_pred             -----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--cCccEEEE
Q 017884          116 -----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNTRFALI  177 (364)
Q Consensus       116 -----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~~--~~~~~Il~  177 (364)
                           .+...+++.+.....         ..++|+++||+|.+.+           ...+.|+.-|+...  ..+.++.+
T Consensus       739 ~KyIGaSEq~vR~lF~rA~~---------a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aa  809 (952)
T KOG0735|consen  739 SKYIGASEQNVRDLFERAQS---------AKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAA  809 (952)
T ss_pred             HHHhcccHHHHHHHHHHhhc---------cCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEe
Confidence                 122334443333221         1588999999999953           45778888877533  23445556


Q ss_pred             eeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHH
Q 017884          178 CNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALNILQ  244 (364)
Q Consensus       178 ~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g----~~r~a~~~l~  244 (364)
                      |..++-++++|.+-+   ..+.++.|++.+..++++......... ++-.++.++..+.|    |+..++...+
T Consensus       810 TsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~-~~vdl~~~a~~T~g~tgADlq~ll~~A~  882 (952)
T KOG0735|consen  810 TSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKD-TDVDLECLAQKTDGFTGADLQSLLYNAQ  882 (952)
T ss_pred             cCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCc-cccchHHHhhhcCCCchhhHHHHHHHHH
Confidence            678888999998754   568889999999999998877644322 33446777777655    4444444333

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.36  E-value=1.9e-11  Score=116.63  Aligned_cols=197  Identities=23%  Similarity=0.283  Sum_probs=131.3

Q ss_pred             CCCcchhccHHHHHHHHHHHh-----------cCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC--
Q 017884           50 QSLADVAAHRDIVDTIDRLTS-----------ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~-----------~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  115 (364)
                      .+|.|+.|.++++..+.+.+.           ++.+|. ++++||||+|||.+|++++.+.     ...++.+++++.  
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA-----~VPFf~iSGS~FVe  221 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSISGSDFVE  221 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc-----CCCceeccchhhhh
Confidence            579999999999998777664           234555 8999999999999999999986     455555555542  


Q ss_pred             ----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhccC--ccEE
Q 017884          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYTKN--TRFA  175 (364)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~~~--~~~I  175 (364)
                          -+...+++...+....         .++||+|||+|....              ...+.|+--|+.+..+  +.++
T Consensus       222 mfVGvGAsRVRdLF~qAkk~---------aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gvivi  292 (596)
T COG0465         222 MFVGVGASRVRDLFEQAKKN---------APCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVI  292 (596)
T ss_pred             hhcCCCcHHHHHHHHHhhcc---------CCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEE
Confidence                2445666666665443         257999999999852              2456677777776643  3444


Q ss_pred             EEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHHHHH
Q 017884          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALNILQSTHM  248 (364)
Q Consensus       176 l~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g----~~r~a~~~l~~~~~  248 (364)
                      ..||.++-++++|.+  |+ +.+..+.|+-....++++-.++..... ..-.+..+++.+.|    |+...+|+....+.
T Consensus       293 aaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~-~~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aa  371 (596)
T COG0465         293 AATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLA-EDVDLKKIARGTPGFSGADLANLLNEAALLAA  371 (596)
T ss_pred             ecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCC-CcCCHHHHhhhCCCcccchHhhhHHHHHHHHH
Confidence            456888888898876  45 678888888888889988665544333 11123447777654    55555554433332


Q ss_pred             h--cccCchHHHHHh
Q 017884          249 A--SQQITEEAVYLC  261 (364)
Q Consensus       249 ~--~~~i~~~~v~~~  261 (364)
                      -  ...|+..++.+.
T Consensus       372 r~n~~~i~~~~i~ea  386 (596)
T COG0465         372 RRNKKEITMRDIEEA  386 (596)
T ss_pred             HhcCeeEeccchHHH
Confidence            1  235666555443

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.35  E-value=2.8e-11  Score=112.20  Aligned_cols=189  Identities=20%  Similarity=0.259  Sum_probs=116.0

Q ss_pred             cchhccHHHHHHHHHHHh-------c---CC--------CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           53 ADVAAHRDIVDTIDRLTS-------E---NR--------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~-------~---~~--------~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      +.++||+++++.+...+.       .   ..        ..+++|+||||+|||++|+++++.+.     ..+..++++.
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~-----~pf~~~da~~  151 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN-----VPFAIADATT  151 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC-----CCeEEechhh
Confidence            446999999998866552       1   11        24699999999999999999998873     3333444332


Q ss_pred             CC--C--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhc-------
Q 017884          115 DR--G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT-------  169 (364)
Q Consensus       115 ~~--~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~-------  169 (364)
                      ..  +  .......+.......+..+. ...+.+|+|||+|.+..              ..|+.|+++|+...       
T Consensus       152 L~~~gyvG~d~e~~L~~~~~~~~~~l~-~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~  230 (413)
T TIGR00382       152 LTEAGYVGEDVENILLKLLQAADYDVE-KAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQG  230 (413)
T ss_pred             ccccccccccHHHHHHHHHHhCcccHH-hcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCC
Confidence            11  0  11122333333222221111 12467999999999976              57999999996421       


Q ss_pred             ------cCccEEEEeecc---------------------------c-----------------------cCchhhhccc-
Q 017884          170 ------KNTRFALICNQV---------------------------N-----------------------KIIPALQSRC-  192 (364)
Q Consensus       170 ------~~~~~Il~~~~~---------------------------~-----------------------~l~~~l~sr~-  192 (364)
                            .++.+|.++|-.                           .                       .+.|.+..|. 
T Consensus       231 gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflgRld  310 (413)
T TIGR00382       231 GRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIGRLP  310 (413)
T ss_pred             CccccCCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhCCCC
Confidence                  122344443320                           0                       1346667777 


Q ss_pred             eEEEecCCChHHHHHHHHHH----HHH-------cC--CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHH
Q 017884          193 TRFRFAPLEPVHVTERLKHV----IEA-------EG--LDVTEGGLAALVRLC---NGDMRKALNILQSTH  247 (364)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~----~~~-------~~--~~i~~~~~~~l~~~~---~g~~r~a~~~l~~~~  247 (364)
                      .++.|.|++.+++.+++...    .++       .+  +.++++++++|++.+   .--.|.+...++...
T Consensus       311 ~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l  381 (413)
T TIGR00382       311 VIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLL  381 (413)
T ss_pred             eEeecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhh
Confidence            67889999999999887652    221       23  356899999999875   223555555555443

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2

Probab=99.35  E-value=8.4e-12  Score=103.56  Aligned_cols=163  Identities=17%  Similarity=0.256  Sum_probs=115.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC-CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCC----C
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA----D  151 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~----~  151 (364)
                      +++||+.-.-+...++.+.+.+...+. ...+..+++..     .....+...+.+.++ |+.   +++|+|.++    +
T Consensus         1 Yll~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~s~sl-F~~---~klvii~~~~~l~~   71 (172)
T PF06144_consen    1 YLLYGEDSFLIEEYIKKIRKALIKKDFDDFNVIVFDGSE-----DDIDELLEELQSPSL-FGD---KKLVIIKNAPFLKD   71 (172)
T ss_dssp             EEEEES-HHHHHHHHHHHHHHHHTTTEEEEEEEE-STTS------HHH-HTTTSTTTTS-SSS---EEEEEEE-----TT
T ss_pred             CEEEeCcHHHHHHHHHHHHHHhhcCCCccceEEEEcccc-----CcHHHHHHHHhcCCc-cCC---CeEEEEecCccccc
Confidence            589999988889999999888554332 23333343332     112224555677776 665   899999999    4


Q ss_pred             CCCHHHHHHHHHHHHHhccCccEEEEee-ccc---cCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHH
Q 017884          152 AMTKDAQFALRRVIEKYTKNTRFALICN-QVN---KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAA  227 (364)
Q Consensus       152 ~l~~~~~~~L~~~le~~~~~~~~Il~~~-~~~---~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~  227 (364)
                      .........|..+++.+++++.+|+.++ ..+   ++.+.+.+.+.++.|.++...++..|+..++++.|+.++++++++
T Consensus        72 ~~~~~~~~~l~~~l~~~~~~~~lii~~~~~~~~~~k~~k~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~i~~~a~~~  151 (172)
T PF06144_consen   72 KLKKKEIKALIEYLSNPPPDCILIIFSEEKLDKRKKLYKALKKQAIVIECKKPKEQELPRWIKERAKKNGLKIDPDAAQY  151 (172)
T ss_dssp             -S-TTHHHHHHHHTTT--SSEEEEEEES-S--HHHHHHHHHTTTEEEEEE----TTTHHHHHHHHHHHTT-EE-HHHHHH
T ss_pred             cccHHHHHHHHHHHhCCCCCEEEEEEeCCchhhhhhHHHHHhcccceEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            5666788999999999999999888887 333   466777788999999999999999999999999999999999999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHH
Q 017884          228 LVRLCNGDMRKALNILQSTHM  248 (364)
Q Consensus       228 l~~~~~g~~r~a~~~l~~~~~  248 (364)
                      |++.+++|++.+.+.++++++
T Consensus       152 L~~~~~~d~~~l~~EleKL~L  172 (172)
T PF06144_consen  152 LIERVGNDLSLLQNELEKLSL  172 (172)
T ss_dssp             HHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHhChHHHHHHHHHHHhcC
Confidence            999999999999999998763

7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.33  E-value=1.4e-10  Score=103.51  Aligned_cols=176  Identities=18%  Similarity=0.158  Sum_probs=108.9

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH---
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ---  124 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---  124 (364)
                      .|..-.+++-.+.....+..++..+  .+++|.||||+|||++++.+++.+.     ..++.+++.......++...   
T Consensus        40 ~p~~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~-----~~~~rV~~~~~l~~~DliG~~~~  112 (327)
T TIGR01650        40 VPDIDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLN-----WPCVRVNLDSHVSRIDLVGKDAI  112 (327)
T ss_pred             CCCCCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHC-----CCeEEEEecCCCChhhcCCCcee
Confidence            3443345666667777777777554  4699999999999999999999983     34444444332211111100   


Q ss_pred             -H------HHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHH--------------hccCccEEEEeeccc-
Q 017884          125 -I------QDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK--------------YTKNTRFALICNQVN-  182 (364)
Q Consensus       125 -i------~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~--------------~~~~~~~Il~~~~~~-  182 (364)
                       +      ..+. ..++..+ ...+.++++||++...++.+..|..++|.              +.+..++|.+.|... 
T Consensus       113 ~l~~g~~~~~f~-~GpL~~A-~~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~  190 (327)
T TIGR01650       113 VLKDGKQITEFR-DGILPWA-LQHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGL  190 (327)
T ss_pred             eccCCcceeEEe-cCcchhH-HhCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCc
Confidence             0      0000 0011000 01466899999999999999999999983              112455666666532 


Q ss_pred             -----------cCchhhhccce-EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Q 017884          183 -----------KIIPALQSRCT-RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC  232 (364)
Q Consensus       183 -----------~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~  232 (364)
                                 .+..+..+|+. ++.+..|+.++-.+++...+....-.-+++.++++++.+
T Consensus       191 Gd~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~~~~~~~~~~~i~~~mV~la  252 (327)
T TIGR01650       191 GDTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKAKGFDDTEGKDIINAMVRVA  252 (327)
T ss_pred             CCCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhccCCCccchHHHHHHHHHHH
Confidence                       46788999995 468988998888888876543211111345556665543

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.33  E-value=1.1e-10  Score=97.44  Aligned_cols=192  Identities=19%  Similarity=0.238  Sum_probs=132.0

Q ss_pred             hhccCCCCCcchhccHHHHHHHH----HHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH
Q 017884           44 VEKYRPQSLADVAAHRDIVDTID----RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (364)
Q Consensus        44 ~~~~~p~~~~~~vg~~~~~~~l~----~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  119 (364)
                      +..+.|..+.+++|-+...+.|.    ..+++....|+|++|..|+||+++++++..++...+.  ..++++..+.....
T Consensus        51 v~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~gl--rLVEV~k~dl~~Lp  128 (287)
T COG2607          51 VPDPDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGL--RLVEVDKEDLATLP  128 (287)
T ss_pred             CCCCCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCC--eEEEEcHHHHhhHH
Confidence            44566678899999877777664    3444555566999999999999999999999876654  47888766544444


Q ss_pred             HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-HHHHHHHHHH----HhccCccEEEEeeccccCch--------
Q 017884          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-AQFALRRVIE----KYTKNTRFALICNQVNKIIP--------  186 (364)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-~~~~L~~~le----~~~~~~~~Il~~~~~~~l~~--------  186 (364)
                      .+.+.++.    .+       .+-||++|+.-.=..+ .-..|..+|+    ..|.++.|..++|..+.+..        
T Consensus       129 ~l~~~Lr~----~~-------~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~  197 (287)
T COG2607         129 DLVELLRA----RP-------EKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGS  197 (287)
T ss_pred             HHHHHHhc----CC-------ceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCCc
Confidence            44443332    22       3569999987555433 3445555554    45667766666664443321        


Q ss_pred             --------------hhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHH-----HHcCCCHHHHHHHHHHH
Q 017884          187 --------------ALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALV-----RLCNGDMRKALNILQST  246 (364)
Q Consensus       187 --------------~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~-----~~~~g~~r~a~~~l~~~  246 (364)
                                    .+..|+ ..+.|.|++.++..+++..++++.++.++++.++.=+     ...+.+-|.|.+.++.+
T Consensus       198 ~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~WAt~rg~RSGR~A~QF~~~~  277 (287)
T COG2607         198 TGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQWATTRGGRSGRVAWQFIRDL  277 (287)
T ss_pred             ccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcCCCccHhHHHHHHHH
Confidence                          233455 7799999999999999999999999999876654433     22356778888877766


Q ss_pred             HH
Q 017884          247 HM  248 (364)
Q Consensus       247 ~~  248 (364)
                      +.
T Consensus       278 ~g  279 (287)
T COG2607         278 AG  279 (287)
T ss_pred             Hh
Confidence            54

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.32  E-value=1.1e-10  Score=115.64  Aligned_cols=211  Identities=13%  Similarity=0.128  Sum_probs=128.7

Q ss_pred             CcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc-----------CCCC-----------------
Q 017884           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-----------GAQY-----------------  103 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~-----------~~~~-----------------  103 (364)
                      |.+++||+.++..|.-.+-.....+++|+|++|+|||++|+.+++.+.           |...                 
T Consensus         3 f~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~~   82 (633)
T TIGR02442         3 FTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPSE   82 (633)
T ss_pred             cchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhcccccc
Confidence            778999999999988888877777899999999999999999999872           1100                 


Q ss_pred             --CCcEEEEeCCCC----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc--------
Q 017884          104 --HNMILELNASDD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT--------  169 (364)
Q Consensus       104 --~~~~~~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~--------  169 (364)
                        ...++.+.....    .+..++...+..-........-...++++++|||++.++...++.|+.+|++..        
T Consensus        83 ~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g~  162 (633)
T TIGR02442        83 QRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREGL  162 (633)
T ss_pred             cCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECCc
Confidence              112222222110    011111111111000000000012256799999999999999999999998642        


Q ss_pred             -----cCccEEEEeecc-ccCchhhhccc-eEEEecCCCh-HHHHHHHHHHH----------------------------
Q 017884          170 -----KNTRFALICNQV-NKIIPALQSRC-TRFRFAPLEP-VHVTERLKHVI----------------------------  213 (364)
Q Consensus       170 -----~~~~~Il~~~~~-~~l~~~l~sr~-~~i~~~~~~~-~~~~~~l~~~~----------------------------  213 (364)
                           ..+.+|.++|.. ..+.+.|.+|+ ..+.+.++.. ++..+++....                            
T Consensus       163 ~~~~~~~~~lIat~np~eg~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ar  242 (633)
T TIGR02442       163 SVSHPARFVLIGTMNPEEGDLRPQLLDRFGLCVDVAAPRDPEERVEIIRRRLAFDADPEAFAARWAAEQEELRNRIARAR  242 (633)
T ss_pred             eeeecCCeEEEEecCCCCCCCCHHHHhhcceEEEccCCCchHHHHHHHHHHHhhccCcHHHHHHhhhhHHHHHHHHHHHH
Confidence                 234455555533 35778899998 4466665543 33333332210                            


Q ss_pred             -HHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHh-----cccCchHHHHHhc
Q 017884          214 -EAEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTHMA-----SQQITEEAVYLCT  262 (364)
Q Consensus       214 -~~~~~~i~~~~~~~l~~~~---~g-~~r~a~~~l~~~~~~-----~~~i~~~~v~~~~  262 (364)
                       ....+.++++.+++|+..+   +- .+|..+..+..+...     ...++.++|..++
T Consensus       243 ~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~  301 (633)
T TIGR02442       243 SLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAA  301 (633)
T ss_pred             HhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHH
Confidence             0124678999988888776   21 367766666544322     2488888886643

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.31  E-value=3.7e-11  Score=101.77  Aligned_cols=168  Identities=24%  Similarity=0.380  Sum_probs=115.1

Q ss_pred             CCcchhccHHHHHHHHHHHhc-----------C-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC--
Q 017884           51 SLADVAAHRDIVDTIDRLTSE-----------N-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  115 (364)
                      +..++-|-.+.++.++..+.-           | .+|. +++|||||+|||.+|+++++.-     ...|+.+-++..  
T Consensus       175 ty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt-----dacfirvigselvq  249 (435)
T KOG0729|consen  175 TYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT-----DACFIRVIGSELVQ  249 (435)
T ss_pred             ccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc-----CceEEeehhHHHHH
Confidence            678888999999998887752           2 2233 9999999999999999999984     455666544321  


Q ss_pred             ----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHH-----hccCccEE
Q 017884          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEK-----YTKNTRFA  175 (364)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~-----~~~~~~~I  175 (364)
                          .+...+++. .+.        +...+.++|++||+|.+.           .+.|..+++++..     +..+..++
T Consensus       250 kyvgegarmvrel-f~m--------artkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvl  320 (435)
T KOG0729|consen  250 KYVGEGARMVREL-FEM--------ARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVL  320 (435)
T ss_pred             HHhhhhHHHHHHH-HHH--------hcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence                111222222 222        222257899999999984           3456666666654     34577899


Q ss_pred             EEeeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCC
Q 017884          176 LICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNG  234 (364)
Q Consensus       176 l~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-~~~l~~~~~g  234 (364)
                      ++||.++-++++|.+-+   ..++|.-|+.+-...+++-.++..  .++.+. .+.|+..|..
T Consensus       321 matnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksm--sverdir~ellarlcpn  381 (435)
T KOG0729|consen  321 MATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSM--SVERDIRFELLARLCPN  381 (435)
T ss_pred             eecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEecccc--ccccchhHHHHHhhCCC
Confidence            99999999999998854   569999998888777776555533  334443 3556666643

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.29  E-value=3.2e-10  Score=107.39  Aligned_cols=212  Identities=19%  Similarity=0.250  Sum_probs=141.2

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      .|.. +++.|-......++..+..           + ..| .+++|||||+|||.++++++++.     ...++.++++.
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~-----~a~~~~i~~pe  253 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEY-----GAFLFLINGPE  253 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHh-----CceeEecccHH
Confidence            4445 6677766666666665531           1 222 38999999999999999999996     45556666542


Q ss_pred             C------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH----------HHHHHHHHHHHHhc--cCccEEE
Q 017884          115 D------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK----------DAQFALRRVIEKYT--KNTRFAL  176 (364)
Q Consensus       115 ~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~----------~~~~~L~~~le~~~--~~~~~Il  176 (364)
                      .      .....++..++.....     .   .+.+++|||++.+.+          .....|+.+|+...  ..++++.
T Consensus       254 li~k~~gEte~~LR~~f~~a~k~-----~---~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~  325 (693)
T KOG0730|consen  254 LISKFPGETESNLRKAFAEALKF-----Q---VPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLA  325 (693)
T ss_pred             HHHhcccchHHHHHHHHHHHhcc-----C---CCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEE
Confidence            1      1222334444433322     1   167999999999974          23567888888876  5566677


Q ss_pred             EeeccccCchhhhc-cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH-HHHHHHHhcccC
Q 017884          177 ICNQVNKIIPALQS-RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALN-ILQSTHMASQQI  253 (364)
Q Consensus       177 ~~~~~~~l~~~l~s-r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~-~l~~~~~~~~~i  253 (364)
                      ++|.++.+.+.+++ |+ ..+.+.-|+.....++++...+..+.. ++..+..++..++|-...-+. ++.........=
T Consensus       326 atnrp~sld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~-~~~~l~~iA~~thGyvGaDL~~l~~ea~~~~~r~  404 (693)
T KOG0730|consen  326 ATNRPDSLDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKMNLL-SDVDLEDIAVSTHGYVGADLAALCREASLQATRR  404 (693)
T ss_pred             ecCCccccChhhhcCCCcceeeecCCCchhHHHHHHHHHHhcCCc-chhhHHHHHHHccchhHHHHHHHHHHHHHHHhhh
Confidence            77999999999997 77 679999999999999999999887766 677788899888776544333 223222222111


Q ss_pred             chHHHHHhcCCCChHHHHHHH
Q 017884          254 TEEAVYLCTGNPLPKDIEQIS  274 (364)
Q Consensus       254 ~~~~v~~~~~~~~~~~~~~l~  274 (364)
                      +.+++..+.....+..+.+.+
T Consensus       405 ~~~~~~~A~~~i~psa~Re~~  425 (693)
T KOG0730|consen  405 TLEIFQEALMGIRPSALREIL  425 (693)
T ss_pred             hHHHHHHHHhcCCchhhhhee
Confidence            555555555555544444443

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.27  E-value=2.1e-10  Score=115.21  Aligned_cols=198  Identities=15%  Similarity=0.204  Sum_probs=129.3

Q ss_pred             CCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (364)
                      ..|++++|+...+..+.+.+..-  ...+++|+|++|||||++|++++..-..  ....++.++|..... ..+...+..
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r--~~~~~v~i~c~~~~~-~~~~~~lfg  449 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGR--NNRRMVKMNCAAMPA-GLLESDLFG  449 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCC--CCCCeEEEecccCCh-hHhhhhhcC
Confidence            36889999988888877666532  2235999999999999999999887432  234667777765321 222221111


Q ss_pred             HHhcC-------ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeeccc-------
Q 017884          128 FASTQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------  182 (364)
Q Consensus       128 ~~~~~-------~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~~-------  182 (364)
                      .....       ....-....+++++|||++.++...|..|++++++..           .++++|++++..-       
T Consensus       450 ~~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~  529 (686)
T PRK15429        450 HERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADR  529 (686)
T ss_pred             cccccccccccchhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHHHHHHcC
Confidence            00000       0000011246799999999999999999999998642           3567888875421       


Q ss_pred             cCchhhhccc--eEEEecCCCh--HHHHHHHH----HHHHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          183 KIIPALQSRC--TRFRFAPLEP--VHVTERLK----HVIEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       183 ~l~~~l~sr~--~~i~~~~~~~--~~~~~~l~----~~~~~~~~---~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                      .+...+-.|.  ..+.+||+.+  +++..++.    +.+.+.+.   .+++++++.|..+. .||+|.+.+.++.+....
T Consensus       530 ~f~~~L~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~~i~~a~~~~  609 (686)
T PRK15429        530 EFRSDLYYRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLT  609 (686)
T ss_pred             cccHHHHhccCeeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCCcHHHHHHHHHHHHHhC
Confidence            2333344453  4577777765  44444443    33443342   47999999998775 999999999999887643

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.25  E-value=1.7e-10  Score=105.67  Aligned_cols=108  Identities=21%  Similarity=0.371  Sum_probs=79.0

Q ss_pred             ceEEEEEeCCCCCCH------------HHHHHHHHHHHHhc--------cCccEEEEe------eccccCchhhhccc-e
Q 017884          141 SVKLVLLDEADAMTK------------DAQFALRRVIEKYT--------KNTRFALIC------NQVNKIIPALQSRC-T  193 (364)
Q Consensus       141 ~~~viiiDe~~~l~~------------~~~~~L~~~le~~~--------~~~~~Il~~------~~~~~l~~~l~sr~-~  193 (364)
                      ..+||+|||+|.+..            ..|..|++++|...        .+..++|++      ..++.+.|.+.-|+ .
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi  328 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQGRFPI  328 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccce
Confidence            577999999999952            36889999999632        233444444      34567899999998 7


Q ss_pred             EEEecCCChHHHHHHHHH----H-------HHHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHHH
Q 017884          194 RFRFAPLEPVHVTERLKH----V-------IEAEGL--DVTEGGLAALVRLC--------NGDMRKALNILQSTHM  248 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~-------~~~~~~--~i~~~~~~~l~~~~--------~g~~r~a~~~l~~~~~  248 (364)
                      ++.+.+++.+++.++|..    .       ++.+|+  .++++++..||+.+        +--.|.+...++++..
T Consensus       329 ~v~L~~L~~~dL~~ILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtI~E~~L~  404 (443)
T PRK05201        329 RVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVMEKLLE  404 (443)
T ss_pred             EEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Confidence            799999999999888833    2       233455  56899999999775        2346777777777654

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.25  E-value=2.9e-10  Score=104.60  Aligned_cols=203  Identities=16%  Similarity=0.197  Sum_probs=134.6

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      .+.++||+...+..+.+.+..-..  ..+||.|++|+||..+|+++.+.-  .-....++.+||.... .......+...
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S--~R~~kPfV~~NCAAlP-esLlESELFGH  297 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLS--PRRDKPFVKLNCAALP-ESLLESELFGH  297 (550)
T ss_pred             ccccceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhC--cccCCCceeeeccccc-hHHHHHHHhcc
Confidence            577899999999988887764322  238999999999999999998873  2334567888887632 12222222211


Q ss_pred             Hhc--------CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeecc-------c
Q 017884          129 AST--------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV-------N  182 (364)
Q Consensus       129 ~~~--------~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~-------~  182 (364)
                      ...        .+-.| +.++++.+++||+..|+-..|..|++.+++.           .-++++|.+||..       .
T Consensus       298 eKGAFTGA~~~r~GrF-ElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V~~G  376 (550)
T COG3604         298 EKGAFTGAINTRRGRF-ELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMVRDG  376 (550)
T ss_pred             cccccccchhccCcce-eecCCCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHHHcC
Confidence            110        00001 1135789999999999999999999999974           3467888888742       1


Q ss_pred             cCchhhhccceE--EEecCCCh--HH---HHHH-HHHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          183 KIIPALQSRCTR--FRFAPLEP--VH---VTER-LKHVIEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       183 ~l~~~l~sr~~~--i~~~~~~~--~~---~~~~-l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                      ++-..|--|..+  +.+||+-+  ++   +..+ +.+...+.|   ..+++++++.|..+. .||+|.+.|.++.++..+
T Consensus       377 ~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRELen~veRavlla  456 (550)
T COG3604         377 EFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             cchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHcCCCCCcHHHHHHHHHHHHHHh
Confidence            334444455544  45555544  22   2333 333333334   478999999999875 899999999999888755


Q ss_pred             -ccCchHH
Q 017884          251 -QQITEEA  257 (364)
Q Consensus       251 -~~i~~~~  257 (364)
                       ..++.++
T Consensus       457 ~~~~~~~d  464 (550)
T COG3604         457 GRLTRRGD  464 (550)
T ss_pred             cccCCCcc
Confidence             3444344

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

Probab=99.25  E-value=2.1e-09  Score=94.40  Aligned_cols=204  Identities=15%  Similarity=0.162  Sum_probs=126.7

Q ss_pred             HHHHHHHHHHHh---cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC----CCCcEEEEeCCCCCChHHHHHHHHHHHhc
Q 017884           59 RDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASDDRGIDVVRQQIQDFAST  131 (364)
Q Consensus        59 ~~~~~~l~~~~~---~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (364)
                      ..+++.|...+.   ..++|+++|+|++|.|||++++.+.+......    ....++.+......+...+...|-.....
T Consensus        43 ~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lga  122 (302)
T PF05621_consen   43 KEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGA  122 (302)
T ss_pred             HHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCc
Confidence            344555666565   44778899999999999999999998753211    12235555544433333332222211111


Q ss_pred             CccccC-------------CccceEEEEEeCCCCCC---HHHHHHHHHHHHHhccC--ccEEEEeec----cccCchhhh
Q 017884          132 QSFSFG-------------VKASVKLVLLDEADAMT---KDAQFALRRVIEKYTKN--TRFALICNQ----VNKIIPALQ  189 (364)
Q Consensus       132 ~~~~~~-------------~~~~~~viiiDe~~~l~---~~~~~~L~~~le~~~~~--~~~Il~~~~----~~~l~~~l~  189 (364)
                      ....-.             ..-+.+++||||+|.+.   ...|..++..+......  ..+|.++..    .-.-++.+.
T Consensus       123 P~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa  202 (302)
T PF05621_consen  123 PYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLA  202 (302)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHH
Confidence            000000             00157899999999973   34466666666665543  345555532    124568999


Q ss_pred             ccceEEEecCCCh-HHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----ccCchHHH
Q 017884          190 SRCTRFRFAPLEP-VHVTERLKHVIEAE-----GLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEAV  258 (364)
Q Consensus       190 sr~~~i~~~~~~~-~~~~~~l~~~~~~~-----~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----~~i~~~~v  258 (364)
                      +|+..+.+++... ++....+...-..-     ..--+++.+..|...++|.++....++..++..+     +.||.+.+
T Consensus       203 ~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll~~aA~~AI~sG~E~It~~~l  282 (302)
T PF05621_consen  203 SRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLLNAAAIAAIRSGEERITREIL  282 (302)
T ss_pred             hccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHHHHHHHHHHhcCCceecHHHH
Confidence            9999999988875 45666665544322     1123567779999999999999999887776543     47888888


Q ss_pred             HHhc
Q 017884          259 YLCT  262 (364)
Q Consensus       259 ~~~~  262 (364)
                      ..+-
T Consensus       283 ~~~~  286 (302)
T PF05621_consen  283 DKID  286 (302)
T ss_pred             hhCC
Confidence            7653

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

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.25  E-value=1.4e-09  Score=104.23  Aligned_cols=205  Identities=19%  Similarity=0.193  Sum_probs=134.2

Q ss_pred             CCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      .+..++|....+..+...+..-  ...+++++|++|+||+++|+.+...-..  ....++.+++..... ..+...+...
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~v~v~c~~~~~-~~~~~~lfg~  213 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDR--KDKRFVAINCAAIPE-NLLESELFGY  213 (445)
T ss_pred             cccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhCCc--CCCCeEEEECCCCCh-HHHHHHhcCC
Confidence            4567888877777776666532  2334899999999999999999876432  234567778776422 2222222111


Q ss_pred             Hhc-------CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------cc
Q 017884          129 AST-------QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NK  183 (364)
Q Consensus       129 ~~~-------~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~  183 (364)
                      ...       .....-...++++++|||++.|+...|..|++++++..           .++++|++++..       ..
T Consensus       214 ~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~  293 (445)
T TIGR02915       214 EKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGT  293 (445)
T ss_pred             CCCCcCCCccCCCCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHHHHcCC
Confidence            000       00000112357899999999999999999999998642           256788887543       23


Q ss_pred             Cchhhhccc--eEEEecCCCh--HHHHHH----HHHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc-
Q 017884          184 IIPALQSRC--TRFRFAPLEP--VHVTER----LKHVIEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-  250 (364)
Q Consensus       184 l~~~l~sr~--~~i~~~~~~~--~~~~~~----l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~-  250 (364)
                      +.+.|..|+  ..+.+||+.+  +++..+    +...+.+.+   ..+++++++.|..+. .||+|.+.+.++.++..+ 
T Consensus       294 ~~~~L~~~l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~i~~a~~~~~  373 (445)
T TIGR02915       294 FREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMAE  373 (445)
T ss_pred             ccHHHHHHhccceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC
Confidence            445555664  4577777765  343333    333343333   468999999999876 999999999999887644 


Q ss_pred             -ccCchHHH
Q 017884          251 -QQITEEAV  258 (364)
Q Consensus       251 -~~i~~~~v  258 (364)
                       ..|+.+++
T Consensus       374 ~~~i~~~~l  382 (445)
T TIGR02915       374 GNQITAEDL  382 (445)
T ss_pred             CCcccHHHc
Confidence             35776665

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.23  E-value=1.8e-10  Score=105.60  Aligned_cols=108  Identities=22%  Similarity=0.388  Sum_probs=78.7

Q ss_pred             ceEEEEEeCCCCCCH------------HHHHHHHHHHHHhc--------cCccEEEEe------eccccCchhhhccc-e
Q 017884          141 SVKLVLLDEADAMTK------------DAQFALRRVIEKYT--------KNTRFALIC------NQVNKIIPALQSRC-T  193 (364)
Q Consensus       141 ~~~viiiDe~~~l~~------------~~~~~L~~~le~~~--------~~~~~Il~~------~~~~~l~~~l~sr~-~  193 (364)
                      ..+||+|||+|++..            ..|..|++++|...        .+..+.|++      ..+..+.|.+.-|+ .
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi  326 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQGRFPI  326 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccce
Confidence            577999999999962            36899999999632        223344444      24567899999998 7


Q ss_pred             EEEecCCChHHHHHHHHH----H-------HHHcCC--CCCHHHHHHHHHHc--------CCCHHHHHHHHHHHHH
Q 017884          194 RFRFAPLEPVHVTERLKH----V-------IEAEGL--DVTEGGLAALVRLC--------NGDMRKALNILQSTHM  248 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~-------~~~~~~--~i~~~~~~~l~~~~--------~g~~r~a~~~l~~~~~  248 (364)
                      ++.+.+++.+++..+|..    .       ++.+|+  .++++++..||+.+        +--.|.+...++.+..
T Consensus       327 ~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE~~l~  402 (441)
T TIGR00390       327 RVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLERLLE  402 (441)
T ss_pred             EEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Confidence            799999999999888732    2       234454  56899999999875        3347777777776654

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.21  E-value=2.6e-09  Score=103.05  Aligned_cols=206  Identities=20%  Similarity=0.217  Sum_probs=135.4

Q ss_pred             CCcchhccHHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      .+.+++|....+..+...+....  ..+++++|++|+||+++|++++.....  ....++.+++.... .+.+...+...
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~i~i~c~~~~-~~~~~~~lfg~  212 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPR--AKAPFIALNMAAIP-KDLIESELFGH  212 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCCC--CCCCeEeeeCCCCC-HHHHHHHhcCC
Confidence            46678898777777666655322  233899999999999999999887432  23566778876642 22223222111


Q ss_pred             HhcC-------ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------cc
Q 017884          129 ASTQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NK  183 (364)
Q Consensus       129 ~~~~-------~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~  183 (364)
                      ....       ....-....++.++|||++.|+...|..|++++++..           .++++|++++..       ..
T Consensus       213 ~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~  292 (469)
T PRK10923        213 EKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGK  292 (469)
T ss_pred             CCCCCCCCCcCCCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCCHHHHHHcCC
Confidence            1000       0000111246789999999999999999999998642           245788887532       24


Q ss_pred             Cchhhhccc--eEEEecCCCh--HHHHHHHHHH----HHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc-
Q 017884          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKHV----IEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-  250 (364)
Q Consensus       184 l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~----~~~~~~---~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~-  250 (364)
                      +.+.+..|+  ..+.+||+.+  +++..++...    +...+.   .+++++++.|..+. .||+|.+.+.++.+.... 
T Consensus       293 ~~~~L~~~l~~~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~i~~~~~~~~  372 (469)
T PRK10923        293 FREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMAA  372 (469)
T ss_pred             chHHHHHHhcceeecCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC
Confidence            556666775  5677777765  4444444433    333332   58999999999885 999999999998887643 


Q ss_pred             -ccCchHHHH
Q 017884          251 -QQITEEAVY  259 (364)
Q Consensus       251 -~~i~~~~v~  259 (364)
                       ..|+.+++.
T Consensus       373 ~~~i~~~~l~  382 (469)
T PRK10923        373 GQEVLIQDLP  382 (469)
T ss_pred             CCcccHHHCc
Confidence             367777763

>PRK15115 response regulator GlrR; Provisional

Probab=99.19  E-value=6.4e-09  Score=99.64  Aligned_cols=204  Identities=15%  Similarity=0.171  Sum_probs=127.0

Q ss_pred             chhccHHHHHHHHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhc
Q 017884           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (364)
                      .++|....+..+...+..  ...++++++|++|+||+++|+.+.+.-..  ....++.+++.... .+.+...+......
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s~r--~~~~f~~i~c~~~~-~~~~~~~lfg~~~~  211 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPR--ASKPFIAINCGALP-EQLLESELFGHARG  211 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhcCC--CCCCeEEEeCCCCC-HHHHHHHhcCCCcC
Confidence            356655555444433322  12245899999999999999999887432  23457788877642 22222222211100


Q ss_pred             C-------ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------ccCch
Q 017884          132 Q-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIP  186 (364)
Q Consensus       132 ~-------~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~l~~  186 (364)
                      .       ....-....+++++|||++.|+...|..|++++++..           .++++|++++..       ..+.+
T Consensus       212 ~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~~~~~~f~~  291 (444)
T PRK15115        212 AFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEFRE  291 (444)
T ss_pred             CCCCCccCCCCcEEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHHHHcCCccH
Confidence            0       0001112246799999999999999999999998642           255777777532       12333


Q ss_pred             hhhccc--eEEEecCCCh--HHHHHHHHHH----HHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc--cc
Q 017884          187 ALQSRC--TRFRFAPLEP--VHVTERLKHV----IEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQ  252 (364)
Q Consensus       187 ~l~sr~--~~i~~~~~~~--~~~~~~l~~~----~~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~--~~  252 (364)
                      .+..|.  ..+.+||+.+  +++..++...    +...+   ..+++++++.|..+. +||+|.+.+.++.++...  ..
T Consensus       292 ~l~~~l~~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~~~~~~  371 (444)
T PRK15115        292 DLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTSSPV  371 (444)
T ss_pred             HHHHhhceeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCc
Confidence            444443  4466667664  3454343333    33333   258999999999987 999999999999877543  36


Q ss_pred             CchHHHHH
Q 017884          253 ITEEAVYL  260 (364)
Q Consensus       253 i~~~~v~~  260 (364)
                      |+.+++..
T Consensus       372 i~~~~l~~  379 (444)
T PRK15115        372 ISDALVEQ  379 (444)
T ss_pred             cChhhhhh
Confidence            77777654

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.18  E-value=7.2e-11  Score=98.29  Aligned_cols=114  Identities=23%  Similarity=0.228  Sum_probs=67.7

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC----------------CC
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA----------------SD  114 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~----------------~~  114 (364)
                      .|.+++||+..+..+.-...++  .|++++||||+|||++|+.+..-+..-.. ...+++..                ..
T Consensus         1 Df~dI~GQe~aKrAL~iAAaG~--h~lLl~GppGtGKTmlA~~l~~lLP~l~~-~e~le~~~i~s~~~~~~~~~~~~~~P   77 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAAGG--HHLLLIGPPGTGKTMLARRLPSLLPPLTE-EEALEVSKIYSVAGLGPDEGLIRQRP   77 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHCS--CCE-ECCESS--S-TT---S---EEEE---
T ss_pred             ChhhhcCcHHHHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHhCCCCch-HHHhhhccccccccCCCCCceecCCC
Confidence            4889999999999998888875  57999999999999999999976532110 00000000                00


Q ss_pred             CC---ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh
Q 017884          115 DR---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY  168 (364)
Q Consensus       115 ~~---~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~  168 (364)
                      ..   ........+..-... ....-..++++|+++||+..+.+...+.|+..|++.
T Consensus        78 fr~phhs~s~~~liGgg~~~-~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g  133 (206)
T PF01078_consen   78 FRAPHHSASEAALIGGGRPP-RPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDG  133 (206)
T ss_dssp             EEEE-TT--HHHHHEEGGGE-EE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHS
T ss_pred             cccCCCCcCHHHHhCCCcCC-CcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCC
Confidence            00   000111111111110 000111246889999999999999999999999973

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.18  E-value=7.3e-10  Score=110.97  Aligned_cols=186  Identities=18%  Similarity=0.185  Sum_probs=131.8

Q ss_pred             CCCcchhccHHHHHHHHHHHhc------------CCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC-
Q 017884           50 QSLADVAAHRDIVDTIDRLTSE------------NRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~------------~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-  115 (364)
                      .+|+++-|-+.++..|++.+-.            -..|. ++++||||+|||..|++++..+...+....+..-.+.+- 
T Consensus       262 v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~l  341 (1080)
T KOG0732|consen  262 VGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADCL  341 (1080)
T ss_pred             cCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchhh
Confidence            4799999999999999888742            12333 999999999999999999998754433332222222221 


Q ss_pred             -----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHhccCcc--EEEE
Q 017884          116 -----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTKNTR--FALI  177 (364)
Q Consensus       116 -----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~~~~~~--~Il~  177 (364)
                           ....+.+-..+++...         .+.||++||+|-+.+           .....|+.+|+..+....  +|-+
T Consensus       342 skwvgEaERqlrllFeeA~k~---------qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigA  412 (1080)
T KOG0732|consen  342 SKWVGEAERQLRLLFEEAQKT---------QPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGA  412 (1080)
T ss_pred             ccccCcHHHHHHHHHHHHhcc---------CceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcc
Confidence                 1112333333333222         367999999997742           124568888888776555  4455


Q ss_pred             eeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 017884          178 CNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (364)
Q Consensus       178 ~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~  244 (364)
                      ||.++.+++++++.+   ..+.|+-|+.+...+++.-.-.+....++......|++.+.|-.+.-+..|.
T Consensus       413 TnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLC  482 (1080)
T KOG0732|consen  413 TNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALC  482 (1080)
T ss_pred             cCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHH
Confidence            689999999998864   5688998989999999888877777889999999999998776666555543

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.17  E-value=2e-09  Score=105.62  Aligned_cols=123  Identities=16%  Similarity=0.181  Sum_probs=84.1

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHh---------------------ccCccEEEEeecc--ccCchhhhccce---E
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKY---------------------TKNTRFALICNQV--NKIIPALQSRCT---R  194 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~---------------------~~~~~~Il~~~~~--~~l~~~l~sr~~---~  194 (364)
                      ++++++|||++.|+...|..|+++|++.                     +.++++|++++..  ..+.+++.+|+.   +
T Consensus       217 ngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~~l~~l~~~l~~rf~~y~v  296 (608)
T TIGR00764       217 HKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLDDLEGMHPALRSRIRGYGY  296 (608)
T ss_pred             CCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHHHHhhcCHHHHHHhcCCeE
Confidence            4679999999999999999999999752                     1245677777653  578899999976   2


Q ss_pred             -EEecC---CChHH---HHHHHHHHHHHcC--CCCCHHHHHHHHHHc----------CCCHHHHHHHHHHHHHh-----c
Q 017884          195 -FRFAP---LEPVH---VTERLKHVIEAEG--LDVTEGGLAALVRLC----------NGDMRKALNILQSTHMA-----S  250 (364)
Q Consensus       195 -i~~~~---~~~~~---~~~~l~~~~~~~~--~~i~~~~~~~l~~~~----------~g~~r~a~~~l~~~~~~-----~  250 (364)
                       +.|..   .+.+.   +..++.+.+++.|  ..++++++..|.+++          ..+.|.+-++++.+...     .
T Consensus       297 ~v~~~~~~~~~~e~~~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~  376 (608)
T TIGR00764       297 EVYMKDTMPDTPENRDKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGK  376 (608)
T ss_pred             EEEeeccCCCCHHHHHHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCC
Confidence             44433   23333   4555666666553  368999999998543          13577777777655321     2


Q ss_pred             ccCchHHHHHhcC
Q 017884          251 QQITEEAVYLCTG  263 (364)
Q Consensus       251 ~~i~~~~v~~~~~  263 (364)
                      ..|+.++|.+++.
T Consensus       377 ~~I~~ehV~~Ai~  389 (608)
T TIGR00764       377 VYVTAEHVLKAKK  389 (608)
T ss_pred             ceecHHHHHHHHH
Confidence            4788888876543

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

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

Probab=99.17  E-value=8.8e-10  Score=102.23  Aligned_cols=151  Identities=19%  Similarity=0.249  Sum_probs=95.5

Q ss_pred             CcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC--CCcEEEEeCCCC----------C--C
Q 017884           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILELNASDD----------R--G  117 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~~----------~--~  117 (364)
                      ++++++.+.....+...+..+  .+++|+||||+|||++|+.++..+.....  ....+.+.....          .  +
T Consensus       174 l~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vg  251 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVG  251 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCC
Confidence            677888888888888888765  57999999999999999999998854321  112222221110          0  0


Q ss_pred             h----HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-HHHHHHHHHHH----------------------hcc
Q 017884          118 I----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-AQFALRRVIEK----------------------YTK  170 (364)
Q Consensus       118 ~----~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-~~~~L~~~le~----------------------~~~  170 (364)
                      .    ..+.+........ +      ..+.++||||+++...+ ....++.+|+.                      .|.
T Consensus       252 y~~~~G~f~~~~~~A~~~-p------~~~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~  324 (459)
T PRK11331        252 FRRKDGIFYNFCQQAKEQ-P------EKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPE  324 (459)
T ss_pred             eEecCchHHHHHHHHHhc-c------cCCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCC
Confidence            0    0111112221111 1      14679999999999744 35555665552                      234


Q ss_pred             CccEEEEeeccc----cCchhhhccceEEEecC-CChHHHHHHHHH
Q 017884          171 NTRFALICNQVN----KIIPALQSRCTRFRFAP-LEPVHVTERLKH  211 (364)
Q Consensus       171 ~~~~Il~~~~~~----~l~~~l~sr~~~i~~~~-~~~~~~~~~l~~  211 (364)
                      ++.+|.+.|..+    .++.++++|+..+++.| ++...+.+++..
T Consensus       325 Nl~IIgTMNt~Drs~~~lD~AlrRRF~fi~i~p~~~~~~~~~~l~~  370 (459)
T PRK11331        325 NVYIIGLMNTADRSLAVVDYALRRRFSFIDIEPGFDTPQFRNFLLN  370 (459)
T ss_pred             CeEEEEecCccccchhhccHHHHhhhheEEecCCCChHHHHHHHHh
Confidence            566666766555    57889999999999877 344556666543

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.15  E-value=8.2e-09  Score=99.33  Aligned_cols=205  Identities=16%  Similarity=0.188  Sum_probs=128.4

Q ss_pred             CcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHH
Q 017884           52 LADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (364)
                      +..++|.......+...+...  ...+++++|++|+||+++|+.+.....  .....++.+++.... ...+...+....
T Consensus       142 ~~~ii~~S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~--~~~~~~~~i~c~~~~-~~~~~~~lfg~~  218 (457)
T PRK11361        142 WGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSR--RAKGPFIKVNCAALP-ESLLESELFGHE  218 (457)
T ss_pred             ccceecccHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhCC--CCCCCeEEEECCCCC-HHHHHHHhcCCC
Confidence            445777665555555554332  223489999999999999999988643  233456777776642 222222221100


Q ss_pred             hcC-------ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeeccc-------cC
Q 017884          130 STQ-------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KI  184 (364)
Q Consensus       130 ~~~-------~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~~-------~l  184 (364)
                      ...       ....-....+++++|||++.|+...|..|+.++++..           .++++|++++..-       .+
T Consensus       219 ~~~~~~~~~~~~g~~~~a~~gtl~ld~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~~~g~~  298 (457)
T PRK11361        219 KGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTF  298 (457)
T ss_pred             CCCCCCCCCCCCCceEECCCCEEEEechhhCCHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCc
Confidence            000       0000111246799999999999999999999998632           3467888876431       34


Q ss_pred             chhhhccc--eEEEecCCCh--HHHHHH----HHHHHHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc--
Q 017884          185 IPALQSRC--TRFRFAPLEP--VHVTER----LKHVIEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--  250 (364)
Q Consensus       185 ~~~l~sr~--~~i~~~~~~~--~~~~~~----l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~--  250 (364)
                      .+.+-.|.  ..+.++|+.+  +++..+    +.......+   ..+++++++.|..+. .||+|.+.+.++.+....  
T Consensus       299 ~~~l~~~l~~~~i~~ppLreR~~di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~~~~~~~~~~~  378 (457)
T PRK11361        299 REDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNSG  378 (457)
T ss_pred             hHHHHHHhccceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHcCCCCCcHHHHHHHHHHHHHhCCC
Confidence            44455554  4566667664  344433    333333323   468999999999876 999999999998877544  


Q ss_pred             ccCchHHHH
Q 017884          251 QQITEEAVY  259 (364)
Q Consensus       251 ~~i~~~~v~  259 (364)
                      ..|+.+++.
T Consensus       379 ~~i~~~~l~  387 (457)
T PRK11361        379 PIIFSEDLP  387 (457)
T ss_pred             CcccHHHCh
Confidence            357776664

>PHA02244 ATPase-like protein

Probab=99.15  E-value=1e-09  Score=99.17  Aligned_cols=129  Identities=23%  Similarity=0.221  Sum_probs=83.6

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHH--HHhcCccccCCccc
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKAS  141 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~--~~~~~~~~~~~~~~  141 (364)
                      .+..++..+  .+++|+||+|+|||++|++++..+.     ..++.++....  ...+...+..  .....++ ......
T Consensus       111 ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA~~lg-----~pfv~In~l~d--~~~L~G~i~~~g~~~dgpL-l~A~~~  180 (383)
T PHA02244        111 DIAKIVNAN--IPVFLKGGAGSGKNHIAEQIAEALD-----LDFYFMNAIMD--EFELKGFIDANGKFHETPF-YEAFKK  180 (383)
T ss_pred             HHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEecChH--HHhhcccccccccccchHH-HHHhhc
Confidence            455555555  3599999999999999999999863     33444442110  0000000000  0000000 000124


Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHH-----------hccCccEEEEeecc-----------ccCchhhhccceEEEecC
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEK-----------YTKNTRFALICNQV-----------NKIIPALQSRCTRFRFAP  199 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~-----------~~~~~~~Il~~~~~-----------~~l~~~l~sr~~~i~~~~  199 (364)
                      +.+++|||++.+.++.+..|...++.           .++++++|+++|..           ..+.+++.+|+..+.|..
T Consensus       181 GgvLiLDEId~a~p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllDRFv~I~~dy  260 (383)
T PHA02244        181 GGLFFIDEIDASIPEALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLDRFAPIEFDY  260 (383)
T ss_pred             CCEEEEeCcCcCCHHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHhhcEEeeCCC
Confidence            77999999999999999999999873           13577888888752           467889999999999988


Q ss_pred             CCh
Q 017884          200 LEP  202 (364)
Q Consensus       200 ~~~  202 (364)
                      |+.
T Consensus       261 p~~  263 (383)
T PHA02244        261 DEK  263 (383)
T ss_pred             CcH
Confidence            763

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=99.15  E-value=1.1e-09  Score=107.43  Aligned_cols=193  Identities=19%  Similarity=0.261  Sum_probs=138.5

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCC-----CcEEEEeC------C
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH-----NMILELNA------S  113 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~-----~~~~~~~~------~  113 (364)
                      +.-|-..++.++|+++.+.++.+.+......+-++.|+||+|||.++.-+|.++.....+     ..++.++.      +
T Consensus       162 ~~Ar~gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGa  241 (786)
T COG0542         162 ELAREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGA  241 (786)
T ss_pred             HHHhcCCCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccc
Confidence            334456789999999999999999988887788899999999999999999998544322     22333332      2


Q ss_pred             CCCC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH---------HHHHHHHHHHHHhccCccEEEEeec--
Q 017884          114 DDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQ--  180 (364)
Q Consensus       114 ~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~---------~~~~~L~~~le~~~~~~~~Il~~~~--  180 (364)
                      ...|  .+.++..+......         ++-|+||||+|.+-.         ++.|.|...+...  ..++|.+|+.  
T Consensus       242 kyRGeFEeRlk~vl~ev~~~---------~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARG--eL~~IGATT~~E  310 (786)
T COG0542         242 KYRGEFEERLKAVLKEVEKS---------KNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARG--ELRCIGATTLDE  310 (786)
T ss_pred             cccCcHHHHHHHHHHHHhcC---------CCeEEEEechhhhcCCCcccccccchhhhhHHHHhcC--CeEEEEeccHHH
Confidence            2221  12333333333222         367999999999942         2455666666543  4566776642  


Q ss_pred             ---cccCchhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHH
Q 017884          181 ---VNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTH  247 (364)
Q Consensus       181 ---~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~a~~~l~~~~  247 (364)
                         .-.-+++|.+||+.+....|+.++...+|+....+    .++.++++++.+.+.++..      =|.+|+++++.++
T Consensus       311 YRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKAIDLiDeA~  390 (786)
T COG0542         311 YRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDEAG  390 (786)
T ss_pred             HHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchHHHHHHHHH
Confidence               12457799999999999999999999999887765    4889999999999888742      3778999997766


Q ss_pred             H
Q 017884          248 M  248 (364)
Q Consensus       248 ~  248 (364)
                      .
T Consensus       391 a  391 (786)
T COG0542         391 A  391 (786)
T ss_pred             H
Confidence            4

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.15  E-value=8.7e-09  Score=91.10  Aligned_cols=206  Identities=19%  Similarity=0.199  Sum_probs=133.1

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD  127 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  127 (364)
                      ..|+.+++....++.+....++-.+  .+++|.|++|+||..+|+++...  ++.....|+-+||..... +.....+..
T Consensus       201 ~~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~--S~R~~~pFlalNCA~lPe-~~aEsElFG  277 (511)
T COG3283         201 SGFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLA--SPRHSKPFLALNCASLPE-DAAESELFG  277 (511)
T ss_pred             cchHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhc--CcccCCCeeEeecCCCch-hHhHHHHhc
Confidence            3589999998888888777665432  23999999999999999998665  334456778888876432 232332322


Q ss_pred             HHhc--CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeec-------cccCchh
Q 017884          128 FAST--QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQ-------VNKIIPA  187 (364)
Q Consensus       128 ~~~~--~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~-------~~~l~~~  187 (364)
                      .+..  ....|-+.+.++.+++||+..|++..|..|++++....           .++++|.+|..       ..++...
T Consensus       278 ~apg~~gk~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~lv~~g~fReD  357 (511)
T COG3283         278 HAPGDEGKKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVELVQKGKFRED  357 (511)
T ss_pred             CCCCCCCccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHHHHhcCchHHH
Confidence            2211  01112233467899999999999999999999998532           35666666531       1234445


Q ss_pred             hhccceE--EEecCCCh--HH----HHHHHHHHHHHcC---CCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc--ccC
Q 017884          188 LQSRCTR--FRFAPLEP--VH----VTERLKHVIEAEG---LDVTEGGLAALVRL-CNGDMRKALNILQSTHMAS--QQI  253 (364)
Q Consensus       188 l~sr~~~--i~~~~~~~--~~----~~~~l~~~~~~~~---~~i~~~~~~~l~~~-~~g~~r~a~~~l~~~~~~~--~~i  253 (364)
                      +--|..+  ++++|+.+  ++    ..-++.+.+.+-+   ..++++.+.+|..+ +.||+|++.|.+-+++...  ..+
T Consensus       358 LfyRLNVLtl~~PpLRer~~di~pL~e~Fv~q~s~elg~p~pkl~~~~~~~L~~y~WpGNVRqL~N~iyRA~s~~Eg~~l  437 (511)
T COG3283         358 LFYRLNVLTLNLPPLRERPQDIMPLAELFVQQFSDELGVPRPKLAADLLTVLTRYAWPGNVRQLKNAIYRALTLLEGYEL  437 (511)
T ss_pred             HHHHhheeeecCCccccCcccchHHHHHHHHHHHHHhCCCCCccCHHHHHHHHHcCCCccHHHHHHHHHHHHHHhccCcc
Confidence            5556544  44555543  12    2334555555544   46789999999877 4899999999885555432  344


Q ss_pred             chHHH
Q 017884          254 TEEAV  258 (364)
Q Consensus       254 ~~~~v  258 (364)
                      +.+++
T Consensus       438 ~i~~i  442 (511)
T COG3283         438 RIEDI  442 (511)
T ss_pred             chhhc
Confidence            44444

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.14  E-value=5.5e-11  Score=95.01  Aligned_cols=112  Identities=25%  Similarity=0.337  Sum_probs=71.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccc----cCCccceEEEEEeCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS----FGVKASVKLVLLDEAD  151 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~viiiDe~~  151 (364)
                      +++|+||||+|||++++.+++.+     ...+..++.+.....+.+.....-......+.    ......+.+++|||++
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~-----~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin   75 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL-----GRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEIN   75 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH-----TCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-----hcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcc
Confidence            48999999999999999999998     44555566555443333221110000000000    0011258899999999


Q ss_pred             CCCHHHHHHHHHHHHHhc-------------c------CccEEEEeeccc----cCchhhhccc
Q 017884          152 AMTKDAQFALRRVIEKYT-------------K------NTRFALICNQVN----KIIPALQSRC  192 (364)
Q Consensus       152 ~l~~~~~~~L~~~le~~~-------------~------~~~~Il~~~~~~----~l~~~l~sr~  192 (364)
                      ...++.++.|..++++..             .      +.++|+++|...    .+.+++++||
T Consensus        76 ~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~Rf  139 (139)
T PF07728_consen   76 RAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLDRF  139 (139)
T ss_dssp             G--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHTT-
T ss_pred             cCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHhhC
Confidence            999999999999998521             1      267777887766    7888888886

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.14  E-value=6.3e-10  Score=96.88  Aligned_cols=157  Identities=25%  Similarity=0.358  Sum_probs=104.8

Q ss_pred             CCcchhccHHHHHHHHHHHh-------cCCCC-----c--EEEeCCCCccHHHHHHHHHHHHc----CCCCCCcEEEEeC
Q 017884           51 SLADVAAHRDIVDTIDRLTS-------ENRLP-----H--LLLYGPPGTGKTSTILAVARKLY----GAQYHNMILELNA  112 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~-------~~~~~-----~--lll~G~~G~GKt~la~~l~~~l~----~~~~~~~~~~~~~  112 (364)
                      -|+.++....+++.|..+..       .+..+     +  ++++||||+|||++.+++|+.+.    ...+....+++|+
T Consensus       140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins  219 (423)
T KOG0744|consen  140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS  219 (423)
T ss_pred             hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence            46777777777777766543       11111     1  79999999999999999999873    3345566788876


Q ss_pred             CCC-------C--ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH---------------HHHHHHHHHHHHh
Q 017884          113 SDD-------R--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------------DAQFALRRVIEKY  168 (364)
Q Consensus       113 ~~~-------~--~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~---------------~~~~~L~~~le~~  168 (364)
                      ...       .  -+..+-+.|++.....       +.--.++|||++.+..               ...++++..|+..
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~-------~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrl  292 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDR-------GNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRL  292 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCC-------CcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHh
Confidence            432       1  1223334455544331       1356889999999842               2468888888876


Q ss_pred             ccCc-cEEEEe-eccccCchhhhccc-eEEEecCCChHHHHHHHHHHHH
Q 017884          169 TKNT-RFALIC-NQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIE  214 (364)
Q Consensus       169 ~~~~-~~Il~~-~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~  214 (364)
                      .... ++|++| |-.+.++.++..|+ .+....||+...+.++++....
T Consensus       293 K~~~NvliL~TSNl~~siD~AfVDRADi~~yVG~Pt~~ai~~Ilkscie  341 (423)
T KOG0744|consen  293 KRYPNVLILATSNLTDSIDVAFVDRADIVFYVGPPTAEAIYEILKSCIE  341 (423)
T ss_pred             ccCCCEEEEeccchHHHHHHHhhhHhhheeecCCccHHHHHHHHHHHHH
Confidence            5432 344444 66678999999998 4566788888888888776543

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.13  E-value=1.4e-09  Score=99.64  Aligned_cols=149  Identities=21%  Similarity=0.222  Sum_probs=98.7

Q ss_pred             cchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH------HHHHH
Q 017884           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV------RQQIQ  126 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~------~~~i~  126 (364)
                      ..++|+++++..+...+..+  .|++|.||||+|||++++.+++.+     ...+..+.+.......++      .....
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l-----~~~~~~i~~t~~l~p~d~~G~~~~~~~~~   96 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARAL-----GLPFVRIQCTPDLLPSDLLGTYAYAALLL   96 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHh-----CCCeEEEecCCCCCHHHhcCchhHhhhhc
Confidence            44788888888877777766  579999999999999999999998     356666666554333222      21110


Q ss_pred             --H-H-HhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc----------c-CccEEEEe-e-----ccccCc
Q 017884          127 --D-F-ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT----------K-NTRFALIC-N-----QVNKII  185 (364)
Q Consensus       127 --~-~-~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~----------~-~~~~Il~~-~-----~~~~l~  185 (364)
                        . + ....+. +..  -..++++||+++..+..++.|+..|++..          . ...++++| |     ..+.+.
T Consensus        97 ~~~~~~~~~gpl-~~~--~~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l~  173 (329)
T COG0714          97 EPGEFRFVPGPL-FAA--VRVILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLP  173 (329)
T ss_pred             cCCeEEEecCCc-ccc--cceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCCC
Confidence              0 0 011111 111  11499999999999999999999999721          1 22334444 5     345678


Q ss_pred             hhhhccc-eEEEecCCChHHHHHHHHH
Q 017884          186 PALQSRC-TRFRFAPLEPVHVTERLKH  211 (364)
Q Consensus       186 ~~l~sr~-~~i~~~~~~~~~~~~~l~~  211 (364)
                      +++++|| ..+.+..|+..+...++..
T Consensus       174 eA~ldRf~~~~~v~yp~~~~e~~~i~~  200 (329)
T COG0714         174 EALLDRFLLRIYVDYPDSEEEERIILA  200 (329)
T ss_pred             HHHHhhEEEEEecCCCCchHHHHHHHH
Confidence            9999999 7788877755544444433

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.11  E-value=9e-10  Score=95.44  Aligned_cols=171  Identities=22%  Similarity=0.283  Sum_probs=106.7

Q ss_pred             CCCcchhccHHHHHHHHHHHhc-----------C-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           50 QSLADVAAHRDIVDTIDRLTSE-----------N-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      .+|+.+-|.-..+..|+..+.-           + .+|. ++||||||+|||.++++++..+     +.+++.+.++...
T Consensus       129 ~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~m-----g~nfl~v~ss~lv  203 (388)
T KOG0651|consen  129 ISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATM-----GVNFLKVVSSALV  203 (388)
T ss_pred             cCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhc-----CCceEEeeHhhhh
Confidence            3888888888888887776541           1 2333 7999999999999999999997     5666666544321


Q ss_pred             ------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----ccCccE
Q 017884          117 ------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY-----TKNTRF  174 (364)
Q Consensus       117 ------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~-----~~~~~~  174 (364)
                            ....+++........         .++++++||+|...           ...+..|.++++..     -..+.+
T Consensus       204 ~kyiGEsaRlIRemf~yA~~~---------~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~  274 (388)
T KOG0651|consen  204 DKYIGESARLIRDMFRYAREV---------IPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKT  274 (388)
T ss_pred             hhhcccHHHHHHHHHHHHhhh---------CceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccE
Confidence                  112333333322222         46899999999884           12344555555432     246789


Q ss_pred             EEEeeccccCchhhhccc---eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcCC
Q 017884          175 ALICNQVNKIIPALQSRC---TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       175 Il~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~~~~~l~~~~~g  234 (364)
                      |+++|.++-++++|.+-+   ..+..+-|.......+++-....-  --.|+.+++-.+.+-.+|
T Consensus       275 ImatNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~g  339 (388)
T KOG0651|consen  275 IMATNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNG  339 (388)
T ss_pred             EEecCCccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccCh
Confidence            999999999999998744   335555444444444333222211  114566655555554444

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.10  E-value=1.4e-08  Score=97.88  Aligned_cols=204  Identities=19%  Similarity=0.203  Sum_probs=132.4

Q ss_pred             cchhccHHHHHHHHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHh
Q 017884           53 ADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  130 (364)
                      ..++|.......+...+..  +...++++.|++|+||+++|+++...-..  ....++.+++.... .+.+...+.....
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~~~--~~~~~~~~~c~~~~-~~~~~~~lfg~~~  210 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSPR--ANGPFIALNMAAIP-KDLIESELFGHEK  210 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhCCC--CCCCeEEEeCCCCC-HHHHHHHhcCCCC
Confidence            4577766655555544432  22234899999999999999999886432  24566777776642 2333322211000


Q ss_pred             -----cC--ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------ccCc
Q 017884          131 -----TQ--SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKII  185 (364)
Q Consensus       131 -----~~--~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~l~  185 (364)
                           ..  ....-....++.++|||++.|+...|..|++++++..           .++++|++++..       ..+.
T Consensus       211 ~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f~  290 (463)
T TIGR01818       211 GAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKFR  290 (463)
T ss_pred             CCCCCcccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCcH
Confidence                 00  0000011246789999999999999999999998642           256777777533       1344


Q ss_pred             hhhhccc--eEEEecCCC--hHHHHHHHHHH----HHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc--c
Q 017884          186 PALQSRC--TRFRFAPLE--PVHVTERLKHV----IEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--Q  251 (364)
Q Consensus       186 ~~l~sr~--~~i~~~~~~--~~~~~~~l~~~----~~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~--~  251 (364)
                      +.+..|.  ..++++|+.  .+++..++...    +...+   ..+++++++.|..+. .||+|.+.+.++.+...+  .
T Consensus       291 ~~L~~rl~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~~~  370 (463)
T TIGR01818       291 EDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVMASGD  370 (463)
T ss_pred             HHHHHHhCcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCC
Confidence            5666664  468888887  45666555444    33333   468999999999886 899999999998887654  3


Q ss_pred             cCchHHHH
Q 017884          252 QITEEAVY  259 (364)
Q Consensus       252 ~i~~~~v~  259 (364)
                      .|+.+++.
T Consensus       371 ~i~~~~l~  378 (463)
T TIGR01818       371 EVLVSDLP  378 (463)
T ss_pred             cccHHhch
Confidence            57777764

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.10  E-value=2.3e-09  Score=104.90  Aligned_cols=122  Identities=15%  Similarity=0.203  Sum_probs=80.0

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhc---------------------cCccEEEEeecc--ccCchhhhccce----
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYT---------------------KNTRFALICNQV--NKIIPALQSRCT----  193 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~---------------------~~~~~Il~~~~~--~~l~~~l~sr~~----  193 (364)
                      ++++++|||++.|++..|..|++.|++..                     -++++|++++..  ..+.+.+.+|+.    
T Consensus       226 nGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~~ll~~~dpdL~~rfk~~~v  305 (637)
T PRK13765        226 HKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNLDALENMHPALRSRIKGYGY  305 (637)
T ss_pred             CCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCcCHHHhhhHHHHHHhccCeE
Confidence            56899999999999999999999997432                     245677777653  456788888874    


Q ss_pred             EEEecCCC---hHHHHHHHHHHHHH---c--CCCCCHHHHHHHHHHc---CCC-------HHHHHHHHHHHHHh-----c
Q 017884          194 RFRFAPLE---PVHVTERLKHVIEA---E--GLDVTEGGLAALVRLC---NGD-------MRKALNILQSTHMA-----S  250 (364)
Q Consensus       194 ~i~~~~~~---~~~~~~~l~~~~~~---~--~~~i~~~~~~~l~~~~---~g~-------~r~a~~~l~~~~~~-----~  250 (364)
                      .+.|..-.   ++....++...++.   .  -..++++++..|++++   .|+       .|.+.+++..+...     .
T Consensus       306 ~v~f~~~~~d~~e~~~~~~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~  385 (637)
T PRK13765        306 EVYMRDTMEDTPENRRKLVRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGA  385 (637)
T ss_pred             EEEcccccCCCHHHHHHHHHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhcc
Confidence            35565432   34555555544433   2  2368999999998765   232       55666665543322     2


Q ss_pred             ccCchHHHHHhc
Q 017884          251 QQITEEAVYLCT  262 (364)
Q Consensus       251 ~~i~~~~v~~~~  262 (364)
                      ..++.++|.++.
T Consensus       386 ~~i~~~~v~~a~  397 (637)
T PRK13765        386 ELTTAEHVLEAK  397 (637)
T ss_pred             ceecHHHHHHHH
Confidence            357777776554

>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=99.10  E-value=2.8e-09  Score=95.99  Aligned_cols=184  Identities=16%  Similarity=0.200  Sum_probs=104.1

Q ss_pred             cHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHc-CCCCCCcEEEEeCCCCCChHH-HHHHHHHHHhcCc
Q 017884           58 HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDRGIDV-VRQQIQDFASTQS  133 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~  133 (364)
                      ++..++++.+.+...  ....+.|+|++|+|||++|..+++... ...+ ..++.++......... ....+..+....+
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f-~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRF-DGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCC-TEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccc-cccccccccccccccccccccccccccccc
Confidence            356778888888773  333389999999999999999998732 2222 2333444333222232 2332323222211


Q ss_pred             ccc-C--C------------ccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEec
Q 017884          134 FSF-G--V------------KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (364)
Q Consensus       134 ~~~-~--~------------~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  198 (364)
                      - . .  .            ..++.++|+|+++...  ..+.+...+.....++++|++|... .+..........+++.
T Consensus        80 ~-~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~-~v~~~~~~~~~~~~l~  155 (287)
T PF00931_consen   80 S-ISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDR-SVAGSLGGTDKVIELE  155 (287)
T ss_dssp             T-SSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCG-GGGTTHHSCEEEEECS
T ss_pred             c-cccccccccccccchhhhccccceeeeeeecccc--ccccccccccccccccccccccccc-cccccccccccccccc
Confidence            0 0 0  0            1247899999987654  3444555555455678888888653 3333333336789999


Q ss_pred             CCChHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q 017884          199 PLEPVHVTERLKHVIEAEG---LDVTEGGLAALVRLCNGDMRKALNILQST  246 (364)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~---~~i~~~~~~~l~~~~~g~~r~a~~~l~~~  246 (364)
                      +++.++..+++...+....   ..-.++....|++.++|.|-.+.-....+
T Consensus       156 ~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l  206 (287)
T PF00931_consen  156 PLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYL  206 (287)
T ss_dssp             S--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999998875443   12224567889999998776655544444

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.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.08  E-value=1.4e-10  Score=95.33  Aligned_cols=104  Identities=26%  Similarity=0.313  Sum_probs=67.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~  154 (364)
                      .+++|.||+|+|||.+|+++++.+.. +....++.++++.....+.....+.......+. ........||++||+|+..
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~~-~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~-~v~~~~~gVVllDEidKa~   81 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLFV-GSERPLIRIDMSEYSEGDDVESSVSKLLGSPPG-YVGAEEGGVVLLDEIDKAH   81 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT--SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTC-HHHHHHHTEEEEETGGGCS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcc-CCccchHHHhhhcccccchHHhhhhhhhhcccc-eeeccchhhhhhHHHhhcc
Confidence            34899999999999999999999962 223456667766544422211112221111111 1111134599999999999


Q ss_pred             H-----------HHHHHHHHHHHHh-----------ccCccEEEEeec
Q 017884          155 K-----------DAQFALRRVIEKY-----------TKNTRFALICNQ  180 (364)
Q Consensus       155 ~-----------~~~~~L~~~le~~-----------~~~~~~Il~~~~  180 (364)
                      +           ..++.|++++++.           ..++.||+++|-
T Consensus        82 ~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~  129 (171)
T PF07724_consen   82 PSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNF  129 (171)
T ss_dssp             HTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESS
T ss_pred             ccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccc
Confidence            9           9999999999973           245667777764

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.07  E-value=4.1e-09  Score=103.30  Aligned_cols=196  Identities=15%  Similarity=0.133  Sum_probs=116.2

Q ss_pred             HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC--CCC--CChHHHHHHHHHHHhcC-ccccC
Q 017884           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA--SDD--RGIDVVRQQIQDFASTQ-SFSFG  137 (364)
Q Consensus        63 ~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~--~~~--~~~~~~~~~i~~~~~~~-~~~~~  137 (364)
                      ..|.-..-+....|++|.|++|+|||++++.+++.+...   ..++.+..  +..  .+.-.+...+..-.... +-.+.
T Consensus         5 ~Al~l~av~p~~g~vLl~G~~GtgKs~lar~l~~~~~~~---~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~   81 (589)
T TIGR02031         5 LALTLLAVDPSLGGVAIRARAGTGKTALARALAEILPPI---MPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLD   81 (589)
T ss_pred             HHHHHhccCCCcceEEEEcCCCcHHHHHHHHHHHhCCcC---CCeEecCcccchhhcccchhhhhhhhcCcccCCCCCee
Confidence            333333445557789999999999999999999986431   12344332  111  01101111111000000 00011


Q ss_pred             CccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-------------cCccEEEEeeccc---cCchhhhccc-eEEEecCC
Q 017884          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRC-TRFRFAPL  200 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-------------~~~~~Il~~~~~~---~l~~~l~sr~-~~i~~~~~  200 (364)
                       ..++++++|||++.+++..++.|+..|++..             ..+.+|.++|...   .+.+.+..|+ ..+.+..+
T Consensus        82 -~A~~GvL~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~  160 (589)
T TIGR02031        82 -EAPRGVLYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDV  160 (589)
T ss_pred             -eCCCCcEeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHHhccCeeecCCC
Confidence             1256799999999999999999999998642             3455665555443   6788899997 33444433


Q ss_pred             -ChHHHHHHHHHHH---------------------H--HcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHh---
Q 017884          201 -EPVHVTERLKHVI---------------------E--AEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTHMA---  249 (364)
Q Consensus       201 -~~~~~~~~l~~~~---------------------~--~~~~~i~~~~~~~l~~~~---~g-~~r~a~~~l~~~~~~---  249 (364)
                       +.++..+++....                     +  ...+.++++.+++|+..+   +- .+|..+..+..+...   
T Consensus       161 ~~~~er~eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal  240 (589)
T TIGR02031       161 ASQDLRVEIVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAAL  240 (589)
T ss_pred             CCHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHH
Confidence             3444444443321                     1  135678999998888775   32 367777666544332   


Q ss_pred             --cccCchHHHHHhc
Q 017884          250 --SQQITEEAVYLCT  262 (364)
Q Consensus       250 --~~~i~~~~v~~~~  262 (364)
                        ...++.+||..++
T Consensus       241 ~gr~~V~~~Dv~~a~  255 (589)
T TIGR02031       241 HGRTEVTEEDLKLAV  255 (589)
T ss_pred             hCCCCCCHHHHHHHH
Confidence              2478888887654

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>smart00350 MCM minichromosome maintenance proteins

Probab=99.07  E-value=3.4e-09  Score=102.52  Aligned_cols=153  Identities=23%  Similarity=0.280  Sum_probs=92.2

Q ss_pred             chhccHHHHHHHHHHHhcCCC------------CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh--H
Q 017884           54 DVAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI--D  119 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~~~~------------~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~--~  119 (364)
                      .+.|++.++..+.-.+-+|..            .|+||+|+||+|||++++.+++.....    .+.........+.  .
T Consensus       204 ~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~----~~~~~~~~~~~~l~~~  279 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRA----VYTTGKGSSAVGLTAA  279 (509)
T ss_pred             cccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcc----eEcCCCCCCcCCcccc
Confidence            467888877766666655421            279999999999999999999875211    1111000110000  0


Q ss_pred             HHHHHHH-HH-HhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-------------cCccEEEEeeccc--
Q 017884          120 VVRQQIQ-DF-ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQVN--  182 (364)
Q Consensus       120 ~~~~~i~-~~-~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-------------~~~~~Il~~~~~~--  182 (364)
                      .+++... .+ ...... .  .+++++++|||++.+.+..+..|++.|++..             ..+.+|.++|...  
T Consensus       280 ~~~~~~~g~~~~~~G~l-~--~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~  356 (509)
T smart00350      280 VTRDPETREFTLEGGAL-V--LADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGR  356 (509)
T ss_pred             ceEccCcceEEecCccE-E--ecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcc
Confidence            0011000 00 000011 1  1247899999999999999999999998642             4566777776542  


Q ss_pred             -----------cCchhhhccc-eEEEe-cCCChHHHHHHHHHHH
Q 017884          183 -----------KIIPALQSRC-TRFRF-APLEPVHVTERLKHVI  213 (364)
Q Consensus       183 -----------~l~~~l~sr~-~~i~~-~~~~~~~~~~~l~~~~  213 (364)
                                 .+.+++.+|| .++.+ .+++.+.-.+++..+.
T Consensus       357 y~~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~  400 (509)
T smart00350      357 YDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVV  400 (509)
T ss_pred             cCCCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHH
Confidence                       5888999999 44344 4555555555555543

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=99.07  E-value=1.7e-09  Score=88.69  Aligned_cols=123  Identities=15%  Similarity=0.176  Sum_probs=77.1

Q ss_pred             hhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcC
Q 017884           55 VAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ  132 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  132 (364)
                      ++|....+..+.+.++.-  ...+++|+|++|+||+.+|+++.+.-  ......++.+|+... ..+.+...+.......
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s--~r~~~pfi~vnc~~~-~~~~~e~~LFG~~~~~   77 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS--PRKNGPFISVNCAAL-PEELLESELFGHEKGA   77 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS--TTTTS-EEEEETTTS--HHHHHHHHHEBCSSS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh--hcccCCeEEEehhhh-hcchhhhhhhcccccc
Confidence            467667777666666542  22459999999999999999999843  223467889999864 2233333332211100


Q ss_pred             cc-------ccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeec
Q 017884          133 SF-------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQ  180 (364)
Q Consensus       133 ~~-------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~  180 (364)
                      ..       ..-..+.+++++|||++.|+...|..|+++|++.           +.++++|++|+.
T Consensus        78 ~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~  143 (168)
T PF00158_consen   78 FTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK  143 (168)
T ss_dssp             STTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred             ccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence            00       0001135789999999999999999999999963           246778888763

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PRK12377 putative replication protein; Provisional

Probab=99.04  E-value=1.1e-09  Score=95.21  Aligned_cols=124  Identities=22%  Similarity=0.351  Sum_probs=75.8

Q ss_pred             cCCCCCcchhc----cHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           47 YRPQSLADVAA----HRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        47 ~~p~~~~~~vg----~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      ++..+|+.+..    +..++......+..-  ...+++|+||||+|||+++.++++.+...+...  ..++..+  -...
T Consensus        68 ~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v--~~i~~~~--l~~~  143 (248)
T PRK12377         68 HRKCSFANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSV--IVVTVPD--VMSR  143 (248)
T ss_pred             cccCCcCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCe--EEEEHHH--HHHH
Confidence            44456777753    333455444444421  234699999999999999999999987655443  3333221  1111


Q ss_pred             HHHHH------HHHHhcCccccCCccceEEEEEeCC--CCCCHHHHHHHHHHHHHhcc-CccEEEEeecc
Q 017884          121 VRQQI------QDFASTQSFSFGVKASVKLVLLDEA--DAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (364)
Q Consensus       121 ~~~~i------~~~~~~~~~~~~~~~~~~viiiDe~--~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~  181 (364)
                      +....      ......    +   ....+|+|||+  +..++..++.|..+++.... ....|++||..
T Consensus       144 l~~~~~~~~~~~~~l~~----l---~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl~  206 (248)
T PRK12377        144 LHESYDNGQSGEKFLQE----L---CKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNLN  206 (248)
T ss_pred             HHHHHhccchHHHHHHH----h---cCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence            11110      011111    1   14779999999  55577788899999998665 35678888743

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=99.03  E-value=2.5e-10  Score=87.13  Aligned_cols=111  Identities=26%  Similarity=0.269  Sum_probs=57.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH-HHH-HHhcCccccCCccceEEEEEeCCCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-IQD-FASTQSFSFGVKASVKLVLLDEADAM  153 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-i~~-~~~~~~~~~~~~~~~~viiiDe~~~l  153 (364)
                      |++|+|+||+|||++++++++.+.     ..+..+..+...-..++... +.+ ......+..++. -..++++||+.+.
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~-----~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPi-f~~ill~DEiNra   74 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLG-----LSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPI-FTNILLADEINRA   74 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT-------EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT--SSEEEEETGGGS
T ss_pred             CEeeECCCccHHHHHHHHHHHHcC-----CceeEEEecCCCCcccceeeeeeccCCCeeEeecChh-hhceeeecccccC
Confidence            789999999999999999999973     34444444332222222210 000 000000000000 1349999999999


Q ss_pred             CHHHHHHHHHHHHHhc----------cCccEEEEe-eccc-----cCchhhhccc
Q 017884          154 TKDAQFALRRVIEKYT----------KNTRFALIC-NQVN-----KIIPALQSRC  192 (364)
Q Consensus       154 ~~~~~~~L~~~le~~~----------~~~~~Il~~-~~~~-----~l~~~l~sr~  192 (364)
                      ++..|.+|++.|++..          +...+|++| |..+     .+++++.+|+
T Consensus        75 ppktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~DRF  129 (131)
T PF07726_consen   75 PPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLDRF  129 (131)
T ss_dssp             -HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHTTS
T ss_pred             CHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhccc
Confidence            9999999999999853          233455555 4332     5666777775

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=99.02  E-value=5.7e-09  Score=90.26  Aligned_cols=174  Identities=19%  Similarity=0.256  Sum_probs=109.2

Q ss_pred             hhccHHHHHHHHHHH----hcCC--CCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE-----EeCCCCCChHHHH
Q 017884           55 VAAHRDIVDTIDRLT----SENR--LPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE-----LNASDDRGIDVVR  122 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~----~~~~--~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~-----~~~~~~~~~~~~~  122 (364)
                      +.||.-+++.+.+.+    .++.  .|- +-|+|++||||+.+++.+++.++..+....++.     .+.+....++..+
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Yk  163 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDYK  163 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHHH
Confidence            456555555444444    4433  222 689999999999999999999987665443332     2233333445555


Q ss_pred             HHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-------cCccEEEEeeccccCch---------
Q 017884          123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------KNTRFALICNQVNKIIP---------  186 (364)
Q Consensus       123 ~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-------~~~~~Il~~~~~~~l~~---------  186 (364)
                      ..+.........    ...+.+.|+||+|.|.+...+.|...++.++       ..+.|||.+|.......         
T Consensus       164 ~eL~~~v~~~v~----~C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg~eI~~~aL~~~~~  239 (344)
T KOG2170|consen  164 EELKNRVRGTVQ----ACQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGGSEIARIALENARN  239 (344)
T ss_pred             HHHHHHHHHHHH----hcCCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCcchHHHHHHHHHHHc
Confidence            444443222110    1147799999999999999999999998654       35678888863321111         


Q ss_pred             --------------hhh-------------cc-------ceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Q 017884          187 --------------ALQ-------------SR-------CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC  232 (364)
Q Consensus       187 --------------~l~-------------sr-------~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~  232 (364)
                                    .+.             ++       -..|.|.|++...++..++....++|...+.+.++.+++..
T Consensus       240 g~~re~~~l~~~E~~L~~~~~n~~~~Gl~~S~li~~~lid~fIPFLPLek~hV~~C~r~el~~rg~~~d~~~~erva~~l  319 (344)
T KOG2170|consen  240 GKPREQLRLKSFEPALMQSAFNEKAGGLVHSRLISNNLIDHFIPFLPLEKRHVRSCIRAELRKRGLAPDQDFVERVANSL  319 (344)
T ss_pred             CCCcccchhhhhhHHHHHhhhccccccccccccchhhHHhhccCcCcccHHHHHHHHHHHHHhcccccchHHHHHHHHhh
Confidence                          110             00       02366777777777777777777777777777777766543

>TIGR00368 Mg chelatase-related protein

Probab=98.98  E-value=1.9e-08  Score=96.21  Aligned_cols=151  Identities=20%  Similarity=0.180  Sum_probs=95.2

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC-ChH---------
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-GID---------  119 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-~~~---------  119 (364)
                      ..|+++.|+..++..+...+..+  .+++|.||+|+|||++++.+...+.... ....++....... +..         
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~~g--~~vlliG~pGsGKTtlar~l~~llp~~~-~~~~le~~~i~s~~g~~~~~~~~~~~  265 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAAGG--HNLLLFGPPGSGKTMLASRLQGILPPLT-NEEAIETARIWSLVGKLIDRKQIKQR  265 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhccCC--CEEEEEecCCCCHHHHHHHHhcccCCCC-CcEEEeccccccchhhhccccccccC
Confidence            47999999999988887777655  4699999999999999999987653221 1112221111000 000         


Q ss_pred             ---------HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEE
Q 017884          120 ---------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALI  177 (364)
Q Consensus       120 ---------~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~  177 (364)
                               .....+...... ....-...++++++|||++.+.+..++.|+..|+..             +.++.+|.+
T Consensus       266 Pf~~p~~s~s~~~~~ggg~~~-~pG~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa  344 (499)
T TIGR00368       266 PFRSPHHSASKPALVGGGPIP-LPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAA  344 (499)
T ss_pred             CccccccccchhhhhCCcccc-chhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEe
Confidence                     000000000000 000001224789999999999999999999999864             345677777


Q ss_pred             eecc-----------------------ccCchhhhccc-eEEEecCCChHH
Q 017884          178 CNQV-----------------------NKIIPALQSRC-TRFRFAPLEPVH  204 (364)
Q Consensus       178 ~~~~-----------------------~~l~~~l~sr~-~~i~~~~~~~~~  204 (364)
                      +|.-                       .++..+|.+|+ ..+.+++++..+
T Consensus       345 ~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~~  395 (499)
T TIGR00368       345 MNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPEK  395 (499)
T ss_pred             cCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHHH
Confidence            7642                       15788899998 567777775543

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PF13173 AAA_14: AAA domain

Probab=98.97  E-value=4.9e-09  Score=82.37  Aligned_cols=119  Identities=24%  Similarity=0.335  Sum_probs=77.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH-HHHHHHHhcCccccCCccceEEEEEeCCCCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-QQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~  154 (364)
                      .++|+||.|+|||++++.+++.+.   ....++.++..+........ +....+....    ..  +..+|+|||++.+.
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~----~~--~~~~i~iDEiq~~~   74 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLELI----KP--GKKYIFIDEIQYLP   74 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHhh----cc--CCcEEEEehhhhhc
Confidence            479999999999999999999874   23455566655432211100 0111122211    11  46899999999996


Q ss_pred             HHHHHHHHHHHHHhccCccEEEEeeccc----cCchhhhccceEEEecCCChHHH
Q 017884          155 KDAQFALRRVIEKYTKNTRFALICNQVN----KIIPALQSRCTRFRFAPLEPVHV  205 (364)
Q Consensus       155 ~~~~~~L~~~le~~~~~~~~Il~~~~~~----~l~~~l~sr~~~i~~~~~~~~~~  205 (364)
                       +....+..+.+.. .+..+|++++...    .....+..|...+++.|++..|.
T Consensus        75 -~~~~~lk~l~d~~-~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   75 -DWEDALKFLVDNG-PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             -cHHHHHHHHHHhc-cCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence             4566666666655 5677888775443    34456777888999999998764

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.97  E-value=1.5e-08  Score=88.27  Aligned_cols=168  Identities=21%  Similarity=0.327  Sum_probs=105.6

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~  150 (364)
                      .++++.||+|+|||.+|+.+|+.+.     ..|.--+++..    .-.+++.+.+....+...+.. ..+.+++|+|||+
T Consensus        98 SNILLiGPTGsGKTlLAqTLAk~Ln-----VPFaiADATtLTEAGYVGEDVENillkLlqaadydV-~rAerGIIyIDEI  171 (408)
T COG1219          98 SNILLIGPTGSGKTLLAQTLAKILN-----VPFAIADATTLTEAGYVGEDVENILLKLLQAADYDV-ERAERGIIYIDEI  171 (408)
T ss_pred             ccEEEECCCCCcHHHHHHHHHHHhC-----CCeeeccccchhhccccchhHHHHHHHHHHHcccCH-HHHhCCeEEEech
Confidence            4599999999999999999999983     33322233221    122445555555555444321 2235889999999


Q ss_pred             CCCC--------------HHHHHHHHHHHHHh-----c--------------cCccEEEEee------------------
Q 017884          151 DAMT--------------KDAQFALRRVIEKY-----T--------------KNTRFALICN------------------  179 (364)
Q Consensus       151 ~~l~--------------~~~~~~L~~~le~~-----~--------------~~~~~Il~~~------------------  179 (364)
                      |.+.              +..|.+|++++|..     |              .+..++|++-                  
T Consensus       172 DKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKHP~Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~~  251 (408)
T COG1219         172 DKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKG  251 (408)
T ss_pred             hhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCCCccceEEEcccceeEEeccccccHHHHHHHhccCCc
Confidence            9995              34699999999952     1              2233455541                  


Q ss_pred             ------c-----------------c-----ccCchhhhccc-eEEEecCCChHHHHHHHHH-----------HHHHcCC-
Q 017884          180 ------Q-----------------V-----NKIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEGL-  218 (364)
Q Consensus       180 ------~-----------------~-----~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~~-  218 (364)
                            .                 +     .-+.|.+.-|. .+..+.+++.+.+.++|..           .+...++ 
T Consensus       252 iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGRlPvia~L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~  331 (408)
T COG1219         252 IGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGVE  331 (408)
T ss_pred             ccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhcccceeeehhhcCHHHHHHHHhcccHHHHHHHHHHhcccCce
Confidence                  0                 0     02455566665 4567888888888887754           1222333 


Q ss_pred             -CCCHHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q 017884          219 -DVTEGGLAALVRLC---NGDMRKALNILQSTHM  248 (364)
Q Consensus       219 -~i~~~~~~~l~~~~---~g~~r~a~~~l~~~~~  248 (364)
                       .++++++..+++.+   ..-.|.+...++.+..
T Consensus       332 L~F~~~AL~~IA~~A~~rkTGARGLRsI~E~~ll  365 (408)
T COG1219         332 LEFTEEALKAIAKKAIERKTGARGLRSIIEELLL  365 (408)
T ss_pred             EEEcHHHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence             56899999888775   3335666666665543

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.97  E-value=9.3e-08  Score=91.58  Aligned_cols=203  Identities=16%  Similarity=0.156  Sum_probs=125.2

Q ss_pred             hhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcC
Q 017884           55 VAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ  132 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  132 (364)
                      ++|.......+...+..-  ...+++++|++|+||+++++++.....  .....++.+++.... ...+...+.......
T Consensus       141 lig~s~~~~~~~~~i~~~~~~~~~vli~ge~g~gk~~~a~~ih~~s~--~~~~~~i~~~c~~~~-~~~~~~~lfg~~~~~  217 (441)
T PRK10365        141 MVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSA--RSEKPLVTLNCAALN-ESLLESELFGHEKGA  217 (441)
T ss_pred             eEecCHHHHHHHHHHhhccCCCCeEEEEecCCCCHHHHHHHHHHcCC--CCCCCeeeeeCCCCC-HHHHHHHhcCCCCCC
Confidence            455444444443333221  223389999999999999999987642  234567788887643 233333322111000


Q ss_pred             -------ccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeeccc-------cCchh
Q 017884          133 -------SFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KIIPA  187 (364)
Q Consensus       133 -------~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~~-------~l~~~  187 (364)
                             ....-....+++++|||++.|+...|..|+.++++..           .++++|++++...       .+.+.
T Consensus       218 ~~~~~~~~~g~~~~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~~~~~~~~~~  297 (441)
T PRK10365        218 FTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQD  297 (441)
T ss_pred             cCCCCcCCCCceeECCCCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchHH
Confidence                   0000112357899999999999999999999998642           2456777774321       23334


Q ss_pred             hhccc--eEEEecCCCh--HHHHHHHHHH----HHHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc--ccC
Q 017884          188 LQSRC--TRFRFAPLEP--VHVTERLKHV----IEAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--QQI  253 (364)
Q Consensus       188 l~sr~--~~i~~~~~~~--~~~~~~l~~~----~~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~--~~i  253 (364)
                      +..|+  ..+.+||+.+  +++..++...    +.+.+   ..+++++++.|..+. +||+|.+.+.++.+....  ..|
T Consensus       298 l~~~l~~~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~~~~~~i  377 (441)
T PRK10365        298 LYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEYI  377 (441)
T ss_pred             HHHHhccceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCcc
Confidence            44444  4466666654  2444443333    33223   358999999999887 999999999999876543  367


Q ss_pred             chHHHHH
Q 017884          254 TEEAVYL  260 (364)
Q Consensus       254 ~~~~v~~  260 (364)
                      +.+++..
T Consensus       378 ~~~~l~~  384 (441)
T PRK10365        378 SERELPL  384 (441)
T ss_pred             chHhCch
Confidence            7777643

>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []

Probab=98.96  E-value=2.2e-08  Score=73.21  Aligned_cols=87  Identities=31%  Similarity=0.545  Sum_probs=77.4

Q ss_pred             CChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHH
Q 017884          265 PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQ  344 (364)
Q Consensus       265 ~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~  344 (364)
                      +.+..+.++++.+.++++.++...+.+++ ..|+++.+++..+++.+....+++....+++..++++|+++..|+++.+|
T Consensus         3 p~~~~i~~i~~~~~~~~~~~~~~~~~~l~-~~G~s~~~Il~~l~~~l~~~~~~~~~k~~i~~~la~~e~rl~~G~~e~lQ   81 (89)
T PF08542_consen    3 PPPEVIEEILESCLNGDFKEARKKLYELL-VEGYSASDILKQLHEVLVESDIPDSQKAEILKILAEIEYRLSDGASEILQ   81 (89)
T ss_dssp             --HHHHHHHHHHHHHTCHHHHHHHHHHHH-HTT--HHHHHHHHHHHHHTSTSSHHHHHHHHHHHHHHHHHHHTTC-HHHH
T ss_pred             CCHHHHHHHHHHHHhCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhHHHHCCCCHHHH
Confidence            45678899999999999999999999999 55999999999999999988888999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 017884          345 LGSIISTF  352 (364)
Q Consensus       345 l~~l~~~l  352 (364)
                      |+++++++
T Consensus        82 l~alva~~   89 (89)
T PF08542_consen   82 LEALVAAF   89 (89)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhhC
Confidence            99999875

PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.

>PRK06526 transposase; Provisional

Probab=98.96  E-value=2.2e-09  Score=94.00  Aligned_cols=121  Identities=14%  Similarity=0.183  Sum_probs=71.9

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc--ccCCccceEEEEEeCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF--SFGVKASVKLVLLDEADA  152 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~--~~~~~~~~~viiiDe~~~  152 (364)
                      .+++|+||+|+|||+++.+++.++...+....+  .+.      ..+.+.+.........  .+....+..+|||||++.
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f--~t~------~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~  170 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLF--ATA------AQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGY  170 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhh--hhH------HHHHHHHHHHHhcCcHHHHHHHhccCCEEEEccccc
Confidence            569999999999999999999987655443322  211      1111111110000000  000011367999999998


Q ss_pred             CC--HHHHHHHHHHHHHhccCccEEEEeecccc--------------CchhhhccceEEEecCCChH
Q 017884          153 MT--KDAQFALRRVIEKYTKNTRFALICNQVNK--------------IIPALQSRCTRFRFAPLEPV  203 (364)
Q Consensus       153 l~--~~~~~~L~~~le~~~~~~~~Il~~~~~~~--------------l~~~l~sr~~~i~~~~~~~~  203 (364)
                      +.  +..++.|+.+++.......+|++||.+..              +...|..+|.++.|...+..
T Consensus       171 ~~~~~~~~~~L~~li~~r~~~~s~IitSn~~~~~w~~~~~d~~~a~ai~dRl~~~~~~i~~~g~s~R  237 (254)
T PRK06526        171 IPFEPEAANLFFQLVSSRYERASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHAEVISLKGDSYR  237 (254)
T ss_pred             CCCCHHHHHHHHHHHHHHHhcCCEEEEcCCCHHHHHHHcCChHHHHHHHHHHhcCceEEeecCCCcc
Confidence            74  66677889998875555678888875431              12233334677777765543

>PRK08181 transposase; Validated

Probab=98.96  E-value=7e-09  Score=91.37  Aligned_cols=106  Identities=22%  Similarity=0.309  Sum_probs=65.8

Q ss_pred             HHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc--ccCCccceE
Q 017884           66 DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF--SFGVKASVK  143 (364)
Q Consensus        66 ~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~--~~~~~~~~~  143 (364)
                      ..|+..+  .+++|+||+|+|||+++.++++++...+...  +.++..      .+...+.........  .+.......
T Consensus       100 ~~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v--~f~~~~------~L~~~l~~a~~~~~~~~~l~~l~~~d  169 (269)
T PRK08181        100 DSWLAKG--ANLLLFGPPGGGKSHLAAAIGLALIENGWRV--LFTRTT------DLVQKLQVARRELQLESAIAKLDKFD  169 (269)
T ss_pred             HHHHhcC--ceEEEEecCCCcHHHHHHHHHHHHHHcCCce--eeeeHH------HHHHHHHHHHhCCcHHHHHHHHhcCC
Confidence            3566544  5699999999999999999999886555433  333321      122212111000000  000011467


Q ss_pred             EEEEeCCCCCC--HHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          144 LVLLDEADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       144 viiiDe~~~l~--~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      ++||||++...  ...+..|+.+++.......+|++||.+
T Consensus       170 LLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        170 LLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             EEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            99999998875  445678999998766566788888754

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.95  E-value=3.6e-08  Score=94.28  Aligned_cols=156  Identities=19%  Similarity=0.266  Sum_probs=107.2

Q ss_pred             CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC--hHHHHHHHHHH-HhcCccccCCccceEEEEEeC
Q 017884           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--IDVVRQQIQDF-ASTQSFSFGVKASVKLVLLDE  149 (364)
Q Consensus        73 ~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~i~~~-~~~~~~~~~~~~~~~viiiDe  149 (364)
                      +.++++|+||+|+|||.+++++++.+. ......+..++++...+  .+.+...+... .+....      .+.||++|+
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~------~PSiIvLDd  502 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWY------APSIIVLDD  502 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHHHHHHHHhh------CCcEEEEcc
Confidence            345699999999999999999999986 33445555567765433  44444444442 222222      478999999


Q ss_pred             CCCCCHH----------H---H-HHHHHHHHHhcc---CccEEEEeeccccCchhhhcc--c-eEEEecCCChHHHHHHH
Q 017884          150 ADAMTKD----------A---Q-FALRRVIEKYTK---NTRFALICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERL  209 (364)
Q Consensus       150 ~~~l~~~----------~---~-~~L~~~le~~~~---~~~~Il~~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l  209 (364)
                      +|.+...          .   . ..|...+..+..   ...+|++++....+.+.|.+.  + .++.+++|...+..++|
T Consensus       503 ld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL  582 (952)
T KOG0735|consen  503 LDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEIL  582 (952)
T ss_pred             hhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHHH
Confidence            9998530          1   1 122244444332   234555666666777777663  4 46889999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHcCCC
Q 017884          210 KHVIEAEGLDVTEGGLAALVRLCNGD  235 (364)
Q Consensus       210 ~~~~~~~~~~i~~~~~~~l~~~~~g~  235 (364)
                      +..+.+....+..+.++.++..++|-
T Consensus       583 ~~~~s~~~~~~~~~dLd~ls~~TEGy  608 (952)
T KOG0735|consen  583 TTIFSKNLSDITMDDLDFLSVKTEGY  608 (952)
T ss_pred             HHHHHhhhhhhhhHHHHHHHHhcCCc
Confidence            99999887777888899999999774

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.95  E-value=2.2e-09  Score=85.47  Aligned_cols=126  Identities=18%  Similarity=0.238  Sum_probs=76.3

Q ss_pred             hccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCc
Q 017884           56 AAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  133 (364)
                      ||....++.+++.+..-  ...+++|+|++|+||+++|+.++..-..  ....++.+++....     .+.+...     
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~--~~~~~~~~~~~~~~-----~~~l~~a-----   68 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGR--ANGPFIVIDCASLP-----AELLEQA-----   68 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTT--CCS-CCCCCHHCTC-----HHHHHHC-----
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCc--cCCCeEEechhhCc-----HHHHHHc-----
Confidence            35555666666665532  2244999999999999999999886422  12222223332211     1122221     


Q ss_pred             cccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-ccCccEEEEeeccc-------cCchhhhccc--eEEEecCC
Q 017884          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-TKNTRFALICNQVN-------KIIPALQSRC--TRFRFAPL  200 (364)
Q Consensus       134 ~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-~~~~~~Il~~~~~~-------~l~~~l~sr~--~~i~~~~~  200 (364)
                             .++.++|+|++.++.+.|..|..+++.. ..++++|+++...-       .+.+.+-.|.  ..+.+||+
T Consensus        69 -------~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~l~~l~~~~~~~~~L~~~l~~~~i~lPpL  138 (138)
T PF14532_consen   69 -------KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQDLEELVEEGRFSPDLYYRLSQLEIHLPPL  138 (138)
T ss_dssp             -------TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-CCCHHHHSTHHHHHHHHCSTCEEEE---
T ss_pred             -------CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCCHHHHhhccchhHHHHHHhCCCEEeCCCC
Confidence                   3669999999999999999999999975 56788888885332       3444555553  45666553

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.94  E-value=1.6e-08  Score=101.01  Aligned_cols=143  Identities=18%  Similarity=0.224  Sum_probs=84.4

Q ss_pred             chhccHHHHHHHHHHHhcCC---------------------CCcEEEeCCCCccHHHHHHHHHHHHcCCCC--CCcEEEE
Q 017884           54 DVAAHRDIVDTIDRLTSENR---------------------LPHLLLYGPPGTGKTSTILAVARKLYGAQY--HNMILEL  110 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~~~---------------------~~~lll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~~~  110 (364)
                      .+.|++.++..+.-.+-+|.                     ..|+||.|+||+|||.+++.+++......+  +..+..+
T Consensus       451 ~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~v  530 (915)
T PTZ00111        451 SIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSV  530 (915)
T ss_pred             eEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccc
Confidence            46788888887655554332                     116999999999999999999885321110  0011111


Q ss_pred             eCCCCCChHHHHHHH-HHHH-hcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-------------cCccEE
Q 017884          111 NASDDRGIDVVRQQI-QDFA-STQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFA  175 (364)
Q Consensus       111 ~~~~~~~~~~~~~~i-~~~~-~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-------------~~~~~I  175 (364)
                      +....   ....+.. ..+. ..-.+   ..+.+++++|||++.|+...|..|+++|++..             ..+.+|
T Consensus       531 gLTa~---~~~~d~~tG~~~le~GaL---vlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVI  604 (915)
T PTZ00111        531 GLTAS---IKFNESDNGRAMIQPGAV---VLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAIL  604 (915)
T ss_pred             cccch---hhhcccccCcccccCCcE---EEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeEEE
Confidence            11110   0000000 0000 00001   01247899999999999999999999998642             467777


Q ss_pred             EEeeccc-------------cCchhhhccceE--EEecCCCh
Q 017884          176 LICNQVN-------------KIIPALQSRCTR--FRFAPLEP  202 (364)
Q Consensus       176 l~~~~~~-------------~l~~~l~sr~~~--i~~~~~~~  202 (364)
                      .++|+..             .++++|.|||..  +-+..+++
T Consensus       605 AAaNP~~gryd~~~s~~eni~Lp~~LLSRFDLIf~l~D~~d~  646 (915)
T PTZ00111        605 ASCNPINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHIDQ  646 (915)
T ss_pred             EEcCCcccccCcccCcccccCCChHHhhhhcEEEEecCCCCh
Confidence            7776531             577899999833  33344443

>PRK08116 hypothetical protein; Validated

Probab=98.92  E-value=1.2e-08  Score=90.33  Aligned_cols=147  Identities=18%  Similarity=0.229  Sum_probs=86.9

Q ss_pred             hccCCCCCcchhcc---HHHHHHHHHHHhc----CC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           45 EKYRPQSLADVAAH---RDIVDTIDRLTSE----NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        45 ~~~~p~~~~~~vg~---~~~~~~l~~~~~~----~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      .+++-.+|+.+...   ..++...+..+.+    .. ...++|+|++|+|||+++.++++.+...+  ..++.++.... 
T Consensus        77 ~~~~~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~--~~v~~~~~~~l-  153 (268)
T PRK08116         77 EKFRNSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKG--VPVIFVNFPQL-  153 (268)
T ss_pred             HHHHhcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEHHHH-
Confidence            34555567766542   2233444444432    11 12399999999999999999999986553  33444443210 


Q ss_pred             ChHHHHHHH--------HHHHhcCccccCCccceEEEEEeCC--CCCCHHHHHHHHHHHHHhc-cCccEEEEeeccc---
Q 017884          117 GIDVVRQQI--------QDFASTQSFSFGVKASVKLVLLDEA--DAMTKDAQFALRRVIEKYT-KNTRFALICNQVN---  182 (364)
Q Consensus       117 ~~~~~~~~i--------~~~~~~~~~~~~~~~~~~viiiDe~--~~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~---  182 (364)
                       ...+....        ..+...    +.   ...+|+|||+  +..++..+..|+.+++... ....+|++||...   
T Consensus       154 -l~~i~~~~~~~~~~~~~~~~~~----l~---~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~~~eL  225 (268)
T PRK08116        154 -LNRIKSTYKSSGKEDENEIIRS----LV---NADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLSLEEL  225 (268)
T ss_pred             -HHHHHHHHhccccccHHHHHHH----hc---CCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHH
Confidence             11111100        011111    11   3569999999  5567777888999998753 4456888887543   


Q ss_pred             --cCchhhhcc----ceEEEecCCCh
Q 017884          183 --KIIPALQSR----CTRFRFAPLEP  202 (364)
Q Consensus       183 --~l~~~l~sr----~~~i~~~~~~~  202 (364)
                        .+...+.+|    |..+.|..++.
T Consensus       226 ~~~~~~ri~sRl~e~~~~v~~~g~d~  251 (268)
T PRK08116        226 KNQYGKRIYDRILEMCTPVENEGKSY  251 (268)
T ss_pred             HHHHhHHHHHHHHHcCEEEEeeCcCh
Confidence              134566676    67788876653

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.92  E-value=4.6e-08  Score=88.56  Aligned_cols=92  Identities=11%  Similarity=0.019  Sum_probs=64.4

Q ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------ccCchhhhccceEEEecCCC
Q 017884          140 ASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKIIPALQSRCTRFRFAPLE  201 (364)
Q Consensus       140 ~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~l~~~l~sr~~~i~~~~~~  201 (364)
                      +.++++-++|+.....+.++.|+.++++..           .+..+|.++|..       .+..+++++||..+.++-+.
T Consensus       235 aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~~~~~~d~liia~sNe~e~~~~~~~k~~eaf~dR~~~i~vpY~l  314 (361)
T smart00763      235 ANRGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIPIDGLIIAHSNESEWQRFKSNKKNEALLDRIIKVKVPYCL  314 (361)
T ss_pred             ccCceEEEeehhcCCHHHHHHHhhhhhcceEecCCcccccccceEEEEeCCHHHHhhhhccccchhhhhceEEEeCCCcC
Confidence            357899999999999999999999999632           123345555544       26688999999988886665


Q ss_pred             h-HHHHHHHHHHHHHc---CCCCCHHHHHHHHHH
Q 017884          202 P-VHVTERLKHVIEAE---GLDVTEGGLAALVRL  231 (364)
Q Consensus       202 ~-~~~~~~l~~~~~~~---~~~i~~~~~~~l~~~  231 (364)
                      . .+-.++.++.+...   +..+.+.+++.++..
T Consensus       315 ~~~~E~~Iy~k~~~~s~~~~~~~aP~~le~aa~~  348 (361)
T smart00763      315 RVSEEAQIYEKLLRNSDLTEAHIAPHTLEMAALF  348 (361)
T ss_pred             CHHHHHHHHHHHhccCcCcccccCchHHHHHHHH
Confidence            4 55566666665533   455666666655544

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

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

Probab=98.92  E-value=5.6e-09  Score=96.58  Aligned_cols=171  Identities=22%  Similarity=0.270  Sum_probs=105.2

Q ss_pred             CCCCc---EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC------CCChHHHHHHHHHHHhcCccccCCccce
Q 017884           72 NRLPH---LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD------DRGIDVVRQQIQDFASTQSFSFGVKASV  142 (364)
Q Consensus        72 ~~~~~---lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~------~~~~~~~~~~i~~~~~~~~~~~~~~~~~  142 (364)
                      -..+|   +|||||||||||.+|+.+.+-|+...+..    +|++.      ..+.+.++..+.+..+...- .+...+-
T Consensus       251 lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKI----VNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~-~g~~SgL  325 (744)
T KOG0741|consen  251 LGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKI----VNGPEILNKYVGESEENVRKLFADAEEEQRR-LGANSGL  325 (744)
T ss_pred             cCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcc----cCcHHHHHHhhcccHHHHHHHHHhHHHHHHh-hCccCCc
Confidence            34556   89999999999999999999997654421    23222      12334556555554332221 3333356


Q ss_pred             EEEEEeCCCCCCH-------------HHHHHHHHHHHHh--ccCccEEEEeeccccCchhhhccc---eEEEecCCChHH
Q 017884          143 KLVLLDEADAMTK-------------DAQFALRRVIEKY--TKNTRFALICNQVNKIIPALQSRC---TRFRFAPLEPVH  204 (364)
Q Consensus       143 ~viiiDe~~~l~~-------------~~~~~L~~~le~~--~~~~~~Il~~~~~~~l~~~l~sr~---~~i~~~~~~~~~  204 (364)
                      -|||+||+|.+.+             ...+.|+.-|+.-  -.+..+|-.||..+-++++|.+-+   ..+++.-|++.-
T Consensus       326 HIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~g  405 (744)
T KOG0741|consen  326 HIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKG  405 (744)
T ss_pred             eEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccC
Confidence            7999999999853             3467777777642  346677888999999999998854   347777888876


Q ss_pred             HHHHHHHHHH---HcCCCCCHHHHHHHHHHc----CCCHHHHHHHHHHHH
Q 017884          205 VTERLKHVIE---AEGLDVTEGGLAALVRLC----NGDMRKALNILQSTH  247 (364)
Q Consensus       205 ~~~~l~~~~~---~~~~~i~~~~~~~l~~~~----~g~~r~a~~~l~~~~  247 (364)
                      ..++++-..+   ..+.-=++-.++.|+..+    |..+..++...+..+
T Consensus       406 RlQIl~IHT~rMre~~~l~~dVdl~elA~lTKNfSGAEleglVksA~S~A  455 (744)
T KOG0741|consen  406 RLQILKIHTKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKSAQSFA  455 (744)
T ss_pred             ceEEEEhhhhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHHHHHHHHH
Confidence            6665544333   223211222356666654    333444444444433

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.89  E-value=4.2e-08  Score=88.89  Aligned_cols=170  Identities=25%  Similarity=0.327  Sum_probs=110.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~  150 (364)
                      .++|+.||+|+|||.+|+.+|+.+     +..+.-.+++..    .-.+++...|........+.. ..+..+||+|||+
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~l-----dVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nV-ekAQqGIVflDEv  300 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVL-----DVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNV-EKAQQGIVFLDEV  300 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHh-----CCCeEEecccchhhcccccccHHHHHHHHHHHccCCH-HHHhcCeEEEehh
Confidence            459999999999999999999998     344444444432    112344444444433322211 1225789999999


Q ss_pred             CCCC--------------HHHHHHHHHHHHHhc-------------------cCccEEEEee------------------
Q 017884          151 DAMT--------------KDAQFALRRVIEKYT-------------------KNTRFALICN------------------  179 (364)
Q Consensus       151 ~~l~--------------~~~~~~L~~~le~~~-------------------~~~~~Il~~~------------------  179 (364)
                      |.+.              +..|.+|++++|..-                   +++-++|++.                  
T Consensus       301 DKi~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I~rR~~d~s  380 (564)
T KOG0745|consen  301 DKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISRRLDDKS  380 (564)
T ss_pred             hhhcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHHHHhhcchh
Confidence            9996              346999999998421                   1223444431                  


Q ss_pred             ----cc------------------------------------ccCchhhhccc-eEEEecCCChHHHHHHHHHH------
Q 017884          180 ----QV------------------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHV------  212 (364)
Q Consensus       180 ----~~------------------------------------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~------  212 (364)
                          .+                                    .-+.|.+.-|+ .++.|.+++.+++..+|..-      
T Consensus       381 lGFg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv~VLtEPknaL~~  460 (564)
T KOG0745|consen  381 LGFGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVLTEPKNALGK  460 (564)
T ss_pred             cccCCCCCccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcccceEeeccccCHHHHHHHHhcchhhHHH
Confidence                00                                    02456666676 56889999999988877542      


Q ss_pred             -----HHHcC--CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHHhc
Q 017884          213 -----IEAEG--LDVTEGGLAALVRLC---NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       213 -----~~~~~--~~i~~~~~~~l~~~~---~g~~r~a~~~l~~~~~~~  250 (364)
                           +...+  +.+++++++.+++.+   +.-.|.+..+++++.+.+
T Consensus       461 Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~Llea  508 (564)
T KOG0745|consen  461 QYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEA  508 (564)
T ss_pred             HHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHHhhh
Confidence                 11222  357899999999886   445788888888877654

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.89  E-value=1.5e-08  Score=87.91  Aligned_cols=129  Identities=16%  Similarity=0.274  Sum_probs=76.8

Q ss_pred             hccCCCCCcchhc----cHHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           45 EKYRPQSLADVAA----HRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        45 ~~~~p~~~~~~vg----~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      +.|++.+|+.+..    +..++..+..++.+..  ..+++|+|++|+|||+++.++++.+...+..  ++.++..+    
T Consensus        64 ~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~--v~~it~~~----  137 (244)
T PRK07952         64 PLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKS--VLIITVAD----  137 (244)
T ss_pred             ccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCe--EEEEEHHH----
Confidence            4566778888863    3345566666665432  2359999999999999999999998765443  33333221    


Q ss_pred             HHHHHHHHHHHhcCcc----ccCCccceEEEEEeCCCCCC--HHHHHHHHHHHHHhc-cCccEEEEeecc
Q 017884          119 DVVRQQIQDFASTQSF----SFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYT-KNTRFALICNQV  181 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~----~~~~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~-~~~~~Il~~~~~  181 (364)
                        +...+.........    .+.......+|+|||++...  .-....|..+++... .....|++||..
T Consensus       138 --l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~  205 (244)
T PRK07952        138 --IMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNSN  205 (244)
T ss_pred             --HHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCCC
Confidence              11111110000000    00001136799999997774  334567888888654 356678888743

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.88  E-value=7.4e-08  Score=87.69  Aligned_cols=164  Identities=13%  Similarity=0.097  Sum_probs=104.3

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC--------------
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--------------  116 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--------------  116 (364)
                      -|..++|++.....|--..-..+...+||.|+.|+||||++++++..|.....- .-..+++....              
T Consensus        15 pf~aivGqd~lk~aL~l~av~P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V-~gc~f~cdP~~P~~~c~~c~~k~~e   93 (423)
T COG1239          15 PFTAIVGQDPLKLALGLNAVDPQIGGALIAGEKGTAKSTLARALADLLPEIEVV-IGCPFNCDPDDPEEMCDECRAKGDE   93 (423)
T ss_pred             chhhhcCchHHHHHHhhhhcccccceeEEecCCCccHHHHHHHHHHhCCcccee-cCCCCCCCCCChhhhhHHHHhhccc
Confidence            377899999999987666666677779999999999999999999987422100 00001111000              


Q ss_pred             --------------------ChH------HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh--
Q 017884          117 --------------------GID------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY--  168 (364)
Q Consensus       117 --------------------~~~------~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~--  168 (364)
                                          ..+      ++...++.-.....+..-..++++|++|||+..|....++.|+..+++.  
T Consensus        94 ~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~aaeG~n  173 (423)
T COG1239          94 LEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVDALLDVAAEGVN  173 (423)
T ss_pred             cccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHHHHHHHHHHHHhCCc
Confidence                                000      1111122111111111112357899999999999999999999999973  


Q ss_pred             -----------ccCccEEEEeecc-ccCchhhhccc-eEEEecCCC-hHHHHHHHHHHHHH
Q 017884          169 -----------TKNTRFALICNQV-NKIIPALQSRC-TRFRFAPLE-PVHVTERLKHVIEA  215 (364)
Q Consensus       169 -----------~~~~~~Il~~~~~-~~l~~~l~sr~-~~i~~~~~~-~~~~~~~l~~~~~~  215 (364)
                                 |.++.+|.+.|.. ..+.++|+.|+ ..+...++. .++...++.+...-
T Consensus       174 ~vereGisi~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~f  234 (423)
T COG1239         174 DVEREGISIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLAF  234 (423)
T ss_pred             eeeeCceeeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHHHh
Confidence                       3344455555543 37899999996 666665554 56667777666543

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=98.85  E-value=4.1e-07  Score=84.01  Aligned_cols=266  Identities=19%  Similarity=0.212  Sum_probs=156.2

Q ss_pred             cchhccHHHHHHHHHHHhcCC--CC----------cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           53 ADVAAHRDIVDTIDRLTSENR--LP----------HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~--~~----------~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      -++.||+++++.|.-++-++.  .+          ++++.|.||+.|+.+...+.+-...      -++-++....|+..
T Consensus       342 PEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapR------gvYTTGrGSSGVGL  415 (721)
T KOG0482|consen  342 PEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPR------GVYTTGRGSSGVGL  415 (721)
T ss_pred             hhhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcc------cceecCCCCCcccc
Confidence            478999999999888776541  11          3899999999999999999876321      11222222222221


Q ss_pred             HHHHHHHHH-hcCccccCC----ccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-------------cCccEEEEeeccc
Q 017884          121 VRQQIQDFA-STQSFSFGV----KASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQVN  182 (364)
Q Consensus       121 ~~~~i~~~~-~~~~~~~~~----~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-------------~~~~~Il~~~~~~  182 (364)
                      --...++-. ....  +..    .++.+|..|||+|+|.+....++-+.||...             ..|.++.++|+..
T Consensus       416 TAAVmkDpvTgEM~--LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR~sILaAANPay  493 (721)
T KOG0482|consen  416 TAAVMKDPVTGEMV--LEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNARTSILAAANPAY  493 (721)
T ss_pred             chhhhcCCCCCeeE--eccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhhHHhhhhcCccc
Confidence            111111100 0000  000    1257799999999999998899999998642             3344555554321


Q ss_pred             -------------cCchhhhccceE-------------------------------EEecCCChHHHHHHHHHHHHHcCC
Q 017884          183 -------------KIIPALQSRCTR-------------------------------FRFAPLEPVHVTERLKHVIEAEGL  218 (364)
Q Consensus       183 -------------~l~~~l~sr~~~-------------------------------i~~~~~~~~~~~~~l~~~~~~~~~  218 (364)
                                   .++.+|.|||.+                               ..|.|++.+-++.+|. .|+..+.
T Consensus       494 GRYnprrs~e~NI~LPaALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~yI~-~ak~~~P  572 (721)
T KOG0482|consen  494 GRYNPRRSPEQNINLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRRYIS-LAKRKNP  572 (721)
T ss_pred             cccCcccChhHhcCCcHHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHHHHH-HHhhcCC
Confidence                         467788888531                               5677788888888876 4677777


Q ss_pred             CCCHHHHHHHHHHc--------------CCCHHHHHHHHHHHHHh-----cccCchHHHHHhcCCC------ChHHHHHH
Q 017884          219 DVTEGGLAALVRLC--------------NGDMRKALNILQSTHMA-----SQQITEEAVYLCTGNP------LPKDIEQI  273 (364)
Q Consensus       219 ~i~~~~~~~l~~~~--------------~g~~r~a~~~l~~~~~~-----~~~i~~~~v~~~~~~~------~~~~~~~l  273 (364)
                      .++++..+++....              .-.+|.++.++..-...     ...+..++|.+++...      ...+ ..-
T Consensus       573 ~vp~~l~dyi~~AYv~~Rrea~~~~~~t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EALRLme~sK~sL~~~-~~~  651 (721)
T KOG0482|consen  573 VVPEALADYITGAYVELRREARSSKDFTYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEALRLMEMSKDSLYQD-DGQ  651 (721)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhccCCCcccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHhhhcccccc-ccc
Confidence            88888888876431              24577777777533222     2466677776654211      0000 000


Q ss_pred             HHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          274 SYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADI  331 (364)
Q Consensus       274 ~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~  331 (364)
                      ...  .......+.++.++..+.|.....+-..+.+..++ +|++..+..-++...++
T Consensus       652 ~~~--~~~~~~if~iirel~~e~g~~~v~~s~~~~r~~~k-Gfs~~ql~~~i~ey~~l  706 (721)
T KOG0482|consen  652 KED--TSATDAIFAIIRELAGEGGKRCVKLSNAEQRCVRK-GFSEAQLKKCIDEYAEL  706 (721)
T ss_pred             ccc--cchHHHHHHHHHHHHhhcCCceeeHHHHHHHHHHc-CCCHHHHHHHHHHHHhc
Confidence            000  01133456677777644555555555555555544 78888777666655443

>PF05729 NACHT: NACHT domain

Probab=98.84  E-value=4e-08  Score=80.64  Aligned_cols=138  Identities=14%  Similarity=0.194  Sum_probs=80.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCC----cEEEEeCCCCCCh---HHHHHHHHHHHhcCccc-------cCCccce
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN----MILELNASDDRGI---DVVRQQIQDFASTQSFS-------FGVKASV  142 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~----~~~~~~~~~~~~~---~~~~~~i~~~~~~~~~~-------~~~~~~~  142 (364)
                      ++|+|++|+|||++++.++..+.......    .++.+........   ..+.+.+..........       .....+.
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   82 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNKR   82 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCCc
Confidence            68999999999999999999886554322    2223332221111   12222232211111000       0112256


Q ss_pred             EEEEEeCCCCCCHHHH--------HHHHHHHHH-hccCccEEEEeecccc-CchhhhccceEEEecCCChHHHHHHHHHH
Q 017884          143 KLVLLDEADAMTKDAQ--------FALRRVIEK-YTKNTRFALICNQVNK-IIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (364)
Q Consensus       143 ~viiiDe~~~l~~~~~--------~~L~~~le~-~~~~~~~Il~~~~~~~-l~~~l~sr~~~i~~~~~~~~~~~~~l~~~  212 (364)
                      -+++||.+|.+.....        +.|..++.. .++++++++++..... -..........+.+.+++++++.+++.++
T Consensus        83 ~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  162 (166)
T PF05729_consen   83 VLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRKY  162 (166)
T ss_pred             eEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHHH
Confidence            7999999999976332        345556665 3557778777753321 12222222367899999999999999887


Q ss_pred             HH
Q 017884          213 IE  214 (364)
Q Consensus       213 ~~  214 (364)
                      .+
T Consensus       163 f~  164 (166)
T PF05729_consen  163 FS  164 (166)
T ss_pred             hh
Confidence            64

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

Probab=98.83  E-value=5.6e-09  Score=86.61  Aligned_cols=95  Identities=26%  Similarity=0.367  Sum_probs=58.2

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC-------CChHHHHHHHHHHHhcCccccCCccceEEEE
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-------RGIDVVRQQIQDFASTQSFSFGVKASVKLVL  146 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~~~~~~~~~~~~~~~~~~vii  146 (364)
                      ..+++|+||+|+|||++|.++++++...+....++.  ..+.       .........+..+.           +..++|
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~--~~~L~~~l~~~~~~~~~~~~~~~l~-----------~~dlLi  113 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT--ASDLLDELKQSRSDGSYEELLKRLK-----------RVDLLI  113 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE--HHHHHHHHHCCHCCTTHCHHHHHHH-----------TSSCEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee--cCceeccccccccccchhhhcCccc-----------cccEec
Confidence            356999999999999999999999876555443333  2110       00011111222221           366999


Q ss_pred             EeCCCCCC--HHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          147 LDEADAMT--KDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       147 iDe~~~l~--~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      |||+....  +...+.|+++++....+...|++||..
T Consensus       114 lDDlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~~  150 (178)
T PF01695_consen  114 LDDLGYEPLSEWEAELLFEIIDERYERKPTIITSNLS  150 (178)
T ss_dssp             EETCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS-
T ss_pred             ccccceeeecccccccchhhhhHhhcccCeEeeCCCc
Confidence            99987664  556777888988765555678888743

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.81  E-value=9.9e-08  Score=75.71  Aligned_cols=95  Identities=27%  Similarity=0.321  Sum_probs=57.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC--------------------hHHHHHHHHHHHhcCcc
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--------------------IDVVRQQIQDFASTQSF  134 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~i~~~~~~~~~  134 (364)
                      .+++|+||+|+|||++++.++..+....  ..++.++......                    ..... .+...+...  
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~--   77 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLR-LALALARKL--   77 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHH-HHHHHHHhc--
Confidence            4689999999999999999999986543  2344444432111                    11111 122222210  


Q ss_pred             ccCCccceEEEEEeCCCCCCHHHHHHHHH--------HHHHhccCccEEEEeec
Q 017884          135 SFGVKASVKLVLLDEADAMTKDAQFALRR--------VIEKYTKNTRFALICNQ  180 (364)
Q Consensus       135 ~~~~~~~~~viiiDe~~~l~~~~~~~L~~--------~le~~~~~~~~Il~~~~  180 (364)
                            .+.+|++||++.+..........        ..........+|++++.
T Consensus        78 ------~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       78 ------KPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             ------CCCEEEEECCcccCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence                  24899999999998665554332        23334456667777764

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.

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.78  E-value=5.2e-08  Score=89.94  Aligned_cols=114  Identities=22%  Similarity=0.229  Sum_probs=69.9

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe------CCCCCC------
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN------ASDDRG------  117 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~------~~~~~~------  117 (364)
                      ..|.|++||+..+..+.-...++  .|++++||||||||.+|..+..-+..... ...++++      +....+      
T Consensus       176 ~D~~DV~GQ~~AKrAleiAAAGg--HnLl~~GpPGtGKTmla~Rl~~lLPpls~-~E~lE~s~I~s~~g~~~~~~~~~~~  252 (490)
T COG0606         176 PDFKDVKGQEQAKRALEIAAAGG--HNLLLVGPPGTGKTMLASRLPGLLPPLSI-PEALEVSAIHSLAGDLHEGCPLKIH  252 (490)
T ss_pred             cchhhhcCcHHHHHHHHHHHhcC--CcEEEecCCCCchHHhhhhhcccCCCCCh-HHHHHHHHHhhhcccccccCcccee
Confidence            47999999999999998888877  56999999999999999999776522110 0000100      000000      


Q ss_pred             --------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHH
Q 017884          118 --------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK  167 (364)
Q Consensus       118 --------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~  167 (364)
                              .......+.......|- --..++++|+++||+-.+.....++|+.=||+
T Consensus       253 rPFr~PHHsaS~~aLvGGG~~p~PG-eIsLAH~GVLFLDElpef~~~iLe~LR~PLE~  309 (490)
T COG0606         253 RPFRAPHHSASLAALVGGGGVPRPG-EISLAHNGVLFLDELPEFKRSILEALREPLEN  309 (490)
T ss_pred             CCccCCCccchHHHHhCCCCCCCCC-ceeeecCCEEEeeccchhhHHHHHHHhCcccc
Confidence                    00001111111000000 00123688999999999998888888887775

>PRK09183 transposase/IS protein; Provisional

Probab=98.77  E-value=2.1e-08  Score=88.46  Aligned_cols=97  Identities=20%  Similarity=0.261  Sum_probs=58.9

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH-----HHHHHHhcCccccCCccceEEEEEeC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ-----QIQDFASTQSFSFGVKASVKLVLLDE  149 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~i~~~~~~~~~~~~~~~~~~viiiDe  149 (364)
                      .+++|+||+|+|||+++.+++..+...+.  .+..++....  ...+..     .+.......   .   ....+++|||
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~--~v~~~~~~~l--~~~l~~a~~~~~~~~~~~~~---~---~~~dlLiiDd  172 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGI--KVRFTTAADL--LLQLSTAQRQGRYKTTLQRG---V---MAPRLLIIDE  172 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEEeHHHH--HHHHHHHHHCCcHHHHHHHH---h---cCCCEEEEcc
Confidence            46999999999999999999887654443  3333332210  001100     011111000   0   1356999999


Q ss_pred             CCCC--CHHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          150 ADAM--TKDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       150 ~~~l--~~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      ++..  .....+.|+.+++.......+|++||.+
T Consensus       173 lg~~~~~~~~~~~lf~li~~r~~~~s~iiTsn~~  206 (259)
T PRK09183        173 IGYLPFSQEEANLFFQVIAKRYEKGSMILTSNLP  206 (259)
T ss_pred             cccCCCChHHHHHHHHHHHHHHhcCcEEEecCCC
Confidence            9875  4556678999988755555688888653

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.76  E-value=1.3e-07  Score=85.97  Aligned_cols=137  Identities=19%  Similarity=0.247  Sum_probs=78.3

Q ss_pred             HHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC
Q 017884           61 IVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (364)
Q Consensus        61 ~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  138 (364)
                      ++.....++.+.  ...+++|+||+|+|||+++.++++++...+.  .++.++....  ...+...-..........+..
T Consensus       168 ~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~--~V~y~t~~~l--~~~l~~~~~~~~~~~~~~~~~  243 (329)
T PRK06835        168 ILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRGK--SVIYRTADEL--IEILREIRFNNDKELEEVYDL  243 (329)
T ss_pred             HHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCCC--eEEEEEHHHH--HHHHHHHHhccchhHHHHHHH
Confidence            444445555531  2256999999999999999999999876544  4455543221  111111000000000000000


Q ss_pred             ccceEEEEEeCCCCC--CHHHHHHHHHHHHHhcc-CccEEEEeeccc-----cCchhhhcc----ceEEEecCCC
Q 017884          139 KASVKLVLLDEADAM--TKDAQFALRRVIEKYTK-NTRFALICNQVN-----KIIPALQSR----CTRFRFAPLE  201 (364)
Q Consensus       139 ~~~~~viiiDe~~~l--~~~~~~~L~~~le~~~~-~~~~Il~~~~~~-----~l~~~l~sr----~~~i~~~~~~  201 (364)
                      .....++||||+...  ++..+..|+.+++.... ...+|++||...     .+.+.+.||    +.++.|...+
T Consensus       244 l~~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~~~el~~~~~eri~SRL~~~~~~i~~~G~d  318 (329)
T PRK06835        244 LINCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNLSLEELLKTYSERISSRLLGNFTLLKFYGED  318 (329)
T ss_pred             hccCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHhHHHHHHHHcCCEEEEecCcC
Confidence            114679999999555  56677889999987654 456788887432     133456665    4567765433

>PRK06921 hypothetical protein; Provisional

Probab=98.76  E-value=9.2e-08  Score=84.58  Aligned_cols=120  Identities=18%  Similarity=0.200  Sum_probs=69.4

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCC-
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADA-  152 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~-  152 (364)
                      ..+++|+|++|+|||+++.++++++.... +..++.++...  ....+............. +.   ...+|||||++. 
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~~~~--l~~~l~~~~~~~~~~~~~-~~---~~dlLiIDDl~~~  189 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFPFVE--GFGDLKDDFDLLEAKLNR-MK---KVEVLFIDDLFKP  189 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEEHHH--HHHHHHHHHHHHHHHHHH-hc---CCCEEEEeccccc
Confidence            35599999999999999999999986541 23444444322  111222111111110000 11   367999999944 


Q ss_pred             ------CCHHHHHHHHHHHHHhcc-CccEEEEeeccc----cCchhhhcc----c--eEEEecCC
Q 017884          153 ------MTKDAQFALRRVIEKYTK-NTRFALICNQVN----KIIPALQSR----C--TRFRFAPL  200 (364)
Q Consensus       153 ------l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~----~l~~~l~sr----~--~~i~~~~~  200 (364)
                            .+.-.+..|+.+++.... ...+|++||...    .+.+.+.+|    +  .++.|...
T Consensus       190 ~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~~~~el~~~~~~l~sRi~~r~~~~~i~~~g~  254 (266)
T PRK06921        190 VNGKPRATEWQIEQMYSVLNYRYLNHKPILISSELTIDELLDIDEALGSRIVEMCKDYLVIIKGD  254 (266)
T ss_pred             cCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHhhhhhHHHHHHHHhccCeEEEecCc
Confidence                  444456788888887653 356778886433    223455554    3  35666543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.75  E-value=6.2e-07  Score=93.73  Aligned_cols=185  Identities=14%  Similarity=0.173  Sum_probs=113.5

Q ss_pred             CCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      |..-..++-++.....|...   ...+.++|+||+|+|||+++..++...   + ....+.++..+......+...+..+
T Consensus        10 p~~~~~~~~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~---~-~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         10 PVRLHNTVVRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGK---N-NLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             CCCccccCcchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhC---C-CeEEEecCcccCCHHHHHHHHHHHH
Confidence            44456677788777776432   233447999999999999999988653   1 2333333333322111111111111


Q ss_pred             HhcCcc--------------------------ccCCccceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEeecc
Q 017884          129 ASTQSF--------------------------SFGVKASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       129 ~~~~~~--------------------------~~~~~~~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      ....+.                          .......+-+|||||+|.+.... .+.+..++...+++..+|+++...
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~  162 (903)
T PRK04841         83 QQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNL  162 (903)
T ss_pred             HHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCC
Confidence            000000                          00011257899999999997554 456777777778888888887543


Q ss_pred             ccC-chhhhccceEEEec----CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 017884          182 NKI-IPALQSRCTRFRFA----PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (364)
Q Consensus       182 ~~l-~~~l~sr~~~i~~~----~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l  243 (364)
                      ..+ ...++-+...+.+.    +++.++...++....   |..++++.+..|.+.++|.+-.+.-..
T Consensus       163 ~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~---~~~~~~~~~~~l~~~t~Gwp~~l~l~~  226 (903)
T PRK04841        163 PPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRL---SSPIEAAESSRLCDDVEGWATALQLIA  226 (903)
T ss_pred             CCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhcc---CCCCCHHHHHHHHHHhCChHHHHHHHH
Confidence            222 22333333344444    889999999887643   677899999999999999987654333

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.75  E-value=1.7e-07  Score=89.21  Aligned_cols=171  Identities=19%  Similarity=0.207  Sum_probs=111.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc--------ccCCccceEEEEE
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF--------SFGVKASVKLVLL  147 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~--------~~~~~~~~~viii  147 (364)
                      ++++.|++|+||..+++++...-.   ..-.++.+|+... ....+...+..+.....-        ..-.....+.+|+
T Consensus       338 pvll~GEtGtGKe~laraiH~~s~---~~gpfvAvNCaAi-p~~liesELFGy~~GafTga~~kG~~g~~~~A~gGtlFl  413 (606)
T COG3284         338 PVLLQGETGTGKEVLARAIHQNSE---AAGPFVAVNCAAI-PEALIESELFGYVAGAFTGARRKGYKGKLEQADGGTLFL  413 (606)
T ss_pred             CeEecCCcchhHHHHHHHHHhccc---ccCCeEEEEeccc-hHHhhhHHHhccCccccccchhccccccceecCCCccHH
Confidence            399999999999999999998753   3344566776542 223333333222211100        0011235779999


Q ss_pred             eCCCCCCHHHHHHHHHHHHHhc----------cCccEEEEeecc-------ccCchhhhccc--eEEEecCCChH-HHHH
Q 017884          148 DEADAMTKDAQFALRRVIEKYT----------KNTRFALICNQV-------NKIIPALQSRC--TRFRFAPLEPV-HVTE  207 (364)
Q Consensus       148 De~~~l~~~~~~~L~~~le~~~----------~~~~~Il~~~~~-------~~l~~~l~sr~--~~i~~~~~~~~-~~~~  207 (364)
                      ||+..|+-..|..|++++++..          -+.++|.+|+..       ..+.+.|--|.  .++.+||+.+. +...
T Consensus       414 deIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath~dl~~lv~~g~fredLyyrL~~~~i~lP~lr~R~d~~~  493 (606)
T COG3284         414 DEIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATHRDLAQLVEQGRFREDLYYRLNAFVITLPPLRERSDRIP  493 (606)
T ss_pred             HHhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEeccCcCHHHHHHcCCchHHHHHHhcCeeeccCchhcccccHH
Confidence            9999999999999999999742          234556665422       13344444453  56777777653 2333


Q ss_pred             HHHHHHHH---cCCCCCHHHHHHHHHH-cCCCHHHHHHHHHHHHHhc
Q 017884          208 RLKHVIEA---EGLDVTEGGLAALVRL-CNGDMRKALNILQSTHMAS  250 (364)
Q Consensus       208 ~l~~~~~~---~~~~i~~~~~~~l~~~-~~g~~r~a~~~l~~~~~~~  250 (364)
                      .|.++..+   ....+++++++.|..+ +.||+|.+.+.++.++..+
T Consensus       494 ~l~~~~~~~~~~~~~l~~~~~~~l~~~~WPGNirel~~v~~~~~~l~  540 (606)
T COG3284         494 LLDRILKRENDWRLQLDDDALARLLAYRWPGNIRELDNVIERLAALS  540 (606)
T ss_pred             HHHHHHHHccCCCccCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHcC
Confidence            33333333   3578999999888766 5999999999999888755

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.71  E-value=3.6e-07  Score=80.51  Aligned_cols=107  Identities=23%  Similarity=0.395  Sum_probs=75.5

Q ss_pred             ceEEEEEeCCCCCCH------------HHHHHHHHHHHHhc--------cCccEEEEe------eccccCchhhhccc-e
Q 017884          141 SVKLVLLDEADAMTK------------DAQFALRRVIEKYT--------KNTRFALIC------NQVNKIIPALQSRC-T  193 (364)
Q Consensus       141 ~~~viiiDe~~~l~~------------~~~~~L~~~le~~~--------~~~~~Il~~------~~~~~l~~~l~sr~-~  193 (364)
                      ..++|||||+|.+..            ..|.-|+.+++...        .+-.++|++      ..|+.+.|.|.-|+ .
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfPI  329 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFPI  329 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcCCCce
Confidence            466999999998842            34667888887532        233455554      57789999999998 6


Q ss_pred             EEEecCCChHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---C-----CCHHHHHHHHHHHH
Q 017884          194 RFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC---N-----GDMRKALNILQSTH  247 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~i~~~~~~~l~~~~---~-----g~~r~a~~~l~~~~  247 (364)
                      .+++.+++.+++..+|..           .++.+|+  .++++++..|++.+   +     =-.|++-..++++.
T Consensus       330 RVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlL  404 (444)
T COG1220         330 RVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLL  404 (444)
T ss_pred             EEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHH
Confidence            799999999998887653           2334454  56899999998775   1     12566666666554

>PF14516 AAA_35: AAA-like domain

Probab=98.69  E-value=1e-05  Score=74.23  Aligned_cols=196  Identities=15%  Similarity=0.186  Sum_probs=114.8

Q ss_pred             hhccHHHHHHHHHHHhc-CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC---CChHHHHHHH-HHHH
Q 017884           55 VAAHRDIVDTIDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD---RGIDVVRQQI-QDFA  129 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~-~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---~~~~~~~~~i-~~~~  129 (364)
                      .|.++.+-+.+.+.+.+ |  ..+.|.||..+|||++...+.+.+...++....+.+.....   ...+.+...+ ....
T Consensus        13 Yi~R~~~e~~~~~~i~~~G--~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~   90 (331)
T PF14516_consen   13 YIERPPAEQECYQEIVQPG--SYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEIS   90 (331)
T ss_pred             ccCchHHHHHHHHHHhcCC--CEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHH
Confidence            45555566666666655 4  34899999999999999999999876665555555543221   1111111111 0111


Q ss_pred             hcCcc-------------------------ccCCccceEEEEEeCCCCCCH--HHHHHHHHHHH----Hhc-----cCcc
Q 017884          130 STQSF-------------------------SFGVKASVKLVLLDEADAMTK--DAQFALRRVIE----KYT-----KNTR  173 (364)
Q Consensus       130 ~~~~~-------------------------~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le----~~~-----~~~~  173 (364)
                      .....                         .......+-|++|||+|.+..  .....++..+.    ...     ...+
T Consensus        91 ~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~  170 (331)
T PF14516_consen   91 RQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLR  170 (331)
T ss_pred             HHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEE
Confidence            00000                         001112577999999999975  23334444433    221     2234


Q ss_pred             EEEEeeccccCchhh-h---ccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          174 FALICNQVNKIIPAL-Q---SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l-~---sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                      +|++......+.... .   +-+..+.+++.+.+++...+...    +...++..++.|...++|.|--....+..++. 
T Consensus       171 li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~----~~~~~~~~~~~l~~~tgGhP~Lv~~~~~~l~~-  245 (331)
T PF14516_consen  171 LILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRY----GLEFSQEQLEQLMDWTGGHPYLVQKACYLLVE-  245 (331)
T ss_pred             EEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhh----hccCCHHHHHHHHHHHCCCHHHHHHHHHHHHH-
Confidence            555543222111111 1   23566889999999998776654    67788889999999999999777666666653 


Q ss_pred             cccCchHHH
Q 017884          250 SQQITEEAV  258 (364)
Q Consensus       250 ~~~i~~~~v  258 (364)
                       ..++.+.+
T Consensus       246 -~~~~~~~l  253 (331)
T PF14516_consen  246 -EQITLEQL  253 (331)
T ss_pred             -ccCcHHHH
Confidence             34554443

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

Probab=98.67  E-value=2e-06  Score=73.33  Aligned_cols=182  Identities=19%  Similarity=0.222  Sum_probs=113.8

Q ss_pred             ccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH---------------
Q 017884           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV---------------  121 (364)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~---------------  121 (364)
                      -+...+..+...+..++ .-+.++|+.|+|||.+.+++...+.+..  ..++.++..........               
T Consensus        35 ~h~e~l~~l~~~i~d~q-g~~~vtGevGsGKTv~~Ral~~s~~~d~--~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~  111 (269)
T COG3267          35 DHNEALLMLHAAIADGQ-GILAVTGEVGSGKTVLRRALLASLNEDQ--VAVVVIDKPTLSDATLLEAIVADLESQPKVNV  111 (269)
T ss_pred             hhhHHHHHHHHHHhcCC-ceEEEEecCCCchhHHHHHHHHhcCCCc--eEEEEecCcchhHHHHHHHHHHHhccCccchh
Confidence            35666777777777764 2379999999999999997777664322  22233333222111111               


Q ss_pred             ---HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHH---hccCccEEEEeeccc------cCchhhh
Q 017884          122 ---RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK---YTKNTRFALICNQVN------KIIPALQ  189 (364)
Q Consensus       122 ---~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~---~~~~~~~Il~~~~~~------~l~~~l~  189 (364)
                         ...+.......   ......+-++++||++.+..+..+.|+.+.+-   ......+++++.+.-      -....+.
T Consensus       112 ~~~~e~~~~~L~al---~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~  188 (269)
T COG3267         112 NAVLEQIDRELAAL---VKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELE  188 (269)
T ss_pred             HHHHHHHHHHHHHH---HHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhh
Confidence               11111111100   01111347999999999999988887776653   223334566652210      1123455


Q ss_pred             ccceE-EEecCCChHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHH
Q 017884          190 SRCTR-FRFAPLEPVHVTERLKHVIEAEGL---DVTEGGLAALVRLCNGDMRKALNILQ  244 (364)
Q Consensus       190 sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~---~i~~~~~~~l~~~~~g~~r~a~~~l~  244 (364)
                      .|+.+ +..+|++.++...+|+.+++..+.   -++++++..+...+.|-|+..-+.+.
T Consensus       189 ~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         189 QRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             heEEEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            68866 999999999999999999887643   35899999999999996665554443

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.66  E-value=8.8e-07  Score=86.37  Aligned_cols=204  Identities=16%  Similarity=0.125  Sum_probs=122.5

Q ss_pred             cHHHHHHHHHHHhcC-CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC--CChHHHHHHHHHHHhcCcc
Q 017884           58 HRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--RGIDVVRQQIQDFASTQSF  134 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~-~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~i~~~~~~~~~  134 (364)
                      |++.+..|.-..-+. ....++|.|+.|+||+++++.++..+... ..+.-...+.+..  .|.-++...+..-......
T Consensus         8 ~~~~~~Al~l~av~p~~~gGv~i~g~~G~~ks~~~r~l~~llp~~-~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~p   86 (584)
T PRK13406          8 WADAALAAALLAVDPAGLGGVVLRARAGPVRDRWLAALRALLPAG-TPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQR   86 (584)
T ss_pred             HHHHHHHHHHhCcCccccceEEEEcCCCcHHHHHHHHHHHhcCCC-CCcccCCCCCcHHHccCCchHHhHhhcCCcCCCC
Confidence            445555554444444 56679999999999999999999887431 1111112222221  1222222222221111111


Q ss_pred             ccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhcc-----------CccEEEEee-----ccccCchhhhccc-eEEEe
Q 017884          135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK-----------NTRFALICN-----QVNKIIPALQSRC-TRFRF  197 (364)
Q Consensus       135 ~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~-----------~~~~Il~~~-----~~~~l~~~l~sr~-~~i~~  197 (364)
                      ..-...+++|++|||+..+.+..++.|+..|++...           ...|++++.     +...+.+++..|+ ..+.+
T Consensus        87 Glla~Ah~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLDRf~l~v~v  166 (584)
T PRK13406         87 GLLAEADGGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALADRLAFHLDL  166 (584)
T ss_pred             CceeeccCCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHhheEEEEEc
Confidence            111234678999999999999999999999997421           123444442     2235888999998 66888


Q ss_pred             cCCChHHHH-------HHHHHHHHHcCCCCCHHHHHHHHHHc---CC-CHHHHHHHHHHHHHhc-----ccCchHHHHHh
Q 017884          198 APLEPVHVT-------ERLKHVIEAEGLDVTEGGLAALVRLC---NG-DMRKALNILQSTHMAS-----QQITEEAVYLC  261 (364)
Q Consensus       198 ~~~~~~~~~-------~~l~~~~~~~~~~i~~~~~~~l~~~~---~g-~~r~a~~~l~~~~~~~-----~~i~~~~v~~~  261 (364)
                      ..++..+..       +++..+..-.++.++++.+++++..+   +- ..|..+.++..+...+     ..|+.++|..+
T Consensus       167 ~~~~~~~~~~~~~~~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~A  246 (584)
T PRK13406        167 DGLALRDAREIPIDADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALA  246 (584)
T ss_pred             CCCChHHhcccCCCHHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence            777654432       22222222247889999999888765   32 5677776665444322     48888888765


Q ss_pred             c
Q 017884          262 T  262 (364)
Q Consensus       262 ~  262 (364)
                      .
T Consensus       247 a  247 (584)
T PRK13406        247 A  247 (584)
T ss_pred             H
Confidence            4

>PRK04132 replication factor C small subunit; Provisional

Probab=98.65  E-value=1.7e-08  Score=101.15  Aligned_cols=51  Identities=45%  Similarity=0.903  Sum_probs=48.4

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHH
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTS   89 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~   89 (364)
                      .+.||+++|||.+|+|++||+.+++.|+.++..+..+|++|+||||+||+.
T Consensus         5 ~~~~~~~k~RP~~f~dIiGqe~i~~~Lk~~i~~~~i~h~l~~g~~g~~~cl   55 (846)
T PRK04132          5 LEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCL   55 (846)
T ss_pred             hcccHHHhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEECCCCCCccc
Confidence            357999999999999999999999999999999999999999999999964

>PHA00729 NTP-binding motif containing protein

Probab=98.65  E-value=2.2e-07  Score=78.94  Aligned_cols=121  Identities=20%  Similarity=0.283  Sum_probs=70.3

Q ss_pred             HHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-----------CCcEEEEeCCCCCChHHHHHHHHHHHhcCc
Q 017884           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----------HNMILELNASDDRGIDVVRQQIQDFASTQS  133 (364)
Q Consensus        65 l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-----------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  133 (364)
                      ....+..+...+++|+|+||+|||++|.++++.+.....           ...+..+      ..+.+...+....... 
T Consensus         8 ~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fi------d~~~Ll~~L~~a~~~~-   80 (226)
T PHA00729          8 IVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFF------ELPDALEKIQDAIDND-   80 (226)
T ss_pred             HHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEE------EHHHHHHHHHHHHhcC-
Confidence            334445555567999999999999999999998741100           0011111      1233334443322110 


Q ss_pred             cccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHH
Q 017884          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHV  212 (364)
Q Consensus       134 ~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~  212 (364)
                            ....++||||+..-.....        .+...    +  .....+.+.+++|+..+.|.+++++++...++.+
T Consensus        81 ------~~~dlLIIDd~G~~~~~~~--------wh~~~----~--~~yf~L~~aLrSR~~l~il~~ls~edL~~~Lr~R  139 (226)
T PHA00729         81 ------YRIPLIIFDDAGIWLSKYV--------WYEDY----M--KTFYKIYALIRTRVSAVIFTTPSPEDLAFYLREK  139 (226)
T ss_pred             ------CCCCEEEEeCCchhhcccc--------hhhhc----c--chHHHHHHHHHhhCcEEEEecCCHHHHHHHHHhC
Confidence                  0235889998643321100        00000    0  1123567788899999999999999998888763

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.64  E-value=1e-07  Score=90.92  Aligned_cols=151  Identities=21%  Similarity=0.168  Sum_probs=93.2

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC---------------
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD---------------  114 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~---------------  114 (364)
                      ..|.++.|+..++..+.-.+..+  .+++|.||+|+|||++++.+...+.... ....++...-.               
T Consensus       188 ~d~~~v~Gq~~~~~al~laa~~G--~~llliG~~GsGKTtLak~L~gllpp~~-g~e~le~~~i~s~~g~~~~~~~~~~r  264 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEITAAGG--HNLLLIGPPGTGKTMLASRINGLLPDLS-NEEALESAAILSLVNAESVQKQWRQR  264 (506)
T ss_pred             cCeEEEECcHHHHhhhheeccCC--cEEEEECCCCCcHHHHHHHHhccCCCCC-CcEEEecchhhhhhccccccCCcCCC
Confidence            47889999988888776555544  5699999999999999999987763221 11111211100               


Q ss_pred             -CCCh---HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEE
Q 017884          115 -DRGI---DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALI  177 (364)
Q Consensus       115 -~~~~---~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~  177 (364)
                       ....   ......+..-.. .....-...+++++++||++.+....++.|++.|++.             +.++.+|.+
T Consensus       265 Pfr~ph~~~s~~~l~GGg~~-~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa  343 (506)
T PRK09862        265 PFRSPHHSASLTAMVGGGAI-PGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAA  343 (506)
T ss_pred             CccCCCccchHHHHhCCCce-ehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEe
Confidence             0000   000011110000 0000011235789999999999999999999999753             345667777


Q ss_pred             eeccc---------------------cCchhhhccc-eEEEecCCChHH
Q 017884          178 CNQVN---------------------KIIPALQSRC-TRFRFAPLEPVH  204 (364)
Q Consensus       178 ~~~~~---------------------~l~~~l~sr~-~~i~~~~~~~~~  204 (364)
                      +|...                     ++..++.+|+ ..+.+++++.++
T Consensus       344 ~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~~~  392 (506)
T PRK09862        344 MNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPGI  392 (506)
T ss_pred             ecCccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCHHH
Confidence            76432                     4667888998 557888877663

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

Probab=98.64  E-value=6.9e-08  Score=76.06  Aligned_cols=104  Identities=27%  Similarity=0.380  Sum_probs=62.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCC---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC-------------
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV-------------  138 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~-------------  138 (364)
                      .+++++||+|+|||++++.+++.+....   ....++.++.........+...+.............             
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~   84 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALD   84 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHH
Confidence            3489999999999999999999874210   034555655544333333333333322222110000             


Q ss_pred             ccceEEEEEeCCCCC-CHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          139 KASVKLVLLDEADAM-TKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       139 ~~~~~viiiDe~~~l-~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      .....+|+|||+|.+ .....+.|..+++  ..++.+|+++..
T Consensus        85 ~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   85 RRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             hcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            012459999999999 8777777777666  556778888754

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.63  E-value=1.3e-07  Score=82.96  Aligned_cols=119  Identities=19%  Similarity=0.313  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHhc-CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccC
Q 017884           59 RDIVDTIDRLTSE-NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (364)
Q Consensus        59 ~~~~~~l~~~~~~-~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (364)
                      ...+..+...... .+..+++|+||||+|||++|.++++++...+.  .+..++.++  ....+............+ ..
T Consensus        89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~--sv~f~~~~e--l~~~Lk~~~~~~~~~~~l-~~  163 (254)
T COG1484          89 KKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGI--SVLFITAPD--LLSKLKAAFDEGRLEEKL-LR  163 (254)
T ss_pred             HHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCC--eEEEEEHHH--HHHHHHHHHhcCchHHHH-HH
Confidence            3444444433321 24456999999999999999999999974344  344443322  111221111110000000 00


Q ss_pred             CccceEEEEEeCCCCCC--HHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          138 VKASVKLVLLDEADAMT--KDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ......|+||||+...+  ....+.++.++......-..++++|.+.
T Consensus       164 ~l~~~dlLIiDDlG~~~~~~~~~~~~~q~I~~r~~~~~~~~tsN~~~  210 (254)
T COG1484         164 ELKKVDLLIIDDIGYEPFSQEEADLLFQLISRRYESRSLIITSNLSF  210 (254)
T ss_pred             HhhcCCEEEEecccCccCCHHHHHHHHHHHHHHHhhccceeecCCCh
Confidence            01147799999998864  4456777777776655555588887543

>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length

Probab=98.62  E-value=7.3e-07  Score=71.43  Aligned_cols=102  Identities=18%  Similarity=0.245  Sum_probs=90.6

Q ss_pred             CchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------
Q 017884          253 ITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------  314 (364)
Q Consensus       253 i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------  314 (364)
                      ||.++|.+++|......++++++++.++|..+++..++++. ..|.++..++..+..++|++                  
T Consensus         1 It~e~V~~~lG~v~~~~i~~l~~ai~~~d~~~~l~~~~~l~-~~G~d~~~~l~~L~~~~R~ll~~k~~~~~~~~~~~~~~   79 (143)
T PF12169_consen    1 ITAEDVREILGLVDEEQIFELLDAILEGDAAEALELLNELL-EQGKDPKQFLDDLIEYLRDLLLYKITGDKSNLLELSEE   79 (143)
T ss_dssp             B-HHHHHHHHTHTSTHHHHHHHHHHHTT-HHHHHHHHHHHH-HCT--HHHHHHHHHHHHHHHHHHTTSGGGS-SG--CTT
T ss_pred             CCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhCCchhhcccCCHH
Confidence            68899999999999999999999999999999999999999 99999999999999999976                  


Q ss_pred             ----------CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 ----------KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 ----------~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                                .++.+.+..+++.+.+.+..++.+.++++.+|-.+.++|..
T Consensus        80 ~~~~~~~~a~~~~~~~l~~~~~~l~~~~~~lr~s~~pr~~lE~~llrl~~~  130 (143)
T PF12169_consen   80 EEEKLKELAKKFSPERLQRILQILLEAENELRYSSNPRILLEMALLRLCQL  130 (143)
T ss_dssp             THHHHHHHHHHS-HHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHH
Confidence                      45666788999999999999999999999999999999974

It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=98.60  E-value=1.4e-06  Score=75.11  Aligned_cols=136  Identities=21%  Similarity=0.290  Sum_probs=86.2

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceE
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (364)
                      .+...+...  -.-.++||+|+|||++++.+++.+     +..++.+|+++......+...+...+..          +.
T Consensus        24 ~l~~al~~~--~~~~~~GpagtGKtetik~La~~l-----G~~~~vfnc~~~~~~~~l~ril~G~~~~----------Ga   86 (231)
T PF12774_consen   24 TLTQALSLN--LGGALSGPAGTGKTETIKDLARAL-----GRFVVVFNCSEQMDYQSLSRILKGLAQS----------GA   86 (231)
T ss_dssp             HHHHHHCTT--TEEEEESSTTSSHHHHHHHHHHCT-----T--EEEEETTSSS-HHHHHHHHHHHHHH----------T-
T ss_pred             HHHHHhccC--CCCCCcCCCCCCchhHHHHHHHHh-----CCeEEEecccccccHHHHHHHHHHHhhc----------Cc
Confidence            444444333  224789999999999999999997     5677888999887777777777777653          56


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHh--------------------ccCccEEEEeec----cccCchhhhccceEEEecC
Q 017884          144 LVLLDEADAMTKDAQFALRRVIEKY--------------------TKNTRFALICNQ----VNKIIPALQSRCTRFRFAP  199 (364)
Q Consensus       144 viiiDe~~~l~~~~~~~L~~~le~~--------------------~~~~~~Il~~~~----~~~l~~~l~sr~~~i~~~~  199 (364)
                      .+.+||++++..+....+...+...                    .+++.+.++.|.    ...+++.+++-++.+.+..
T Consensus        87 W~cfdefnrl~~~vLS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~lFRpvam~~  166 (231)
T PF12774_consen   87 WLCFDEFNRLSEEVLSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKALFRPVAMMV  166 (231)
T ss_dssp             EEEEETCCCSSHHHHHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCTTEEEEE--S
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHHHhheeEEeC
Confidence            9999999999987765554444321                    123333344442    2478888988899999999


Q ss_pred             CChHHHHHHHHHHHHHcCCC
Q 017884          200 LEPVHVTERLKHVIEAEGLD  219 (364)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~  219 (364)
                      |+...+.+++   +-..|..
T Consensus       167 PD~~~I~ei~---L~s~GF~  183 (231)
T PF12774_consen  167 PDLSLIAEIL---LLSQGFK  183 (231)
T ss_dssp             --HHHHHHHH---HHCCCTS
T ss_pred             CCHHHHHHHH---HHHcCch
Confidence            9877765554   3344543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.58  E-value=1.6e-07  Score=84.56  Aligned_cols=123  Identities=18%  Similarity=0.216  Sum_probs=70.4

Q ss_pred             CCCCCcchhc----cHHHHHHHHHHHhcC----CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH
Q 017884           48 RPQSLADVAA----HRDIVDTIDRLTSEN----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (364)
Q Consensus        48 ~p~~~~~~vg----~~~~~~~l~~~~~~~----~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  119 (364)
                      ...+|+++..    +..+......++...    ...+++|+||+|+|||+++.++++++...+....++.+  +.  -..
T Consensus       122 ~~atf~~~~~~~~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~--~~--l~~  197 (306)
T PRK08939        122 LQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF--PE--FIR  197 (306)
T ss_pred             hcCcHHHhcCCChHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH--HH--HHH
Confidence            3456776664    233344445555532    23459999999999999999999999765555444433  11  011


Q ss_pred             HHHHHH-----HHHHhcCccccCCccceEEEEEeCCCCC--CHHHHHHHH-HHHHHh-ccCccEEEEeecc
Q 017884          120 VVRQQI-----QDFASTQSFSFGVKASVKLVLLDEADAM--TKDAQFALR-RVIEKY-TKNTRFALICNQV  181 (364)
Q Consensus       120 ~~~~~i-----~~~~~~~~~~~~~~~~~~viiiDe~~~l--~~~~~~~L~-~~le~~-~~~~~~Il~~~~~  181 (364)
                      .+...+     ......    +   ....+++|||+..-  ++-....++ .+++.. ......|++||..
T Consensus       198 ~lk~~~~~~~~~~~l~~----l---~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~  261 (306)
T PRK08939        198 ELKNSISDGSVKEKIDA----V---KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFD  261 (306)
T ss_pred             HHHHHHhcCcHHHHHHH----h---cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCC
Confidence            111111     111111    1   14679999998655  444443444 455643 4566788888754

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.58  E-value=3.1e-06  Score=81.03  Aligned_cols=142  Identities=18%  Similarity=0.215  Sum_probs=84.8

Q ss_pred             hhccHHHHHHHHHHHhcCC---------C---CcEEEeCCCCccHHHHHHHHHHHHcCC----CCCCcEEEEeCCCCCCh
Q 017884           55 VAAHRDIVDTIDRLTSENR---------L---PHLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASDDRGI  118 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~---------~---~~lll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~~~~~  118 (364)
                      +.|++++++-|.-.+-+|.         .   -|+||+|.||+|||.+.+.+++.+...    +.+...+-+.+.-....
T Consensus       431 Iye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtrd~  510 (804)
T KOG0478|consen  431 IYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKDP  510 (804)
T ss_pred             hhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEEecC
Confidence            6667777776554443331         1   248999999999999999999876321    10000000000000000


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEEeeccc---
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN---  182 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~~~~~~---  182 (364)
                       .-++.+-   ++--.-.+   +.++..|||+|+|+...+..|.+.||..             +..+.++.++|+..   
T Consensus       511 -dtkqlVL---esGALVLS---D~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~sky  583 (804)
T KOG0478|consen  511 -DTRQLVL---ESGALVLS---DNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKY  583 (804)
T ss_pred             -ccceeee---ecCcEEEc---CCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccC
Confidence             0011110   00001012   5789999999999999999999999963             35667777776322   


Q ss_pred             ----------cCchhhhccceE--EEecCCChH
Q 017884          183 ----------KIIPALQSRCTR--FRFAPLEPV  203 (364)
Q Consensus       183 ----------~l~~~l~sr~~~--i~~~~~~~~  203 (364)
                                .++++|.|||..  +-+.++++.
T Consensus       584 np~k~i~eNI~LpptLLSRFDLIylllD~~DE~  616 (804)
T KOG0478|consen  584 NPNKSIIENINLPPTLLSRFDLIFLLLDKPDER  616 (804)
T ss_pred             CCCCchhhccCCChhhhhhhcEEEEEecCcchh
Confidence                      478899999955  445666654

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.58  E-value=5.8e-07  Score=87.85  Aligned_cols=134  Identities=22%  Similarity=0.267  Sum_probs=83.5

Q ss_pred             chhccHHHHHHHHHHHhcCC------------CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC--CCCCChH
Q 017884           54 DVAAHRDIVDTIDRLTSENR------------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA--SDDRGID  119 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~~~------------~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~--~~~~~~~  119 (364)
                      .+.|++.+++.+.-++-+|.            --|+||.|.||+|||.+.+.+.+...      ..++.++  +...|..
T Consensus       287 sIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aP------r~vytsgkgss~~GLT  360 (682)
T COG1241         287 SIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAP------RGVYTSGKGSSAAGLT  360 (682)
T ss_pred             cccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCC------ceEEEccccccccCce
Confidence            47788888887666554331            12599999999999999999998752      1122222  1111111


Q ss_pred             --HHHHHH-HHH-HhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEEeeccc
Q 017884          120 --VVRQQI-QDF-ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN  182 (364)
Q Consensus       120 --~~~~~i-~~~-~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~~~~~~  182 (364)
                        ..++.. .++ .+.--+-+   ++++|+.|||+|.|......++...||..             +..|.++.++|+..
T Consensus       361 Aav~rd~~tge~~LeaGALVl---AD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaNP~~  437 (682)
T COG1241         361 AAVVRDKVTGEWVLEAGALVL---ADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAANPKF  437 (682)
T ss_pred             eEEEEccCCCeEEEeCCEEEE---ecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhCCCC
Confidence              111111 000 01000001   25889999999999999999999999974             24455566666443


Q ss_pred             -------------cCchhhhccceEEE
Q 017884          183 -------------KIIPALQSRCTRFR  196 (364)
Q Consensus       183 -------------~l~~~l~sr~~~i~  196 (364)
                                   .++++|.|||..+.
T Consensus       438 Gryd~~~~~~enI~l~~~lLSRFDLif  464 (682)
T COG1241         438 GRYDPKKTVAENINLPAPLLSRFDLIF  464 (682)
T ss_pred             CcCCCCCCHHHhcCCChhHHhhCCeeE
Confidence                         57789999985543

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.56  E-value=5.7e-07  Score=89.99  Aligned_cols=118  Identities=23%  Similarity=0.367  Sum_probs=83.4

Q ss_pred             cchhccHHHHHHHHHHHhcC-----CC-C--cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC------C---
Q 017884           53 ADVAAHRDIVDTIDRLTSEN-----RL-P--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD------D---  115 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~-----~~-~--~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~------~---  115 (364)
                      +.++||++++..+-..+...     +. |  .++|.||+|+|||.+|++++..+++..  ..++.++.+.      .   
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse--~~~IriDmse~~evskligs  639 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSE--ENFIRLDMSEFQEVSKLIGS  639 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCc--cceEEechhhhhhhhhccCC
Confidence            45789999999888877532     11 2  289999999999999999999997554  3444554432      0   


Q ss_pred             ----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeec
Q 017884          116 ----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQ  180 (364)
Q Consensus       116 ----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~  180 (364)
                          .+.+ ....+.+.....        .+.||++||++.-....++.|+.++++..           .++.||+++|.
T Consensus       640 p~gyvG~e-~gg~Lteavrrr--------P~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn~  710 (898)
T KOG1051|consen  640 PPGYVGKE-EGGQLTEAVKRR--------PYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSNV  710 (898)
T ss_pred             Ccccccch-hHHHHHHHHhcC--------CceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEeccc
Confidence                1111 122333333332        47899999999999999999999999752           56788888764


Q ss_pred             c
Q 017884          181 V  181 (364)
Q Consensus       181 ~  181 (364)
                      -
T Consensus       711 ~  711 (898)
T KOG1051|consen  711 G  711 (898)
T ss_pred             c
Confidence            3

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.54  E-value=1e-06  Score=83.65  Aligned_cols=133  Identities=22%  Similarity=0.260  Sum_probs=80.8

Q ss_pred             CcchhccHHHHHHHHHHHhcC------------CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC--CCCCC
Q 017884           52 LADVAAHRDIVDTIDRLTSEN------------RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA--SDDRG  117 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~------------~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~--~~~~~  117 (364)
                      |-.+.||+.++.-+.-.+-+|            .-.|+++.|.||+||+.+.++.+.-..      ..++.++  +...|
T Consensus       344 ~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsP------R~vYtsGkaSSaAG  417 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSP------RSVYTSGKASSAAG  417 (764)
T ss_pred             CccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCC------cceEecCccccccc
Confidence            344778888887665555433            123699999999999999999887642      2222222  11111


Q ss_pred             hH--HHHHHH-HHH-HhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEEeec
Q 017884          118 ID--VVRQQI-QDF-ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQ  180 (364)
Q Consensus       118 ~~--~~~~~i-~~~-~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~~~~  180 (364)
                      ..  .+++.- .+| .+.--.-.   ++.+|..|||+|+|....+.++.+.||..             +..+.++.++|+
T Consensus       418 LTaaVvkD~esgdf~iEAGALmL---ADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAANP  494 (764)
T KOG0480|consen  418 LTAAVVKDEESGDFTIEAGALML---ADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAANP  494 (764)
T ss_pred             ceEEEEecCCCCceeeecCcEEE---ccCceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhcCC
Confidence            10  111100 000 00000001   25789999999999998999999999974             344556666654


Q ss_pred             cc-------------cCchhhhccce
Q 017884          181 VN-------------KIIPALQSRCT  193 (364)
Q Consensus       181 ~~-------------~l~~~l~sr~~  193 (364)
                      ..             ++.++|.|||.
T Consensus       495 v~GhYdR~ktl~eNi~msApimSRFD  520 (764)
T KOG0480|consen  495 VGGHYDRKKTLRENINMSAPIMSRFD  520 (764)
T ss_pred             cCCccccccchhhhcCCCchhhhhhc
Confidence            32             56788999974

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=98.54  E-value=3.4e-07  Score=81.21  Aligned_cols=148  Identities=20%  Similarity=0.285  Sum_probs=83.8

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc-ccCC-ccc
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF-SFGV-KAS  141 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-~~~~-~~~  141 (364)
                      -+..++..+  .+++|+||+|+|||.+++.+.+.+...  ...+..++.+.......+...++.......- .+++ .++
T Consensus        25 ll~~l~~~~--~pvLl~G~~GtGKT~li~~~l~~l~~~--~~~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~k  100 (272)
T PF12775_consen   25 LLDLLLSNG--RPVLLVGPSGTGKTSLIQNFLSSLDSD--KYLVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGK  100 (272)
T ss_dssp             HHHHHHHCT--EEEEEESSTTSSHHHHHHHHHHCSTTC--CEEEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSS
T ss_pred             HHHHHHHcC--CcEEEECCCCCchhHHHHhhhccCCcc--ccceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCc
Confidence            344455554  469999999999999999988775332  2223344444332223333333222211110 0111 224


Q ss_pred             eEEEEEeCCCCCCHH------HHHHHHHHHHHh------------ccCccEEEEeecc---ccCchhhhccceEEEecCC
Q 017884          142 VKLVLLDEADAMTKD------AQFALRRVIEKY------------TKNTRFALICNQV---NKIIPALQSRCTRFRFAPL  200 (364)
Q Consensus       142 ~~viiiDe~~~l~~~------~~~~L~~~le~~------------~~~~~~Il~~~~~---~~l~~~l~sr~~~i~~~~~  200 (364)
                      +.|++|||+..-..+      ..+.|+.+++..            -.++.+|.+++..   ..+.+.+.+.+.++.++.|
T Consensus       101 ~lv~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r~f~i~~~~~p  180 (272)
T PF12775_consen  101 KLVLFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLRHFNILNIPYP  180 (272)
T ss_dssp             EEEEEEETTT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHTTEEEEE----
T ss_pred             EEEEEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhhheEEEEecCC
Confidence            669999999777532      356677777642            1345556555532   2467788888999999999


Q ss_pred             ChHHHHHHHHHHHHH
Q 017884          201 EPVHVTERLKHVIEA  215 (364)
Q Consensus       201 ~~~~~~~~l~~~~~~  215 (364)
                      +.+.+..+...++..
T Consensus       181 ~~~sl~~If~~il~~  195 (272)
T PF12775_consen  181 SDESLNTIFSSILQS  195 (272)
T ss_dssp             TCCHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhh
Confidence            999999988877653

>PLN03210 Resistant to P

Probab=98.52  E-value=4.5e-06  Score=88.96  Aligned_cols=187  Identities=12%  Similarity=0.107  Sum_probs=104.1

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE---eCCC---------C
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL---NASD---------D  115 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~---~~~~---------~  115 (364)
                      ..+++++|.+..++.+..++....  ...+.|+|++|+||||+|++++..+........++..   ....         .
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcccccccc
Confidence            467899999999999988875432  2227999999999999999999887443211111110   0000         0


Q ss_pred             CC--hHHHHHHHHHHHhcCccccC--------CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCc
Q 017884          116 RG--IDVVRQQIQDFASTQSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKII  185 (364)
Q Consensus       116 ~~--~~~~~~~i~~~~~~~~~~~~--------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~  185 (364)
                      ..  .......+............        -...+-+|++||++..  ...+.|....+......++|++|....-+.
T Consensus       261 ~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~  338 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIVITKDKHFLR  338 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEEEeCcHHHHH
Confidence            00  00011112221111100000        0114669999998653  344555443333344667888876543221


Q ss_pred             hhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCCHHHHH
Q 017884          186 PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT--EGGLAALVRLCNGDMRKAL  240 (364)
Q Consensus       186 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~--~~~~~~l~~~~~g~~r~a~  240 (364)
                      ..  .-..++..+.++.++..+++...+-+....-+  .+....++++++|-|-.+.
T Consensus       339 ~~--~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~  393 (1153)
T PLN03210        339 AH--GIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLN  393 (1153)
T ss_pred             hc--CCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHH
Confidence            10  01257888899999888888877654322111  2345668888888664433

syringae 6; Provisional

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

Probab=98.50  E-value=2.4e-07  Score=77.57  Aligned_cols=48  Identities=25%  Similarity=0.392  Sum_probs=33.4

Q ss_pred             chhccHHHHHHHHHHHh---cCCCCcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           54 DVAAHRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~---~~~~~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      +++|+++.++.+...+.   .+..+.++|+|++|+|||++++++...+...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            37999999999999983   2233448999999999999999998887544

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=98.48  E-value=5.3e-06  Score=78.62  Aligned_cols=228  Identities=15%  Similarity=0.173  Sum_probs=122.0

Q ss_pred             hhccHHHHHHHHHHHhcCCC------------CcEEEeCCCCccHHHHHHHHHHHHc----CCCCCCcEEEEeCCCCCCh
Q 017884           55 VAAHRDIVDTIDRLTSENRL------------PHLLLYGPPGTGKTSTILAVARKLY----GAQYHNMILELNASDDRGI  118 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~~------------~~lll~G~~G~GKt~la~~l~~~l~----~~~~~~~~~~~~~~~~~~~  118 (364)
                      +.|+..++..+.-.+-+|..            -|+||+|.||+||+.+.+..++.-.    ..+.+...+-+++.... .
T Consensus       451 IyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~K-d  529 (854)
T KOG0477|consen  451 IYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRK-D  529 (854)
T ss_pred             hhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEee-C
Confidence            66788887777666654421            1489999999999999999987631    11111111111111100 0


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEEeeccc---
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN---  182 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~~~~~~---  182 (364)
                      ...+++   ..+.-..-++   +++|.+|||+|.|.......+-+.||..             ...|.+|.++|+..   
T Consensus       530 PvtrEW---TLEaGALVLA---DkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanPigGRY  603 (854)
T KOG0477|consen  530 PVTREW---TLEAGALVLA---DKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANPIGGRY  603 (854)
T ss_pred             Ccccee---eeccCeEEEc---cCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCCCCCcc
Confidence            001111   0010001122   5889999999999987777777777653             34677888886521   


Q ss_pred             ----------cCchhhhccceEEEe-----cCCChHHHHHHH-HHHHHHcC-------C----------CCCHHHHHHHH
Q 017884          183 ----------KIIPALQSRCTRFRF-----APLEPVHVTERL-KHVIEAEG-------L----------DVTEGGLAALV  229 (364)
Q Consensus       183 ----------~l~~~l~sr~~~i~~-----~~~~~~~~~~~l-~~~~~~~~-------~----------~i~~~~~~~l~  229 (364)
                                .+..++.||+.++..     .|..++.+.+++ ....+...       .          .++.+.+..-+
T Consensus       604 ~~s~tFaqNV~ltePIlSRFDiLcVvkD~vd~~~De~lA~fVV~Sh~r~hp~~~~~~~~~e~~~~~~v~~ipq~lLrkyI  683 (854)
T KOG0477|consen  604 NPSLTFAQNVDLTEPILSRFDILCVVKDTVDPVQDEKLAKFVVGSHVRHHPSNKEEDGLEEPQMPARVEPIPQELLRKYI  683 (854)
T ss_pred             CCccchhhccccccchhhhcceeeeeecccCchhHHHHHHHHHHhHhhcCCcccccCcccccccccccccChHHHHHHHH
Confidence                      577899999765443     334444444443 33332211       1          14555554444


Q ss_pred             HHcC---------CCHHHHHH---HHHHHHHhc--ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHH
Q 017884          230 RLCN---------GDMRKALN---ILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRI  289 (364)
Q Consensus       230 ~~~~---------g~~r~a~~---~l~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l  289 (364)
                      .++.         +|..+.-+   .|.+.....  -+||..+++.++.-.....--.+-+.+...+...|+..+
T Consensus       684 ~yar~~v~PkL~q~d~~K~s~vya~lRkES~~tGs~piTvRHieS~ir~seAhArm~Lr~~V~~~d~~~AI~v~  757 (854)
T KOG0477|consen  684 IYAREKVRPKLNQMDMDKISSVYADLRKESMATGSLPITVRHIESMIRMSEAHARMHLREYVTEEDVDMAIRVM  757 (854)
T ss_pred             HHHHHhcccccccccHHHHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHhhccHhHHHHHHHHH
Confidence            4332         33333322   222222222  278888888776544333333445556666666666643

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

Probab=98.46  E-value=1.8e-05  Score=71.24  Aligned_cols=200  Identities=18%  Similarity=0.209  Sum_probs=109.8

Q ss_pred             cchhccHHHHHHHHHHHhcCC--CCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE--------------EeCCCC
Q 017884           53 ADVAAHRDIVDTIDRLTSENR--LPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE--------------LNASDD  115 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~--~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~--------------~~~~~~  115 (364)
                      ..+.+++..+..|...+....  .|. +.+||.+|+|||.+++.+.+..+.++.-.+.++              .+..+.
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~d~   85 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLADK   85 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccCCC
Confidence            357788999999999887653  454 699999999999999999998743321111111              000111


Q ss_pred             CC--h----HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHH---HHHHHHHHHHhcc-CccEEEEeeccccCc
Q 017884          116 RG--I----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA---QFALRRVIEKYTK-NTRFALICNQVNKII  185 (364)
Q Consensus       116 ~~--~----~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~---~~~L~~~le~~~~-~~~~Il~~~~~~~l~  185 (364)
                      .+  .    +.+.+.+..+.+...  .......-++++|++|.+.+-.   ...|++.-+-.+. .++++++.....+..
T Consensus        86 dg~~~~~~~en~~d~i~~l~q~~~--~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e~~y  163 (438)
T KOG2543|consen   86 DGDKVEGDAENFSDFIYLLVQWPA--ATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCEKQY  163 (438)
T ss_pred             chhhhhhHHHHHHHHHHHHHhhHH--hhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccHHHh
Confidence            11  0    112222222222110  1111236689999999997432   3334443333222 455666654443332


Q ss_pred             hhhhcc--ceEEEecCCChHHHHHHHHHHHHHcCCCCCHH----H----HHHHHHHcCCCHHHHHHHHHHHHH-hcccCc
Q 017884          186 PALQSR--CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEG----G----LAALVRLCNGDMRKALNILQSTHM-ASQQIT  254 (364)
Q Consensus       186 ~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~----~----~~~l~~~~~g~~r~a~~~l~~~~~-~~~~i~  254 (364)
                      ..=.+.  ..+++|+.++.+++..++..--.  | ....+    -    ++-+...+. |+......+...+. +.++++
T Consensus       164 ~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p--~-~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~wpky~epi~  239 (438)
T KOG2543|consen  164 LINTGTLEIVVLHFPQYSVEETQVILSRDNP--G-KRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLAWPKYCEPIT  239 (438)
T ss_pred             hcccCCCCceEEecCCCCHHHHHHHHhcCCc--c-ccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHHhhccccc
Confidence            210121  26799999999999988875321  0 22221    1    222333444 99999988876664 444444


Q ss_pred             hHHH
Q 017884          255 EEAV  258 (364)
Q Consensus       255 ~~~v  258 (364)
                      .+.+
T Consensus       240 ~~~i  243 (438)
T KOG2543|consen  240 KGKI  243 (438)
T ss_pred             cCCC
Confidence            4433

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.44  E-value=6e-05  Score=74.47  Aligned_cols=180  Identities=17%  Similarity=0.194  Sum_probs=110.5

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhcCCC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~~~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      .+|......+-++.+...    +..+.. .-++|.-|.|+||||++-.++. ...++.....+.++.+++.....+...+
T Consensus        13 ~~P~~~~~~v~R~rL~~~----L~~~~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~dndp~rF~~yLi   87 (894)
T COG2909          13 VRPVRPDNYVVRPRLLDR----LRRANDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDESDNDPARFLSYLI   87 (894)
T ss_pred             CCCCCcccccccHHHHHH----HhcCCCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCccCCHHHHHHHHH
Confidence            445555666666655555    444422 2379999999999999999987 4444444444444444432221111111


Q ss_pred             HHHHhcCcc--------------------------ccCCccceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEe
Q 017884          126 QDFASTQSF--------------------------SFGVKASVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       126 ~~~~~~~~~--------------------------~~~~~~~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ...-...|-                          ..+...++-.+||||.|.++... ...+..+++..|++..+|++|
T Consensus        88 ~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~S  167 (894)
T COG2909          88 AALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTS  167 (894)
T ss_pred             HHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEe
Confidence            111111110                          01122357799999999998655 556777788889999999998


Q ss_pred             ecccc-CchhhhccceEEEe----cCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          179 NQVNK-IIPALQSRCTRFRF----APLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       179 ~~~~~-l~~~l~sr~~~i~~----~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      ..... -...++=|...+++    -..+.+|..+++....   +..++...+..|...++|
T Consensus       168 R~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~---~l~Ld~~~~~~L~~~teG  225 (894)
T COG2909         168 RSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRG---SLPLDAADLKALYDRTEG  225 (894)
T ss_pred             ccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcC---CCCCChHHHHHHHhhccc
Confidence            65433 33344444433332    2345677777776542   488999999999999988

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=98.43  E-value=6.6e-06  Score=79.95  Aligned_cols=167  Identities=19%  Similarity=0.264  Sum_probs=103.8

Q ss_pred             hhccHHHHHHHHHHHhcCC---------CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC--ChHHHHH
Q 017884           55 VAAHRDIVDTIDRLTSENR---------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQ  123 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~---------~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~  123 (364)
                      ..+++..+..+.+.+.-..         .+.+|++|+||+|||++++++++++     +.+++++++....  ..+....
T Consensus       403 ~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~l-----g~h~~evdc~el~~~s~~~~et  477 (953)
T KOG0736|consen  403 PPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASEL-----GLHLLEVDCYELVAESASHTET  477 (953)
T ss_pred             CccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHh-----CCceEeccHHHHhhcccchhHH
Confidence            3445555556666665322         2338999999999999999999998     5677777653311  1111122


Q ss_pred             HHHHHHhcCccccCCccceEEEEEeCCCCCCH--------HHHHHHHHHHH--Hh---ccCccEEEEeeccccCchhhhc
Q 017884          124 QIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIE--KY---TKNTRFALICNQVNKIIPALQS  190 (364)
Q Consensus       124 ~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------~~~~~L~~~le--~~---~~~~~~Il~~~~~~~l~~~l~s  190 (364)
                      .+..+.....     ...+.||++.++|.+.-        ..+..+...+.  .+   ...+.+|.+++....+++.+++
T Consensus       478 kl~~~f~~a~-----~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i~~  552 (953)
T KOG0736|consen  478 KLQAIFSRAR-----RCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADIQS  552 (953)
T ss_pred             HHHHHHHHHh-----hcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHHHH
Confidence            2222211111     11477999998888752        12333444443  11   2344566667888999999999


Q ss_pred             cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcC
Q 017884          191 RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCN  233 (364)
Q Consensus       191 r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~  233 (364)
                      .+ ..+.++.+++++..+|++-+.....  ++.+ ....++.++.
T Consensus       553 ~f~~ei~~~~lse~qRl~iLq~y~~~~~--~n~~v~~k~~a~~t~  595 (953)
T KOG0736|consen  553 LFLHEIEVPALSEEQRLEILQWYLNHLP--LNQDVNLKQLARKTS  595 (953)
T ss_pred             hhhhhccCCCCCHHHHHHHHHHHHhccc--cchHHHHHHHHHhcC
Confidence            87 7899999999999999998877554  3322 2344555543

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

Probab=98.41  E-value=9.4e-06  Score=75.75  Aligned_cols=152  Identities=15%  Similarity=0.267  Sum_probs=92.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE-eCCCCCC------hHHHHHHHHHHHhcCccccCCccceEEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL-NASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDE  149 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~-~~~~~~~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe  149 (364)
                      +++.||||+|||++|-.+|..-     .+.++.+ ++.+..+      ...+...+.+...+         .-.+|++|+
T Consensus       541 vLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS---------~lsiivvDd  606 (744)
T KOG0741|consen  541 VLLEGPPGSGKTALAAKIALSS-----DFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKS---------PLSIIVVDD  606 (744)
T ss_pred             EEEecCCCCChHHHHHHHHhhc-----CCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcC---------cceEEEEcc
Confidence            8999999999999999998873     4555554 3222222      22333434443322         356999999


Q ss_pred             CCCCC----------HHHHHHHHHHHHHhccCc--cEEEEeeccccCch--hhhccc-eEEEecCCCh-HHHHHHHHHHH
Q 017884          150 ADAMT----------KDAQFALRRVIEKYTKNT--RFALICNQVNKIIP--ALQSRC-TRFRFAPLEP-VHVTERLKHVI  213 (364)
Q Consensus       150 ~~~l~----------~~~~~~L~~~le~~~~~~--~~Il~~~~~~~l~~--~l~sr~-~~i~~~~~~~-~~~~~~l~~~~  213 (364)
                      ++.|.          ....++|+-++.+.|+..  .+|++|++......  .+.+.+ ..++.+.++. +++.+++... 
T Consensus       607 iErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~-  685 (744)
T KOG0741|consen  607 IERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEEL-  685 (744)
T ss_pred             hhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHc-
Confidence            98884          344667777777766553  36776655443322  222333 5688888876 7777777653 


Q ss_pred             HHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHH
Q 017884          214 EAEGLDVTEGGLAALVRLCNG-----DMRKALNILQSTH  247 (364)
Q Consensus       214 ~~~~~~i~~~~~~~l~~~~~g-----~~r~a~~~l~~~~  247 (364)
                         + .++++....+++.-.+     -+.+++.+++...
T Consensus       686 ---n-~fsd~~~~~~~~~~~~~~~~vgIKklL~lie~a~  720 (744)
T KOG0741|consen  686 ---N-IFSDDEVRAIAEQLLSKKVNVGIKKLLMLIEMAR  720 (744)
T ss_pred             ---c-CCCcchhHHHHHHHhccccchhHHHHHHHHHHHh
Confidence               3 2455656655544322     2566666666544

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=98.41  E-value=4.2e-05  Score=70.54  Aligned_cols=106  Identities=8%  Similarity=0.150  Sum_probs=72.1

Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHh------ccCccEEEEeeccc---cCchhhhcc-ceEEEecCCChHHHHHHHHH
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEKY------TKNTRFALICNQVN---KIIPALQSR-CTRFRFAPLEPVHVTERLKH  211 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~~------~~~~~~Il~~~~~~---~l~~~l~sr-~~~i~~~~~~~~~~~~~l~~  211 (364)
                      +.|||||++..-... .+.+++.+.+-      ..-..+||.|+...   .+.+++-+| +..+.+...+++..++++..
T Consensus       149 ~PVVVIdnF~~k~~~-~~~iy~~laeWAa~Lv~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~  227 (431)
T PF10443_consen  149 RPVVVIDNFLHKAEE-NDFIYDKLAEWAASLVQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLS  227 (431)
T ss_pred             CCEEEEcchhccCcc-cchHHHHHHHHHHHHHhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHH
Confidence            569999998776544 34444443332      23456888886543   344566566 57899999999999999998


Q ss_pred             HHHHcC-C-------------------CCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017884          212 VIEAEG-L-------------------DVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (364)
Q Consensus       212 ~~~~~~-~-------------------~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~  248 (364)
                      .+.... .                   ..+...++.++..-||-+..+-.+.+++..
T Consensus       228 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks  284 (431)
T PF10443_consen  228 QLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS  284 (431)
T ss_pred             HhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc
Confidence            886531 1                   124556777888889988888877777764

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=98.38  E-value=5.3e-05  Score=69.49  Aligned_cols=75  Identities=16%  Similarity=0.234  Sum_probs=51.4

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhc--cCccEEEEeeccc---------------cCchhhhccc--eEEEecCCC
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYT--KNTRFALICNQVN---------------KIIPALQSRC--TRFRFAPLE  201 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~--~~~~~Il~~~~~~---------------~l~~~l~sr~--~~i~~~~~~  201 (364)
                      .+-||+|||+|++.++....+++.+...-  +++.+|++.+...               ........+.  ..+.+|+++
T Consensus       172 ~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~~~i~~Il~~D~~~l~~ai~~~~~~~~~~~~~~~yLeKiiq~~~~lP~~~  251 (325)
T PF07693_consen  172 KRIVIIIDDLDRCSPEEIVELLEAIKLLLDFPNIIFILAFDPEILEKAIEKNYGEGFDEIDGREYLEKIIQVPFSLPPPS  251 (325)
T ss_pred             ceEEEEEcchhcCCcHHHHHHHHHHHHhcCCCCeEEEEEecHHHHHHHHHhhcCcccccccHHHHHHhhcCeEEEeCCCC
Confidence            57799999999999888777777777653  4677777775321               1111222333  348888899


Q ss_pred             hHHHHHHHHHHHHH
Q 017884          202 PVHVTERLKHVIEA  215 (364)
Q Consensus       202 ~~~~~~~l~~~~~~  215 (364)
                      ..++..++...+..
T Consensus       252 ~~~~~~~~~~~~~~  265 (325)
T PF07693_consen  252 PSDLERYLNELLES  265 (325)
T ss_pred             HHHHHHHHHHHHHH
Confidence            88888888877543

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.38  E-value=7.5e-05  Score=69.07  Aligned_cols=97  Identities=21%  Similarity=0.250  Sum_probs=58.2

Q ss_pred             HHHhcCCCCcEEEeCCCCccHHHHHHHHHHH-HcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEE
Q 017884           67 RLTSENRLPHLLLYGPPGTGKTSTILAVARK-LYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLV  145 (364)
Q Consensus        67 ~~~~~~~~~~lll~G~~G~GKt~la~~l~~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vi  145 (364)
                      .++..+  -|+++.||+|+|||+++.++... ....+.           ......+...+..   ..   .+......+|
T Consensus       204 ~fve~~--~Nli~lGp~GTGKThla~~l~~~~a~~sG~-----------f~T~a~Lf~~L~~---~~---lg~v~~~DlL  264 (449)
T TIGR02688       204 PLVEPN--YNLIELGPKGTGKSYIYNNLSPYVILISGG-----------TITVAKLFYNIST---RQ---IGLVGRWDVV  264 (449)
T ss_pred             HHHhcC--CcEEEECCCCCCHHHHHHHHhHHHHHHcCC-----------cCcHHHHHHHHHH---HH---HhhhccCCEE
Confidence            344444  56999999999999999998877 221221           0112222222221   10   1222257899


Q ss_pred             EEeCCCCCC----HHHHHHHHHHHHHh---------ccCccEEEEeeccc
Q 017884          146 LLDEADAMT----KDAQFALRRVIEKY---------TKNTRFALICNQVN  182 (364)
Q Consensus       146 iiDe~~~l~----~~~~~~L~~~le~~---------~~~~~~Il~~~~~~  182 (364)
                      +|||+..++    ++....|..+|+..         ..++.+||++|-..
T Consensus       265 I~DEvgylp~~~~~~~v~imK~yMesg~fsRG~~~~~a~as~vfvGNi~~  314 (449)
T TIGR02688       265 AFDEVATLKFAKPKELIGILKNYMESGSFTRGDETKSSDASFVFLGNVPL  314 (449)
T ss_pred             EEEcCCCCcCCchHHHHHHHHHHHHhCceeccceeeeeeeEEEEEcccCC
Confidence            999999975    33456777777753         24566788876543

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.29  E-value=1.4e-05  Score=63.26  Aligned_cols=26  Identities=38%  Similarity=0.691  Sum_probs=23.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      +.++|+||+||||++..++..+...+
T Consensus         8 i~ITG~PGvGKtTl~~ki~e~L~~~g   33 (179)
T COG1618           8 IFITGRPGVGKTTLVLKIAEKLREKG   33 (179)
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHhcC
Confidence            89999999999999999999886553

>PRK10536 hypothetical protein; Provisional

Probab=98.27  E-value=3e-05  Score=67.18  Aligned_cols=120  Identities=16%  Similarity=0.143  Sum_probs=67.9

Q ss_pred             cchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc-CCCCCCcEEEEeCCCC---------CC-----
Q 017884           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDD---------RG-----  117 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~---------~~-----  117 (364)
                      ..+.+.......+..++...  +.+++.||+|||||+++.+++.... ...  ...+.+..+..         .|     
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~--~~kIiI~RP~v~~ge~LGfLPG~~~eK  130 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKD--VDRIIVTRPVLQADEDLGFLPGDIAEK  130 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCC--eeEEEEeCCCCCchhhhCcCCCCHHHH
Confidence            34555556666666677664  4589999999999999999998632 322  22222222110         00     


Q ss_pred             h----HHHHHHHHHHH----------------hcCcccc--CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEE
Q 017884          118 I----DVVRQQIQDFA----------------STQSFSF--GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA  175 (364)
Q Consensus       118 ~----~~~~~~i~~~~----------------~~~~~~~--~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~I  175 (364)
                      .    ..+.+.+....                +-.++.+  +..-...+|||||++.++......++   .....++.+|
T Consensus       131 ~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~l---tR~g~~sk~v  207 (262)
T PRK10536        131 FAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFL---TRLGENVTVI  207 (262)
T ss_pred             HHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHH---hhcCCCCEEE
Confidence            0    01111111110                0011100  11114579999999999986555554   4556789999


Q ss_pred             EEee
Q 017884          176 LICN  179 (364)
Q Consensus       176 l~~~  179 (364)
                      ++.+
T Consensus       208 ~~GD  211 (262)
T PRK10536        208 VNGD  211 (262)
T ss_pred             EeCC
Confidence            9885

>PHA02774 E1; Provisional

Probab=98.25  E-value=1.4e-05  Score=76.38  Aligned_cols=137  Identities=20%  Similarity=0.236  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHhcCCCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC
Q 017884           60 DIVDTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  138 (364)
                      .....|+.++++.... .++|+||||+|||+++..+++.+.    +..+..+|.....-                  +..
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~----G~vi~fvN~~s~Fw------------------Lqp  476 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK----GKVISFVNSKSHFW------------------LQP  476 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEECccccc------------------cch
Confidence            4566788888655332 389999999999999999999983    22333344321100                  111


Q ss_pred             ccceEEEEEeCCCCCC-HHHHHHHHHHHHHhc-------------cCccEEEEeeccc---cCchhhhccceEEEecCC-
Q 017884          139 KASVKLVLLDEADAMT-KDAQFALRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRCTRFRFAPL-  200 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~-~~~~~~L~~~le~~~-------------~~~~~Il~~~~~~---~l~~~l~sr~~~i~~~~~-  200 (364)
                      -.+.+++++||+-.-. .-....|+.+++..+             ..+.+|++||...   .-.+.|.||...++|+.+ 
T Consensus       477 l~d~ki~vlDD~t~~~w~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~~~~~~~yL~sRi~~f~F~n~~  556 (613)
T PHA02774        477 LADAKIALLDDATHPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKAEDRYKYLHSRITVFEFPNPF  556 (613)
T ss_pred             hccCCEEEEecCcchHHHHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcccchhhHHhhhhEEEEECCCCC
Confidence            1147899999992221 122335666666432             1256788887432   334578889888887543 


Q ss_pred             ------------ChHHHHHHHHHHHHHcCC
Q 017884          201 ------------EPVHVTERLKHVIEAEGL  218 (364)
Q Consensus       201 ------------~~~~~~~~l~~~~~~~~~  218 (364)
                                  ++...+.+..+...+..+
T Consensus       557 P~d~~G~P~f~ltd~~WKsFF~rlw~~LdL  586 (613)
T PHA02774        557 PLDENGNPVFELTDANWKSFFERLWSQLDL  586 (613)
T ss_pred             CcCCCCCEeeeeCchhHHHHHHHHHHHcCC
Confidence                        234567777777665544

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.25  E-value=5e-06  Score=70.26  Aligned_cols=115  Identities=20%  Similarity=0.321  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH-------HHHHHhcC
Q 017884           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-------IQDFASTQ  132 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------i~~~~~~~  132 (364)
                      +....+...+.++. ...++.|++|+|||+++..+...+...+  ..++-+..+. .....+.+.       +..+....
T Consensus         5 ~Q~~a~~~~l~~~~-~~~~l~G~aGtGKT~~l~~~~~~~~~~g--~~v~~~apT~-~Aa~~L~~~~~~~a~Ti~~~l~~~   80 (196)
T PF13604_consen    5 EQREAVRAILTSGD-RVSVLQGPAGTGKTTLLKALAEALEAAG--KRVIGLAPTN-KAAKELREKTGIEAQTIHSFLYRI   80 (196)
T ss_dssp             HHHHHHHHHHHCTC-SEEEEEESTTSTHHHHHHHHHHHHHHTT----EEEEESSH-HHHHHHHHHHTS-EEEHHHHTTEE
T ss_pred             HHHHHHHHHHhcCC-eEEEEEECCCCCHHHHHHHHHHHHHhCC--CeEEEECCcH-HHHHHHHHhhCcchhhHHHHHhcC
Confidence            34445555555542 3368999999999999999988876543  3333333322 122222222       11222111


Q ss_pred             cccc-C---CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          133 SFSF-G---VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       133 ~~~~-~---~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      +... .   ......+|||||+..+.......|++.+..  .++++|++.+.
T Consensus        81 ~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~  130 (196)
T PF13604_consen   81 PNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDP  130 (196)
T ss_dssp             CCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-T
T ss_pred             CcccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCc
Confidence            1100 0   012357999999999998887777777665  46789999864

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.16  E-value=2.3e-06  Score=70.21  Aligned_cols=64  Identities=17%  Similarity=0.286  Sum_probs=38.9

Q ss_pred             ceEEEEEeCCCCCC---HHHHHHHHHHHHHhccCccEEEEeec--cccCchhhhcc--ceEEEecCCChHHHHH
Q 017884          141 SVKLVLLDEADAMT---KDAQFALRRVIEKYTKNTRFALICNQ--VNKIIPALQSR--CTRFRFAPLEPVHVTE  207 (364)
Q Consensus       141 ~~~viiiDe~~~l~---~~~~~~L~~~le~~~~~~~~Il~~~~--~~~l~~~l~sr--~~~i~~~~~~~~~~~~  207 (364)
                      ...+++|||+..|-   +.-.+++.++|+   ++..+|.+-..  ...+.+.+++|  +.++.+.+-+.+.+..
T Consensus        95 ~~~liviDEIG~mEl~~~~F~~~v~~~l~---s~~~vi~vv~~~~~~~~l~~i~~~~~~~i~~vt~~NRd~l~~  165 (168)
T PF03266_consen   95 SSDLIVIDEIGKMELKSPGFREAVEKLLD---SNKPVIGVVHKRSDNPFLEEIKRRPDVKIFEVTEENRDALPE  165 (168)
T ss_dssp             CCHEEEE---STTCCC-CHHHHHHHHHHC---TTSEEEEE--SS--SCCHHHHHTTTTSEEEE--TTTCCCHHH
T ss_pred             CCCEEEEeccchhhhcCHHHHHHHHHHHc---CCCcEEEEEecCCCcHHHHHHHhCCCcEEEEeChhHHhhHhh
Confidence            46799999998884   566777888877   23345555433  34678888888  7888887777666644

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.15  E-value=1e-05  Score=61.18  Aligned_cols=72  Identities=22%  Similarity=0.409  Sum_probs=44.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC---CCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l  153 (364)
                      +.|+||||+|||++++.|++.+....   ....+...+...    +-               +....+..++++||+...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~----~~---------------w~gY~~q~vvi~DD~~~~   61 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGD----KF---------------WDGYQGQPVVIIDDFGQD   61 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCcc----ch---------------hhccCCCcEEEEeecCcc
Confidence            47999999999999999999875321   111111111111    00               111124679999999888


Q ss_pred             CHH----HHHHHHHHHHH
Q 017884          154 TKD----AQFALRRVIEK  167 (364)
Q Consensus       154 ~~~----~~~~L~~~le~  167 (364)
                      ...    ....+.+++..
T Consensus        62 ~~~~~~~~~~~l~~l~s~   79 (107)
T PF00910_consen   62 NDGYNYSDESELIRLISS   79 (107)
T ss_pred             ccccchHHHHHHHHHHhc
Confidence            754    45566666664

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

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

Probab=98.09  E-value=0.00065  Score=63.82  Aligned_cols=132  Identities=16%  Similarity=0.207  Sum_probs=80.4

Q ss_pred             HHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC-hHHHHHHHHHHHhcCccccCCcc
Q 017884           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-IDVVRQQIQDFASTQSFSFGVKA  140 (364)
Q Consensus        62 ~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~i~~~~~~~~~~~~~~~  140 (364)
                      ...+...+..... .++++||-++||||+++.+.+.+...     .+.++..+... .....+.+........    .  
T Consensus        26 ~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l~d~~~~~~~~~~----~--   93 (398)
T COG1373          26 LPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIELLDLLRAYIELKE----R--   93 (398)
T ss_pred             hHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhHHHHHHHHHHhhc----c--
Confidence            3344444444422 57999999999999998888876332     44554433221 1122333333333211    1  


Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc----cCchhhhccceEEEecCCChHHHHHH
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN----KIIPALQSRCTRFRFAPLEPVHVTER  208 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~----~l~~~l~sr~~~i~~~~~~~~~~~~~  208 (364)
                      +...+++||++.... -...+..+.+..+.  .++++++...    .....+..|...+.+.|++..+....
T Consensus        94 ~~~yifLDEIq~v~~-W~~~lk~l~d~~~~--~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~  162 (398)
T COG1373          94 EKSYIFLDEIQNVPD-WERALKYLYDRGNL--DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL  162 (398)
T ss_pred             CCceEEEecccCchh-HHHHHHHHHccccc--eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence            357999999999863 44555555555443  4555554332    45556777889999999999888653

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.08  E-value=2.4e-05  Score=59.91  Aligned_cols=57  Identities=19%  Similarity=0.247  Sum_probs=39.9

Q ss_pred             cchhccHHHHHHHHHH----HhcCC--CCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           53 ADVAAHRDIVDTIDRL----TSENR--LPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~----~~~~~--~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      ..+.||.-+.+.+.+.    +.+..  .|- +.|+|++|+|||.+++.+|+.++..+....++.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~   88 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVH   88 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCcee
Confidence            4577877666655444    44432  222 579999999999999999999987765544444

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.07  E-value=3.9e-05  Score=67.99  Aligned_cols=159  Identities=15%  Similarity=0.190  Sum_probs=88.2

Q ss_pred             hhccHHHHH----HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHh
Q 017884           55 VAAHRDIVD----TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (364)
Q Consensus        55 ~vg~~~~~~----~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  130 (364)
                      +.|..+..+    .+++.+..|....+++.||.|+|||.++..........+.....+.+|+.-....-.+++...+...
T Consensus        26 l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~  105 (408)
T KOG2228|consen   26 LFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLAL  105 (408)
T ss_pred             eeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHHH
Confidence            556444444    4455555677677999999999999988766665433344555666676543311112211111110


Q ss_pred             c-----Ccc-ccCC---------------ccceEEEEEeCCCCCCHHH-HHHHHHHHHHhc---cCccEEEEeec---cc
Q 017884          131 T-----QSF-SFGV---------------KASVKLVLLDEADAMTKDA-QFALRRVIEKYT---KNTRFALICNQ---VN  182 (364)
Q Consensus       131 ~-----~~~-~~~~---------------~~~~~viiiDe~~~l~~~~-~~~L~~~le~~~---~~~~~Il~~~~---~~  182 (364)
                      .     ..+ +|.+               ....-+.|+||+|.+.+.. |-.|.++++-..   ..+.+|.+|..   .+
T Consensus       106 e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE  185 (408)
T KOG2228|consen  106 ELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILE  185 (408)
T ss_pred             HHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHH
Confidence            0     000 0111               1124466677899887544 555666666322   23345555543   34


Q ss_pred             cCchhhhccc--eEEEe-cCCChHHHHHHHHHHH
Q 017884          183 KIIPALQSRC--TRFRF-APLEPVHVTERLKHVI  213 (364)
Q Consensus       183 ~l~~~l~sr~--~~i~~-~~~~~~~~~~~l~~~~  213 (364)
                      .+-+.++||+  .++.+ ++.+.++..+++++..
T Consensus       186 ~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  186 LLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            6677899998  33444 4445677777777754

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.07  E-value=5.3e-07  Score=82.48  Aligned_cols=140  Identities=24%  Similarity=0.304  Sum_probs=73.3

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCC------------CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENR------------LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~------------~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      +++...|.    +.|++.++..+.-.+-++.            .-|+||.|.||+|||.+.+.+++-.      +..+..
T Consensus        18 l~~s~aP~----i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~------pr~v~~   87 (331)
T PF00493_consen   18 LANSIAPS----IYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLA------PRSVYT   87 (331)
T ss_dssp             CHHHCSST----TTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-------SSEEEE
T ss_pred             HHHHhCCc----CcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhC------CceEEE
Confidence            45555664    7788887776543332221            1269999999999999998775442      222222


Q ss_pred             eCCC--CCChH--HHHHHH-HHH-HhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccC
Q 017884          111 NASD--DRGID--VVRQQI-QDF-ASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKN  171 (364)
Q Consensus       111 ~~~~--~~~~~--~~~~~i-~~~-~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~  171 (364)
                      ++..  ..+..  ..++.. .++ .+.-.+..   ++++|++|||++.+.++....|.+.||..             +..
T Consensus        88 ~g~~~s~~gLta~~~~d~~~~~~~leaGalvl---ad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar  164 (331)
T PF00493_consen   88 SGKGSSAAGLTASVSRDPVTGEWVLEAGALVL---ADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNAR  164 (331)
T ss_dssp             ECCGSTCCCCCEEECCCGGTSSECEEE-HHHH---CTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE--
T ss_pred             CCCCcccCCccceeccccccceeEEeCCchhc---ccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccch
Confidence            2211  11100  000000 000 00000001   25789999999999999999999999963             345


Q ss_pred             ccEEEEeeccc-------------cCchhhhccceEE
Q 017884          172 TRFALICNQVN-------------KIIPALQSRCTRF  195 (364)
Q Consensus       172 ~~~Il~~~~~~-------------~l~~~l~sr~~~i  195 (364)
                      +.++.++|+..             .+.++|.+||..+
T Consensus       165 ~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLSRFDLi  201 (331)
T PF00493_consen  165 CSVLAAANPKFGRYDPNKSLSENINLPPPLLSRFDLI  201 (331)
T ss_dssp             -EEEEEE--TT--S-TTS-CGCCT-S-CCCHCC-SEE
T ss_pred             hhhHHHHhhhhhhcchhhhhHHhcccchhhHhhcCEE
Confidence            66777776443             4677899999544

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>PRK04296 thymidine kinase; Provisional

Probab=98.03  E-value=4e-05  Score=64.46  Aligned_cols=91  Identities=18%  Similarity=0.276  Sum_probs=51.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC--CCCC---------Ch-------HHHHHHHHHHHhcCccccCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA--SDDR---------GI-------DVVRQQIQDFASTQSFSFGV  138 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~--~~~~---------~~-------~~~~~~i~~~~~~~~~~~~~  138 (364)
                      .+++||+|+|||+++..++..+...+....++  .+  ....         +.       ....+.+..+..       .
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~--k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-------~   75 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEERGMKVLVF--KPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-------E   75 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE--eccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-------h
Confidence            58999999999999999988875444332222  21  0000         10       011111111111       0


Q ss_pred             ccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      .....+|+|||++.+..+....|.+.+.  +....+|++.
T Consensus        76 ~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tg  113 (190)
T PRK04296         76 GEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYG  113 (190)
T ss_pred             CCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEe
Confidence            1146799999999997765555555554  3355566665

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=98.03  E-value=0.00049  Score=64.34  Aligned_cols=129  Identities=29%  Similarity=0.418  Sum_probs=77.2

Q ss_pred             hhccHHHHHHHHHHHhcCC---CC---------cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC--CCh--
Q 017884           55 VAAHRDIVDTIDRLTSENR---LP---------HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--RGI--  118 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~---~~---------~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--~~~--  118 (364)
                      +.|++++++.+.=++-+|.   .|         ++|+.|.||+.|+.+.+.+-+-      .+..++-++...  .|.  
T Consensus       333 IfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkv------sPIaVYTSGKGSSAAGLTA  406 (729)
T KOG0481|consen  333 IFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKV------SPIAVYTSGKGSSAAGLTA  406 (729)
T ss_pred             hcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhc------CceEEEecCCCccccccee
Confidence            6688888888766665441   11         3899999999999999887654      222222222111  110  


Q ss_pred             HHHHHHHHHHHhcCccccCC----ccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-------------cCccEEEEeecc
Q 017884          119 DVVRQQIQDFASTQSFSFGV----KASVKLVLLDEADAMTKDAQFALRRVIEKYT-------------KNTRFALICNQV  181 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~----~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-------------~~~~~Il~~~~~  181 (364)
                      ..+++     ..+..|.+..    .++++|+.|||+|.|.++..-++-+.||...             ..|.++.++|+.
T Consensus       407 SV~RD-----~~tReFylEGGAMVLADgGVvCIDEFDKMre~DRVAIHEAMEQQTISIAKAGITT~LNSRtSVLAAANpv  481 (729)
T KOG0481|consen  407 SVIRD-----PSTREFYLEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRTSVLAAANPV  481 (729)
T ss_pred             eEEec-----CCcceEEEecceEEEecCCEEEeehhhccCchhhhHHHHHHHhhhHHHhhhcceeeecchhhhhhhcCCc
Confidence            01111     1111111111    1257899999999999999889999998642             344455555533


Q ss_pred             c-------------cCchhhhccceE
Q 017884          182 N-------------KIIPALQSRCTR  194 (364)
Q Consensus       182 ~-------------~l~~~l~sr~~~  194 (364)
                      .             .+.+++.||+..
T Consensus       482 fGRyDd~Kt~~dNIDf~~TILSRFDm  507 (729)
T KOG0481|consen  482 FGRYDDTKTGEDNIDFMPTILSRFDM  507 (729)
T ss_pred             cccccccCCcccccchhhhHhhhccE
Confidence            2             356788899743

>PHA02624 large T antigen; Provisional

Probab=98.01  E-value=4.1e-05  Score=73.62  Aligned_cols=118  Identities=17%  Similarity=0.175  Sum_probs=72.2

Q ss_pred             HHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCc
Q 017884           61 IVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (364)
Q Consensus        61 ~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~  139 (364)
                      ....++.++++-.... ++|+||+|+|||+++.++++.+.     ..++.+|.+....        ....       +..
T Consensus       417 ~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~-----G~vlsVNsPt~ks--------~FwL-------~pl  476 (647)
T PHA02624        417 IYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCG-----GKSLNVNCPPDKL--------NFEL-------GCA  476 (647)
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcC-----CeEEEeeCCcchh--------HHHh-------hhh
Confidence            3444555555543333 79999999999999999999983     2334455443211        1111       111


Q ss_pred             cceEEEEEeCCCCCCH-----------HHHHHHHHHHHHh-cc-------------CccEEEEeeccccCchhhhccc-e
Q 017884          140 ASVKLVLLDEADAMTK-----------DAQFALRRVIEKY-TK-------------NTRFALICNQVNKIIPALQSRC-T  193 (364)
Q Consensus       140 ~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~-~~-------------~~~~Il~~~~~~~l~~~l~sr~-~  193 (364)
                      .+.+++++|++-.-.-           +....|+.+|+.. +-             -...|+++ +...++.+++-|+ .
T Consensus       477 ~D~~~~l~dD~t~~~~~~~~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~-Ney~iP~T~~~Rf~~  555 (647)
T PHA02624        477 IDQFMVVFEDVKGQPADNKDLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTM-NEYLIPQTVKARFAK  555 (647)
T ss_pred             hhceEEEeeeccccccccccCCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEee-cCcccchhHHHHHHH
Confidence            1578999999843221           1236677777754 20             12344444 5578889999997 6


Q ss_pred             EEEecC
Q 017884          194 RFRFAP  199 (364)
Q Consensus       194 ~i~~~~  199 (364)
                      ++.|.+
T Consensus       556 ~~~F~~  561 (647)
T PHA02624        556 VLDFKP  561 (647)
T ss_pred             hccccc
Confidence            777754

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=97.98  E-value=1.2e-05  Score=74.10  Aligned_cols=118  Identities=19%  Similarity=0.258  Sum_probs=66.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCC-CCcEEEEeCCCCCChHHHHHHHHHHH-hcCcc-----ccCCccceEEEEE
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDFA-STQSF-----SFGVKASVKLVLL  147 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~-~~~~~-----~~~~~~~~~viii  147 (364)
                      .+++|||++|+|||.+.-.+...+..... ...+.++       ...+...+.... ...+.     .+..  +..||.+
T Consensus        63 ~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~F-------m~~vh~~l~~~~~~~~~l~~va~~l~~--~~~lLcf  133 (362)
T PF03969_consen   63 KGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEF-------MLDVHSRLHQLRGQDDPLPQVADELAK--ESRLLCF  133 (362)
T ss_pred             ceEEEECCCCCchhHHHHHHHHhCCccccccccccHH-------HHHHHHHHHHHhCCCccHHHHHHHHHh--cCCEEEE
Confidence            34999999999999999999998754211 1111110       111111111111 00000     0111  4679999


Q ss_pred             eCCCCCCHHHHHHHHHHHHHhc-cCccEEEEeeccc--------------cCchhhhccceEEEecCCC
Q 017884          148 DEADAMTKDAQFALRRVIEKYT-KNTRFALICNQVN--------------KIIPALQSRCTRFRFAPLE  201 (364)
Q Consensus       148 De~~~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~--------------~l~~~l~sr~~~i~~~~~~  201 (364)
                      ||++.-.....-.|.++++..- ..+++|.+||.+.              ...+.|.++|.++.+....
T Consensus       134 DEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv~ld~~~  202 (362)
T PF03969_consen  134 DEFQVTDIADAMILKRLFEALFKRGVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCDVVELDGGV  202 (362)
T ss_pred             eeeeccchhHHHHHHHHHHHHHHCCCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceEEEEecCCC
Confidence            9998776555555555555543 3455666666432              1234667889999887663

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.98  E-value=0.00015  Score=76.18  Aligned_cols=154  Identities=20%  Similarity=0.290  Sum_probs=103.8

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCc--cccCC------ccceEEEE
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS--FSFGV------KASVKLVL  146 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~--~~~~~------~~~~~vii  146 (364)
                      -++++.||+.+|||+++..+++..     +..++.+|.....   ...+.+..+.....  ..|..      ..++--|+
T Consensus       889 fP~LiQGpTSSGKTSMI~yla~~t-----ghkfVRINNHEHT---dlqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIV  960 (4600)
T COG5271         889 FPLLIQGPTSSGKTSMILYLARET-----GHKFVRINNHEHT---DLQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIV  960 (4600)
T ss_pred             CcEEEecCCCCCcchHHHHHHHHh-----CccEEEecCcccc---hHHHHhhceeecCCCceeeehhHHHHHHhcCcEEE
Confidence            449999999999999999999986     4556666644321   22333333221110  00110      11355899


Q ss_pred             EeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEEeeccc-------cCchhhhccceEEEecCCChHHHH
Q 017884          147 LDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN-------KIIPALQSRCTRFRFAPLEPVHVT  206 (364)
Q Consensus       147 iDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~~~~~~-------~l~~~l~sr~~~i~~~~~~~~~~~  206 (364)
                      +||...-+.+..++|-++++..             |..-..+|+|.+|.       -+..+++.|+..++|...+++++.
T Consensus       961 LDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipedEle 1040 (4600)
T COG5271         961 LDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPEDELE 1040 (4600)
T ss_pred             eeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHhhhHhhhcccCcHHHHH
Confidence            9999999999999999999852             22223456664433       356788899999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHcC-CCHHHHHH
Q 017884          207 ERLKHVIEAEGLDVTEGGLAALVRLCN-GDMRKALN  241 (364)
Q Consensus       207 ~~l~~~~~~~~~~i~~~~~~~l~~~~~-g~~r~a~~  241 (364)
                      .++..+     +.|.+.-+..+++... -.+|+-++
T Consensus      1041 ~ILh~r-----c~iapSyakKiVeVyr~Ls~rRs~~ 1071 (4600)
T COG5271        1041 EILHGR-----CEIAPSYAKKIVEVYRGLSSRRSIN 1071 (4600)
T ss_pred             HHHhcc-----CccCHHHHHHHHHHHHHhhhhhhHH
Confidence            999874     5678888777776653 34444444

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.97  E-value=0.0017  Score=66.79  Aligned_cols=106  Identities=11%  Similarity=0.118  Sum_probs=73.6

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhc--c--CccEEEEeeccccCchhhhcc--ceEEEecCCChHHHHHHHHHHHH
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYT--K--NTRFALICNQVNKIIPALQSR--CTRFRFAPLEPVHVTERLKHVIE  214 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~--~--~~~~Il~~~~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~  214 (364)
                      ++-|+|+||+|...+...+.|..+|...+  .  ...+..+.+....+....++.  ...+.+.|++..+....+...+.
T Consensus       154 ~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~  233 (849)
T COG3899         154 HPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLG  233 (849)
T ss_pred             CCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhC
Confidence            57899999999999998888888888654  0  111111112222222233333  46799999999999999998875


Q ss_pred             HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017884          215 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       215 ~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                      .. ...+.+..+.+.+.+.|||--+...++.+.
T Consensus       234 ~~-~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~  265 (849)
T COG3899         234 CT-KLLPAPLLELIFEKTKGNPFFIEEFLKALY  265 (849)
T ss_pred             Cc-ccccchHHHHHHHHhcCCCccHHHHHHHHH
Confidence            42 356778889999999999877666665544

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=97.93  E-value=0.0002  Score=63.30  Aligned_cols=150  Identities=19%  Similarity=0.289  Sum_probs=87.8

Q ss_pred             hhccHHHHHHH---HHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhc
Q 017884           55 VAAHRDIVDTI---DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (364)
Q Consensus        55 ~vg~~~~~~~l---~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (364)
                      +|--++++..+   .+.+... .+|+++.|..|+||+++++..+--.     +..++++..+...+..++++.++.....
T Consensus        10 lVlf~~ai~hi~ri~RvL~~~-~Gh~LLvG~~GsGr~sl~rLaa~i~-----~~~~~~i~~~~~y~~~~f~~dLk~~~~~   83 (268)
T PF12780_consen   10 LVLFDEAIEHIARISRVLSQP-RGHALLVGVGGSGRQSLARLAAFIC-----GYEVFQIEITKGYSIKDFKEDLKKALQK   83 (268)
T ss_dssp             ----HHHHHHHHHHHHHHCST-TEEEEEECTTTSCHHHHHHHHHHHT-----TEEEE-TTTSTTTHHHHHHHHHHHHHHH
T ss_pred             eeeHHHHHHHHHHHHHHHcCC-CCCeEEecCCCccHHHHHHHHHHHh-----ccceEEEEeeCCcCHHHHHHHHHHHHHH
Confidence            34444555544   4444443 3679999999999999998655443     5566666666666677777777665443


Q ss_pred             CccccCCccceEEEEEeCCCCCCHHHH---------------------HHHHH---------------------HHHHhc
Q 017884          132 QSFSFGVKASVKLVLLDEADAMTKDAQ---------------------FALRR---------------------VIEKYT  169 (364)
Q Consensus       132 ~~~~~~~~~~~~viiiDe~~~l~~~~~---------------------~~L~~---------------------~le~~~  169 (364)
                      .    +..+.+.+++++|.+-..+.-.                     +.+..                     +++.-.
T Consensus        84 a----g~~~~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~l~~~~~~~~~~~~~~~~~~~F~~rvr  159 (268)
T PF12780_consen   84 A----GIKGKPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISSLREEAKAEGISDSRESLYEFFIERVR  159 (268)
T ss_dssp             H----HCS-S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHHHHHHHHHCT--SSHHHHHHHHHHHHC
T ss_pred             H----hccCCCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHHhHHHHHHcCCCCchHHHHHHHHHHHH
Confidence            2    2222477888888766542211                     11111                     112223


Q ss_pred             cCccEEEEeeccc-------cCchhhhccceEEEecCCChHHHHHHHHHHHH
Q 017884          170 KNTRFALICNQVN-------KIIPALQSRCTRFRFAPLEPVHVTERLKHVIE  214 (364)
Q Consensus       170 ~~~~~Il~~~~~~-------~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~  214 (364)
                      .+..+|++-++..       ...|.|.++|.+.-|.+.+.+.+..+-...+.
T Consensus       160 ~nLHivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~  211 (268)
T PF12780_consen  160 KNLHIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLS  211 (268)
T ss_dssp             CCEEEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCC
T ss_pred             hheeEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHH
Confidence            5667777765433       34567788898999999999888777665543

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.87  E-value=0.00015  Score=58.94  Aligned_cols=24  Identities=38%  Similarity=0.749  Sum_probs=21.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      ++|+||+|+|||+++..++.....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~   25 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT   25 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh
Confidence            689999999999999999988754

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.

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=97.81  E-value=0.00011  Score=63.93  Aligned_cols=185  Identities=18%  Similarity=0.170  Sum_probs=106.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc-CCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc------ccCCccceEEEEEe
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF------SFGVKASVKLVLLD  148 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~------~~~~~~~~~viiiD  148 (364)
                      ++++.||+|.||+.+++.+...-. ....+-.++++|+....+.......+........-      ..-...+++.+++|
T Consensus       210 p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlfld  289 (531)
T COG4650         210 PILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLFLD  289 (531)
T ss_pred             CeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEehH
Confidence            499999999999999998865321 12345678999999887766554443322111000      00012367899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEee-------ccccCchhhhccceEEEecCCChHHHH----
Q 017884          149 EADAMTKDAQFALRRVIEKYT-----------KNTRFALICN-------QVNKIIPALQSRCTRFRFAPLEPVHVT----  206 (364)
Q Consensus       149 e~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~-------~~~~l~~~l~sr~~~i~~~~~~~~~~~----  206 (364)
                      |+..+..+.|.-|++.+++..           ++..+|.-+-       ......+.+-.|.....|.-|...+..    
T Consensus       290 eigelgadeqamllkaieekrf~pfgsdr~v~sdfqliagtvrdlrq~vaeg~fredl~arinlwtf~lpgl~qr~edie  369 (531)
T COG4650         290 EIGELGADEQAMLLKAIEEKRFYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFREDLYARINLWTFTLPGLRQRQEDIE  369 (531)
T ss_pred             hhhhcCccHHHHHHHHHHhhccCCCCCccccccchHHhhhhHHHHHHHHhccchHHHHHHhhheeeeeccccccCccccC
Confidence            999999999999999999732           1122222220       011233444455555555444332211    


Q ss_pred             ----HHHHHHHHHc--CCCCCHHHHHHHHHH-------cCCCHHHHHHHHHHHHHh--cccCchHHHHH
Q 017884          207 ----ERLKHVIEAE--GLDVTEGGLAALVRL-------CNGDMRKALNILQSTHMA--SQQITEEAVYL  260 (364)
Q Consensus       207 ----~~l~~~~~~~--~~~i~~~~~~~l~~~-------~~g~~r~a~~~l~~~~~~--~~~i~~~~v~~  260 (364)
                          --+.+.+...  .+.+.-++-..-...       ..||+|.+-..+...+..  .+.||.+.|+.
T Consensus       370 pnldyelerha~~~g~~vrfntearra~l~fa~spqa~w~gnfrelsasvtrmatlad~grit~~~ve~  438 (531)
T COG4650         370 PNLDYELERHASLTGDSVRFNTEARRAWLAFATSPQATWRGNFRELSASVTRMATLADSGRITLDVVED  438 (531)
T ss_pred             CCccHHHHHHHHhhCceeeeehHHHHHHHHhccCcchhhcccHHHHhHHHHHHHHHhcCCceeHHHHHH
Confidence                1133333332  334444544333322       258999887766655543  36888887754

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.81  E-value=0.00024  Score=74.73  Aligned_cols=142  Identities=21%  Similarity=0.288  Sum_probs=91.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHH---------HHH-hcCccccCCccceEE
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQ---------DFA-STQSFSFGVKASVKL  144 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~---------~~~-~~~~~~~~~~~~~~v  144 (364)
                      .++++.|.||+|||+++.++|+..     +...+.+|.+....   +-+.+.         ++. ...|+ .....++.-
T Consensus      1544 kpilLEGsPGVGKTSlItaLAr~t-----G~kliRINLSeQTd---L~DLfGsd~Pve~~Gef~w~dapf-L~amr~G~W 1614 (4600)
T COG5271        1544 KPILLEGSPGVGKTSLITALARKT-----GKKLIRINLSEQTD---LCDLFGSDLPVEEGGEFRWMDAPF-LHAMRDGGW 1614 (4600)
T ss_pred             CceeecCCCCccHHHHHHHHHHHh-----cCceEEeeccccch---HHHHhCCCCCcccCceeEecccHH-HHHhhcCCE
Confidence            349999999999999999999986     44555666554321   111110         000 01111 122235779


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHhc--------------cCccEEEEeecc-------ccCchhhhccceEEEecCCChH
Q 017884          145 VLLDEADAMTKDAQFALRRVIEKYT--------------KNTRFALICNQV-------NKIIPALQSRCTRFRFAPLEPV  203 (364)
Q Consensus       145 iiiDe~~~l~~~~~~~L~~~le~~~--------------~~~~~Il~~~~~-------~~l~~~l~sr~~~i~~~~~~~~  203 (364)
                      |++||+...+....+.|-..++...              ++. .||++-+|       ..+++.+..|+.++.+..++.+
T Consensus      1615 VlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~Hpnf-rVFAaqNPq~qggGRKgLPkSF~nRFsvV~~d~lt~d 1693 (4600)
T COG5271        1615 VLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNF-RVFAAQNPQDQGGGRKGLPKSFLNRFSVVKMDGLTTD 1693 (4600)
T ss_pred             EEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCe-eeeeecCchhcCCCcccCCHHHhhhhheEEecccccc
Confidence            9999998888888888877776421              223 35555322       3578899999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 017884          204 HVTERLKHVIEAEGLDVTEGGLAALVR  230 (364)
Q Consensus       204 ~~~~~l~~~~~~~~~~i~~~~~~~l~~  230 (364)
                      ++..+....    -..+.++-...+++
T Consensus      1694 Di~~Ia~~~----yp~v~~d~~~kiik 1716 (4600)
T COG5271        1694 DITHIANKM----YPQVNEDWRLKIIK 1716 (4600)
T ss_pred             hHHHHHHhh----CCccChHHHHHHHH
Confidence            987776554    34556665544443

>PRK13695 putative NTPase; Provisional

Probab=97.81  E-value=0.00066  Score=56.18  Aligned_cols=70  Identities=11%  Similarity=0.232  Sum_probs=45.8

Q ss_pred             ceEEEEEeCCCCCC---HHHHHHHHHHHHHhccCccEEEEeeccc--cCchhhhcc--ceEEEecCCChHHHHHHHHHHH
Q 017884          141 SVKLVLLDEADAMT---KDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQSR--CTRFRFAPLEPVHVTERLKHVI  213 (364)
Q Consensus       141 ~~~viiiDe~~~l~---~~~~~~L~~~le~~~~~~~~Il~~~~~~--~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~  213 (364)
                      ++.++++||+..+.   ....+.+..+++   ....+|++++...  ...+.+.++  +.++++.+-+.+++...+.++.
T Consensus        96 ~~~~lllDE~~~~e~~~~~~~~~l~~~~~---~~~~~i~v~h~~~~~~~~~~i~~~~~~~i~~~~~~~r~~~~~~~~~~~  172 (174)
T PRK13695         96 EADVIIIDEIGKMELKSPKFVKAVEEVLD---SEKPVIATLHRRSVHPFVQEIKSRPGGRVYELTPENRDSLPFEILNRL  172 (174)
T ss_pred             CCCEEEEECCCcchhhhHHHHHHHHHHHh---CCCeEEEEECchhhHHHHHHHhccCCcEEEEEcchhhhhHHHHHHHHH
Confidence            47799999975542   333455555553   2356777776532  345566666  5888898888888877776654

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.80  E-value=6.8e-05  Score=63.15  Aligned_cols=37  Identities=11%  Similarity=0.322  Sum_probs=22.5

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ...+|||||++.+++.....   ++.....++++|++.+.
T Consensus       119 ~~~~iIvDEaQN~t~~~~k~---ilTR~g~~skii~~GD~  155 (205)
T PF02562_consen  119 DNAFIIVDEAQNLTPEELKM---ILTRIGEGSKIIITGDP  155 (205)
T ss_dssp             -SEEEEE-SGGG--HHHHHH---HHTTB-TT-EEEEEE--
T ss_pred             cceEEEEecccCCCHHHHHH---HHcccCCCcEEEEecCc
Confidence            46799999999999765444   45556678999999853

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=97.79  E-value=0.003  Score=58.99  Aligned_cols=93  Identities=24%  Similarity=0.288  Sum_probs=62.4

Q ss_pred             ceEEEEEeCCCCCC--------HHHHHHHHHHHHHhc----cCccEEEEeeccc--------cCchhhhcc---------
Q 017884          141 SVKLVLLDEADAMT--------KDAQFALRRVIEKYT----KNTRFALICNQVN--------KIIPALQSR---------  191 (364)
Q Consensus       141 ~~~viiiDe~~~l~--------~~~~~~L~~~le~~~----~~~~~Il~~~~~~--------~l~~~l~sr---------  191 (364)
                      .+-+|+|||++.+.        ....+.|+.++++..    ++..+++++++..        .-.++|.+|         
T Consensus       239 ~GLlI~lDE~e~l~kl~~~~~R~~~ye~lr~lidd~~~G~~~gL~~~~~gTPef~eD~rrGv~sY~AL~~RL~~~~~~~~  318 (416)
T PF10923_consen  239 KGLLILLDELENLYKLRNDQAREKNYEALRQLIDDIDQGRAPGLYFVFAGTPEFFEDGRRGVYSYEALAQRLAEEFFADD  318 (416)
T ss_pred             CceEEEEechHHHHhcCChHHHHHHHHHHHHHHHHHhcCCCCceEEEEeeCHHHhhCccccccccHHHHHHHhccccccc
Confidence            45699999998773        234577888887643    3566667663211        224556555         


Q ss_pred             ------ceEEEecCCChHHHHHHHHHHHHH------cCCCCCHHHHHHHHHHcC
Q 017884          192 ------CTRFRFAPLEPVHVTERLKHVIEA------EGLDVTEGGLAALVRLCN  233 (364)
Q Consensus       192 ------~~~i~~~~~~~~~~~~~l~~~~~~------~~~~i~~~~~~~l~~~~~  233 (364)
                            ..++.++|++.+++...+.+...-      ....++++.+..+++.+.
T Consensus       319 ~~~n~~~pvIrL~~l~~eel~~l~~klr~i~a~~~~~~~~v~d~~l~~~~~~~~  372 (416)
T PF10923_consen  319 GFDNLRAPVIRLQPLTPEELLELLEKLRDIYAEAYGYESRVDDEELKAFAQHVA  372 (416)
T ss_pred             cccCccCceecCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHH
Confidence                  346899999999998887776542      234678888888886653

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.77  E-value=0.0021  Score=55.56  Aligned_cols=131  Identities=15%  Similarity=0.220  Sum_probs=71.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC---------------ChHHH-------HHHHHHHHhcCc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---------------GIDVV-------RQQIQDFASTQS  133 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---------------~~~~~-------~~~i~~~~~~~~  133 (364)
                      .+++.|++|+|||+++..+...+...-  ..++-+......               ..+.+       ...+.+.....+
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f--~~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~~   92 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKF--DHIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKSP   92 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccC--CEEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhhc
Confidence            389999999999999999988763221  111111111100               01111       111222222111


Q ss_pred             cccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-cCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHH
Q 017884          134 FSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKH  211 (364)
Q Consensus       134 ~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~  211 (364)
                      .  .......+||+||+..- ......+..++.... -++.+|+++.....+++.+++-...+-+-+.+..++..++..
T Consensus        93 ~--~k~~~~~LiIlDD~~~~-~~k~~~l~~~~~~gRH~~is~i~l~Q~~~~lp~~iR~n~~y~i~~~~s~~dl~~i~~~  168 (241)
T PF04665_consen   93 Q--KKNNPRFLIILDDLGDK-KLKSKILRQFFNNGRHYNISIIFLSQSYFHLPPNIRSNIDYFIIFNNSKRDLENIYRN  168 (241)
T ss_pred             c--cCCCCCeEEEEeCCCCc-hhhhHHHHHHHhcccccceEEEEEeeecccCCHHHhhcceEEEEecCcHHHHHHHHHh
Confidence            1  11124779999998542 112334555554332 245678888888889998887775444335666666555544

This is thought to be an ATPase involved in viral DNA packaging [].

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.76  E-value=3.9e-05  Score=71.11  Aligned_cols=88  Identities=26%  Similarity=0.329  Sum_probs=52.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH--cCCCCCCcEEEEeCCCCCChHHHHHHHH----------------HHHhcCccccCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKL--YGAQYHNMILELNASDDRGIDVVRQQIQ----------------DFASTQSFSFGV  138 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~~~~~~i~----------------~~~~~~~~~~~~  138 (364)
                      +++.|.||||||.++-.+++.+  ...+....++..|..-   ...++..+.                .+.......-..
T Consensus         4 ~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l---~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   80 (352)
T PF09848_consen    4 ILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPL---RNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKE   80 (352)
T ss_pred             EEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchH---HHHHHHHHhhhcccchhhhhhhhhHHHHhhccccccc
Confidence            6999999999999999999998  4444444444444322   111222221                111111100011


Q ss_pred             ccceEEEEEeCCCCCCHH--------HHHHHHHHHHH
Q 017884          139 KASVKLVLLDEADAMTKD--------AQFALRRVIEK  167 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~~~--------~~~~L~~~le~  167 (364)
                      .....+|||||+|.+...        ..+.|..++..
T Consensus        81 ~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~  117 (352)
T PF09848_consen   81 KNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR  117 (352)
T ss_pred             CCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc
Confidence            125789999999999872        24566677766

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.76  E-value=0.00016  Score=58.26  Aligned_cols=103  Identities=17%  Similarity=0.212  Sum_probs=61.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC-CCC--------------------------hHHHHHHHHH-H
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRG--------------------------IDVVRQQIQD-F  128 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-~~~--------------------------~~~~~~~i~~-~  128 (364)
                      +.+|+++|.|||++|-.++-+..+.+....++.|--.. ..+                          .......... +
T Consensus         5 i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~~   84 (159)
T cd00561           5 IQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEGW   84 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHHH
Confidence            67888899999999999998877666655554442211 000                          0110001100 1


Q ss_pred             HhcCccccCCccceEEEEEeCCCCCCH---HHHHHHHHHHHHhccCccEEEEeecc
Q 017884          129 ASTQSFSFGVKASVKLVLLDEADAMTK---DAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       129 ~~~~~~~~~~~~~~~viiiDe~~~l~~---~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      ......  -..+.+.+||+||+-...+   -..+.++++++..|.++.+|+++...
T Consensus        85 ~~a~~~--~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          85 AFAKEA--IASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHH--HhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence            000000  0112588999999855522   13567888999999999999999654

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.74  E-value=6.9e-05  Score=63.94  Aligned_cols=20  Identities=60%  Similarity=0.918  Sum_probs=18.5

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      ++|||+||+|||++|+.++.
T Consensus        15 ~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        15 YLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             EEEECCCCCCHHHHHHhcCC
Confidence            89999999999999999863

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.73  E-value=4.5e-05  Score=73.06  Aligned_cols=52  Identities=19%  Similarity=0.248  Sum_probs=42.0

Q ss_pred             CCCCCcchhccHHHHHHHHHHHh----cC--CCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTS----EN--RLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~----~~--~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +...|+++.|.++++.++...+.    +.  +.+.++|.||||+|||++++.+++.+.
T Consensus        71 ry~fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         71 RYPAFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             cccchhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            34568999999999998888772    22  223379999999999999999999874

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.72  E-value=0.0021  Score=58.26  Aligned_cols=48  Identities=19%  Similarity=0.075  Sum_probs=38.3

Q ss_pred             EEEecCCChHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Q 017884          194 RFRFAPLEPVHVTERLKHVIEAEGL---DVTEGGLAALVRLCNGDMRKALN  241 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~---~i~~~~~~~l~~~~~g~~r~a~~  241 (364)
                      .+++++++.+|++.++..+....-+   ..++...+.+.-.++||++.+..
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el~k  308 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPRELEK  308 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHhcc
Confidence            7899999999999999988765433   34566778888888999998753

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.69  E-value=0.00054  Score=63.71  Aligned_cols=99  Identities=22%  Similarity=0.341  Sum_probs=54.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC----CCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcccc-------------CCc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG----AQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF-------------GVK  139 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~----~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-------------~~~  139 (364)
                      ++|+||+|+||||++..++..+..    .+....++..++..   ..... .+..++.....++             ...
T Consensus       177 i~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R---~aa~e-QL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        177 FILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYR---IGAKK-QIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCcc---HHHHH-HHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            799999999999999999987642    22333333333221   11111 1333333211110             011


Q ss_pred             cceEEEEEeCCCCCCHH--HHHHHHHHHHHhcc--CccEEEEee
Q 017884          140 ASVKLVLLDEADAMTKD--AQFALRRVIEKYTK--NTRFALICN  179 (364)
Q Consensus       140 ~~~~viiiDe~~~l~~~--~~~~L~~~le~~~~--~~~~Il~~~  179 (364)
                      .++.+|+||.+..+..+  ....+..+++....  .+.+|+.++
T Consensus       253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat  296 (388)
T PRK12723        253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSST  296 (388)
T ss_pred             CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            25789999999988743  23566666665432  344555543

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]

Probab=97.69  E-value=0.00018  Score=68.06  Aligned_cols=141  Identities=18%  Similarity=0.180  Sum_probs=89.2

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCC------CC------cEEEeCCCCccHHHHHHHHHHHHc----CCCCCCc
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENR------LP------HLLLYGPPGTGKTSTILAVARKLY----GAQYHNM  106 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~------~~------~lll~G~~G~GKt~la~~l~~~l~----~~~~~~~  106 (364)
                      +.....|.    +.||+.+++.+.-++-+|.      ..      ++++.|.|.+.|+.+.+.+.+...    ..+.+..
T Consensus       295 La~SLAPS----I~GH~~vKkAillLLlGGvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSS  370 (818)
T KOG0479|consen  295 LARSLAPS----IYGHDYVKKAILLLLLGGVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSS  370 (818)
T ss_pred             HhhccCcc----cccHHHHHHHHHHHHhccceeccCCCceeccceeEEEecCchHHHHHHHHHHHhcccccccccCCCCC
Confidence            34445554    7899999998877765441      11      389999999999999999987642    1122222


Q ss_pred             EEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCcc
Q 017884          107 ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTR  173 (364)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~  173 (364)
                      .+-+++.-....+.-...++.-+    +-++   +++||.|||+|.|+.-..-++-+.||..             ...|.
T Consensus       371 GVGLTAAVTtD~eTGERRLEAGA----MVLA---DRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHasLNARCS  443 (818)
T KOG0479|consen  371 GVGLTAAVTTDQETGERRLEAGA----MVLA---DRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHASLNARCS  443 (818)
T ss_pred             CccceeEEeeccccchhhhhcCc----eEEc---cCceEEehhcccccchhHHHHHHHHhcceEEeEeccchhhhcccee
Confidence            22222211111111112222211    1123   5889999999999998899999999963             35677


Q ss_pred             EEEEeeccc-------------cCchhhhccceE
Q 017884          174 FALICNQVN-------------KIIPALQSRCTR  194 (364)
Q Consensus       174 ~Il~~~~~~-------------~l~~~l~sr~~~  194 (364)
                      ++.++|+..             .++..|.|||..
T Consensus       444 VlAAANPvyG~Yd~~k~P~eNIgLpDSLLSRFDL  477 (818)
T KOG0479|consen  444 VLAAANPVYGQYDQSKTPMENIGLPDSLLSRFDL  477 (818)
T ss_pred             eeeecCccccccCCCCChhhccCCcHHHHhhhcE
Confidence            888877543             467788999844

>PTZ00202 tuzin; Provisional

Probab=97.66  E-value=0.0024  Score=59.48  Aligned_cols=51  Identities=18%  Similarity=0.256  Sum_probs=42.6

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhcCCC--Cc-EEEeCCCCccHHHHHHHHHHHH
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSENRL--PH-LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~~~~--~~-lll~G~~G~GKt~la~~l~~~l   98 (364)
                      -|....+++|++.....|...+.....  +. +.|.|++|+|||++++.+...+
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l  310 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE  310 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC
Confidence            456677899999999999999975433  32 5999999999999999999876

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.66  E-value=0.00037  Score=58.74  Aligned_cols=123  Identities=19%  Similarity=0.285  Sum_probs=63.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcccc---C----------------
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF---G----------------  137 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~---~----------------  137 (364)
                      ++|.||+|+||||++-.+|..+...+....++..+.......++    ++.++.....++   .                
T Consensus         4 i~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQ----L~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    4 IALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQ----LKTYAEILGVPFYVARTESDPAEIAREALEKF   79 (196)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHH----HHHHHHHHTEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHH----HHHHHHHhccccchhhcchhhHHHHHHHHHHH
Confidence            69999999999999999998876554444444443332212222    222222211110   0                


Q ss_pred             CccceEEEEEeCCCCCCH--HHHHHHHHHHHHhc-cCccEEEEeeccccCchhhhcc-----ceEEEecCCChH
Q 017884          138 VKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQVNKIIPALQSR-----CTRFRFAPLEPV  203 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~-~~~~~Il~~~~~~~l~~~l~sr-----~~~i~~~~~~~~  203 (364)
                      ...+..+|+||-+.....  +....+.++++... ..+.+|+.++........+..+     ..-+-|..+++.
T Consensus        80 ~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~~~~lIlTKlDet  153 (196)
T PF00448_consen   80 RKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAFGIDGLILTKLDET  153 (196)
T ss_dssp             HHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSSTCEEEEESTTSS
T ss_pred             hhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcccCceEEEEeecCC
Confidence            001256999998877763  34566767666653 3344555543322222222221     133556666664

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 ....

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.66  E-value=0.00043  Score=69.95  Aligned_cols=114  Identities=18%  Similarity=0.220  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH-------HHHHHHhc
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ-------QIQDFAST  131 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------~i~~~~~~  131 (364)
                      +.....+......   +.+++.|+||||||++++++...+...+.... +.+-++.......+.+       .+..+...
T Consensus       326 ~~Q~~Ai~~~~~~---~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~-v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~  401 (720)
T TIGR01448       326 EEQKQALDTAIQH---KVVILTGGPGTGKTTITRAIIELAEELGGLLP-VGLAAPTGRAAKRLGEVTGLTASTIHRLLGY  401 (720)
T ss_pred             HHHHHHHHHHHhC---CeEEEECCCCCCHHHHHHHHHHHHHHcCCCce-EEEEeCchHHHHHHHHhcCCccccHHHHhhc
Confidence            4444455544322   34799999999999999999888754431122 2222222111111111       12222211


Q ss_pred             Cccc--c---CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          132 QSFS--F---GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       132 ~~~~--~---~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      .+..  .   .......+|||||+..+.......|++.   .+..+++|++.+
T Consensus       402 ~~~~~~~~~~~~~~~~~llIvDEaSMvd~~~~~~Ll~~---~~~~~rlilvGD  451 (720)
T TIGR01448       402 GPDTFRHNHLEDPIDCDLLIVDESSMMDTWLALSLLAA---LPDHARLLLVGD  451 (720)
T ss_pred             cCCccchhhhhccccCCEEEEeccccCCHHHHHHHHHh---CCCCCEEEEECc
Confidence            1100  0   0001467999999999988777666654   456789999985

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.65  E-value=0.00018  Score=59.52  Aligned_cols=31  Identities=32%  Similarity=0.551  Sum_probs=26.5

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      |-++|+|+||+|||++++.+++.+....+..
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~v   32 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWRV   32 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhhc
Confidence            5589999999999999999999997665443

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=97.64  E-value=0.00048  Score=69.93  Aligned_cols=114  Identities=13%  Similarity=0.238  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH-------HHHHHHhc
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ-------QIQDFAST  131 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------~i~~~~~~  131 (364)
                      +.....+...+...  ..++|.|++|+|||++++++...+...+.  .+.-+..+. .....+.+       .+..+...
T Consensus       355 ~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~i~~~~~~~g~--~V~~~ApTg-~Aa~~L~~~~g~~a~Ti~~~~~~  429 (744)
T TIGR02768       355 EEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKAAREAWEAAGY--RVIGAALSG-KAAEGLQAESGIESRTLASLEYA  429 (744)
T ss_pred             HHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHHHHHHHHhCCC--eEEEEeCcH-HHHHHHHhccCCceeeHHHHHhh
Confidence            44555555555432  34799999999999999999887654443  233222111 10011110       01111110


Q ss_pred             CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       132 ~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ............+|||||+..+.......|+.....  ..+++||+++
T Consensus       430 ~~~~~~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~--~~~kliLVGD  475 (744)
T TIGR02768       430 WANGRDLLSDKDVLVIDEAGMVGSRQMARVLKEAEE--AGAKVVLVGD  475 (744)
T ss_pred             hccCcccCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            000001112478999999999998777777665443  4688999985

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.61  E-value=0.00055  Score=60.57  Aligned_cols=35  Identities=34%  Similarity=0.523  Sum_probs=28.2

Q ss_pred             HHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        65 l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +......+...++++.||+|+||||+.+.++..+.
T Consensus       102 l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       102 LPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             HHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            33444556567899999999999999999998874

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.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=97.60  E-value=0.00025  Score=69.65  Aligned_cols=102  Identities=20%  Similarity=0.335  Sum_probs=57.9

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCC--CcEEEEeCCCCCChHHHHHHHHH------------------------HH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDDRGIDVVRQQIQD------------------------FA  129 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~i~~------------------------~~  129 (364)
                      ..+|.|+||||||+++..+...+......  ..-+-+.+.+......+.+.+..                        +.
T Consensus       162 ~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~~~~~~~~~~~a~TiHrlL  241 (586)
T TIGR01447       162 FSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAAEALIAALPSEAVTIHRLL  241 (586)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccchhhhhccccccchhhhhh
Confidence            47999999999999999988776432211  11133333332222222222211                        11


Q ss_pred             hcCc----ccc--CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          130 STQS----FSF--GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       130 ~~~~----~~~--~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ...+    +.+  ...-...+|||||+-.+.......|++.+   +.++++|++++.
T Consensus       242 g~~~~~~~~~~~~~~~l~~dvlIiDEaSMvd~~l~~~ll~al---~~~~rlIlvGD~  295 (586)
T TIGR01447       242 GIKPDTKRFRHHERNPLPLDVLVVDEASMVDLPLMAKLLKAL---PPNTKLILLGDK  295 (586)
T ss_pred             cccCCcchhhhcccCCCcccEEEEcccccCCHHHHHHHHHhc---CCCCEEEEECCh
Confidence            1111    000  00013569999999999877666665544   568999999853

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.60  E-value=0.00074  Score=54.16  Aligned_cols=23  Identities=30%  Similarity=0.592  Sum_probs=21.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.+.||+|+||+++.+.++..+
T Consensus        31 ~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHhcc
Confidence            37999999999999999999876

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.59  E-value=0.00069  Score=57.79  Aligned_cols=51  Identities=22%  Similarity=0.352  Sum_probs=39.3

Q ss_pred             ceEEEEEeC-CCCCCHHHHHHHHHHHHHhc---cCccEEEEeeccccCchhhhcc
Q 017884          141 SVKLVLLDE-ADAMTKDAQFALRRVIEKYT---KNTRFALICNQVNKIIPALQSR  191 (364)
Q Consensus       141 ~~~viiiDe-~~~l~~~~~~~L~~~le~~~---~~~~~Il~~~~~~~l~~~l~sr  191 (364)
                      .+.++|+|| ++.|.....+.|++.+++..   ..+.+|++|.....+++-+..+
T Consensus       189 ~P~LLiLDEP~~GLDl~~re~ll~~l~~~~~~~~~~~ll~VtHh~eEi~~~~th~  243 (257)
T COG1119         189 DPELLILDEPAQGLDLIAREQLLNRLEELAASPGAPALLFVTHHAEEIPPCFTHR  243 (257)
T ss_pred             CCCEEEecCccccCChHHHHHHHHHHHHHhcCCCCceEEEEEcchhhcccccceE
Confidence            688999999 56677777888888888754   3566899999888888766544

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.56  E-value=0.00056  Score=58.43  Aligned_cols=35  Identities=26%  Similarity=0.533  Sum_probs=26.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      +.++||||+|||+++..++......+  ..++.++..
T Consensus        15 ~~i~G~~GsGKT~l~~~~~~~~~~~g--~~v~yi~~e   49 (209)
T TIGR02237        15 TQIYGPPGSGKTNICMILAVNAARQG--KKVVYIDTE   49 (209)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECC
Confidence            69999999999999999988765443  345555554

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

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=97.54  E-value=0.00031  Score=69.27  Aligned_cols=102  Identities=17%  Similarity=0.263  Sum_probs=58.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCChHHHHHH------------------------HHHHHh
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQ------------------------IQDFAS  130 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~------------------------i~~~~~  130 (364)
                      ..+|.|+||||||+++..+...+.... .....+.+.+.+......+.+.                        +..+..
T Consensus       169 ~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg  248 (615)
T PRK10875        169 ISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLLG  248 (615)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHhC
Confidence            379999999999999999888764321 1112233433332222222222                        222222


Q ss_pred             cCcc----ccCCc--cceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          131 TQSF----SFGVK--ASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       131 ~~~~----~~~~~--~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ..+.    .+...  -...++||||+..+.-.....|++.+   ++++++|++++.
T Consensus       249 ~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al---~~~~rlIlvGD~  301 (615)
T PRK10875        249 AQPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDAL---PPHARVIFLGDR  301 (615)
T ss_pred             cCCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHHhc---ccCCEEEEecch
Confidence            1111    00000  12469999999999877666666654   578999999863

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=97.53  E-value=0.00096  Score=60.76  Aligned_cols=115  Identities=23%  Similarity=0.309  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE-eCCCCCChHHHHHHHHHHHhcCccccC
Q 017884           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL-NASDDRGIDVVRQQIQDFASTQSFSFG  137 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (364)
                      ..+..++.++++-...+ ++|||||++|||.+...+.+-+.     ..++.+ |.... .            -     +.
T Consensus       247 ~Fl~~lk~~Lkg~PKKnClvi~GPPdTGKS~F~~SLi~Fl~-----GkViSf~Ns~Sh-F------------W-----Lq  303 (432)
T PF00519_consen  247 SFLIALKQFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK-----GKVISFVNSKSH-F------------W-----LQ  303 (432)
T ss_dssp             HHHHHHHHHHHTBTTSSEEEEESSCCCSHHHHHHHHHHHHT-----SEEE-GGGTTSC-G------------G-----GG
T ss_pred             HHHHHHHHHHhCCCcccEEEEECCCCCchhHHHHHHHHHhC-----CEEEEecCCCCc-c------------c-----cc
Confidence            34457777787644444 89999999999999999999983     233332 22111 1            1     11


Q ss_pred             CccceEEEEEeCCCCCCHHHHHH----HHHHHHHhc-------------cCccEEEEeecc---ccCchhhhccceEEEe
Q 017884          138 VKASVKLVLLDEADAMTKDAQFA----LRRVIEKYT-------------KNTRFALICNQV---NKIIPALQSRCTRFRF  197 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~~~~~~~----L~~~le~~~-------------~~~~~Il~~~~~---~~l~~~l~sr~~~i~~  197 (364)
                      +..+.++.+|||+   +....+.    |+..++..+             .-..++++||..   +.-..-|.||...++|
T Consensus       304 PL~d~Ki~llDDA---T~~cW~Y~D~ylRNaLDGN~vsiD~KHkap~Qik~PPLlITsN~dv~~~~~~~YLhSRi~~f~F  380 (432)
T PF00519_consen  304 PLADAKIALLDDA---TYPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKKDDRWKYLHSRITCFEF  380 (432)
T ss_dssp             GGCT-SSEEEEEE----HHHHHHHHHHTHHHHCTSEEEEEESSSEEEEEE---EEEEESS-TTTSCCCHHHCTTEEEEE-
T ss_pred             chhcCcEEEEcCC---cccHHHHHHHHHHhccCCCeeeeeccCCCceEeecCceEEecCCCCCcchhhhhhhheEEEEEc
Confidence            1225789999998   4444444    444444322             123456666532   2335678899988888


Q ss_pred             cCC
Q 017884          198 APL  200 (364)
Q Consensus       198 ~~~  200 (364)
                      +.+
T Consensus       381 ~n~  383 (432)
T PF00519_consen  381 PNP  383 (432)
T ss_dssp             -S-
T ss_pred             CCc
Confidence            654

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.52  E-value=0.00054  Score=63.78  Aligned_cols=43  Identities=28%  Similarity=0.407  Sum_probs=32.5

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      |..+...+.+.+......++++.|+.|+|||++++++...+..
T Consensus         6 Q~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    6 QRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            4455555555565554455899999999999999999988754

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.51  E-value=0.00032  Score=55.10  Aligned_cols=25  Identities=36%  Similarity=0.502  Sum_probs=21.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +++++||+|+|||+++..++..+..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            5899999999999999888887754

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>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=97.51  E-value=0.00052  Score=57.42  Aligned_cols=26  Identities=38%  Similarity=0.415  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      ++++||||+|||+++..++......+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g   27 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARG   27 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCC
Confidence            68999999999999999888765443

A related protein is found in archaea.

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

Probab=97.50  E-value=0.00083  Score=54.95  Aligned_cols=98  Identities=19%  Similarity=0.269  Sum_probs=56.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC--h-HHH--------------HHHHHHHHhcCccccC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG--I-DVV--------------RQQIQDFASTQSFSFG  137 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~-~~~--------------~~~i~~~~~~~~~~~~  137 (364)
                      ..+.|.||+|+||||+.+.++..+....   --+.++......  . +..              +..+. .+..    +.
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~~~~---G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~-lara----l~   98 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYKPDS---GEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVE-IARA----LA   98 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCC---eEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHH-HHHH----Hh
Confidence            3489999999999999999987653211   112222211100  0 000              00000 1111    11


Q ss_pred             CccceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          138 VKASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       138 ~~~~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                        .+++++++||. ..+.......+.+++.+... ...+|++++...
T Consensus        99 --~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  143 (163)
T cd03216          99 --RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD  143 (163)
T ss_pred             --cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence              15789999996 45667778888888877643 445667776543

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.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.50  E-value=0.00012  Score=56.63  Aligned_cols=22  Identities=36%  Similarity=0.853  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+||||+++.+++.+
T Consensus         2 I~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999997

...

>PRK14974 cell division protein FtsY; Provisional

Probab=97.49  E-value=0.001  Score=60.76  Aligned_cols=27  Identities=37%  Similarity=0.520  Sum_probs=23.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      ++|.|++|+||||++..++..+...+.
T Consensus       143 i~~~G~~GvGKTTtiakLA~~l~~~g~  169 (336)
T PRK14974        143 IVFVGVNGTGKTTTIAKLAYYLKKNGF  169 (336)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence            799999999999999999988755443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.49  E-value=0.0018  Score=66.60  Aligned_cols=183  Identities=15%  Similarity=0.124  Sum_probs=99.8

Q ss_pred             hccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCc-EEEEeCCCCCChHHHHHHHHHHHhcCcc
Q 017884           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNM-ILELNASDDRGIDVVRQQIQDFASTQSF  134 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~i~~~~~~~~~  134 (364)
                      ||++..++.+...+-......+-+||..|+||||+++.+.+.......++. ++.+..+.......+...|-........
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE  240 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence            999999999999988776666899999999999999999988642221222 2222222222222222222111100000


Q ss_pred             ccCC--------------ccceEEEEEeCCCCCCHHHHHHHHHHHHHh-c---cCccEEEEeeccccCchhhhccceEEE
Q 017884          135 SFGV--------------KASVKLVLLDEADAMTKDAQFALRRVIEKY-T---KNTRFALICNQVNKIIPALQSRCTRFR  196 (364)
Q Consensus       135 ~~~~--------------~~~~~viiiDe~~~l~~~~~~~L~~~le~~-~---~~~~~Il~~~~~~~l~~~l~sr~~~i~  196 (364)
                      ....              ..++-++++||+=.=.  .    ++.+..+ |   ..+.++|+|....--. ....+...++
T Consensus       241 ~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~--d----w~~I~~~~p~~~~g~KvvlTTRs~~V~~-~~m~~~~~~~  313 (889)
T KOG4658|consen  241 EWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEV--D----WDKIGVPFPSRENGSKVVLTTRSEEVCG-RAMGVDYPIE  313 (889)
T ss_pred             ccchhhHHHHHHHHHHHhccCceEEEEecccccc--c----HHhcCCCCCCccCCeEEEEEeccHhhhh-ccccCCcccc
Confidence            0000              0145699999872211  1    2222222 2   2377888886543211 1122245566


Q ss_pred             ecCCChHHHHHHHHHHHHHcCC--CC-CHHHHHHHHHHcCCCHHHHHHHHHHH
Q 017884          197 FAPLEPVHVTERLKHVIEAEGL--DV-TEGGLAALVRLCNGDMRKALNILQST  246 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~--~i-~~~~~~~l~~~~~g~~r~a~~~l~~~  246 (364)
                      ...+++++.-..+++.+-....  .. -++....+++.|+| +--|++.+-..
T Consensus       314 v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~G-LPLAl~viG~~  365 (889)
T KOG4658|consen  314 VECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGG-LPLALNVLGGL  365 (889)
T ss_pred             ccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCC-hHHHHHHHHHH
Confidence            6667777776666666532211  11 25667788888987 44555555443

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.46  E-value=0.0011  Score=57.43  Aligned_cols=47  Identities=26%  Similarity=0.435  Sum_probs=32.2

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      |...+.+|-.+.  ++++|+||+|||+++..++......+  ..++.++..
T Consensus        12 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~--~~v~yi~~e   60 (225)
T PRK09361         12 LDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNG--KKVIYIDTE   60 (225)
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEECC
Confidence            444555553333  69999999999999999998765443  344455544

>PRK14532 adenylate kinase; Provisional

Probab=97.45  E-value=0.0035  Score=52.55  Aligned_cols=23  Identities=30%  Similarity=0.696  Sum_probs=21.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++++.||||+||||+++.+++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999999986

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.45  E-value=0.0017  Score=61.42  Aligned_cols=23  Identities=39%  Similarity=0.667  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|.||+|+||||++..++..+.
T Consensus       224 i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        224 VALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999988764

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.45  E-value=0.0012  Score=68.22  Aligned_cols=113  Identities=16%  Similarity=0.200  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC--------CCChHHHHHHHHHHHh
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD--------DRGIDVVRQQIQDFAS  130 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~--------~~~~~~~~~~i~~~~~  130 (364)
                      +.....+..++...  ..++|.|++|+|||++++.+...+...++.  ++-+..+.        ..+..  -..+..+..
T Consensus       349 ~eQr~Av~~il~s~--~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~--V~~~ApTGkAA~~L~e~tGi~--a~TI~sll~  422 (988)
T PRK13889        349 GEQADALAHVTDGR--DLGVVVGYAGTGKSAMLGVAREAWEAAGYE--VRGAALSGIAAENLEGGSGIA--SRTIASLEH  422 (988)
T ss_pred             HHHHHHHHHHhcCC--CeEEEEeCCCCCHHHHHHHHHHHHHHcCCe--EEEecCcHHHHHHHhhccCcc--hhhHHHHHh
Confidence            34444555555433  246899999999999998887766443332  22222111        00111  011222211


Q ss_pred             cCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          131 TQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       131 ~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      .............+|||||+..+.......|++....  ..+++|++.+
T Consensus       423 ~~~~~~~~l~~~~vlIVDEASMv~~~~m~~LL~~a~~--~garvVLVGD  469 (988)
T PRK13889        423 GWGQGRDLLTSRDVLVIDEAGMVGTRQLERVLSHAAD--AGAKVVLVGD  469 (988)
T ss_pred             hhcccccccccCcEEEEECcccCCHHHHHHHHHhhhh--CCCEEEEECC
Confidence            1000000011467999999999988877777766553  4688999985

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.42  E-value=0.00073  Score=59.46  Aligned_cols=25  Identities=36%  Similarity=0.586  Sum_probs=22.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++|+|+||+||||+++.+++.+...
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            6899999999999999999988543

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.42  E-value=0.0044  Score=57.12  Aligned_cols=124  Identities=18%  Similarity=0.288  Sum_probs=64.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc--CCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcccc-------------CCccc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF-------------GVKAS  141 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-------------~~~~~  141 (364)
                      +.|.||+|+||||+.-.+|....  .......++..+.-   .+.... .+..++..+..++             .....
T Consensus       206 i~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtY---RIGA~E-QLk~Ya~im~vp~~vv~~~~el~~ai~~l~~  281 (407)
T COG1419         206 IALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTY---RIGAVE-QLKTYADIMGVPLEVVYSPKELAEAIEALRD  281 (407)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccc---hhhHHH-HHHHHHHHhCCceEEecCHHHHHHHHHHhhc
Confidence            79999999999988877777654  23333334443322   222221 1232322211110             00124


Q ss_pred             eEEEEEeCCCCCCH--HHHHHHHHHHHHh-ccCccEEEEeeccccCchhhhccc-----eEEEecCCChHH
Q 017884          142 VKLVLLDEADAMTK--DAQFALRRVIEKY-TKNTRFALICNQVNKIIPALQSRC-----TRFRFAPLEPVH  204 (364)
Q Consensus       142 ~~viiiDe~~~l~~--~~~~~L~~~le~~-~~~~~~Il~~~~~~~l~~~l~sr~-----~~i~~~~~~~~~  204 (364)
                      +.+|+||=+.+-..  .....|..+++.- +..+.+++.++...+-...+..++     .-+-|..+++..
T Consensus       282 ~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~~~I~TKlDET~  352 (407)
T COG1419         282 CDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPIDGLIFTKLDETT  352 (407)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcceeEEEcccccC
Confidence            67888887766542  3345555555543 334556666655544444444432     235566666543

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

Probab=97.41  E-value=0.0025  Score=52.28  Aligned_cols=56  Identities=14%  Similarity=0.296  Sum_probs=38.9

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEE
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFR  196 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~  196 (364)
                      .+.+++-||- .++.++....+++++++......-|++++....+....+.|+..++
T Consensus       155 ~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~~rvl~l~  211 (223)
T COG2884         155 QPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMRHRVLALE  211 (223)
T ss_pred             CCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhccCcEEEEe
Confidence            5789999995 6788888889999999877544433444344456666666665443

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.40  E-value=0.0029  Score=55.08  Aligned_cols=35  Identities=23%  Similarity=0.207  Sum_probs=25.8

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHc
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      |...+.+|-++.  ++++|+||+|||+++..++....
T Consensus        14 LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~   50 (234)
T PRK06067         14 LDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGAL   50 (234)
T ss_pred             HHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHH
Confidence            444455553333  79999999999999999976643

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.40  E-value=0.00034  Score=55.72  Aligned_cols=22  Identities=41%  Similarity=0.918  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|+||+||||+++.+++.+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            6899999999999999999886

...

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.39  E-value=0.0011  Score=57.41  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      +++.|++|+|||+++..++..+...+
T Consensus        27 ~~i~G~~G~GKTtl~~~~~~~~~~~g   52 (230)
T PRK08533         27 ILIEGDESTGKSILSQRLAYGFLQNG   52 (230)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            79999999999999877666654443

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.39  E-value=0.0011  Score=61.16  Aligned_cols=29  Identities=34%  Similarity=0.576  Sum_probs=24.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      ++|.||+|+||||++..++..+...+...
T Consensus       244 I~LVGptGvGKTTTiaKLA~~L~~~GkkV  272 (436)
T PRK11889        244 IALIGPTGVGKTTTLAKMAWQFHGKKKTV  272 (436)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCcE
Confidence            79999999999999999999886554433

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.39  E-value=0.0018  Score=53.55  Aligned_cols=97  Identities=18%  Similarity=0.210  Sum_probs=54.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCc-----EEEEeCCC-CCChHHHHHHHHHHHhcCccccCCccceEEEEEeC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNM-----ILELNASD-DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDE  149 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~-----~~~~~~~~-~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe  149 (364)
                      .+.|.||.|+||||+++.++..+........     +..+.... ..+....+-.+....       ..  ++.++++||
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral-------~~--~p~lllLDE   97 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAAL-------LR--NATFYLFDE   97 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHH-------hc--CCCEEEEEC
Confidence            4799999999999999999886532211110     11111100 111111111111111       11  478999999


Q ss_pred             CC-CCCHHHHHHHHHHHHHhcc-C-ccEEEEeecc
Q 017884          150 AD-AMTKDAQFALRRVIEKYTK-N-TRFALICNQV  181 (364)
Q Consensus       150 ~~-~l~~~~~~~L~~~le~~~~-~-~~~Il~~~~~  181 (364)
                      .. .+.......+.+.+.+... . ..+|++++..
T Consensus        98 Pts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~  132 (177)
T cd03222          98 PSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDL  132 (177)
T ss_pred             CcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCH
Confidence            64 5567777888888876532 2 4566777654

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.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.38  E-value=0.0016  Score=52.11  Aligned_cols=94  Identities=20%  Similarity=0.307  Sum_probs=55.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC-------CCCCChHHHHHHHHHHHhcCccccCCccceEEEEE
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA-------SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLL  147 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~-------~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viii  147 (364)
                      ..+.+.||+|+||||+++.++..+.... +  -+.++.       ....+....+-.+.....       .  ++.++++
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~~~~-G--~i~~~~~~~i~~~~~lS~G~~~rv~laral~-------~--~p~illl   94 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELEPDE-G--IVTWGSTVKIGYFEQLSGGEKMRLALAKLLL-------E--NPNLLLL   94 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCCCCc-e--EEEECCeEEEEEEccCCHHHHHHHHHHHHHh-------c--CCCEEEE
Confidence            3479999999999999999988753211 1  011111       001111111111222211       1  4789999


Q ss_pred             eCC-CCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          148 DEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       148 De~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ||. ..+.......+.+++.+.  ...++++++...
T Consensus        95 DEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~  128 (144)
T cd03221          95 DEPTNHLDLESIEALEEALKEY--PGTVILVSHDRY  128 (144)
T ss_pred             eCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHH
Confidence            996 466777788888888876  245666765543

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.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.37  E-value=0.0019  Score=54.46  Aligned_cols=99  Identities=20%  Similarity=0.293  Sum_probs=64.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD  156 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~  156 (364)
                      ++|.|+.|+|||++.+.|....+...       +...  ...+...    ...           +.-++.+||++.+.+.
T Consensus        55 lvl~G~QG~GKStf~~~L~~~~~~d~-------~~~~--~~kd~~~----~l~-----------~~~iveldEl~~~~k~  110 (198)
T PF05272_consen   55 LVLVGKQGIGKSTFFRKLGPEYFSDS-------INDF--DDKDFLE----QLQ-----------GKWIVELDELDGLSKK  110 (198)
T ss_pred             eeEecCCcccHHHHHHHHhHHhccCc-------cccC--CCcHHHH----HHH-----------HhHheeHHHHhhcchh
Confidence            69999999999999999966632211       1111  1112211    111           2569999999999988


Q ss_pred             HHHHHHHHHHH---------------hccCccEEEEeeccccCch-hhhccceEEEecC
Q 017884          157 AQFALRRVIEK---------------YTKNTRFALICNQVNKIIP-ALQSRCTRFRFAP  199 (364)
Q Consensus       157 ~~~~L~~~le~---------------~~~~~~~Il~~~~~~~l~~-~l~sr~~~i~~~~  199 (364)
                      ..+.|..++..               .+..+.||.+||..+-+.. +=-+|+.++.+..
T Consensus       111 ~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L~D~TGnRRf~~v~v~~  169 (198)
T PF05272_consen  111 DVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFLKDPTGNRRFWPVEVSK  169 (198)
T ss_pred             hHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCcceeeCCCCCeEEEEEEEcC
Confidence            88888888764               2455677888887654433 3345677777766

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.37  E-value=0.0012  Score=55.16  Aligned_cols=40  Identities=28%  Similarity=0.399  Sum_probs=25.7

Q ss_pred             eEEEEEeCCCCCCH-HHHHHHHHHHHHhccCccEEEEeecc
Q 017884          142 VKLVLLDEADAMTK-DAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       142 ~~viiiDe~~~l~~-~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      ..++||||+|.+.. .....+..++...+....+++.+..+
T Consensus       130 ~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~  170 (201)
T smart00487      130 VDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATP  170 (201)
T ss_pred             CCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCC
Confidence            45999999999986 44555555555444455555555444

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.37  E-value=0.0039  Score=51.92  Aligned_cols=22  Identities=23%  Similarity=0.610  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|+||+||||+++.+++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999999986

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=97.34  E-value=0.0055  Score=55.61  Aligned_cols=133  Identities=17%  Similarity=0.258  Sum_probs=73.2

Q ss_pred             Ccchhc-cHHHHHHHHHHHh----c-CCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH
Q 017884           52 LADVAA-HRDIVDTIDRLTS----E-NRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (364)
Q Consensus        52 ~~~~vg-~~~~~~~l~~~~~----~-~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (364)
                      ++++.+ .++.+..+..++.    . ..... ++++|+.|+|||+++..+...+.....     ....+.  .       
T Consensus        47 L~~~~~~d~~~~~~l~~~lg~~L~~~~~~~~~~~l~G~g~nGKStl~~~l~~l~G~~~~-----~~~~~~--~-------  112 (304)
T TIGR01613        47 LLETFGGDNELIEYLQRVIGYSLTGNYTEQKLFFLYGNGGNGKSTFQNLLSNLLGDYAT-----TAVASL--K-------  112 (304)
T ss_pred             HHHHhCCCHHHHHHHHHHHhHHhcCCCCceEEEEEECCCCCcHHHHHHHHHHHhChhhc-----cCCcch--h-------
Confidence            344544 3445666666653    2 22222 799999999999999988766522110     000000  0       


Q ss_pred             HHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHH--------------hccCccEEEEeeccccC---chh
Q 017884          125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK--------------YTKNTRFALICNQVNKI---IPA  187 (364)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~--------------~~~~~~~Il~~~~~~~l---~~~  187 (364)
                      +.++ ...++..+...+.++++.+|++.-.......|..+...              ....+.+|+++|....+   ...
T Consensus       113 ~~~~-~~~~f~~a~l~gk~l~~~~E~~~~~~~~~~~lK~lt~gd~i~~~~k~k~~~~~~~~~~~i~~tN~~P~~~~~~~a  191 (304)
T TIGR01613       113 MNEF-QEHRFGLARLEGKRAVIGDEVQKGYRDDESTFKSLTGGDTITARFKNKDPFEFTPKFTLVQSTNHLPRIRGFDGG  191 (304)
T ss_pred             hhhc-cCCCchhhhhcCCEEEEecCCCCCccccHHhhhhhhcCCeEEeecccCCcEEEEEeeEEEEEcCCCCccCCCChh
Confidence            0000 00011122223578999999865332233444444321              12456788999877655   357


Q ss_pred             hhccceEEEecC
Q 017884          188 LQSRCTRFRFAP  199 (364)
Q Consensus       188 l~sr~~~i~~~~  199 (364)
                      +.+|..++.|..
T Consensus       192 ~~RR~~vi~f~~  203 (304)
T TIGR01613       192 IKRRLRIIPFTK  203 (304)
T ss_pred             heeeEEEEeccC
Confidence            888998988854

This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.

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

Probab=97.34  E-value=0.0014  Score=54.00  Aligned_cols=43  Identities=16%  Similarity=0.357  Sum_probs=32.0

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      ++.++++||. ..+.......+.+++.+......+|++++....
T Consensus       114 ~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~  157 (171)
T cd03228         114 DPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLST  157 (171)
T ss_pred             CCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHH
Confidence            5789999995 466677788888888877555567777766543

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.

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=97.34  E-value=0.00017  Score=60.77  Aligned_cols=58  Identities=12%  Similarity=0.158  Sum_probs=34.0

Q ss_pred             ceEEEEEeCCCCCCHHHH------HHHHHHHHHhcc-CccEEEEeeccccCchhhhccc-eEEEec
Q 017884          141 SVKLVLLDEADAMTKDAQ------FALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC-TRFRFA  198 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~------~~L~~~le~~~~-~~~~Il~~~~~~~l~~~l~sr~-~~i~~~  198 (364)
                      .+.++||||++...+...      ......+..... ..-++++|..+..+++.++..+ ..+.+.
T Consensus        79 ~~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~~~~id~~ir~lve~~~~~~  144 (193)
T PF05707_consen   79 KGSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQSPSQIDKFIRDLVEYHYHCR  144 (193)
T ss_dssp             TT-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-GGGB-HHHHCCEEEEEEEE
T ss_pred             CCcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCCHHHHhHHHHHHHheEEEEE
Confidence            367999999998753321      223355554433 4558899988889999888765 334443

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=97.34  E-value=0.0029  Score=56.06  Aligned_cols=97  Identities=18%  Similarity=0.279  Sum_probs=47.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE-----eCCC---CCChHHHHHHHHHHHhcCccccCCccceEEEE
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL-----NASD---DRGIDVVRQQIQDFASTQSFSFGVKASVKLVL  146 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~-----~~~~---~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vii  146 (364)
                      |-++++|-||+|||++++.|...+...+....++.-     ....   .......+..+.......   .+   ...+||
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~---ls---~~~iVI   75 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERA---LS---KDTIVI   75 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHH---HT---T-SEEE
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHh---hc---cCeEEE
Confidence            558999999999999999999988664443332221     1111   111223344443332221   12   257999


Q ss_pred             EeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          147 LDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       147 iDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      +|+...+ +...-.|+.+-........+|.+.
T Consensus        76 ~Dd~nYi-Kg~RYelyclAr~~~~~~c~i~~~  106 (270)
T PF08433_consen   76 LDDNNYI-KGMRYELYCLARAYGTTFCVIYCD  106 (270)
T ss_dssp             E-S---S-HHHHHHHHHHHHHTT-EEEEEEEE
T ss_pred             EeCCchH-HHHHHHHHHHHHHcCCCEEEEEEC
Confidence            9988766 455666666655544333344443

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.34  E-value=0.0018  Score=52.63  Aligned_cols=96  Identities=19%  Similarity=0.275  Sum_probs=56.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC------------------CChHHHHHHHHHHHhcCcccc
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD------------------RGIDVVRQQIQDFASTQSFSF  136 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~------------------~~~~~~~~~i~~~~~~~~~~~  136 (364)
                      ..+.|.|+.|+|||++++.++..+...   .-.+.++....                  .+....+-.+....       
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~~---~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l-------   95 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKPT---SGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARAL-------   95 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCC---ccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHH-------
Confidence            347999999999999999998875321   11122322110                  01111111111111       


Q ss_pred             CCccceEEEEEeCCC-CCCHHHHHHHHHHHHHhccC-ccEEEEeeccc
Q 017884          137 GVKASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKN-TRFALICNQVN  182 (364)
Q Consensus       137 ~~~~~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~-~~~Il~~~~~~  182 (364)
                      ..  .+.++++||.. .+.......+.+.+.+.... ..++++++...
T Consensus        96 ~~--~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  141 (157)
T cd00267          96 LL--NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPE  141 (157)
T ss_pred             hc--CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            11  47899999975 55667788888888775443 45667765543

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.32  E-value=0.0016  Score=55.77  Aligned_cols=21  Identities=29%  Similarity=0.493  Sum_probs=19.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~   96 (364)
                      .++|+||.|+|||++.+.++.
T Consensus        31 ~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          31 IMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            389999999999999999984

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

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.32  E-value=0.0019  Score=58.31  Aligned_cols=49  Identities=20%  Similarity=0.262  Sum_probs=37.1

Q ss_pred             CCCCcchhc----cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           49 PQSLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        49 p~~~~~~vg----~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.++++++.    .+.....|..++..+  .+++++|++|+||||+++++...+.
T Consensus       105 ~~tl~~l~~~g~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       105 VFTLDDYVEAGIMTAAQRDVLREAVLAR--KNILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             CCCHHHHHhcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHhh
Confidence            346677652    344566677777654  4699999999999999999998874

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

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

Probab=97.30  E-value=0.00069  Score=59.25  Aligned_cols=27  Identities=26%  Similarity=0.453  Sum_probs=23.6

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ..++|.||+|+|||++++.+++.+...
T Consensus        17 qr~~I~G~~G~GKTTLlr~I~n~l~~~   43 (249)
T cd01128          17 QRGLIVAPPKAGKTTLLQSIANAITKN   43 (249)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccccc
Confidence            448999999999999999999987544

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.

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.29  E-value=0.0036  Score=56.34  Aligned_cols=115  Identities=17%  Similarity=0.217  Sum_probs=62.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc------ccCCccceEEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFASTQSF------SFGVKASVKLVLLDE  149 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~------~~~~~~~~~viiiDe  149 (364)
                      +++||+-|.|||.+.-.+...+..+. ....+..       ....+.+.+........+      .+.  +..+|+.+||
T Consensus        68 lYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh~-------FM~~vH~~l~~l~g~~dpl~~iA~~~~--~~~~vLCfDE  138 (367)
T COG1485          68 LYLWGGVGRGKTMLMDLFYESLPGERKRRLHFHR-------FMARVHQRLHTLQGQTDPLPPIADELA--AETRVLCFDE  138 (367)
T ss_pred             EEEECCCCccHHHHHHHHHhhCCccccccccHHH-------HHHHHHHHHHHHcCCCCccHHHHHHHH--hcCCEEEeee
Confidence            99999999999999999999874322 1111000       011111111111100000      011  1578999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhccCcc-EEEEeeccc-----------cC---chhhhccceEEEecCC
Q 017884          150 ADAMTKDAQFALRRVIEKYTKNTR-FALICNQVN-----------KI---IPALQSRCTRFRFAPL  200 (364)
Q Consensus       150 ~~~l~~~~~~~L~~~le~~~~~~~-~Il~~~~~~-----------~l---~~~l~sr~~~i~~~~~  200 (364)
                      ++--.....-.|-+++++.-.+.+ ++.++|...           ..   +..|+++|.++.+..+
T Consensus       139 F~VtDI~DAMiL~rL~~~Lf~~GV~lvaTSN~~P~~LY~dGlqR~~FLP~I~li~~~~~v~~vD~~  204 (367)
T COG1485         139 FEVTDIADAMILGRLLEALFARGVVLVATSNTAPDNLYKDGLQRERFLPAIDLIKSHFEVVNVDGP  204 (367)
T ss_pred             eeecChHHHHHHHHHHHHHHHCCcEEEEeCCCChHHhcccchhHHhhHHHHHHHHHheEEEEecCC
Confidence            976655555566667776554444 445554322           22   2345677777665544

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.28  E-value=0.0034  Score=59.43  Aligned_cols=33  Identities=27%  Similarity=0.388  Sum_probs=26.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      ++|+|++|+||||++..++..+...+....++.
T Consensus        98 I~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~  130 (437)
T PRK00771         98 IMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVA  130 (437)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCeEEEec
Confidence            799999999999999999998865554443333

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

Probab=97.27  E-value=0.00099  Score=57.14  Aligned_cols=22  Identities=45%  Similarity=0.853  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+||||||+.+.+-+.+
T Consensus        30 ~vliGpSGsGKTTtLkMINrLi   51 (309)
T COG1125          30 LVLIGPSGSGKTTTLKMINRLI   51 (309)
T ss_pred             EEEECCCCCcHHHHHHHHhccc
Confidence            7999999999999999987765

>PRK06762 hypothetical protein; Provisional

Probab=97.27  E-value=0.0068  Score=49.61  Aligned_cols=22  Identities=27%  Similarity=0.600  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|+|++|+||||+++.+++.+
T Consensus         5 i~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          5 IIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6999999999999999999987

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.27  E-value=0.0027  Score=52.51  Aligned_cols=42  Identities=17%  Similarity=0.317  Sum_probs=30.7

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      +++++++||. ..+.......+.+++..... ...+|++++...
T Consensus       114 ~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  157 (173)
T cd03246         114 NPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPE  157 (173)
T ss_pred             CCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            5789999996 46677778888888877643 455777776654

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

>PRK14528 adenylate kinase; Provisional

Probab=97.26  E-value=0.0077  Score=50.39  Aligned_cols=24  Identities=29%  Similarity=0.735  Sum_probs=21.8

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..+++.||||+|||++++.+++.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999886

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=97.26  E-value=0.0023  Score=66.79  Aligned_cols=99  Identities=13%  Similarity=0.209  Sum_probs=58.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH-------HHHHHHhcCccccCCccceEEEEEe
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ-------QIQDFASTQSFSFGVKASVKLVLLD  148 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-------~i~~~~~~~~~~~~~~~~~~viiiD  148 (364)
                      ..++.|++|+|||++++.+.......++  .++-+..+. .....+.+       .+..+.......-.......++|||
T Consensus       399 ~~~v~G~AGTGKTt~l~~~~~~~e~~G~--~V~g~ApTg-kAA~~L~e~~Gi~a~TIas~ll~~~~~~~~l~~~~vlVID  475 (1102)
T PRK13826        399 IAAVVGRAGAGKTTMMKAAREAWEAAGY--RVVGGALAG-KAAEGLEKEAGIQSRTLSSWELRWNQGRDQLDNKTVFVLD  475 (1102)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCC--eEEEEcCcH-HHHHHHHHhhCCCeeeHHHHHhhhccCccCCCCCcEEEEE
Confidence            3799999999999999999887654443  233222111 10011110       0112111000000011136799999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          149 EADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       149 e~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      |+..+.......|++..+.  ..+++|++++
T Consensus       476 EAsMv~~~~m~~Ll~~~~~--~garvVLVGD  504 (1102)
T PRK13826        476 EAGMVASRQMALFVEAVTR--AGAKLVLVGD  504 (1102)
T ss_pred             CcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            9999998888888877753  4688999985

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.26  E-value=0.0026  Score=59.12  Aligned_cols=48  Identities=29%  Similarity=0.524  Sum_probs=33.8

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      .|...+..|-.+.  ++++|+||+|||+++..++..+...+  ..+++++..
T Consensus        70 eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g--~~VlYvs~E  119 (372)
T cd01121          70 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG--GKVLYVSGE  119 (372)
T ss_pred             HHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC--CeEEEEECC
Confidence            5556666654444  69999999999999999998875432  345555543

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.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.25  E-value=0.0012  Score=55.01  Aligned_cols=105  Identities=17%  Similarity=0.281  Sum_probs=58.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC--ChHHHHHHH-------H-----HHHhcCccccCC--
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR--GIDVVRQQI-------Q-----DFASTQSFSFGV--  138 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~i-------~-----~~~~~~~~~~~~--  138 (364)
                      ..+.|.||+|+||||+++.++..+.... +  -+.+++.+..  .....+..+       .     .........++.  
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~~~~~-G--~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~  102 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLLKPSS-G--EILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGE  102 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCC-c--EEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHH
Confidence            3489999999999999999988653211 1  1223321110  111111111       0     111111100110  


Q ss_pred             ----------ccceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          139 ----------KASVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       139 ----------~~~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                                ..++.++++||. ..+.......+.+++.+...  ...+|++++...
T Consensus       103 ~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~  159 (180)
T cd03214         103 RQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLN  159 (180)
T ss_pred             HHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence                      126789999996 46677788888888887654  455677776544

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.25  E-value=0.0023  Score=55.84  Aligned_cols=58  Identities=19%  Similarity=0.168  Sum_probs=35.5

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      .|...+.+|-.+.  ++++||||+|||+++..++......+  ..++.++...  ..+.+.+..
T Consensus         9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~g--e~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877         9 GMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMG--EPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             hHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcC--CcEEEEEeeC--CHHHHHHHH
Confidence            3445565554444  79999999999999988876643333  3445554432  334444433

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.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.25  E-value=0.0014  Score=53.03  Aligned_cols=34  Identities=29%  Similarity=0.572  Sum_probs=28.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      .+.|+|.+|+||||+|.++.+.|...+....++.
T Consensus        25 viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LD   58 (197)
T COG0529          25 VIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLD   58 (197)
T ss_pred             EEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            4799999999999999999999988776555443

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.25  E-value=0.003  Score=52.46  Aligned_cols=43  Identities=21%  Similarity=0.257  Sum_probs=32.3

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +++++++||. ..+.......+.+.+.+......+|++++....
T Consensus       116 ~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~  159 (178)
T cd03247         116 DAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTG  159 (178)
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            5789999996 566677788888888876555567777766554

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.

>PRK08118 topology modulation protein; Reviewed

Probab=97.24  E-value=0.00072  Score=55.53  Aligned_cols=27  Identities=26%  Similarity=0.433  Sum_probs=23.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ..+++.||+|+||||+|+.+++.+..+
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~   28 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIP   28 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            348999999999999999999998443

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

Probab=97.22  E-value=0.0028  Score=53.13  Aligned_cols=40  Identities=13%  Similarity=0.297  Sum_probs=29.1

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCc-cEEEEeec
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNT-RFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~-~~Il~~~~  180 (364)
                      +++++++||.-. |.++.....+..|.+..... ..|++|..
T Consensus       154 ~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHE  195 (240)
T COG1126         154 DPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHE  195 (240)
T ss_pred             CCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEech
Confidence            688999999754 56777888888888776544 45666643

>PRK07261 topology modulation protein; Provisional

Probab=97.21  E-value=0.0016  Score=53.79  Aligned_cols=22  Identities=18%  Similarity=0.437  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+||||+++.+++.+
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999886

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.20  E-value=0.003  Score=55.86  Aligned_cols=31  Identities=16%  Similarity=0.130  Sum_probs=23.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~  107 (364)
                      ++++|+||+|||+++..++......+....+
T Consensus        39 ~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vly   69 (259)
T TIGR03878        39 INITGVSDTGKSLMVEQFAVTQASRGNPVLF   69 (259)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhCCCcEEE
Confidence            7999999999999999987765444333333

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

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.19  E-value=0.0031  Score=58.82  Aligned_cols=124  Identities=17%  Similarity=0.262  Sum_probs=61.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH-cCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccC------------CccceE
Q 017884           77 LLLYGPPGTGKTSTILAVARKL-YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG------------VKASVK  143 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~------------~~~~~~  143 (364)
                      ++|.||+|+||||++..++... ...+....++  ++..... .. ...+..++.....++.            ...++.
T Consensus       226 i~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Li--t~Dt~R~-aA-~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D  301 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLY--TTDNYRI-AA-IEQLKRYADTMGMPFYPVKDIKKFKETLARDGSE  301 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEe--cccchhh-hH-HHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCC
Confidence            6899999999999999999764 2333322222  2222111 11 1112222111111000            012467


Q ss_pred             EEEEeCCCCCC--HHHHHHHHHHHHHh----ccCccEEEEeeccccCchhhhcc-----ceEEEecCCChHH
Q 017884          144 LVLLDEADAMT--KDAQFALRRVIEKY----TKNTRFALICNQVNKIIPALQSR-----CTRFRFAPLEPVH  204 (364)
Q Consensus       144 viiiDe~~~l~--~~~~~~L~~~le~~----~~~~~~Il~~~~~~~l~~~l~sr-----~~~i~~~~~~~~~  204 (364)
                      +|+||=+....  ....+.|.++++..    +..+.+|+.++....-...+.++     ..-+-|..++...
T Consensus       302 ~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~~glIlTKLDEt~  373 (432)
T PRK12724        302 LILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKLDEAD  373 (432)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCCCEEEEEcccCCC
Confidence            89999776653  45556666666542    22445555544332212222222     1335566666643

>cd01394 radB RadB

Probab=97.19  E-value=0.0049  Score=52.96  Aligned_cols=48  Identities=27%  Similarity=0.446  Sum_probs=33.2

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      .|...+..|-.+.  ++++|+||+|||+++..++......+  ..++.++..
T Consensus         7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g--~~v~yi~~e   56 (218)
T cd01394           7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQG--KKVAYIDTE   56 (218)
T ss_pred             HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEECC
Confidence            3455555553333  69999999999999999998875443  344555543

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

>PF13479 AAA_24: AAA domain

Probab=97.19  E-value=0.00095  Score=57.20  Aligned_cols=18  Identities=50%  Similarity=1.123  Sum_probs=17.1

Q ss_pred             EEEeCCCCccHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAV   94 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l   94 (364)
                      ++|||+||+|||+++..+
T Consensus         6 ~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    6 ILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             EEEECCCCCCHHHHHHhC
Confidence            899999999999999888

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=97.17  E-value=0.0057  Score=53.77  Aligned_cols=178  Identities=19%  Similarity=0.198  Sum_probs=96.4

Q ss_pred             CCcchhccHHHHH---HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH--------
Q 017884           51 SLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID--------  119 (364)
Q Consensus        51 ~~~~~vg~~~~~~---~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~--------  119 (364)
                      ...++++-+....   .+...-..+.  ...+||.+|.|||..++.++...      .+.+-..++......        
T Consensus        70 ~~~~~l~tkt~r~~~~~~~~A~k~g~--l~~vyg~~g~gKt~a~~~y~~s~------p~~~l~~~~p~~~a~~~i~~i~~  141 (297)
T COG2842          70 LAPDFLETKTVRRIFFRTRPASKTGS--LVVVYGYAGLGKTQAAKNYAPSN------PNALLIEADPSYTALVLILIICA  141 (297)
T ss_pred             ccccccccchhHhHhhhhhhhhhcCc--eEEEeccccchhHHHHHhhcccC------ccceeecCChhhHHHHHHHHHHH
Confidence            4455666554432   3333333332  36999999999999999988763      222222222211111        


Q ss_pred             --------HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecc--------cc
Q 017884          120 --------VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV--------NK  183 (364)
Q Consensus       120 --------~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~--------~~  183 (364)
                              .+.+........    .  ....++|++||++.|.....+.+.+..++..  +-++++.+..        ..
T Consensus       142 ~~~~~~~~~~~d~~~~~~~~----l--~~~~~~iivDEA~~L~~~ale~lr~i~d~~G--i~~vLvG~prL~~~l~~~~~  213 (297)
T COG2842         142 AAFGATDGTINDLTERLMIR----L--RDTVRLIIVDEADRLPYRALEELRRIHDKTG--IGVVLVGMPRLFKVLRRPED  213 (297)
T ss_pred             HHhcccchhHHHHHHHHHHH----H--ccCcceeeeehhhccChHHHHHHHHHHHhhC--ceEEEecChHHHhccccchH
Confidence                    111111111111    1  1257899999999999999999999988764  4566666432        11


Q ss_pred             CchhhhccceE---EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017884          184 IIPALQSRCTR---FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM  248 (364)
Q Consensus       184 l~~~l~sr~~~---i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~  248 (364)
                      ....+.+|..+   +...-++..+...+....+    ....++.+..+....+|++|.+-..+.....
T Consensus       214 ~~~rl~srv~v~~~~~~~~~d~d~~~~~~~~~l----~~~~~~~v~~~~~~~~g~~~~L~~~l~~~~~  277 (297)
T COG2842         214 ELSRLYSRVRVGKLLGEKFPDADELAEIAALVL----PTEDELVLMQVIKETEGNIRRLDKILAGAVG  277 (297)
T ss_pred             HHHHHHHHhhhHhhhhhhhhhhHHHHHHHHhhC----ccchHHHHHHHHHhcchhHhHHHHHHhhhhh
Confidence            12223333211   1111122233333333221    1256677777777788988888777755443

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.16  E-value=0.0042  Score=63.02  Aligned_cols=172  Identities=13%  Similarity=0.173  Sum_probs=103.5

Q ss_pred             Ccchhcc-HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCC-------CcEEEEeC--CCCCChHHH
Q 017884           52 LADVAAH-RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH-------NMILELNA--SDDRGIDVV  121 (364)
Q Consensus        52 ~~~~vg~-~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~-------~~~~~~~~--~~~~~~~~~  121 (364)
                      ++-++|+ ++.+..+.+.+......+-+|.|+||+|||.++.-+++.+.....+       ..++.+..  ........+
T Consensus       185 ldPvigr~deeirRvi~iL~Rrtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~  264 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSRKTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEF  264 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhccCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHH
Confidence            5678887 7777777777776666678899999999999999999987543221       22222221  111122344


Q ss_pred             HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHH--------HHHHHHHHHHhccCccEEEEeecc-----ccCchhh
Q 017884          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA--------QFALRRVIEKYTKNTRFALICNQV-----NKIIPAL  188 (364)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~--------~~~L~~~le~~~~~~~~Il~~~~~-----~~l~~~l  188 (364)
                      ...++.......-    .+++-|++|||++.+....        .+.|...+. .. ..++|-+|+..     -.-.|++
T Consensus       265 E~rlk~l~k~v~~----~~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~-rg-~l~~IGatT~e~Y~k~iekdPal  338 (898)
T KOG1051|consen  265 EERLKELLKEVES----GGGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLA-RG-GLWCIGATTLETYRKCIEKDPAL  338 (898)
T ss_pred             HHHHHHHHHHHhc----CCCcEEEEecceeeeecCCCcchHHHHHHhhHHHHh-cC-CeEEEecccHHHHHHHHhhCcch
Confidence            4445444332110    1257899999999996322        222222222 22 26677766421     1346788


Q ss_pred             hccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHH
Q 017884          189 QSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALV  229 (364)
Q Consensus       189 ~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~  229 (364)
                      .+|++.+.++-|+.++...++.....+    .|..+++.+....+
T Consensus       339 Errw~l~~v~~pS~~~~~~iL~~l~~~~e~~hg~~~s~~a~~~a~  383 (898)
T KOG1051|consen  339 ERRWQLVLVPIPSVENLSLILPGLSERYEVHHGVRISDESLFSAA  383 (898)
T ss_pred             hhCcceeEeccCcccchhhhhhhhhhhhccccCCccccccccccc
Confidence            889988888888877766666655444    34555555443333

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.16  E-value=0.00086  Score=59.78  Aligned_cols=52  Identities=25%  Similarity=0.390  Sum_probs=37.5

Q ss_pred             CCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           50 QSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .+++++.-.......+.+.+...  ...++++.|++|+||||++.++...+...
T Consensus       101 ~sle~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  101 FSLEDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             -CHCCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             ccHhhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence            36777776655555555555543  12458999999999999999999987544

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.16  E-value=0.0042  Score=52.58  Aligned_cols=25  Identities=32%  Similarity=0.590  Sum_probs=22.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .++|.||+|+||||++.+++..+..
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~   27 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3799999999999999999988753

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PF13245 AAA_19: Part of AAA domain

Probab=97.15  E-value=0.00081  Score=47.18  Aligned_cols=25  Identities=48%  Similarity=0.834  Sum_probs=17.8

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.+++.||||+|||+++...+..+.
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3367799999999965555555543

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.15  E-value=0.0018  Score=52.94  Aligned_cols=101  Identities=15%  Similarity=0.176  Sum_probs=60.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC-CCChH-----------------------------HHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGID-----------------------------VVRQQI  125 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-~~~~~-----------------------------~~~~~i  125 (364)
                      -+.+|+++|.|||+.|-.++-...+.+....++.|--.. ..+..                             ..++..
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~   86 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAW   86 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHH
Confidence            478889999999999999998877666555433331111 01110                             011111


Q ss_pred             HHHHhcCccccCCccceEEEEEeCCCCCCHH---HHHHHHHHHHHhccCccEEEEeecc
Q 017884          126 QDFASTQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~---~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      .......   .  .+.+.+||+||+-....-   ..+.+.++++..|+++.+|++....
T Consensus        87 ~~a~~~l---~--~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        87 QHAKEML---A--DPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHH---h--cCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            1111110   0  125889999998532110   1346778888889999999999654

Alternate name: corrinoid adenosyltransferase.

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

Probab=97.15  E-value=0.0033  Score=51.70  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=21.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|+||+|||++|..++...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            37999999999999999999875

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.15  E-value=0.0039  Score=57.65  Aligned_cols=22  Identities=41%  Similarity=0.673  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+||||++..++..+
T Consensus       140 i~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        140 FALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999999999875

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.15  E-value=0.0035  Score=59.82  Aligned_cols=48  Identities=31%  Similarity=0.547  Sum_probs=33.7

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      .|...+..|-.+.  ++|+|+||+|||+++..++......  ...+++++..
T Consensus        68 ~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~E  117 (446)
T PRK11823         68 ELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGE  117 (446)
T ss_pred             HHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcc
Confidence            5566666654444  6999999999999999999887532  2345555543

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.14  E-value=0.0031  Score=59.57  Aligned_cols=116  Identities=17%  Similarity=0.295  Sum_probs=71.4

Q ss_pred             CCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC--------------
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD--------------  114 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~--------------  114 (364)
                      +.+|+++...+.....+.+.+.... .-+|++||+|+||||+...+.+.++.....  ++.+..+-              
T Consensus       234 ~l~l~~Lg~~~~~~~~~~~~~~~p~-GliLvTGPTGSGKTTTLY~~L~~ln~~~~n--I~TiEDPVE~~~~gI~Q~qVN~  310 (500)
T COG2804         234 ILDLEKLGMSPFQLARLLRLLNRPQ-GLILVTGPTGSGKTTTLYAALSELNTPERN--IITIEDPVEYQLPGINQVQVNP  310 (500)
T ss_pred             cCCHHHhCCCHHHHHHHHHHHhCCC-eEEEEeCCCCCCHHHHHHHHHHHhcCCCce--EEEeeCCeeeecCCcceeeccc
Confidence            4567888888888888888887652 227999999999999999999998765432  22221111              


Q ss_pred             CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      ..+. .+...++.+...         ++.||+|.|+-.... ++-++...     -+..+||+|=....
T Consensus       311 k~gl-tfa~~LRa~LRq---------DPDvImVGEIRD~ET-AeiavqAa-----lTGHLVlSTlHtnd  363 (500)
T COG2804         311 KIGL-TFARALRAILRQ---------DPDVIMVGEIRDLET-AEIAVQAA-----LTGHLVLSTLHTND  363 (500)
T ss_pred             ccCC-CHHHHHHHHhcc---------CCCeEEEeccCCHHH-HHHHHHHH-----hcCCeEeeecccCc
Confidence            1111 122334444332         578999999965532 22222222     25678888733333

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

Probab=97.14  E-value=0.0017  Score=55.37  Aligned_cols=42  Identities=19%  Similarity=0.335  Sum_probs=29.6

Q ss_pred             ceEEEEEeCCCCC-CHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEADAM-TKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~~l-~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      .++++++||.-.. ....|..+++++.+...  +..+||++.+..
T Consensus       159 ~PklLIlDEptSaLD~siQa~IlnlL~~l~~~~~lt~l~IsHdl~  203 (252)
T COG1124         159 EPKLLILDEPTSALDVSVQAQILNLLLELKKERGLTYLFISHDLA  203 (252)
T ss_pred             CCCEEEecCchhhhcHHHHHHHHHHHHHHHHhcCceEEEEeCcHH
Confidence            6889999997554 45667777777776543  456788886543

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.13  E-value=0.0032  Score=61.22  Aligned_cols=41  Identities=20%  Similarity=0.291  Sum_probs=33.3

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      +++++++||+ ..|.++.+..+...+++.-+++.+|-++..+
T Consensus       533 kP~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~Hr~  574 (604)
T COG4178         533 KPKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGHRP  574 (604)
T ss_pred             CCCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEeccch
Confidence            6899999998 5567788999999999865677788887543

>TIGR02012 tigrfam_recA protein RecA

Probab=97.13  E-value=0.0071  Score=54.77  Aligned_cols=38  Identities=24%  Similarity=0.325  Sum_probs=27.2

Q ss_pred             HHHHHHh-cCCCCc--EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           64 TIDRLTS-ENRLPH--LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        64 ~l~~~~~-~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .|...+. .|-++.  +.|+||||+|||+++..++......
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~   82 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKA   82 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4445555 443333  6999999999999999888776544

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.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.13  E-value=0.0095  Score=50.46  Aligned_cols=35  Identities=31%  Similarity=0.437  Sum_probs=27.4

Q ss_pred             HHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        65 l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +...+.+...-+.++.||||+||||+.+-+++-+.
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s  162 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLS  162 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhh
Confidence            33444445555689999999999999999999874

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.13  E-value=0.0023  Score=53.13  Aligned_cols=102  Identities=15%  Similarity=0.132  Sum_probs=61.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC-CCCh---------------------------HH---HHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGI---------------------------DV---VRQ  123 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-~~~~---------------------------~~---~~~  123 (364)
                      ..+.+||++|.|||+.|..++-+..+.+....++.|--.. ..+.                           ..   .++
T Consensus        23 g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~~~  102 (191)
T PRK05986         23 GLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAARE  102 (191)
T ss_pred             CeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHHHH
Confidence            4589999999999999999988876665444333331111 0000                           01   111


Q ss_pred             HHHHHHhcCccccCCccceEEEEEeCCCCCCHH---HHHHHHHHHHHhccCccEEEEeecc
Q 017884          124 QIQDFASTQSFSFGVKASVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       124 ~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~---~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      .+.......   .  .+.+.+||+||+-....-   ..+.+.++++..|..+-+|++....
T Consensus       103 ~~~~a~~~l---~--~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        103 GWEEAKRML---A--DESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHH---h--CCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            111111110   0  125889999997444321   2456788888889999999999644

>PRK04328 hypothetical protein; Provisional

Probab=97.12  E-value=0.0034  Score=55.15  Aligned_cols=37  Identities=24%  Similarity=0.249  Sum_probs=26.3

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      |...+.+|-++.  ++++|+||+|||+++..++..-...
T Consensus        12 LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~   50 (249)
T PRK04328         12 MDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQM   50 (249)
T ss_pred             HHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            444455554333  7999999999999999887664333

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.10  E-value=0.00087  Score=58.25  Aligned_cols=21  Identities=29%  Similarity=0.659  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|+||+|||++++.+...
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~   21 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKD   21 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHh
Confidence            478999999999999999988

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.10  E-value=0.011  Score=56.73  Aligned_cols=25  Identities=40%  Similarity=0.685  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .+.|.||+|+||||++..|+..+..
T Consensus       352 vIaLVGPtGvGKTTtaakLAa~la~  376 (559)
T PRK12727        352 VIALVGPTGAGKTTTIAKLAQRFAA  376 (559)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3789999999999999999887643

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=97.08  E-value=0.0036  Score=56.87  Aligned_cols=48  Identities=19%  Similarity=0.283  Sum_probs=35.8

Q ss_pred             CCCCcchhc----cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           49 PQSLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        49 p~~~~~~vg----~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++++++.    .+.....|..++..+  .++++.|++|+||||++++++..+
T Consensus       121 ~~tl~~l~~~g~~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        121 IFTLDQYVERGIMTAAQREAIIAAVRAH--RNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             CCCHHHHHhcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHhh
Confidence            346677753    244555666666654  569999999999999999999875

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=97.08  E-value=0.045  Score=50.37  Aligned_cols=101  Identities=13%  Similarity=0.079  Sum_probs=61.2

Q ss_pred             eEEEEEeCCCCCCH-----------------HHHHHHHHHHHHhccCccEEEEee--ccccC---------------ch-
Q 017884          142 VKLVLLDEADAMTK-----------------DAQFALRRVIEKYTKNTRFALICN--QVNKI---------------IP-  186 (364)
Q Consensus       142 ~~viiiDe~~~l~~-----------------~~~~~L~~~le~~~~~~~~Il~~~--~~~~l---------------~~-  186 (364)
                      +-++.||++..+..                 .....+++++..--....+|++.+  .....               .+ 
T Consensus       316 kVLvaID~~n~l~~~T~~k~~~~~~v~P~dl~li~~~~~~i~ndwt~g~vi~a~s~~~~~~a~~h~gv~~y~pr~llg~e  395 (461)
T KOG3928|consen  316 KVLVAIDNFNSLFTVTAYKSEDNKPVTPLDLTLIHLLRDIISNDWTFGSVIMAISGVTTPSAFGHLGVAPYVPRKLLGEE  395 (461)
T ss_pred             cEEEEEcCcchheeeeeeeccccCcCCchhhhHHHHHHHHHhcccccceEEEEecccccchhccccccccCCchHhcCcc
Confidence            55889999887742                 113556666665444445566554  11111               11 


Q ss_pred             --hhhccceEEEecCCChHHHHHHHHHHHHHcCC--CC-CHHHHHHHHHHcCCCHHHHHHH
Q 017884          187 --ALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL--DV-TEGGLAALVRLCNGDMRKALNI  242 (364)
Q Consensus       187 --~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~--~i-~~~~~~~l~~~~~g~~r~a~~~  242 (364)
                        .....+..++.++++.+|...++.-+..+.=+  .+ +++....+.-.++||++.....
T Consensus       396 gfe~lqpf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~l  456 (461)
T KOG3928|consen  396 GFEALQPFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMERL  456 (461)
T ss_pred             chhhccCcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHHH
Confidence              11223667899999999998887766554211  12 3677788888899999544433

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.08  E-value=0.00057  Score=53.50  Aligned_cols=25  Identities=40%  Similarity=0.674  Sum_probs=23.0

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .|++|++|-||+|||+++.+++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            4789999999999999999999775

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.07  E-value=0.0037  Score=50.38  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++++|++|+|||++++.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999987

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.07  E-value=0.0029  Score=52.89  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+|||++++.+.+..
T Consensus         7 ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          7 FIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            7999999999999999998874

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

Probab=97.06  E-value=0.007  Score=54.87  Aligned_cols=38  Identities=21%  Similarity=0.298  Sum_probs=27.1

Q ss_pred             HHHHHHh-cCCCCc--EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           64 TIDRLTS-ENRLPH--LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        64 ~l~~~~~-~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .|..++. .|-++.  +.++||||+|||+++..++......
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~   82 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKL   82 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            3445555 343333  6999999999999999988776443

RecA couples ATP hydrolysis to DNA strand exchange.

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=97.05  E-value=0.011  Score=49.59  Aligned_cols=143  Identities=18%  Similarity=0.191  Sum_probs=66.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC---
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---  153 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l---  153 (364)
                      ++|+||+|+|||.++-.+++..     +..++..+...     ...+.........+..+.  +-++ +++||-..-   
T Consensus         4 ~~i~GpT~tGKt~~ai~lA~~~-----g~pvI~~Driq-----~y~~l~v~Sgrp~~~el~--~~~R-iyL~~r~l~~G~   70 (233)
T PF01745_consen    4 YLIVGPTGTGKTALAIALAQKT-----GAPVISLDRIQ-----CYPELSVGSGRPTPSELK--GTRR-IYLDDRPLSDGI   70 (233)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH-------EEEEE-SGG-----G-GGGTTTTT---SGGGT--T-EE-EES----GGG-S
T ss_pred             EEEECCCCCChhHHHHHHHHHh-----CCCEEEeccee-----cccccccccCCCCHHHHc--ccce-eeeccccccCCC
Confidence            6999999999999999999997     33444433211     000000000000000011  1244 777763222   


Q ss_pred             -C-HHHHHHHHHHHHHhccCccEEEEeeccccCchhhhcc-----c--eEEEecCCChHHHHHHHHHHHHHc--CCCCCH
Q 017884          154 -T-KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR-----C--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTE  222 (364)
Q Consensus       154 -~-~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr-----~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~  222 (364)
                       + +++.+.|...+.++....-+|+-+-+.+-+..-.+++     +  .+..++-++.+.......+++++.  .-.=.+
T Consensus        71 i~a~ea~~~Li~~v~~~~~~~~~IlEGGSISLl~~m~~~~~w~~~f~w~i~rl~l~d~~~f~~ra~~Rv~~ML~p~~~~~  150 (233)
T PF01745_consen   71 INAEEAHERLISEVNSYSAHGGLILEGGSISLLNCMAQDPYWSLDFRWHIRRLRLPDEEVFMARAKRRVRQMLRPDSSGP  150 (233)
T ss_dssp             --HHHHHHHHHHHHHTTTTSSEEEEEE--HHHHHHHHH-TTTSSSSEEEEEE-----HHHHHHHHHHHHHHHHS--SSS-
T ss_pred             cCHHHHHHHHHHHHHhccccCceEEeCchHHHHHHHHhcccccCCCeEEEEEEECCChHHHHHHHHHHHHHhcCCCCCCC
Confidence             2 3456778888888887667888775554333322222     2  345565566666665555555432  112235


Q ss_pred             HHHHHHHHHc
Q 017884          223 GGLAALVRLC  232 (364)
Q Consensus       223 ~~~~~l~~~~  232 (364)
                      ..+++|+...
T Consensus       151 Sll~EL~~lW  160 (233)
T PF01745_consen  151 SLLEELVALW  160 (233)
T ss_dssp             -HHHHHHHHH
T ss_pred             cHHHHHHHHH
Confidence            6677777665

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.05  E-value=0.0015  Score=60.22  Aligned_cols=29  Identities=24%  Similarity=0.361  Sum_probs=24.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .-.+|+||+|+|||++++.+++.+...++
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~nhF  198 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTNHP  198 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhhcC
Confidence            34899999999999999999998865433

>PRK09354 recA recombinase A; Provisional

Probab=97.03  E-value=0.0091  Score=54.60  Aligned_cols=38  Identities=24%  Similarity=0.307  Sum_probs=27.1

Q ss_pred             HHHHHHh-cCCCCc--EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           64 TIDRLTS-ENRLPH--LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        64 ~l~~~~~-~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .|..++. .|-+..  +.|+||+|+|||+++..++......
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~   87 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKA   87 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4445565 443333  6999999999999999888765443

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.03  E-value=0.0056  Score=51.47  Aligned_cols=22  Identities=45%  Similarity=0.860  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+|||++++.|++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999985

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.02  E-value=0.0072  Score=49.98  Aligned_cols=41  Identities=22%  Similarity=0.279  Sum_probs=29.8

Q ss_pred             eEEEEEeCC-CCCCHHHHHHHHHHHHHhc-cCccEEEEeeccc
Q 017884          142 VKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVN  182 (364)
Q Consensus       142 ~~viiiDe~-~~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~  182 (364)
                      ++++++||. ..+.......+.+.+.+.. ....+|++++...
T Consensus       108 p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~  150 (176)
T cd03238         108 GTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD  150 (176)
T ss_pred             CCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            789999995 5566777788888887754 3455777776654

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.

>PRK06696 uridine kinase; Validated

Probab=97.01  E-value=0.0013  Score=56.75  Aligned_cols=43  Identities=14%  Similarity=0.209  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHhc--CCCCc-EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           59 RDIVDTIDRLTSE--NRLPH-LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        59 ~~~~~~l~~~~~~--~~~~~-lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ..+++.|...+..  ...+. +.+.|++|+||||+|+.++..+...
T Consensus         4 ~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696          4 KQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             HHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4556666666643  22233 7999999999999999999998543

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

Probab=97.00  E-value=0.0051  Score=51.85  Aligned_cols=42  Identities=12%  Similarity=0.273  Sum_probs=30.5

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      ++.++++||. ..+.......+.+.+.+... ...+|++++...
T Consensus       129 ~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  172 (194)
T cd03213         129 NPSLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQPS  172 (194)
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCch
Confidence            5789999995 55667778888888887643 445677776554

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.

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

Probab=96.99  E-value=0.0055  Score=52.32  Aligned_cols=41  Identities=12%  Similarity=0.294  Sum_probs=29.9

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeecc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~  181 (364)
                      .+++|+-||- ..|..+....++.++.+...  ...+|++|.++
T Consensus       160 ~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~  203 (226)
T COG1136         160 NPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDP  203 (226)
T ss_pred             CCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCH
Confidence            6889999994 66667777777787777643  45677888654

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.99  E-value=0.0013  Score=45.24  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.+.|++|+|||++++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999997

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>TIGR00767 rho transcription termination factor Rho

Probab=96.98  E-value=0.0026  Score=58.90  Aligned_cols=27  Identities=26%  Similarity=0.420  Sum_probs=23.6

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ..++|.||+|+|||++++.+++.+...
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~~n  195 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAITRN  195 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhccc
Confidence            348999999999999999999987544

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

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

Probab=96.97  E-value=0.0099  Score=54.63  Aligned_cols=50  Identities=28%  Similarity=0.557  Sum_probs=37.9

Q ss_pred             HHHHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           62 VDTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        62 ~~~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ...|.+.+..|-.+.  +|+-|.||.||||+...++..+....   .++++++..
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGEE  130 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGEE  130 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCCc
Confidence            346677777775555  79999999999999999999886443   566766654

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.96  E-value=0.012  Score=48.17  Aligned_cols=104  Identities=24%  Similarity=0.257  Sum_probs=56.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCC------CcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC----------c
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYH------NMILELNASDDRGIDVVRQQIQDFASTQSFSFGV----------K  139 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~----------~  139 (364)
                      .+.|.||.|+||||+++.++..+......      ..+..+..........+.+.+... ....++.+.          .
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~-~~~~LS~G~~~rv~laral~  107 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP-WDDVLSGGEQQRLAFARLLL  107 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhcc-CCCCCCHHHHHHHHHHHHHH
Confidence            38999999999999999998875321110      011111111100001222222110 000000000          1


Q ss_pred             cceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          140 ASVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       140 ~~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      .+++++++||.. .+.......+.+++.+.  ...+|++++...
T Consensus       108 ~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~  149 (166)
T cd03223         108 HKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPS  149 (166)
T ss_pred             cCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChh
Confidence            257899999964 56677788888888876  345777776653

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

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.96  E-value=0.0036  Score=62.86  Aligned_cols=42  Identities=19%  Similarity=0.352  Sum_probs=32.3

Q ss_pred             ceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++|+++||+- .+.......+...|.+......+|++++...
T Consensus       627 ~P~ILlLDEaTSaLD~~sE~~I~~~L~~~~~~~T~I~IaHRl~  669 (709)
T COG2274         627 KPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAHRLS  669 (709)
T ss_pred             CCCEEEEeCcccccCHhHHHHHHHHHHHHhcCCeEEEEEccch
Confidence            68899999984 4456677778888888777777888887654

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.96  E-value=0.0042  Score=49.96  Aligned_cols=25  Identities=32%  Similarity=0.554  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++++|+||+|||++++.++..+...
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~   26 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQR   26 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            5899999999999999999998533

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.95  E-value=0.034  Score=44.24  Aligned_cols=22  Identities=36%  Similarity=0.712  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.|++|+|||++++.++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5799999999999999999987

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.95  E-value=0.0048  Score=50.94  Aligned_cols=27  Identities=37%  Similarity=0.390  Sum_probs=22.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      +++.|++|+|||+++..++..+...+.
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~   29 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGK   29 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            589999999999999999988765443

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.94  E-value=0.0011  Score=54.62  Aligned_cols=24  Identities=33%  Similarity=0.587  Sum_probs=22.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|+|++|+|||++++.+++.+
T Consensus         5 ~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999997

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=96.94  E-value=0.0018  Score=58.92  Aligned_cols=95  Identities=20%  Similarity=0.280  Sum_probs=52.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCc-----------cc--------cC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS-----------FS--------FG  137 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~-----------~~--------~~  137 (364)
                      ++|||.-|||||.+.-.+...+.+ .+...-+.+...    .-.+...+.+......           +.        +.
T Consensus       117 lYlYG~VGcGKTmLMDlFy~~~~~-i~rkqRvHFh~f----M~~VH~r~H~~k~~~~~~~~~~a~~~~~Dpl~~vA~eIa  191 (467)
T KOG2383|consen  117 LYLYGSVGCGKTMLMDLFYDALPP-IWRKQRVHFHGF----MLSVHKRMHELKQEQGAEKPGYAKSWEIDPLPVVADEIA  191 (467)
T ss_pred             EEEecccCcchhHHHHHHhhcCCc-hhhhhhhhHHHH----HHHHHHHHHHHHHhccccCccccccccCCccHHHHHHHh
Confidence            899999999999999988876533 221111111110    0001111000000000           00        01


Q ss_pred             CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      .  .-.++.+||++.-.-...-.|.++++..-.+.+++++|
T Consensus       192 ~--ea~lLCFDEfQVTDVADAmiL~rLf~~Lf~~GvVlvAT  230 (467)
T KOG2383|consen  192 E--EAILLCFDEFQVTDVADAMILKRLFEHLFKNGVVLVAT  230 (467)
T ss_pred             h--hceeeeechhhhhhHHHHHHHHHHHHHHHhCCeEEEEe
Confidence            1  35699999998776555667788888776666666655

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.94  E-value=0.00072  Score=52.61  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.|++.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999996

...

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.94  E-value=0.016  Score=53.58  Aligned_cols=26  Identities=27%  Similarity=0.543  Sum_probs=22.9

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      ..++|.||+|+||||+++++...+..
T Consensus       123 g~ili~G~tGSGKTT~l~al~~~i~~  148 (343)
T TIGR01420       123 GLILVTGPTGSGKSTTLASMIDYINK  148 (343)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCc
Confidence            45899999999999999999988753

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.93  E-value=0.0073  Score=59.35  Aligned_cols=40  Identities=15%  Similarity=0.226  Sum_probs=28.2

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ++.++++||+-. +..+....+.+.+.+...+..+|++++.
T Consensus       488 ~~~iliLDE~TSaLD~~te~~I~~~l~~~~~~~TvIiItHr  528 (529)
T TIGR02868       488 DAPILLLDEPTEHLDAGTESELLEDLLAALSGKTVVVITHH  528 (529)
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEecC
Confidence            677999999855 5566677777878776555556666653

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.

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.93  E-value=0.017  Score=47.42  Aligned_cols=49  Identities=18%  Similarity=0.295  Sum_probs=33.4

Q ss_pred             CCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      |.+|.+..-.-.+++.+...+. -+.|..+|.|+.|+||+|+..+++...
T Consensus        13 ve~~~eYp~slPa~r~l~~~Le-F~apIT~i~GENGsGKSTLLEaiA~~~   61 (233)
T COG3910          13 VESFEEYPFSLPAFRHLEERLE-FRAPITFITGENGSGKSTLLEAIAAGM   61 (233)
T ss_pred             ccchhhCcccchHHHhhhhhcc-ccCceEEEEcCCCccHHHHHHHHHhhc
Confidence            4445555444455555555333 234556999999999999999999765

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.92  E-value=0.0011  Score=57.38  Aligned_cols=37  Identities=38%  Similarity=0.595  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .....+...+....  -.+++||||||||+++..+...+
T Consensus         5 ~Q~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    5 SQREAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHh
Confidence            34445555554432  27999999999999888887776

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.92  E-value=0.0027  Score=58.33  Aligned_cols=33  Identities=21%  Similarity=0.299  Sum_probs=26.7

Q ss_pred             CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCC
Q 017884           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH  104 (364)
Q Consensus        72 ~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~  104 (364)
                      ++....+|+||+|+|||++++.+++.+......
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~d  163 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPE  163 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCC
Confidence            444568999999999999999999998654333

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.91  E-value=0.0057  Score=55.60  Aligned_cols=27  Identities=37%  Similarity=0.453  Sum_probs=23.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      +.|.||+|+||||++..++..+...+.
T Consensus       117 i~lvGpnGsGKTTt~~kLA~~l~~~g~  143 (318)
T PRK10416        117 ILVVGVNGVGKTTTIGKLAHKYKAQGK  143 (318)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCC
Confidence            689999999999999999998864443

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=96.89  E-value=0.013  Score=52.93  Aligned_cols=24  Identities=29%  Similarity=0.652  Sum_probs=21.9

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+++.||+|+|||+++..+++.+.
T Consensus         6 ~i~i~GptgsGKt~la~~la~~~~   29 (307)
T PRK00091          6 VIVIVGPTASGKTALAIELAKRLN   29 (307)
T ss_pred             EEEEECCCCcCHHHHHHHHHHhCC
Confidence            379999999999999999999874

>PRK14527 adenylate kinase; Provisional

Probab=96.89  E-value=0.0092  Score=50.14  Aligned_cols=24  Identities=33%  Similarity=0.646  Sum_probs=21.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+++.||||+||||+++.+++.+.
T Consensus         8 ~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          8 VVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            379999999999999999998874

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.89  E-value=0.0033  Score=52.64  Aligned_cols=42  Identities=14%  Similarity=0.364  Sum_probs=29.2

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      .+.|+++||- -.|.+-....+-+++.+...+..+|++|.++.
T Consensus       167 ~PeVlLmDEPtSALDPIsT~kIEeLi~eLk~~yTIviVTHnmq  209 (253)
T COG1117         167 KPEVLLMDEPTSALDPISTLKIEELITELKKKYTIVIVTHNMQ  209 (253)
T ss_pred             CCcEEEecCcccccCchhHHHHHHHHHHHHhccEEEEEeCCHH
Confidence            5789999995 44445555666677777767777888886543

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.87  E-value=0.002  Score=51.79  Aligned_cols=22  Identities=32%  Similarity=0.597  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|+|+||+||||+++.+++.+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            5899999999999999999985

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

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

Probab=96.87  E-value=0.017  Score=47.37  Aligned_cols=21  Identities=24%  Similarity=0.351  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++|..++..
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~   22 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE   22 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            589999999999999999876

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.87  E-value=0.033  Score=53.69  Aligned_cols=117  Identities=17%  Similarity=0.268  Sum_probs=84.6

Q ss_pred             eEEEEEeCCCCCCH--HHHHHHHHHHHHhccCc-cEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCC
Q 017884          142 VKLVLLDEADAMTK--DAQFALRRVIEKYTKNT-RFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGL  218 (364)
Q Consensus       142 ~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~-~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~  218 (364)
                      +.++++.|+|.+..  .....|.++........ .+|+++ ....++..|.+-+.++.|+-|+.+++..++...+...+.
T Consensus        82 ~~~~vl~d~h~~~~~~~~~r~l~~l~~~~~~~~~~~i~~~-~~~~~p~el~~~~~~~~~~lP~~~ei~~~l~~~~~~~~~  160 (489)
T CHL00195         82 PALFLLKDFNRFLNDISISRKLRNLSRILKTQPKTIIIIA-SELNIPKELKDLITVLEFPLPTESEIKKELTRLIKSLNI  160 (489)
T ss_pred             CcEEEEecchhhhcchHHHHHHHHHHHHHHhCCCEEEEEc-CCCCCCHHHHhceeEEeecCcCHHHHHHHHHHHHHhcCC
Confidence            56999999999943  34445555444433333 344444 345678888888899999999999999999998887788


Q ss_pred             CCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhcccCchHHHH
Q 017884          219 DVTEGGLAALVRLCNG-DMRKALNILQSTHMASQQITEEAVY  259 (364)
Q Consensus       219 ~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~~~~~~i~~~~v~  259 (364)
                      .++++.++.+++.+.| +...+.+.+.......+.++.+++.
T Consensus       161 ~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~~~~~~~~~~~  202 (489)
T CHL00195        161 KIDSELLENLTRACQGLSLERIRRVLSKIIATYKTIDENSIP  202 (489)
T ss_pred             CCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHcCCCChhhHH
Confidence            9999999999998755 4556666666554455667766544

>PRK02496 adk adenylate kinase; Provisional

Probab=96.86  E-value=0.019  Score=47.89  Aligned_cols=24  Identities=38%  Similarity=0.787  Sum_probs=21.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .++|.||||+|||++++.+++.+.
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~   26 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLH   26 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999999873

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.86  E-value=0.011  Score=50.72  Aligned_cols=23  Identities=43%  Similarity=0.723  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++++|+||+||||+++.+++.+.
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999999873

>cd01878 HflX HflX subfamily

Probab=96.85  E-value=0.097  Score=44.28  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.2

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+.+++.|++|+|||++++.+...
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcc
Confidence            456899999999999999999875

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PF14840 DNA_pol3_delt_C: Processivity clamp loader gamma complex DNA pol III C-term; PDB: 3GLG_F 1XXH_A 3GLF_F 1JQJ_C 3GLI_F

Probab=96.85  E-value=0.016  Score=44.87  Aligned_cols=82  Identities=11%  Similarity=0.079  Sum_probs=65.5

Q ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc----------------------------------CC
Q 017884          271 EQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI----------------------------------KM  316 (364)
Q Consensus       271 ~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~----------------------------------~~  316 (364)
                      |.++|+++.++...+.++++.+. ..|.+|..++..+.+.++.+                                  ++
T Consensus         2 F~L~Da~L~G~~~ra~riL~~L~-~Eg~ep~~lLw~L~rElr~L~~l~~~~~~~~l~~~~~~~rIW~~Rq~l~~~Al~Rl   80 (125)
T PF14840_consen    2 FQLIDALLAGDAKRALRILQGLQ-AEGVEPPILLWALQRELRLLIQLKQALAQQPLQQLFKQLRIWQKRQPLYQQALQRL   80 (125)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHH-HTT--HHHHHHHHHHHHHHHHHHHHHTTTS-HHHHHHHHTT-CCHHHHHHHHHHHS
T ss_pred             CcHHHHHHCCCHHHHHHHHHHHH-HCCccHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHcCCCHhHHHHHHHHHHcC
Confidence            78999999999999999999998 99999999999998888765                                  56


Q ss_pred             ChHHHHHHHHHHHHHHHHHhcCC--ChHHHHHHHHHHHH
Q 017884          317 PSDVRVRLMNDLADIEYRLSFGC--NDKLQLGSIISTFT  353 (364)
Q Consensus       317 ~~~~~~~i~~~l~~~~~~l~~~~--~~~~~l~~l~~~l~  353 (364)
                      +...+..++..+..+|..+|...  ++-..|+.+...+|
T Consensus        81 s~~~L~~ll~~~a~iD~~iKg~~~~~~W~~L~~L~L~lc  119 (125)
T PF14840_consen   81 SLQQLEQLLQLLAQIDRAIKGNYQGDPWDELEQLSLLLC  119 (125)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHTSTTSTHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHc
Confidence            77778899999999999998764  55666666666555

>PRK06547 hypothetical protein; Provisional

Probab=96.84  E-value=0.0023  Score=52.74  Aligned_cols=31  Identities=26%  Similarity=0.303  Sum_probs=24.3

Q ss_pred             HhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           69 TSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        69 ~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +..+....+++.|++|+|||++++.+++.+.
T Consensus        10 ~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547         10 LCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3344333478999999999999999999863

>PRK05973 replicative DNA helicase; Provisional

Probab=96.84  E-value=0.01  Score=51.36  Aligned_cols=26  Identities=35%  Similarity=0.369  Sum_probs=22.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      ++|.|+||+|||+++..++......+
T Consensus        67 ~LIaG~PG~GKT~lalqfa~~~a~~G   92 (237)
T PRK05973         67 VLLGARPGHGKTLLGLELAVEAMKSG   92 (237)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhcC
Confidence            79999999999999999988764443

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.84  E-value=0.012  Score=50.92  Aligned_cols=46  Identities=26%  Similarity=0.309  Sum_probs=30.2

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      |...+..|-.+.  +++.|+||+|||+++..++......+  ..++.++.
T Consensus         9 LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g--~~~~~is~   56 (229)
T TIGR03881         9 LDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDG--DPVIYVTT   56 (229)
T ss_pred             HHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcC--CeEEEEEc
Confidence            444454443333  79999999999999998876544333  34455554

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.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.84  E-value=0.02  Score=53.20  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=22.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .++++||+|+||||++.++.+.+..
T Consensus       151 lilI~G~TGSGKTT~l~al~~~i~~  175 (372)
T TIGR02525       151 LGLICGETGSGKSTLAASIYQHCGE  175 (372)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4899999999999999999998753

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>PRK13947 shikimate kinase; Provisional

Probab=96.84  E-value=0.0015  Score=53.86  Aligned_cols=24  Identities=42%  Similarity=0.477  Sum_probs=22.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++++.|+||+|||++++.+++.+
T Consensus         2 ~~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            368999999999999999999998

>PRK03839 putative kinase; Provisional

Probab=96.83  E-value=0.0013  Score=54.72  Aligned_cols=22  Identities=41%  Similarity=0.665  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+||||+++.+++.+
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999997

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.83  E-value=0.0038  Score=56.62  Aligned_cols=57  Identities=18%  Similarity=0.232  Sum_probs=40.0

Q ss_pred             CChhhccCC--CCCcchhc----cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           41 SPWVEKYRP--QSLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        41 ~~~~~~~~p--~~~~~~vg----~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ..-++|+++  .++++++.    .+.....|..++..+  .++++.|++|+||||+++++...+.
T Consensus       107 ~~~IRk~~~~~~tl~~lv~~g~~~~~~~~~L~~~v~~~--~nilI~G~tGSGKTTll~aL~~~i~  169 (323)
T PRK13833        107 AFTIRRRASRLIPLDDYVTSKIMTEAQASVIRSAIDSR--LNIVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             eEEEECcCCCCCCHHHHHHcCCCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHHHh
Confidence            334555543  35566654    234455677777755  4699999999999999999999873

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

Probab=96.81  E-value=0.022  Score=47.74  Aligned_cols=110  Identities=15%  Similarity=0.207  Sum_probs=63.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCC--------------------------------CcEEEEeCCC-CCChHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYH--------------------------------NMILELNASD-DRGIDVVRQ  123 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~--------------------------------~~~~~~~~~~-~~~~~~~~~  123 (364)
                      +++.|+.|+|||.+.+.++--....+..                                ..+++++... ..+...-+.
T Consensus        31 ~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l~G~l~~~~~~~~~~~~~~~~~~~  110 (235)
T COG2874          31 ILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFLLSGRLLFFPVNLEPVNWGRRSARK  110 (235)
T ss_pred             EEEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHHhcceeEEEEecccccccChHHHHH
Confidence            6999999999999999998876544321                                1123322211 112222222


Q ss_pred             HHHHHHhcCccccCCccceEEEEEeCCCCCCHH----HHHHHHHHHHHhccCccEEEEeeccccCchhhhcc
Q 017884          124 QIQDFASTQSFSFGVKASVKLVLLDEADAMTKD----AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSR  191 (364)
Q Consensus       124 ~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~----~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr  191 (364)
                      .+.........     .+..|++||-+..+...    ....+...+....+..++|++|-+++.+.+....|
T Consensus       111 ~L~~l~~~~k~-----~~~dViIIDSls~~~~~~~~~~vl~fm~~~r~l~d~gKvIilTvhp~~l~e~~~~r  177 (235)
T COG2874         111 LLDLLLEFIKR-----WEKDVIIIDSLSAFATYDSEDAVLNFMTFLRKLSDLGKVIILTVHPSALDEDVLTR  177 (235)
T ss_pred             HHHHHHhhHHh-----hcCCEEEEecccHHhhcccHHHHHHHHHHHHHHHhCCCEEEEEeChhhcCHHHHHH
Confidence            33332222111     14679999988766432    33344455556666778888887777777655444

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.81  E-value=0.013  Score=53.24  Aligned_cols=25  Identities=20%  Similarity=0.483  Sum_probs=22.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .++++.||+|+||||+++++...+.
T Consensus       145 ~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       145 KNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHccCC
Confidence            4699999999999999999998763

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.81  E-value=0.011  Score=57.32  Aligned_cols=40  Identities=20%  Similarity=0.294  Sum_probs=31.0

Q ss_pred             HHHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           63 DTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        63 ~~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      ..|...+..|-.+.  +++.||||+|||+++..++......+
T Consensus       250 ~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~g  291 (484)
T TIGR02655       250 VRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANK  291 (484)
T ss_pred             HhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            35666677765554  79999999999999999988865443

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.

>TIGR00416 sms DNA repair protein RadA

Probab=96.80  E-value=0.014  Score=55.93  Aligned_cols=49  Identities=31%  Similarity=0.504  Sum_probs=34.7

Q ss_pred             HHHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           63 DTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        63 ~~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ..|...+..|-.+.  ++++|+||+|||+++..++..+...+  ..+++++..
T Consensus        81 ~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~E  131 (454)
T TIGR00416        81 GELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSGE  131 (454)
T ss_pred             HHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEECc
Confidence            35666676664444  69999999999999999988775433  245555543

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)).

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

Probab=96.80  E-value=0.02  Score=49.48  Aligned_cols=58  Identities=16%  Similarity=0.169  Sum_probs=36.0

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCC----CCCcEEEEeCCCCCChHHHH
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASDDRGIDVVR  122 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~~~~~~  122 (364)
                      |...+.+|-.+.  +.|+||||+|||+++..++......+    ....++.++.........+.
T Consensus         8 lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393           8 LDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             HHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            444454443333  69999999999999999987754322    12455666665433333333

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.

>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=96.80  E-value=0.0071  Score=50.19  Aligned_cols=42  Identities=17%  Similarity=0.349  Sum_probs=30.6

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccC--ccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKN--TRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~--~~~Il~~~~~~  182 (364)
                      +++++++||. ..+....+..+.+++.+....  ..+|++++...
T Consensus       118 ~p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~  162 (178)
T cd03229         118 DPDVLLLDEPTSALDPITRREVRALLKSLQAQLGITVVLVTHDLD  162 (178)
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5789999995 556677788888888876543  55777776544

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.79  E-value=0.013  Score=50.95  Aligned_cols=59  Identities=15%  Similarity=0.130  Sum_probs=36.0

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCC----CCCcEEEEeCCCCCChHHHHH
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASDDRGIDVVRQ  123 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~~~~~~~  123 (364)
                      |...+.+|-.+.  +.|+||||+|||+++..++.......    ....++.++.........+.+
T Consensus         8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            334444443333  69999999999999999986643221    134566776655333333333

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 .

>cd04124 RabL2 RabL2 subfamily

Probab=96.79  E-value=0.016  Score=47.03  Aligned_cols=22  Identities=18%  Similarity=0.297  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         3 i~vvG~~~vGKTsli~~~~~~~   24 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMDG   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999887653

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.79  E-value=0.022  Score=48.83  Aligned_cols=99  Identities=16%  Similarity=0.287  Sum_probs=56.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcE---------------EEEeCCCCCChHHHHHHHHHHHhcCccccCCccc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMI---------------LELNASDDRGIDVVRQQIQDFASTQSFSFGVKAS  141 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~---------------~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  141 (364)
                      ++++|++|+|||+++.++.+..........+               +.+...+..+...++........      +.  .
T Consensus         8 ivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~------~~--~   79 (219)
T COG1100           8 IVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYR------GA--N   79 (219)
T ss_pred             EEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhc------CC--C
Confidence            7999999999999999999887654332221               11222233344444443333221      11  3


Q ss_pred             eEEEEEeCCC-CCCHHHHHHHHHHHHHhc-cCccEEEEeecccc
Q 017884          142 VKLVLLDEAD-AMTKDAQFALRRVIEKYT-KNTRFALICNQVNK  183 (364)
Q Consensus       142 ~~viiiDe~~-~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~~  183 (364)
                      .-+++.|... .-..+........+.... ....+|++.|..+.
T Consensus        80 ~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl  123 (219)
T COG1100          80 GILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDL  123 (219)
T ss_pred             EEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEeccccc
Confidence            5566666654 333444445554455444 35778888876654

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.77  E-value=0.0023  Score=58.02  Aligned_cols=49  Identities=22%  Similarity=0.300  Sum_probs=39.1

Q ss_pred             CCc-chhccHHHHHHHHHHHhcC----C--CCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           51 SLA-DVAAHRDIVDTIDRLTSEN----R--LPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        51 ~~~-~~vg~~~~~~~l~~~~~~~----~--~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .|+ ++.|.++.+.+|.+.++..    .  ..-++|.||+|+|||++++.+.+.+.
T Consensus        58 ~f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le  113 (358)
T PF08298_consen   58 FFEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLE  113 (358)
T ss_pred             CccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhh
Confidence            354 8999999999888777632    1  12279999999999999999999884

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.77  E-value=0.0028  Score=50.96  Aligned_cols=33  Identities=30%  Similarity=0.537  Sum_probs=27.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      ++|+|.+|+||||+|+++.+.|...+....++.
T Consensus         5 IwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    5 IWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            799999999999999999999987766555544

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.77  E-value=0.013  Score=49.52  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=20.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||.|+||||+.+.++..+
T Consensus        27 ~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          27 GILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EEEEECCCCCChHHHHHHHHHHH
Confidence            47999999999999999998654

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

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.76  E-value=0.0028  Score=56.16  Aligned_cols=50  Identities=22%  Similarity=0.415  Sum_probs=38.7

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .+++++...+.....|..++.... ..++|.||+|+||||+++++...+..
T Consensus        57 ~~l~~lg~~~~~~~~l~~~~~~~~-GlilisG~tGSGKTT~l~all~~i~~  106 (264)
T cd01129          57 LDLEKLGLKPENLEIFRKLLEKPH-GIILVTGPTGSGKTTTLYSALSELNT  106 (264)
T ss_pred             CCHHHcCCCHHHHHHHHHHHhcCC-CEEEEECCCCCcHHHHHHHHHhhhCC
Confidence            356666667777778877776442 34899999999999999999888753

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.76  E-value=0.048  Score=44.03  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~   23 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKG   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999864

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.76  E-value=0.006  Score=55.23  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|+||+||||+++.+++.+
T Consensus         5 iil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          5 ILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHC
Confidence            6899999999999999999986

>PRK13808 adenylate kinase; Provisional

Probab=96.75  E-value=0.022  Score=51.79  Aligned_cols=23  Identities=35%  Similarity=0.761  Sum_probs=21.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|+||||+|||++++.|++.+
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~y   24 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQY   24 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999986

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.74  E-value=0.0098  Score=59.28  Aligned_cols=41  Identities=17%  Similarity=0.353  Sum_probs=29.9

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      ++.++++||+-. +..+....+.+.+.+...+..+|++|+..
T Consensus       503 ~~~IliLDE~TSaLD~~te~~i~~~l~~~~~~~TvIiItHrl  544 (588)
T PRK11174        503 PCQLLLLDEPTASLDAHSEQLVMQALNAASRRQTTLMVTHQL  544 (588)
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHHhCCCEEEEEecCh
Confidence            578999999754 45666777777787765555677777765

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.74  E-value=0.012  Score=58.59  Aligned_cols=41  Identities=22%  Similarity=0.447  Sum_probs=30.7

Q ss_pred             ceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeecc
Q 017884          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      ++.++++||.. .+.++....+.+.+.+...+..+|++|+.+
T Consensus       498 ~~~ililDEptsaLD~~t~~~i~~~l~~~~~~~tvI~VtHr~  539 (582)
T PRK11176        498 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRL  539 (582)
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHhCCCEEEEEecch
Confidence            57799999974 455666777888887766667788888765

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=96.73  E-value=0.017  Score=51.52  Aligned_cols=23  Identities=30%  Similarity=0.680  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +++.||+|+|||+++..+++.+.
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~   24 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLN   24 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            68999999999999999999863

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.72  E-value=0.0087  Score=51.70  Aligned_cols=36  Identities=22%  Similarity=0.247  Sum_probs=26.0

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      |...+.+|-++.  +++.|+||+|||+++..++.....
T Consensus         5 LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~   42 (224)
T TIGR03880         5 LDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLK   42 (224)
T ss_pred             hHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            444455553333  799999999999999988876543

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.72  E-value=0.025  Score=49.32  Aligned_cols=50  Identities=24%  Similarity=0.339  Sum_probs=32.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC----------CCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA----------QYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      -+|+||+|+|||+++..++..+...          .....++.++..+  ..+.+...+...
T Consensus         4 ~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed--~~~~i~~Rl~~i   63 (239)
T cd01125           4 SALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAED--PREEIHRRLEAI   63 (239)
T ss_pred             eEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCC--CHHHHHHHHHHH
Confidence            4899999999999999999876421          1234566666554  233444444443

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.72  E-value=0.014  Score=49.71  Aligned_cols=56  Identities=13%  Similarity=0.129  Sum_probs=37.1

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhc-cCccEEEEeeccccCchhhhccceEEEecCCC
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQVNKIIPALQSRCTRFRFAPLE  201 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~  201 (364)
                      +++++++||. ..+.......+.+++.+.. ....+|++++....+..     ..++.+.++.
T Consensus       145 ~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~~~~-----~~~~~~~~~~  202 (207)
T PRK13539        145 NRPIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLGLPG-----ARELDLGPFA  202 (207)
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchhhcc-----CcEEeecCcc
Confidence            5789999995 4666777888888887653 34557777776655443     3345555543

>PRK07667 uridine kinase; Provisional

Probab=96.71  E-value=0.0039  Score=52.51  Aligned_cols=34  Identities=18%  Similarity=0.220  Sum_probs=27.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      +.|.|++|+||||+++.++..+...+.+..++..
T Consensus        20 IgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~   53 (193)
T PRK07667         20 LGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHI   53 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEc
Confidence            6999999999999999999998655544444443

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=96.70  E-value=0.015  Score=46.81  Aligned_cols=20  Identities=35%  Similarity=0.816  Sum_probs=18.8

Q ss_pred             EeCCCCccHHHHHHHHHHHH
Q 017884           79 LYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        79 l~G~~G~GKt~la~~l~~~l   98 (364)
                      |.||||+|||++++.+++..
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            57999999999999999986

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.69  E-value=0.0083  Score=55.25  Aligned_cols=27  Identities=30%  Similarity=0.512  Sum_probs=23.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      ++|.||+|+||||++..++..+...+.
T Consensus       209 i~lvGptGvGKTTt~akLA~~l~~~g~  235 (407)
T PRK12726        209 ISLIGQTGVGKTTTLVKLGWQLLKQNR  235 (407)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            799999999999999999987754443

>PRK00625 shikimate kinase; Provisional

Probab=96.68  E-value=0.0021  Score=53.01  Aligned_cols=23  Identities=43%  Similarity=0.522  Sum_probs=21.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++|.|.||+|||++++.+++.+
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999997

>PRK13709 conjugal transfer nickase/helicase TraI; Provisional

Probab=96.67  E-value=0.02  Score=62.77  Aligned_cols=117  Identities=17%  Similarity=0.175  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC--CCCCCcEEEEeCCC-------CCChHHHHHHHHHHH
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG--AQYHNMILELNASD-------DRGIDVVRQQIQDFA  129 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~--~~~~~~~~~~~~~~-------~~~~~~~~~~i~~~~  129 (364)
                      +.....+..++.... ..++|.|.+|+|||++++.+...+..  ......++-+..+.       ..+..  -.-|..+.
T Consensus       970 ~~Q~~Av~~il~s~d-r~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e~Gi~--A~TI~s~L 1046 (1747)
T PRK13709        970 SGQRAATRMILESTD-RFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRSAGVD--AQTLASFL 1046 (1747)
T ss_pred             HHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHhcCcc--hhhHHHHh
Confidence            444555555565432 34799999999999999999877531  11122233332211       01111  01122222


Q ss_pred             hcCc-ccc---CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          130 STQS-FSF---GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       130 ~~~~-~~~---~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      .... +..   .......|+||||+-.+.......|++.++.  .++++||+++.
T Consensus      1047 ~~~~~~~~~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~--~garvVLVGD~ 1099 (1747)
T PRK13709       1047 HDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAA--GGGRAVSSGDT 1099 (1747)
T ss_pred             cccccccccccCCCCCCcEEEEEccccccHHHHHHHHHhhhc--CCCEEEEecch
Confidence            2110 000   0011467999999999998888888887763  36889999853

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.67  E-value=0.024  Score=46.26  Aligned_cols=102  Identities=21%  Similarity=0.198  Sum_probs=53.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCC----------CC--CcEEE----EeCCCCCChHHHHHHHHHHHhcCccccCCc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQ----------YH--NMILE----LNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~----------~~--~~~~~----~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~  139 (364)
                      ..++.||.|+|||+++++++-.+....          ..  .....    +......+....+-.+.......+  .   
T Consensus        23 ~~~i~G~NgsGKS~~l~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~i~~~~~lS~G~~~~~~la~~L~~~~--~---   97 (162)
T cd03227          23 LTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAVSAELIFTRLQLSGGEKELSALALILALAS--L---   97 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcchhhhccCcccCCCcceeeEEEEehheeeccccHHHHHHHHHHHHhcC--C---
Confidence            479999999999999999865543221          11  11111    000111111222222222222111  0   


Q ss_pred             cceEEEEEeCCCCC-CHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          140 ASVKLVLLDEADAM-TKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       140 ~~~~viiiDe~~~l-~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      .++.++++||...- .......+...+.+... .+.+|++|....
T Consensus        98 ~~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~  142 (162)
T cd03227          98 KPRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPE  142 (162)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence            13689999997555 44555566666555432 356677775543

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.

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

Probab=96.67  E-value=0.0029  Score=54.73  Aligned_cols=34  Identities=32%  Similarity=0.486  Sum_probs=24.1

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHH
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l   98 (364)
                      |...+.+|-++.  +++.||||+|||+++..++..-
T Consensus         8 LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~   43 (226)
T PF06745_consen    8 LDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNG   43 (226)
T ss_dssp             HHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHh
Confidence            334454443333  7999999999999998877543

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 ....

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.66  E-value=0.0043  Score=55.58  Aligned_cols=24  Identities=38%  Similarity=0.635  Sum_probs=21.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      ++|.||+|+||||++..++..+..
T Consensus       197 i~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       197 IALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            789999999999999999988743

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.64  E-value=0.0041  Score=48.62  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|.|+.|+|||++++.+++.+.
T Consensus        25 i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        25 VLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcC
Confidence            79999999999999999999974

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PLN02674 adenylate kinase

Probab=96.64  E-value=0.046  Score=47.57  Aligned_cols=24  Identities=33%  Similarity=0.679  Sum_probs=22.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|.||||+||+|.++.+++.+
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999999999986

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

Probab=96.63  E-value=0.01  Score=49.94  Aligned_cols=42  Identities=17%  Similarity=0.340  Sum_probs=30.3

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      +++++++||. ..+.......+.+.+.+... ...+|++++...
T Consensus       126 ~p~vlllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiiivtH~~~  169 (192)
T cd03232         126 KPSILFLDEPTSGLDSQAAYNIVRFLKKLADSGQAILCTIHQPS  169 (192)
T ss_pred             CCcEEEEeCCCcCCCHHHHHHHHHHHHHHHHcCCEEEEEEcCCh
Confidence            5789999995 45567778888888887643 455777776644

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.63  E-value=0.0059  Score=52.95  Aligned_cols=44  Identities=20%  Similarity=0.306  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .+++.+..+......+. +.|.||+|+||||+++.++..+...+.
T Consensus        18 ~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~~g   62 (229)
T PRK09270         18 PLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQDGE   62 (229)
T ss_pred             HHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhhccC
Confidence            44455666665534344 699999999999999999998865443

>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=96.62  E-value=0.018  Score=47.46  Aligned_cols=42  Identities=14%  Similarity=0.332  Sum_probs=30.2

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccC-ccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKN-TRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~-~~~Il~~~~~~  182 (364)
                      +++++++||. ..+.......+.+++...... ..+|++++...
T Consensus       113 ~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~  156 (173)
T cd03230         113 DPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILE  156 (173)
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence            5789999996 455667788888888876543 45677776543

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.

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=96.60  E-value=0.049  Score=43.83  Aligned_cols=77  Identities=14%  Similarity=0.168  Sum_probs=42.6

Q ss_pred             eCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC-CCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHH
Q 017884           80 YGPPGTGKTSTILAVARKLYGAQYHNMILELNA-SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQ  158 (364)
Q Consensus        80 ~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~  158 (364)
                      .+..||||||++.+|.+.+..    +..+.-+- ........+...+..+...         ...+|+.|--..+. ...
T Consensus         5 IAtiGCGKTTva~aL~~LFg~----wgHvQnDnI~~k~~~~f~~~~l~~L~~~---------~~~vViaDRNNh~~-reR   70 (168)
T PF08303_consen    5 IATIGCGKTTVALALSNLFGE----WGHVQNDNITGKRKPKFIKAVLELLAKD---------THPVVIADRNNHQK-RER   70 (168)
T ss_pred             ecCCCcCHHHHHHHHHHHcCC----CCccccCCCCCCCHHHHHHHHHHHHhhC---------CCCEEEEeCCCchH-HHH
Confidence            578999999999999988632    22222111 1111222222333333111         46799998655553 445


Q ss_pred             HHHHHHHHHhcc
Q 017884          159 FALRRVIEKYTK  170 (364)
Q Consensus       159 ~~L~~~le~~~~  170 (364)
                      ..|+..++....
T Consensus        71 ~ql~~~~~~~~~   82 (168)
T PF08303_consen   71 KQLFEDVSQLKP   82 (168)
T ss_pred             HHHHHHHHHhcc
Confidence            667767666443

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>PRK10867 signal recognition particle protein; Provisional

Probab=96.60  E-value=0.05  Score=51.55  Aligned_cols=25  Identities=32%  Similarity=0.461  Sum_probs=22.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++++|++|+||||++..+|..+...
T Consensus       103 I~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        103 IMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHh
Confidence            6999999999999999999887554

>PRK14530 adenylate kinase; Provisional

Probab=96.60  E-value=0.0026  Score=54.60  Aligned_cols=24  Identities=38%  Similarity=0.757  Sum_probs=22.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|.|+||+||||+++.+++.+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999987

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=96.60  E-value=0.011  Score=66.16  Aligned_cols=118  Identities=16%  Similarity=0.260  Sum_probs=68.4

Q ss_pred             hccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH-----------HH
Q 017884           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR-----------QQ  124 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-----------~~  124 (364)
                      .-.+.....+..++.... ...++.|++|+|||++++.+...+...+..  +.-+..+. .....+.           ..
T Consensus       429 ~Ls~~Q~~Av~~il~s~~-~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~--V~~lAPTg-rAA~~L~e~~g~~A~Ti~~~  504 (1960)
T TIGR02760       429 ALSPSNKDAVSTLFTSTK-RFIIINGFGGTGSTEIAQLLLHLASEQGYE--IQIITAGS-LSAQELRQKIPRLASTFITW  504 (1960)
T ss_pred             CCCHHHHHHHHHHHhCCC-CeEEEEECCCCCHHHHHHHHHHHHHhcCCe--EEEEeCCH-HHHHHHHHHhcchhhhHHHH
Confidence            334556666666666542 336999999999999999999887655433  22222211 1111111           11


Q ss_pred             HHHHHhcCcc----cc----CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          125 IQDFASTQSF----SF----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       125 i~~~~~~~~~----~~----~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      +.........    .|    .+.....++||||+..+.......|++....  .++++||+.+
T Consensus       505 l~~l~~~~~~~tv~~fl~~~~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~--~garvVlvGD  565 (1960)
T TIGR02760       505 VKNLFNDDQDHTVQGLLDKSSPFSNKDIFVVDEANKLSNNELLKLIDKAEQ--HNSKLILLND  565 (1960)
T ss_pred             HHhhcccccchhHHHhhcccCCCCCCCEEEEECCCCCCHHHHHHHHHHHhh--cCCEEEEEcC
Confidence            1110000000    00    0001467999999999998877777776553  4688888875

This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=96.59  E-value=0.0066  Score=58.74  Aligned_cols=83  Identities=13%  Similarity=0.071  Sum_probs=46.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD  156 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~  156 (364)
                      ++++|+||+||||+++.++...     ..  ..++.........+........       .   .++-+|||.. .+...
T Consensus       372 Vil~G~pGSGKST~A~~l~~~~-----g~--~~vn~D~lg~~~~~~~~a~~~L-------~---~G~sVVIDaT-n~~~~  433 (526)
T TIGR01663       372 VIAVGFPGAGKSHFCKKFFQPA-----GY--KHVNADTLGSTQNCLTACERAL-------D---QGKRCAIDNT-NPDAA  433 (526)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc-----CC--eEECcHHHHHHHHHHHHHHHHH-------h---CCCcEEEECC-CCCHH
Confidence            7999999999999999998874     12  2333322111111111111211       1   2344666655 45666


Q ss_pred             HHHHHHHHHHHhccCccEEEE
Q 017884          157 AQFALRRVIEKYTKNTRFALI  177 (364)
Q Consensus       157 ~~~~L~~~le~~~~~~~~Il~  177 (364)
                      ....+..+-.+..-.++++..
T Consensus       434 ~R~~~i~lAk~~gv~v~~i~~  454 (526)
T TIGR01663       434 SRAKFLQCARAAGIPCRCFLF  454 (526)
T ss_pred             HHHHHHHHHHHcCCeEEEEEe
Confidence            677777776665434444333

Note that the EC number for the kinase function is: 2.7.1.78

>PF13337 Lon_2: Putative ATP-dependent Lon protease

Probab=96.59  E-value=0.07  Score=50.14  Aligned_cols=92  Identities=17%  Similarity=0.294  Sum_probs=53.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-  154 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-  154 (364)
                      |++=.||.|||||++-+.+...         ..-+++....    .-..+-+.... .  .+-.+...+|++||+..+. 
T Consensus       210 NliELgPrGTGKS~vy~eiSp~---------~~liSGG~~T----~A~LFyn~~~~-~--~GlV~~~D~VafDEv~~i~f  273 (457)
T PF13337_consen  210 NLIELGPRGTGKSYVYKEISPY---------GILISGGQVT----VAKLFYNMSTG-Q--IGLVGRWDVVAFDEVAGIKF  273 (457)
T ss_pred             ceEEEcCCCCCceeehhhcCcc---------cEEEECCCcc----hHHheeeccCC-c--ceeeeeccEEEEEeccCccc
Confidence            5788899999999986554322         2233332211    11111111111 1  1222247799999999886 


Q ss_pred             --HHHHHHHHHHHHHh---------ccCccEEEEeecccc
Q 017884          155 --KDAQFALRRVIEKY---------TKNTRFALICNQVNK  183 (364)
Q Consensus       155 --~~~~~~L~~~le~~---------~~~~~~Il~~~~~~~  183 (364)
                        ++....|..+|+..         ..++.+||++|-...
T Consensus       274 ~d~d~i~imK~YMesG~fsRG~~~i~a~as~vf~GNi~~~  313 (457)
T PF13337_consen  274 KDKDEIQIMKDYMESGSFSRGKEEINADASMVFVGNINQS  313 (457)
T ss_pred             CChHHHHHHHHHHhccceeecccccccceeEEEEcCcCCc
Confidence              55567777788753         345678888875533

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.59  E-value=0.013  Score=55.13  Aligned_cols=27  Identities=26%  Similarity=0.415  Sum_probs=23.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      ++|+|++|+||||++..+|..+...+.
T Consensus       103 i~lvG~~GvGKTTtaaKLA~~l~~~G~  129 (429)
T TIGR01425       103 IMFVGLQGSGKTTTCTKLAYYYQRKGF  129 (429)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            799999999999999999988765544

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.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.57  E-value=0.018  Score=48.05  Aligned_cols=20  Identities=25%  Similarity=0.454  Sum_probs=18.3

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      ++|+||.|+|||++.+.++-
T Consensus         2 ~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            58999999999999999984

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.57  E-value=0.0052  Score=52.55  Aligned_cols=42  Identities=12%  Similarity=0.326  Sum_probs=31.7

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ++.++++||. ..+.......+.+++.+......+|++++...
T Consensus       148 ~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~tii~vsH~~~  190 (211)
T cd03264         148 DPSILIVDEPTAGLDPEERIRFRNLLSELGEDRIVILSTHIVE  190 (211)
T ss_pred             CCCEEEEcCCcccCCHHHHHHHHHHHHHHhCCCEEEEEcCCHH
Confidence            6789999995 55667788888899888765555777776544

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.

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

Probab=96.57  E-value=0.013  Score=48.71  Aligned_cols=41  Identities=20%  Similarity=0.389  Sum_probs=29.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeecc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~  181 (364)
                      ++.++++||. ..+.......+.+++.+... ...+|++++..
T Consensus       122 ~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~  164 (182)
T cd03215         122 DPRVLILDEPTRGVDVGAKAEIYRLIRELADAGKAVLLISSEL  164 (182)
T ss_pred             CCCEEEECCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCH
Confidence            5789999995 55667778888888877643 45567777654

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.56  E-value=0.02  Score=50.92  Aligned_cols=33  Identities=33%  Similarity=0.446  Sum_probs=25.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      +.|.||+|+||||++..++..+...+....++.
T Consensus        75 i~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~  107 (272)
T TIGR00064        75 ILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA  107 (272)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence            688899999999999999988765544333333

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.55  E-value=0.074  Score=43.05  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++.++...-
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999998753

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=96.55  E-value=0.0029  Score=58.49  Aligned_cols=55  Identities=24%  Similarity=0.385  Sum_probs=43.1

Q ss_pred             hhccCCC---CCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           44 VEKYRPQ---SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        44 ~~~~~p~---~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      +...||.   ++++.--.+.+++.|..-.     ..+|+.||||.||||+|+++|..+...+.
T Consensus       235 ITavRPvvk~~ledY~L~dkl~eRL~era-----eGILIAG~PGaGKsTFaqAlAefy~~~Gk  292 (604)
T COG1855         235 ITAVRPVVKLSLEDYGLSDKLKERLEERA-----EGILIAGAPGAGKSTFAQALAEFYASQGK  292 (604)
T ss_pred             EEEEeeeEEechhhcCCCHHHHHHHHhhh-----cceEEecCCCCChhHHHHHHHHHHHhcCc
Confidence            4445674   7888877788877776543     44999999999999999999999876553

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.55  E-value=0.025  Score=50.33  Aligned_cols=41  Identities=20%  Similarity=0.257  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      ......+..+.......+-|.|+||+||||++..+.+.+..
T Consensus        90 ~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~  130 (290)
T PRK10463         90 RLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKD  130 (290)
T ss_pred             HHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            33335556665555555899999999999999999998743

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.55  E-value=0.0031  Score=52.23  Aligned_cols=26  Identities=27%  Similarity=0.337  Sum_probs=23.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .++|.|++|+||||+++.+++.+...
T Consensus         9 ~I~i~G~~GsGKst~a~~l~~~l~~~   34 (176)
T PRK05541          9 VIWITGLAGSGKTTIAKALYERLKLK   34 (176)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            37999999999999999999998543

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.55  E-value=0.0024  Score=53.36  Aligned_cols=25  Identities=24%  Similarity=0.476  Sum_probs=22.3

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.+++.|+||+||||+++.+++.+
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3458999999999999999999886

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.55  E-value=0.079  Score=43.06  Aligned_cols=22  Identities=41%  Similarity=0.664  Sum_probs=19.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++.++...
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999999764

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

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

Probab=96.55  E-value=0.0062  Score=53.91  Aligned_cols=33  Identities=30%  Similarity=0.372  Sum_probs=26.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      ++++|+||+|||+++..++......+....++.
T Consensus        26 ~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          26 VLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            799999999999999999988766544443333

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=96.54  E-value=0.012  Score=49.91  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=19.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++|+||.|+|||++.+.++..
T Consensus        31 ~~~l~G~Ng~GKStll~~i~~~   52 (202)
T cd03243          31 LLLITGPNMGGKSTYLRSIGLA   52 (202)
T ss_pred             EEEEECCCCCccHHHHHHHHHH
Confidence            4899999999999999999843

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

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.53  E-value=0.0017  Score=53.02  Aligned_cols=22  Identities=36%  Similarity=0.667  Sum_probs=20.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.||+|+||||+++.+++.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4789999999999999999987

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PHA00350 putative assembly protein

Probab=96.53  E-value=0.0093  Score=55.47  Aligned_cols=52  Identities=15%  Similarity=0.177  Sum_probs=35.5

Q ss_pred             ceEEEEEeCCCCCCHHH-----------------------HHHHHHHHHHhcc-CccEEEEeeccccCchhhhccc
Q 017884          141 SVKLVLLDEADAMTKDA-----------------------QFALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC  192 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-----------------------~~~L~~~le~~~~-~~~~Il~~~~~~~l~~~l~sr~  192 (364)
                      .+.+|||||++.+.+..                       -......+..+.. +.-||++|..+..+...++..+
T Consensus        81 ~gaLIViDEaq~~~p~r~~~~~~~~~~~p~~~~~~~~~~~p~~~i~~l~~HRH~G~DIiliTQ~~~~Id~~iR~lv  156 (399)
T PHA00350         81 RGALYVIDEAQMIFPKRLGFKMANIFKRPFTDFEPHLPEGPENFLEAFMRHRHYNWDIILLTPNIRKIHSDIRAMI  156 (399)
T ss_pred             CCCEEEEECchhhcCCCccccccccccccccccccccccCCHHHHHHHHHhcccCceEEEEeCCHHHhhHHHHHhh
Confidence            46799999999884321                       1234555554433 4558999988888888887765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	364
1sxj_C	340	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-82
1iqp_A	327	Crystal Structure Of The Clamp Loader Small Subunit		3e-71
2chq_A	319	Replication Factor C Adpnp Complex Length = 319		1e-64
1sxj_B	323	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-56
2chg_A	226	Replication Factor C Domains 1 And 2 Length = 226		8e-55
1sxj_D	353	Crystal Structure Of The Eukaryotic Clamp Loader (R		4e-51
1sxj_E	354	Crystal Structure Of The Eukaryotic Clamp Loader (R		3e-26
3u5z_B	324	Structure Of T4 Bacteriophage Clamp Loader Bound To		1e-16
3glf_B	395	Crystal Structure Of The Ecoli Clamp Loader Bound T		3e-11
3glg_B	395	Crystal Structure Of A Mutant (Gammat157a) E. Coli		4e-11
3glh_B	376	Crystal Structure Of The E. Coli Clamp Loader Bound		6e-11
1xxi_B	368	Adp Bound E. Coli Clamp Loader Complex Length = 368		1e-10
1jr3_A	373	Crystal Structure Of The Processivity Clamp Loader		1e-10
1njg_A	250	Nucleotide-Free Form Of An Isolated E. Coli Clamp L		2e-09
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		2e-07
1sxj_A	516	Crystal Structure Of The Eukaryotic Clamp Loader (R		3e-07

>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 340

Iteration: 1
 Score =  303 bits (776), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 151/322 (46%), Positives = 217/322 (67%), Gaps = 15/322 (4%)
Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V    +++ T+ +   E +LPHLL YGPPGTGKTSTI+A+AR++YG 
Sbjct: 14  PWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK 73
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFAST-QSFSFGVKASVKLVLLDEADAMTKDAQFA 160
            Y NM+LELNASDDRGIDVVR QI+DFAST Q FS G     KL++LDEADAMT  AQ A
Sbjct: 74  NYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG----FKLIILDEADAMTNAAQNA 129
Query: 161 LRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV 220
           LRRVIE+YTKNTRF ++ N  +K+ PAL S+CTRFRF PL    +  R+ +V+  E L +
Sbjct: 130 LRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKL 189
Query: 221 TEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEEAVYLCTGNPLPKDIEQISY 275
           +     AL+ L NGDMR+ LN+LQS           +I+++ +Y C G P P D++ +  
Sbjct: 190 SPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLK 249
Query: 276 WLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPS-DVRVRLMNDLADIEYR 334
            +L + +  +   +++++  KGLAL+D++  +   +   ++ + + RV L+  LADIEY 
Sbjct: 250 SILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYS 309
Query: 335 LSFGCNDKLQ----LGSIISTF 352
           +S G ND++Q    +G+I ++F
Sbjct: 310 ISKGGNDQIQGSAVIGAIKASF 331

>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus Furiosus Length = 327

Iteration: 1
 Score =  265 bits (677), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 126/312 (40%), Positives = 201/312 (64%), Gaps = 3/312 (0%)
Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRPQ L D+     IV  +        +PHLL  GPPG GKT+  LA+AR+L+G 
Sbjct: 14  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 73
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            + +  LELNASD+RGI+V+R+++++FA T+       AS K++ LDEADA+T+DAQ AL
Sbjct: 74  NWRHNFLELNASDERGINVIREKVKEFARTKPIG---GASFKIIFLDEADALTQDAQQAL 130
Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E ++ N RF L CN  +KII  +QSRC  FRF PL    + +RL+++ E EGL++T
Sbjct: 131 RRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT 190
Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
           E GL A++ +  GDMR+A+NILQ+     ++IT+E V++      P+DI ++    L  +
Sbjct: 191 EEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLALKGN 250
Query: 282 FADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCND 341
           F  + +++ E+ +++GL+  D++ ++   VF + +    +V L + + +  +RL  G N+
Sbjct: 251 FLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANE 310
Query: 342 KLQLGSIISTFT 353
            +QL ++++ FT
Sbjct: 311 IIQLEALLAQFT 322

>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex Length = 319

Iteration: 1
 Score =  243 bits (620), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 115/311 (36%), Positives = 193/311 (62%), Gaps = 3/311 (0%)
Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
           WVEKYRP++L +V    +++  +        +PHLL  GPPGTGKT+T +A+AR L+G  
Sbjct: 7   WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
           + +  +E+NASD+RGIDVVR +I++FA T        A  K++ LDEADA+T DAQ ALR
Sbjct: 67  WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG---GAPFKIIFLDEADALTADAQAALR 123
Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE 222
           R +E Y+K+ RF L CN V++II  +QSRC  FRF P+    + +RL  + E EG+ +TE
Sbjct: 124 RTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITE 183
Query: 223 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESF 282
            GL AL+ +  GD RKA+N LQ      + +  + +Y  T    P+++ ++    L  +F
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKGNF 243
Query: 283 ADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDK 342
            ++ + +  + +  G++  DIV ++   +  + +   ++V+L++ L ++++RL+ G N++
Sbjct: 244 MEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANER 303
Query: 343 LQLGSIISTFT 353
           +QL + ++  +
Sbjct: 304 IQLDAYLAYLS 314

>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 323

Iteration: 1
 Score =  216 bits (551), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 120/312 (38%), Positives = 186/312 (59%), Gaps = 10/312 (3%)
Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRPQ L+D+  +++ +D + ++  +  +PH+++ G PG GKT+++  +A +L G 
Sbjct: 10  PWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR 69
Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            Y + +LELNASDDRGIDVVR QI+ FA  +      K   K+V+LDEAD+MT  AQ AL
Sbjct: 70  SYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKH--KIVILDEADSMTAGAQQAL 127
Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E Y+ +TRFA  CNQ NKII  LQS+C   R++ L    V +RL  +I+ E +  T
Sbjct: 128 RRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYT 187
Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
             GL A++    GDMR+A+N LQST      +  + V+    +P P  ++++   LL  +
Sbjct: 188 NDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKM---LLASN 244
Query: 282 FADSFKRISEMKMRKGLALVDIVR---EVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFG 338
             DS + +     +KG + +DIV     VT  + ++K    VR+ ++ ++     R+  G
Sbjct: 245 LEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVK--ESVRLEMIKEIGLTHMRILEG 302
Query: 339 CNDKLQLGSIIS 350
               LQL S+++
Sbjct: 303 VGTYLQLASMLA 314

>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2 Length = 226

Iteration: 1
 Score =  210 bits (535), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 99/222 (44%), Positives = 141/222 (63%), Gaps = 3/222 (1%)
Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
           WVEKYRP++L +V    +++  +        +PHLL  GPPGTGKT+T +A+AR L+G  
Sbjct: 7   WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
           + +  +E+NASD+RGIDVVR +I++FA T        A  K++ LDEADA+T DAQ ALR
Sbjct: 67  WRDNFIEMNASDERGIDVVRHKIKEFARTAPIG---GAPFKIIFLDEADALTADAQAALR 123
Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTE 222
           R +E Y+K+ RF L CN V++II  +QSRC  FRF P+    + +RL  + E EG+ +TE
Sbjct: 124 RTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITE 183
Query: 223 GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGN 264
            GL AL+ +  GD RKA+N LQ      + +  + +Y  T  
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITAT 225

>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 353

Iteration: 1
 Score =  198 bits (503), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 118/329 (35%), Positives = 185/329 (56%), Gaps = 18/329 (5%)
Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V A    V  + +      LPH+L YGPPGTGKTSTILA+ ++LYG 
Sbjct: 26  PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85
Query: 102 QY-HNMILELNASDDRGIDVVRQQIQDFA-------STQSFSFGVKASVKLVLLDEADAM 153
               + ILELNASD+RGI +VR+++++FA       S            K+++LDEAD+M
Sbjct: 86  DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 145
Query: 154 TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVI 213
           T DAQ ALRR +E Y+  TRF LICN V +II  L S+C++FRF  L+  +  +RL+ + 
Sbjct: 146 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 205
Query: 214 EAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ------QITEEAVYLCTGNPLP 267
           E E +   +G L  ++ +  GD+R+ + +LQS    +Q       IT   V    G  +P
Sbjct: 206 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAG-VVP 264
Query: 268 KDIE-QISYWLLNESFADSFKRISEMKMRKGLALVDIVREV-TMFVFKIKMPSDVRVRLM 325
            DI  +I   + +  F D  K+     M+ G +   +V ++   ++      ++ + ++ 
Sbjct: 265 HDILIEIVEKVKSGDF-DEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQIS 323
Query: 326 NDLADIEYRLSFGCNDKLQLGSIISTFTQ 354
             L   + RL+ G N+ +QL +++   +Q
Sbjct: 324 WLLFTTDSRLNNGTNEHIQLLNLLVKISQ 352

>pdb|1SXJ|E Chain E, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 354

Iteration: 1
 Score =  115 bits (288), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 73/247 (29%), Positives = 131/247 (53%), Gaps = 39/247 (15%)
Query: 41  SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLY 99
           S WV+KYRP+SL  ++ + ++ + +  L+ + R LPHLLLYGP GTGK +  +A+   ++
Sbjct: 2   SLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIF 61
Query: 100 G---------------------------AQYHNMILELNASDDRGID--VVRQQIQDFAS 130
           G                           + YH   LE+  SD    D  V+++ +++ A 
Sbjct: 62  GPGVYRLKIDVRQFVTASNRKLELNVVSSPYH---LEITPSDMGNNDRIVIQELLKEVAQ 118
Query: 131 TQSFSF-----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKII 185
            +   F     G+    K V+++EA+++TKDAQ ALRR +EKY+KN R  ++C+ ++ II
Sbjct: 119 MEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPII 178
Query: 186 PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV-TEGGLAALVRLCNGDMRKALNILQ 244
             ++S+C   R        ++  L  V+  E + + T+  L  + +  NG++R +L +L+
Sbjct: 179 APIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLE 238
Query: 245 STHMASQ 251
           S  + ++
Sbjct: 239 SMALNNE 245

>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4 Clamp, Primer-Template Dna, And Atp Analog Length = 324

Iteration: 1
 Score = 84.0 bits (206), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 66/213 (30%), Positives = 108/213 (50%), Gaps = 24/213 (11%)
Query: 45  EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGP-PGTGKTSTILAVARKLYGAQY 103
           +KYRP ++ +        +T   +TS+ ++PH++L+ P PGTGKT+    VA+ L     
Sbjct: 18  QKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTT----VAKALCHDVN 73
Query: 104 HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEAD-AMTKDAQFALR 162
            +M+  +N SD + ID VR  + +FAS  SF        K++++DE D +   ++Q  LR
Sbjct: 74  ADMMF-VNGSDCK-IDFVRGPLTNFASAASFD----GRQKVIVIDEFDRSGLAESQRHLR 127
Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPV---------HVTERLKHVI 213
             +E Y+ N    +  N ++ II  LQSRC    F   +P           +  RL  + 
Sbjct: 128 SFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFG--QPTDEDKIEMMKQMIRRLTEIC 185
Query: 214 EAEGLDVTEGG-LAALVRLCNGDMRKALNILQS 245
           + EG+ + +   +AALV+    D RK +  L S
Sbjct: 186 KHEGIAIADMKVVAALVKKNFPDFRKTIGELDS 218

>pdb|3GLF|B Chain B, Crystal Structure Of The Ecoli Clamp Loader Bound To Primer-template Dna Length = 395

Iteration: 1
 Score = 65.9 bits (159), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 71/332 (21%), Positives = 138/332 (41%), Gaps = 31/332 (9%)
Query: 26  GKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPG 84
           G  V+  G  P +       K+RPQ+ ADV     ++  +    S  R+ H  L+ G  G
Sbjct: 13  GLEVLFQG--PHMSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRG 70
Query: 85  TGKTSTILAVA--------------------RKLYGAQYHNMILELNASDDRGIDVVRQQ 124
            GKTS    +A                    R++   ++ ++I E++A+    ++  R  
Sbjct: 71  VGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDL 129
Query: 125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI 184
           + +     +     +   K+ L+DE   +++ +  AL + +E+  ++ +F L      K+
Sbjct: 130 LDNVQYAPA-----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL 184
Query: 185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL- 243
              + SRC +F    L+   +  +L+H++  E +      L  L R   G +R AL++  
Sbjct: 185 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTD 244
Query: 244 QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDI 303
           Q+      Q++ +AV    G  L  D        + E+  +    +      +G+    +
Sbjct: 245 QAIASGDGQVSTQAVSAMLGT-LDDDQALSLVEAMVEANGERVMALINEAAARGIEWEAL 303
Query: 304 VREVTMFVFKIKMPSDVRVRLMNDLADIEYRL 335
           + E+   + +I M       L ND+A IE R+
Sbjct: 304 LVEMLGLLHRIAMVQLSPAALGNDMAAIELRM 335

>pdb|3GLG|B Chain B, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp Loader Bound To Primer-Template Dna Length = 395

Iteration: 1
 Score = 65.5 bits (158), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 71/332 (21%), Positives = 138/332 (41%), Gaps = 31/332 (9%)
Query: 26  GKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPG 84
           G  V+  G  P +       K+RPQ+ ADV     ++  +    S  R+ H  L+ G  G
Sbjct: 13  GLEVLFQG--PHMSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRG 70
Query: 85  TGKTSTILAVA--------------------RKLYGAQYHNMILELNASDDRGIDVVRQQ 124
            GKTS    +A                    R++   ++ ++I E++A+    ++  R  
Sbjct: 71  VGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDL 129
Query: 125 IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI 184
           + +     +     +   K+ L+DE   +++ +  AL + +E+  ++ +F L      K+
Sbjct: 130 LDNVQYAPA-----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATADPQKL 184
Query: 185 IPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL- 243
              + SRC +F    L+   +  +L+H++  E +      L  L R   G +R AL++  
Sbjct: 185 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTD 244
Query: 244 QSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDI 303
           Q+      Q++ +AV    G  L  D        + E+  +    +      +G+    +
Sbjct: 245 QAIASGDGQVSTQAVSAMLGT-LDDDQALSLVEAMVEANGERVMALINEAAARGIEWEAL 303
Query: 304 VREVTMFVFKIKMPSDVRVRLMNDLADIEYRL 335
           + E+   + +I M       L ND+A IE R+
Sbjct: 304 LVEMLGLLHRIAMVQLSPAALGNDMAAIELRM 335

>pdb|3GLH|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi Peptide Length = 376

Iteration: 1
 Score = 65.1 bits (157), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 68/322 (21%), Positives = 134/322 (41%), Gaps = 29/322 (9%)
Query: 36  PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAV 94
           P +       K+RPQ+ ADV     ++  +    S  R+ H  L+ G  G GKTS    +
Sbjct: 2   PHMSYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLL 61
Query: 95  A--------------------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF 134
           A                    R++   ++ ++I E++A+    ++  R  + +     + 
Sbjct: 62  AKGLNCETGITATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA- 119
Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR 194
               +   K+ L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +
Sbjct: 120 ----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ 175
Query: 195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQI 253
           F    L+   +  +L+H++  E +      L  L R   G +R AL++  Q+      Q+
Sbjct: 176 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQV 235
Query: 254 TEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFK 313
           + +AV    G  L  D        + E+  +    +      +G+    ++ E+   + +
Sbjct: 236 STQAVSAMLGT-LDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHR 294
Query: 314 IKMPSDVRVRLMNDLADIEYRL 335
           I M       L ND+A IE R+
Sbjct: 295 IAMVQLSPAALGNDMAAIELRM 316

>pdb|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex Length = 368

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 67/312 (21%), Positives = 132/312 (42%), Gaps = 29/312 (9%)
Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVA--------- 95
           K+RPQ+ ADV     ++  +    S  R+ H  L+ G  G GKTS    +A         
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                      R++   ++ ++I E++A+    ++  R  + +     +     +   K+
Sbjct: 69  TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA-----RGRFKV 122
Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +F    L+   
Sbjct: 123 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 182
Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
           +  +L+H++  E +      L  L R   G +R AL++  Q+      Q++ +AV    G
Sbjct: 183 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 242
Query: 264 NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVR 323
             L  D        + E+  +    +      +G+    ++ E+   + +I M       
Sbjct: 243 T-LDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAA 301
Query: 324 LMNDLADIEYRL 335
           L ND+A IE R+
Sbjct: 302 LGNDMAAIELRM 313

>pdb|1JR3|A Chain A, Crystal Structure Of The Processivity Clamp Loader Gamma Complex Of E. Coli Dna Polymerase Iii Length = 373

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 67/312 (21%), Positives = 132/312 (42%), Gaps = 29/312 (9%)
Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVA--------- 95
           K+RPQ+ ADV     ++  +    S  R+ H  L+ G  G GKTS    +A         
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                      R++   ++ ++I E++A+    ++  R  + +     +     +   K+
Sbjct: 69  TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA-----RGRFKV 122
Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +F    L+   
Sbjct: 123 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 182
Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
           +  +L+H++  E +      L  L R   G +R AL++  Q+      Q++ +AV    G
Sbjct: 183 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 242
Query: 264 NPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVR 323
             L  D        + E+  +    +      +G+    ++ E+   + +I M       
Sbjct: 243 T-LDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAA 301
Query: 324 LMNDLADIEYRL 335
           L ND+A IE R+
Sbjct: 302 LGNDMAAIELRM 313

>pdb|1NJG|A Chain A, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader Gamma Subunit Length = 250

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 53/241 (21%), Positives = 105/241 (43%), Gaps = 28/241 (11%)
Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVA--------- 95
           K+RPQ+ ADV     ++  +    S  R+ H  L+ G  G GKTS    +A         
Sbjct: 16  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75
Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                      R++   ++ ++I E++A+    ++  R  + +     +     +   K+
Sbjct: 76  TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPA-----RGRFKV 129
Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +F    L+   
Sbjct: 130 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 189
Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
           +  +L+H++  E +      L  L R   G +R AL++  Q+      Q++ +AV    G
Sbjct: 190 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 249
Query: 264 N 264
Sbjct: 250 T 250

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 53.1 bits (126), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 55/213 (25%), Positives = 93/213 (43%), Gaps = 21/213 (9%)
Query: 42  PWVEKYRPQSLADVAAHRDIV---DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL 98
           P   + RP++LA     + ++     + R      L  ++L+GPPGTGKT+    +AR  
Sbjct: 15  PLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIAR-- 72
Query: 99  YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQ 158
               Y N  +E  ++   G+  +R+ I+   + Q+ + G +    ++ +DE     K  Q
Sbjct: 73  ----YANADVERISAVTSGVKEIREAIER--ARQNRNAGRRT---ILFVDEVHRFNKSQQ 123
Query: 159 FALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAE-- 216
            A    IE  T     A   N   ++  AL SR   +    L    + + L   +E +  
Sbjct: 124 DAFLPHIEDGTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAMEDKTR 183
Query: 217 ---GLDVT--EGGLAALVRLCNGDMRKALNILQ 244
              G D+   +    A+  L NGD R+ALN L+
Sbjct: 184 GYGGQDIVLPDETRRAIAELVNGDARRALNTLE 216

>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 516

Iteration: 1
 Score = 53.1 bits (126), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 56/230 (24%), Positives = 98/230 (42%), Gaps = 35/230 (15%)
Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRL------TSENRLPHL-----------LLYGPPGT 85
           W  KY P +L  V  ++  V  +         + +N   H            +LYGPPG 
Sbjct: 29  WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGI 88
Query: 86  GKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK-- 143
           GKT+    VA++L    Y   ILE NASD R   ++   +++     S     K + +  
Sbjct: 89  GKTTAAHLVAQEL---GYD--ILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQ 143
Query: 144 -------LVLLDEADAMTKDAQFALRRVIEKYTK-NTRFALICNQVN--KIIPALQSRCT 193
                  ++++DE D M+   +  + ++ +   K +T   LICN+ N  K+ P     C 
Sbjct: 144 NLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRP-FDRVCL 202
Query: 194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL 243
             +F   +   +  RL  +   E   +    +  L++   GD+R+ +N+L
Sbjct: 203 DIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLL 252

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	364
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-154
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-154
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	1e-147
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	1e-145
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	1e-136
2chg_A	226	Replication factor C small subunit; DNA-binding pr	1e-127
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	1e-119
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	1e-115
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	5e-91
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	2e-26
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	6e-24
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	5e-21
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-18
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04
3pvs_A	447	Replication-associated recombination protein A; ma	3e-14
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	8e-11
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	9e-11
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	6e-09
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	2e-08
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	3e-06
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	2e-05
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	2e-05
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	5e-05
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	3e-04

>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 Length = 319

 Score =  435 bits (1120), Expect = e-154
 Identities = 115/313 (36%), Positives = 193/313 (61%), Gaps = 3/313 (0%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
            WVEKYRP++L +V    +++  +        +PHLL  GPPGTGKT+T +A+AR L+G 
Sbjct: 6   IWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE 65

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            + +  +E+NASD+RGIDVVR +I++FA T        A  K++ LDEADA+T DAQ AL
Sbjct: 66  NWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGG---APFKIIFLDEADALTADAQAAL 122

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E Y+K+ RF L CN V++II  +QSRC  FRF P+    + +RL  + E EG+ +T
Sbjct: 123 RRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKIT 182

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
           E GL AL+ +  GD RKA+N LQ      + +  + +Y  T    P+++ ++    L  +
Sbjct: 183 EDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKGN 242

Query: 282 FADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCND 341
           F ++ + +  + +  G++  DIV ++   +  + +   ++V+L++ L ++++RL+ G N+
Sbjct: 243 FMEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANE 302

Query: 342 KLQLGSIISTFTQ 354
           ++QL + ++  + 
Sbjct: 303 RIQLDAYLAYLST 315

>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 Length = 327

 Score =  434 bits (1119), Expect = e-154
 Identities = 126/322 (39%), Positives = 202/322 (62%), Gaps = 3/322 (0%)

Query: 36  PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVA 95
             +   PWVEKYRPQ L D+     IV  +        +PHLL  GPPG GKT+  LA+A
Sbjct: 8   VKVLEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALA 67

Query: 96  RKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK 155
           R+L+G  + +  LELNASD+RGI+V+R+++++FA T+       AS K++ LDEADA+T+
Sbjct: 68  RELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIG---GASFKIIFLDEADALTQ 124

Query: 156 DAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA 215
           DAQ ALRR +E ++ N RF L CN  +KII  +QSRC  FRF PL    + +RL+++ E 
Sbjct: 125 DAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAEN 184

Query: 216 EGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISY 275
           EGL++TE GL A++ +  GDMR+A+NILQ+     ++IT+E V++      P+DI ++  
Sbjct: 185 EGLELTEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMML 244

Query: 276 WLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRL 335
             L  +F  + +++ E+ +++GL+  D++ ++   VF + +    +V L + + +  +RL
Sbjct: 245 LALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRL 304

Query: 336 SFGCNDKLQLGSIISTFTQARS 357
             G N+ +QL ++++ FT    
Sbjct: 305 VEGANEIIQLEALLAQFTLIGK 326

>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 Length = 340

 Score =  418 bits (1076), Expect = e-147
 Identities = 147/338 (43%), Positives = 214/338 (63%), Gaps = 9/338 (2%)

Query: 32  SGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTI 91
           S      +  PWVEKYRP++L +V    +++ T+ +   E +LPHLL YGPPGTGKTSTI
Sbjct: 4   STEKRSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTI 63

Query: 92  LAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEAD 151
           +A+AR++YG  Y NM+LELNASDDRGIDVVR QI+DFAST+          KL++LDEAD
Sbjct: 64  VALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIF---SKGFKLIILDEAD 120

Query: 152 AMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKH 211
           AMT  AQ ALRRVIE+YTKNTRF ++ N  +K+ PAL S+CTRFRF PL    +  R+ +
Sbjct: 121 AMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIAN 180

Query: 212 VIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-----QITEEAVYLCTGNPL 266
           V+  E L ++     AL+ L NGDMR+ LN+LQS           +I+++ +Y C G P 
Sbjct: 181 VLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPR 240

Query: 267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSD-VRVRLM 325
           P D++ +   +L + +  +   +++++  KGLAL+D++  +   +   ++ ++  RV L+
Sbjct: 241 PSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLL 300

Query: 326 NDLADIEYRLSFGCNDKLQLGSIISTFTQARSAIVAAA 363
             LADIEY +S G ND++Q  ++I     +       A
Sbjct: 301 TKLADIEYSISKGGNDQIQGSAVIGAIKASFENETVKA 338

>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 Length = 323

 Score =  412 bits (1062), Expect = e-145
 Identities = 116/317 (36%), Positives = 183/317 (57%), Gaps = 6/317 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRPQ L+D+  +++ +D + ++  +  +PH+++ G PG GKT+++  +A +L G 
Sbjct: 10  PWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR 69

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            Y + +LELNASDDRGIDVVR QI+ FA  +          K+V+LDEAD+MT  AQ AL
Sbjct: 70  SYADGVLELNASDDRGIDVVRNQIKHFAQKKLHL--PPGKHKIVILDEADSMTAGAQQAL 127

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E Y+ +TRFA  CNQ NKII  LQS+C   R++ L    V +RL  +I+ E +  T
Sbjct: 128 RRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYT 187

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNES 281
             GL A++    GDMR+A+N LQST      +  + V+    +P P  +++    LL  +
Sbjct: 188 NDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKK---MLLASN 244

Query: 282 FADSFKRISEMKMRKGLALVDIVREVTMFVFKI-KMPSDVRVRLMNDLADIEYRLSFGCN 340
             DS + +     +KG + +DIV         + ++   VR+ ++ ++     R+  G  
Sbjct: 245 LEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVG 304

Query: 341 DKLQLGSIISTFTQARS 357
             LQL S+++   +  +
Sbjct: 305 TYLQLASMLAKIHKLNN 321

>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 Length = 353

 Score =  390 bits (1004), Expect = e-136
 Identities = 112/347 (32%), Positives = 185/347 (53%), Gaps = 16/347 (4%)

Query: 23  KDNGKNVIVSGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGP 82
            +  + +        +   PWVEKYRP++L +V A    V  + +      LPH+L YGP
Sbjct: 7   PNKKRKISKLAAEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGP 66

Query: 83  PGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDVVRQQIQDFAST-------QSF 134
           PGTGKTSTILA+ ++LYG     + ILELNASD+RGI +VR+++++FA            
Sbjct: 67  PGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDL 126

Query: 135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR 194
                   K+++LDEAD+MT DAQ ALRR +E Y+  TRF LICN V +II  L S+C++
Sbjct: 127 ENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSK 186

Query: 195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS---- 250
           FRF  L+  +  +RL+ + E E +   +G L  ++ +  GD+R+ + +LQS    +    
Sbjct: 187 FRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLG 246

Query: 251 --QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT 308
             + IT   V    G      + +I   + +  F +  K ++   M+ G +   +V ++ 
Sbjct: 247 DGKNITSTQVEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTF-MKSGWSAASVVNQLH 305

Query: 309 MFVFK-IKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ 354
            +        ++ + ++   L   + RL+ G N+ +QL +++   +Q
Sbjct: 306 EYYITNDNFDTNFKNQISWLLFTTDSRLNNGTNEHIQLLNLLVKISQ 352

>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} Length = 226

 Score =  362 bits (932), Expect = e-127
 Identities = 98/223 (43%), Positives = 140/223 (62%), Gaps = 3/223 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
            WVEKYRP++L +V    +++  +        +PHLL  GPPGTGKT+T +A+AR L+G 
Sbjct: 6   IWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE 65

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            + +  +E+NASD+RGIDVVR +I++FA T           K++ LDEADA+T DAQ AL
Sbjct: 66  NWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGA---PFKIIFLDEADALTADAQAAL 122

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E Y+K+ RF L CN V++II  +QSRC  FRF P+    + +RL  + E EG+ +T
Sbjct: 123 RRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKIT 182

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGN 264
           E GL AL+ +  GD RKA+N LQ      + +  + +Y  T  
Sbjct: 183 EDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITAT 225

>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 Length = 354

 Score =  348 bits (895), Expect = e-119
 Identities = 83/349 (23%), Positives = 166/349 (47%), Gaps = 38/349 (10%)

Query: 41  SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLY 99
           S WV+KYRP+SL  ++ + ++ + +  L+ + R LPHLLLYGP GTGK +  +A+   ++
Sbjct: 2   SLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIF 61

Query: 100 GAQYH------------------------NMILELNASDDRGID--VVRQQIQDFASTQS 133
           G   +                           LE+  SD    D  V+++ +++ A  + 
Sbjct: 62  GPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQ 121

Query: 134 FSF-----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPAL 188
             F     G+    K V+++EA+++TKDAQ ALRR +EKY+KN R  ++C+ ++ II  +
Sbjct: 122 VDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPI 181

Query: 189 QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDV-TEGGLAALVRLCNGDMRKALNILQSTH 247
           +S+C   R        ++  L  V+  E + + T+  L  + +  NG++R +L +L+S  
Sbjct: 182 KSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMA 241

Query: 248 MASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEM---KMRKGLALVDIV 304
           + + ++  ++            I +++  ++ E   +S      +    +   +    I+
Sbjct: 242 LNN-ELALKSSSPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIIL 300

Query: 305 REVTMFVFKI-KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTF 352
           +E+T  +  +  + +  +  ++   +  + RLS G      L   I+  
Sbjct: 301 KELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKV 349

>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* Length = 324

 Score =  336 bits (863), Expect = e-115
 Identities = 75/331 (22%), Positives = 134/331 (40%), Gaps = 28/331 (8%)

Query: 32  SGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGP-PGTGKTST 90
           S    + K     +KYRP ++ +        +T   +TS+ ++PH++L+ P PGTGKT+ 
Sbjct: 5   SMITVNEKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTV 64

Query: 91  ILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA 150
             A+   +        ++ +N SD + ID VR  + +FAS  SF        K++++DE 
Sbjct: 65  AKALCHDVNA-----DMMFVNGSDCK-IDFVRGPLTNFASAASF----DGRQKVIVIDEF 114

Query: 151 DAM-TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP------- 202
           D     ++Q  LR  +E Y+ N    +  N ++ II  LQSRC    F            
Sbjct: 115 DRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMM 174

Query: 203 VHVTERLKHVIEAEGLDVTE-GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLC 261
             +  RL  + + EG+ + +   +AALV+    D RK +  L S   +   +    + L 
Sbjct: 175 KQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS-SKGVLDAGILSLV 233

Query: 262 TGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVR 321
           T +     I+ +   L N+          +        +  +  E+   V          
Sbjct: 234 TND--RGAIDDVLESLKNKDVKQLRALAPKYAADYSWFVGKLAEEIYSRV-----TPQSI 286

Query: 322 VRLMNDLADIEYRLSFGCNDKLQLGSIISTF 352
           +R+   + +         N +L L  +    
Sbjct: 287 IRMYEIVGENNQYHGIAANTELHLAYLFIQL 317

>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 Length = 516

 Score =  281 bits (720), Expect = 5e-91
 Identities = 62/343 (18%), Positives = 118/343 (34%), Gaps = 45/343 (13%)

Query: 34  TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDR-----------------LTSENRLPH 76
            P       W  KY P +L  V  ++  V  +                            
Sbjct: 20  GPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRA 79

Query: 77  LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF 136
            +LYGPPG GKT+    VA+     +    ILE NASD R   ++   +++     S   
Sbjct: 80  AMLYGPPGIGKTTAAHLVAQ-----ELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVG 134

Query: 137 GVKASV---------KLVLLDEADAMTKDAQFALRRVIEKYTKNTR-FALICNQVN-KII 185
             K +           ++++DE D M+   +  + ++ +   K +    LICN+ N   +
Sbjct: 135 YFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKM 194

Query: 186 PALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS 245
                 C   +F   +   +  RL  +   E   +    +  L++   GD+R+ +N+L +
Sbjct: 195 RPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLST 254

Query: 246 THMASQQITEEAVYLCTGNPLPKDIEQ-----ISYWLLNESFADSFKRISEMKMRKGLAL 300
               ++ I  E +   +     K+I           L  + ++D   R   +  +  L  
Sbjct: 255 ISTTTKTINHENINEISKAW-EKNIALKPFDIAHKMLDGQIYSDIGSRNFTLNDKIALYF 313

Query: 301 VDIVREVTMFVF-----KIKMPSDVRVRLMNDLADIEYRLSFG 338
            D      + +                  +  +A+    +S G
Sbjct: 314 DDFDF-TPLMIQENYLSTRPSVLKPGQSHLEAVAEAANCISLG 355

>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* Length = 334

 Score =  106 bits (266), Expect = 2e-26
 Identities = 49/253 (19%), Positives = 94/253 (37%), Gaps = 42/253 (16%)

Query: 58  HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVAR-------------------K 97
            R   + +       R  H LL+   PG G  + I A++R                   +
Sbjct: 7   LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQ 66

Query: 98  LYGAQYHNMILELNASDDR---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT 154
           L  A  H     L     +   G+D VR+ + +  +  +         K+V + +A  +T
Sbjct: 67  LMQAGTHPDYYTLAPEKGKNTLGVDAVRE-VTEKLNEHARL----GGAKVVWVTDAALLT 121

Query: 155 KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE 214
             A  AL + +E+    T F L   +  +++  L+SRC     AP    +    L     
Sbjct: 122 DAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWL----- 176

Query: 215 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVY--LCTGNPLP----- 267
           +  + +++  L A +RL  G    AL + Q  +  +++   +A+   + +G+        
Sbjct: 177 SREVTMSQDALLAALRLSAGSPGAALALFQGDNWQARETLCQALAYSVPSGDWYSLLAAL 236

Query: 268 --KDIEQISYWLL 278
             +      +WL 
Sbjct: 237 NHEQAPARLHWLA 249

>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* Length = 250

 Score = 98.0 bits (245), Expect = 6e-24
 Identities = 53/241 (21%), Positives = 101/241 (41%), Gaps = 30/241 (12%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTST--ILAVAR------ 96
           K+RPQ+ ADV     ++  +    S  R+ H  L  G  G GKTS   +LA         
Sbjct: 16  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75

Query: 97  -----------KLYGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKASVK 143
                      +         ++E++A+    ++  R  + +  +A  +          K
Sbjct: 76  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPAR-------GRFK 128

Query: 144 LVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPV 203
           + L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +F    L+  
Sbjct: 129 VYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVE 188

Query: 204 HVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCT 262
            +  +L+H++  E +      L  L R   G +R AL++  Q+      Q++ +AV    
Sbjct: 189 QIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAML 248

Query: 263 G 263
           G
Sbjct: 249 G 249

>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* Length = 373

 Score = 91.9 bits (229), Expect = 5e-21
 Identities = 68/314 (21%), Positives = 133/314 (42%), Gaps = 33/314 (10%)

Query: 46  KYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTST--ILAVA------- 95
           K+RPQ+ ADV     ++  +    S  R+ H  L  G  G GKTS   +LA         
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68

Query: 96  -----------RKLYGAQYHNMILELNASDDRGIDVVRQQIQD--FASTQSFSFGVKASV 142
                      R++   ++ ++I E++A+    ++  R  + +  +A  +          
Sbjct: 69  TATPCGVCDNCREIEQGRFVDLI-EIDAASRTKVEDTRDLLDNVQYAPAR-------GRF 120

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEP 202
           K+ L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +F    L+ 
Sbjct: 121 KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDV 180

Query: 203 VHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLC 261
             +  +L+H++  E +      L  L R   G +R AL++  Q+      Q++ +AV   
Sbjct: 181 EQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAM 240

Query: 262 TGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVR 321
            G         +   ++  +       I+E    +G+    ++ E+   + +I M     
Sbjct: 241 LGTLDDDQALSLVEAMVEANGERVMALINEA-AARGIEWEALLVEMLGLLHRIAMVQLSP 299

Query: 322 VRLMNDLADIEYRL 335
             L ND+A IE R+
Sbjct: 300 AALGNDMAAIELRM 313

>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 = 84.1 bits (207), Expect = 7e-18
 Identities = 52/340 (15%), Positives = 98/340 (28%), Gaps = 77/340 (22%)

Query: 42  PWV-EKYRPQSLADVAAHRDIVDTIDRLTSENRL-------------------------P 75
            ++    + +        R  ++  DRL ++N++                          
Sbjct: 92  KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK 151

Query: 76  HLLLYGPPGTGKTSTILAVARKLYGAQYH--NMILELNASDDRGIDVVRQQIQDFAS--T 131
           ++L+ G  G+GKT   L V    Y  Q      I  LN  +    + V + +Q       
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLS-YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210

Query: 132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN--KIIPALQ 189
            +++     S  + L           Q  LRR++ K        L+   V   K   A  
Sbjct: 211 PNWTSRSDHSSNIKLRIH------SIQAELRRLL-KSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 190 SRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNIL-QSTH 247
             C          + +T R K V +   L        +L          +  ++L +   
Sbjct: 264 LSCK---------ILLTTRFKQVTDF--LSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312

Query: 248 MASQQITEEAVYLCTGNPL---------PKDIEQISYWL------LNESFADSFKRISEM 292
              Q +  E     T NP             +     W       L      S   +   
Sbjct: 313 CRPQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369

Query: 293 KMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIE 332
           + RK          +++F     +P+ +   +  D+   +
Sbjct: 370 EYRKMF------DRLSVFPPSAHIPTILLSLIWFDVIKSD 403

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 6e-04
 Identities = 46/327 (14%), Positives = 95/327 (29%), Gaps = 97/327 (29%)

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG-VKASVKLVLLD-EADAM--TKDA 157
            +H+M  E      +  D++      F    +F    V+   K +L   E D +  +KDA
Sbjct: 3   HHHHMDFETGEHQYQYKDILSVFEDAF--VDNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60

Query: 158 QFALRRVI---EKYTKNT--RFALICNQVNK--IIPALQSRC------------TRFRF- 197
                R+        +    +F     ++N   ++  +++               R R  
Sbjct: 61  VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120

Query: 198 ---APLEPVHVTERLKHVIE----------AEGLDVTEG--G-----LAALV-------- 229
                    +V+ RL+  ++          A+ + + +G  G     +A  V        
Sbjct: 121 NDNQVFAKYNVS-RLQPYLKLRQALLELRPAKNV-LIDGVLGSGKTWVALDVCLSYKVQC 178

Query: 230 -----------RLCNGDMRKALNILQST-HMASQQITEEAVYLCTGNPLPKDIEQISYWL 277
                      + CN      L +LQ   +      T  + +      +   I  I   L
Sbjct: 179 KMDFKIFWLNLKNCNSP-ETVLEMLQKLLYQIDPNWTSRSDHSS---NIKLRIHSIQAEL 234

Query: 278 LNESFADSFKR-ISEMKMRKGLALVDIVREVTMF-VFKIKMPSDVRVRLM-----NDLAD 330
                    +R +        L ++  V+    +  F      ++  +++       + D
Sbjct: 235 ---------RRLLKSKPYENCLLVLLNVQNAKAWNAF------NLSCKILLTTRFKQVTD 279

Query: 331 IEYRLSFGCNDKLQLGSIISTFTQARS 357
               LS      + L     T T    
Sbjct: 280 F---LSAATTTHISLDHHSMTLTPDEV 303

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 72.2 bits (178), Expect = 3e-14
 Identities = 58/254 (22%), Positives = 98/254 (38%), Gaps = 48/254 (18%)

Query: 32  SGTPPDIKASPWVEKYRPQSLADVAAHRDIVD---TIDRLTSENRLPHLLLYGPPGTGKT 88
           S    D    P   + RP++LA     + ++     + R      L  ++L+GPPGTGKT
Sbjct: 5   SLDFSDNTFQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKT 64

Query: 89  STILA--VARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVL 146
           +  LA  +AR    A        ++A    G+  +R+ I+   + Q+ + G +    ++ 
Sbjct: 65  T--LAEVIARYA-NADV----ERISAVTS-GVKEIREAIE--RARQNRNAGRRT---ILF 111

Query: 147 LDEADAMTKDAQFALRRVIEK--------YTKNTRFALICNQVNKIIPALQSRCTRFRFA 198
           +DE     K  Q A    IE          T+N  F L          AL SR   +   
Sbjct: 112 VDEVHRFNKSQQDAFLPHIEDGTITFIGATTENPSFELN--------SALLSRARVYLLK 163

Query: 199 PLEPVHVTERLKHVIEAE-------GLDVTEGGLAALVRLCNGDMRKALNIL-------Q 244
            L    + + L   +E +        + + +    A+  L NGD R+ALN L       +
Sbjct: 164 SLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAE 223

Query: 245 STHMASQQITEEAV 258
                 + +  E +
Sbjct: 224 VDDSGKRVLKPELL 237

>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} Length = 384

 Score = 61.7 bits (149), Expect = 8e-11
 Identities = 49/305 (16%), Positives = 88/305 (28%), Gaps = 64/305 (20%)

Query: 47  YRPQSLADVAAHRD-----IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
              + +      R+         I            L  G  GTGKT     +  ++   
Sbjct: 17  SVFKEIP----FREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEV 72

Query: 102 Q------------YHNM---------ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA 140
           +            Y N          +L   A    G  V +  I           G + 
Sbjct: 73  KKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN 132

Query: 141 SVKLVLLDEADAMTKDAQ-----FALRRVIEKYTKNTRFALICNQVN---KIIPALQSRC 192
              ++ LDE D + K        + L R     +      +I N +N    + P + S  
Sbjct: 133 IRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANIS----VIMISNDINVRDYMEPRVLSSL 188

Query: 193 -TRFRFAPLEPVHVTERLKH-VIEAEGLDVTEGG----LAALVRLCNGDMRKALNILQST 246
                F P +   +   L             +      +AA+    +GD RKA+N+L   
Sbjct: 189 GPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLF-- 246

Query: 247 HMASQQITEEAVYLCTGNPL--PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIV 304
                     A  L +G  +   + +++       E   ++ K +        LAL  ++
Sbjct: 247 ---------RAAQLASGGGIIRKEHVDKAIVDYEQERLIEAVKALPFHYK---LALRSLI 294

Query: 305 REVTM 309
               +
Sbjct: 295 ESEDV 299

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Length = 368

 Score = 61.5 bits (149), Expect = 9e-11
 Identities = 41/273 (15%), Positives = 85/273 (31%), Gaps = 75/273 (27%)

Query: 59  RDIVDTIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKL------------------ 98
           R     +  +  E ++    +L+ G PGTGKT+  + +A+ L                  
Sbjct: 53  RRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLE 112

Query: 99  --------------------YGAQYHNMILELNASDDRGIDV--------------VRQQ 124
                                GA +   + E++  + R                  VR+Q
Sbjct: 113 MSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQ 172

Query: 125 IQDFASTQSFSFGVKASVKLVL-LDEADAMTKDAQFALRRVIE------------KYTKN 171
           I +    +    G    +  VL +DE   +  ++   L R +E            +    
Sbjct: 173 I-NAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPVLIMATNRGITR 231

Query: 172 TRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL 231
            R        + I   L  R       P       + L+   E E ++++E     L R+
Sbjct: 232 IRGTSY-QSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRI 290

Query: 232 -CNGDMRKALNIL-QSTHMA----SQQITEEAV 258
                +R A+ ++  ++ +       ++  + +
Sbjct: 291 GLETSLRYAIQLITAASLVCRKRKGTEVQVDDI 323

>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 Length = 389

 Score = 56.0 bits (134), Expect = 6e-09
 Identities = 42/242 (17%), Positives = 77/242 (31%), Gaps = 51/242 (21%)

Query: 47  YRPQSLADVAAHRDIVDTIDRLTS---------ENRLPHLLLYGPPGTGKTSTILAVARK 97
           Y P+ L     HR+    + +L            +  P   L G PGTGKT T+  +   
Sbjct: 14  YVPKRLP----HRE--QQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL 67

Query: 98  LYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV---------------KASV 142
               +     + +N    R    +  +I    +      G+               +   
Sbjct: 68  Y-KDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLY 126

Query: 143 KLVLLDEADAMTKDAQFALRRVIEKY--TKNTRFALIC-----NQVNKIIPALQSRC--T 193
             ++LD+A  +  D      R+ ++       R AL+        +N + P+ +      
Sbjct: 127 MFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKY 186

Query: 194 RFRFAPLEPVH----VTERLKHVIEAEGLDVTEGGLAA-------LVRLCNGDMRKALNI 242
             RF+P         + +R K  +           + A        +    GD R A++I
Sbjct: 187 VIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDI 246

Query: 243 LQ 244
           L 
Sbjct: 247 LY 248

>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} Length = 386

 Score = 54.3 bits (130), Expect = 2e-08
 Identities = 53/254 (20%), Positives = 91/254 (35%), Gaps = 47/254 (18%)

Query: 47  YRPQSLADVAAHRD-----IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           Y P  L     HR+     I   +  L  E +  ++ +YG  GTGKT+ +  V  KL+  
Sbjct: 17  YIPDELP----HREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKK 72

Query: 102 QYHNM-ILELNASDDRGIDVVRQQIQDFASTQSFSFGV---------------KASVKLV 145
                  + +N         V   + +    +    G+                 S  ++
Sbjct: 73  FLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVI 132

Query: 146 LLDEADAMTK----DAQFALRRVIEKYTKNTRFALIC-----NQVNKIIPALQSRC--TR 194
           +LDE DA  K    D  + L R+  +    ++ + I        V+ + P ++S      
Sbjct: 133 VLDEIDAFVKKYNDDILYKLSRINSEV-NKSKISFIGITNDVKFVDLLDPRVKSSLSEEE 191

Query: 195 FRFAPLEPVHVTERLKH-VIEAEGLDVTEGG----LAALVRLCNGDMRKALNILQST--- 246
             F P     + + L      A    V         AAL    +GD R+AL++L+ +   
Sbjct: 192 IIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEI 251

Query: 247 --HMASQQITEEAV 258
              M   ++ EE V
Sbjct: 252 AERMKDTKVKEEYV 265

>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 Length = 305

 Score = 47.4 bits (113), Expect = 3e-06
 Identities = 47/316 (14%), Positives = 121/316 (38%), Gaps = 28/316 (8%)

Query: 59  RDIVDTIDRLTSENRLPHLLLY-GPPGTGKTSTILAVARKLYGAQYHNM-ILELN-ASDD 115
           +D ++T+ R+  E      +L  G   +      L +   +         +LE++   ++
Sbjct: 3   KDQLETLKRII-EKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGEN 61

Query: 116 RGIDVVRQQIQDFASTQSFSFG-VKASVKLVLLDEADAMTKDAQF-ALRRVIEKYTKNTR 173
            GID +R  I+DF +     +     + K V++ + + MT+ A   A  + +E+  +   
Sbjct: 62  IGIDDIRT-IKDFLN-----YSPELYTRKYVIVHDCERMTQQA-ANAFLKALEEPPEYAV 114

Query: 174 FALICNQVNKIIPALQSRCTRFRFAP------LEPVHVTERLKHV-IEAEGLDVTEGGLA 226
             L   + + ++P ++SR  R           L    + +  + + +             
Sbjct: 115 IVLNTRRWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYK 174

Query: 227 ALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSF 286
                 +G M  +L +L++  +  + +++       G    +++ +    + ++ F   F
Sbjct: 175 LGAEKLSGLME-SLKVLETEKLLKKVLSKG----LEGYLACRELLERFSKVESKEFFALF 229

Query: 287 KRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVR-VRLMNDLADIEYRLSFGCNDKLQL 345
            +++      G     +++ +T  +        V   + ++ L  I        N+KL L
Sbjct: 230 DQVTNTI--TGKDAFLLIQRLTRIILHENTWESVEDQKSVSFLDSILRVKIANLNNKLTL 287

Query: 346 GSIISTFTQARSAIVA 361
            +I++   + +  + A
Sbjct: 288 MNILAIHRERKRGVNA 303

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 45.1 bits (106), Expect = 2e-05
 Identities = 32/181 (17%), Positives = 60/181 (33%), Gaps = 11/181 (6%)

Query: 68  LTSENRLPHLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASD--DRGIDVVRQ 123
           L  E    H+   G PGTGKT+  L +A  L+  G      ++ +   D   + I     
Sbjct: 61  LAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAP 120

Query: 124 QIQD-FASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQ 180
           + ++           +  +  L   D      ++A   L +V+E    +    L    ++
Sbjct: 121 KTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADR 180

Query: 181 VNKII---PALQSR-CTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM 236
           +       P  +SR      F       + E   H+++ +   +T     AL        
Sbjct: 181 MENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRR 240

Query: 237 R 237
            
Sbjct: 241 N 241

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Length = 387

 Score = 44.0 bits (103), Expect = 5e-05
 Identities = 46/238 (19%), Positives = 81/238 (34%), Gaps = 45/238 (18%)

Query: 47  YRPQSLADVAAHRD-----IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           Y P  L     HR+     + + +       +  + LLYG  GTGKT+    V R+L   
Sbjct: 16  YVPDVLP----HREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEAR 71

Query: 102 QYHNMI----LELNASDDRGIDVVRQQIQDFASTQSFSFGVKA---------------SV 142
                +    + +NA        V   I +    +    G+                  +
Sbjct: 72  ASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGI 131

Query: 143 KLVLLDEADAMTK-----DAQFALRRVIEKYTKNTRFALICNQ-----VNKIIPALQSRC 192
            +++LDE D + K     D  + + R+ ++       +L+        V  + P ++S  
Sbjct: 132 YIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSL 191

Query: 193 --TRFRFAPLEPVHV----TERLKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALNIL 243
                 F P     +      R +       L        AAL    +GD R+AL++L
Sbjct: 192 GEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLL 249

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae} Length = 318

 Score = 41.0 bits (95), Expect = 3e-04
 Identities = 27/242 (11%), Positives = 76/242 (31%), Gaps = 42/242 (17%)

Query: 58  HRD-----IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMI----- 107
            +      I   I      ++     +     + K   +  V  +L  +     +     
Sbjct: 24  SQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDY 83

Query: 108 LELNASDDRGIDVVRQQIQDFASTQSFSFGV---------------KASVKLVLLDEADA 152
           + ++A +  G+D + ++I    S ++    +               K    L+L+   + 
Sbjct: 84  IHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPEN 143

Query: 153 MTKDAQFALRRVIEKYT-KNTRFALIC--NQVNKIIPALQSR------CTRFRFAPLEPV 203
           +    +  L+   +  + KN++ ++IC       I   +          T  +   ++  
Sbjct: 144 LLS--EKILQYFEKWISSKNSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKN 201

Query: 204 ----HVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVY 259
                +  RLK +++   + V +     +         +   I  +  + + +I  +   
Sbjct: 202 ELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQ--KIPDNVIVINHKINNKITQ 259

Query: 260 LC 261
           L 
Sbjct: 260 LI 261

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	364
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	100.0
2chq_A	319	Replication factor C small subunit; DNA-binding pr	100.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	100.0
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	100.0
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	100.0
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	100.0
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	100.0
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	100.0
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	100.0
3pvs_A	447	Replication-associated recombination protein A; ma	100.0
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	100.0
2chg_A	226	Replication factor C small subunit; DNA-binding pr	100.0
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	99.98
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.96
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.96
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.93
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.92
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.91
3bos_A	242	Putative DNA replication factor; P-loop containing	99.9
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.9
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.89
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.88
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.88
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.87
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.86
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.85
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.85
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.84
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.84
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.84
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.83
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.83
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.82
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.82
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.82
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.82
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.82
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.82
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.81
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.81
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.81
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.8
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.8
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.79
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.79
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.78
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.78
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.78
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.76
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.76
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.75
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.75
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.75
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.74
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.73
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.72
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.71
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.71
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.71
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.7
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.7
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.7
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.7
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.68
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.67
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.65
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.65
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.65
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.64
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.63
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.61
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.6
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.58
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.58
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.58
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.52
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.5
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.49
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.48
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.47
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.43
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.43
3co5_A	143	Putative two-component system transcriptional RES	99.42
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.35
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.35
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.33
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.32
2fna_A	357	Conserved hypothetical protein; structural genomic	99.3
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.28
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	99.18
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	99.12
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.07
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.07
1tue_A	212	Replication protein E1; helicase, replication, E1E	99.0
3f8t_A	506	Predicted ATPase involved in replication control,	98.99
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.98
2qgz_A	308	Helicase loader, putative primosome component; str	98.95
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	98.71
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.56
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.53
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.5
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.5
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.35
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.34
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.28
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.26
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.11
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.05
1jql_B	140	DNA polymerase III, delta subunit; processivity cl	98.0
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.89
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.78
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.75
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.64
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	97.63
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.6
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.6
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.52
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.51
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.48
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.42
3io5_A	333	Recombination and repair protein; storage dimer, i	97.42
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.42
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.37
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.37
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.33
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.32
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.29
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.28
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.27
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.27
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.27
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.26
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.26
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.26
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.25
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.25
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.2
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.16
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.07
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.07
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.06
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.04
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.03
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.0
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.99
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.96
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.94
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.92
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.92
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	96.92
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.91
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.89
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.86
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.85
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.84
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.82
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	96.82
3h1t_A	590	Type I site-specific restriction-modification syst	96.82
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.81
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.81
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.8
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.77
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.76
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.75
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.73
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.72
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.68
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.66
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.66
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	96.65
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	96.64
1via_A	175	Shikimate kinase; structural genomics, transferase	96.61
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	96.61
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.59
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.58
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	96.56
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.54
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.54
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.54
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.52
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.52
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.52
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	96.51
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.5
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.5
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.48
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.44
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.43
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.42
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.4
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.4
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	96.38
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.38
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.38
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.37
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.36
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.35
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.35
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.34
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.33
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.32
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.32
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.32
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.26
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.25
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.25
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.24
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.23
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.23
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.23
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.22
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.22
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.22
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	96.21
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	96.21
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.19
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.18
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.18
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.18
3bor_A	237	Human initiation factor 4A-II; translation initiat	96.18
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.17
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.15
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.15
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.15
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.14
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.13
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.11
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.11
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.11
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.1
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.09
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.08
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	96.08
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.07
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.07
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.05
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.05
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.03
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.03
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.03
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.02
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.02
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	96.01
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.01
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.0
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.0
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.99
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.96
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.95
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.95
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.94
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	95.93
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.9
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.9
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.9
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.9
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.89
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	95.87
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.86
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.86
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.85
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.83
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	95.83
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.83
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.83
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.82
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.82
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.81
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	95.78
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.78
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.77
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.77
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.77
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.77
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.76
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.75
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.75
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.74
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.73
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.73
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.73
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.71
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.7
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.69
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.68
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	95.67
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	95.65
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.65
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.65
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.64
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.64
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	95.63
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.61
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.6
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.6
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	95.56
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	95.55
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.52
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.52
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.52
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.51
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	95.51
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.51
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	95.5
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.49
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	95.48
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.47
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.45
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.45
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	95.4
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	95.4
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.39
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.38
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.37
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.37
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.36
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.34
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.33
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	95.32
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	95.31
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.31
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.31
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.3
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	95.28
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	95.27
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	95.27
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.26
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.26
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.25
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.24
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	95.24
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.22
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.22
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.22
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.22
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.21
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.21
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.21
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	95.21
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.21
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.21
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.2
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.19
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.18
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	95.17
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.17
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.17
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.13
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.12
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	95.12
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.11
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	95.1
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.1
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	95.1
2xxa_A	433	Signal recognition particle protein; protein trans	95.09
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.09
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.08
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.08
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.08
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.07
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.07
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.07
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.06
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.06
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	95.04
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.04
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.03
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.01
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.99
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.99
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.96
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.96
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.95
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.95
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.92
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.91
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.91
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.88
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.88
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.85
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.83
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.83
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.83
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.82
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.81
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.8
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	94.79
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.79
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.78
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.75
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	94.75
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.73
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.72
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.72
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	94.7
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.7
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.69
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.67
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.62
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	94.61
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.58
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.57
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.56
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.56
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.48
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.47
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.45
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	94.43
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.42
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.4
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	94.37
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.31
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.3
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.22
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.2
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.19
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.17
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.17
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	94.15
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.15
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.13
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	94.13
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.12
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.11
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.09
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.08
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.07
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.07
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.06
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.0
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	93.99
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	93.96
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.96
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.95
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.94
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	93.92
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.91
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.9
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.88
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.87
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.85
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.85
3ice_A	422	Transcription termination factor RHO; transcriptio	93.84
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.79
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.74
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.74
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.73
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.68
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.66
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	93.66
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	93.6
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	93.59
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	93.59
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	93.57
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	93.56
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	93.53
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.53
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.47
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.47
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.45
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.44
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	93.43
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	93.43
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	93.43
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.36
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	93.35
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.34
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.34
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.31
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.31
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	93.3
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.3
1g6h_A	257	High-affinity branched-chain amino acid transport	93.27
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	93.26
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.26
2og2_A	359	Putative signal recognition particle receptor; nuc	93.25
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.25
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	93.24
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.23
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.2
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.2
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	93.2
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.18
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.17
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.17
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.17
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.14
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.12
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.1
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.07
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.07
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	93.06
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.05
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.04
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	93.02
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.02
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.02
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.02
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.01
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.01

>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=100.00  E-value=4e-46  Score=342.62  Aligned_cols=321  Identities=45%  Similarity=0.798  Sum_probs=290.9

Q ss_pred             CCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ....+.||+++|||.+|++++|++.+++.|..++..+..+|++|+||+|+|||++++++++.+.+......+.++++++.
T Consensus         8 ~~~~~~~~~~k~rp~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~   87 (340)
T 1sxj_C            8 RSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDD   87 (340)
T ss_dssp             ----CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSC
T ss_pred             ccccCCchHHHhCCCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCccc
Confidence            33446899999999999999999999999999999999999999999999999999999999988776677889998877


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEE
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRF  195 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i  195 (364)
                      .+.+.+++.+..+...... +..  ++++++|||+|.++...++.|++++++++.++.+|+++|.+.++.+++++||..+
T Consensus        88 ~~~~~ir~~i~~~~~~~~~-~~~--~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~  164 (340)
T 1sxj_C           88 RGIDVVRNQIKDFASTRQI-FSK--GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  164 (340)
T ss_dssp             CSHHHHHTHHHHHHHBCCS-SSC--SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             ccHHHHHHHHHHHHhhccc-CCC--CceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeE
Confidence            7788888877777654332 222  4899999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-----cCchHHHHHhcCCCChHHH
Q 017884          196 RFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-----QITEEAVYLCTGNPLPKDI  270 (364)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~-----~i~~~~v~~~~~~~~~~~~  270 (364)
                      .|.+++.+++.+++..+++++++.+++++++.+++.++|++|.+++.++.+.....     .|+.++|..+++...+..+
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G~~r~~~~~l~~~~~~~~~~~~~~it~~~v~~~~~~~~~~~i  244 (340)
T 1sxj_C          165 RFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDL  244 (340)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTTCCCHHHH
T ss_pred             eccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCcccccccHHHHHHHhCCCCHHHH
Confidence            99999999999999999999999999999999999999999999999988876554     6999999999999999999


Q ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHHHHHhcCCChHHHHHHHH
Q 017884          271 EQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMP-SDVRVRLMNDLADIEYRLSFGCNDKLQLGSII  349 (364)
Q Consensus       271 ~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~-~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~  349 (364)
                      +++++++..+++.+++.++.+++.+.|+++.+++..+.++++.+.++ ...+..+++.+.+++++++.|.++.++|+.++
T Consensus       245 ~~l~~~i~~~~~~~al~~l~~l~~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~l~le~l~  324 (340)
T 1sxj_C          245 KAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQIQGSAVI  324 (340)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            99999999999999999999999338999999999999999988888 89999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 017884          350 STFTQARSAI  359 (364)
Q Consensus       350 ~~l~~~~~~~  359 (364)
                      .+++.+.+..
T Consensus       325 ~~l~~~~~~~  334 (340)
T 1sxj_C          325 GAIKASFENE  334 (340)
T ss_dssp             HHHHHHCCC-
T ss_pred             HHHHHHhhhc
Confidence            9999876543

>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=100.00  E-value=2.5e-44  Score=327.83  Aligned_cols=315  Identities=37%  Similarity=0.692  Sum_probs=285.5

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      +..||+++|+|.+|++++|++..+..+..++..+..+|++|+||+|+|||++++++++.+.+..+...+++++++...+.
T Consensus         3 ~~~~~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   82 (319)
T 2chq_A            3 NFEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI   82 (319)
T ss_dssp             ---CTTTTTSCSSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCT
T ss_pred             ccccHHHhcCCCCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccCh
Confidence            45799999999999999999999999999999998889999999999999999999999987766667888888876666


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEec
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  198 (364)
                      +.+++.+..+....++ ...  ++++++|||+|.++...++.|++++++++.++++|++++...++.+++.+||..+.|+
T Consensus        83 ~~~~~~~~~~~~~~~~-~~~--~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~  159 (319)
T 2chq_A           83 DVVRHKIKEFARTAPI-GGA--PFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFK  159 (319)
T ss_dssp             TTSSHHHHHHHHSCCS-SSC--CCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECC
T ss_pred             HHHHHHHHHHHhcCCC-CCC--CceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEec
Confidence            6666666666544443 112  5899999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHH
Q 017884          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (364)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~  278 (364)
                      +++.+++..++..++.++++.+++++++.|++.++||+|.+++.++.+....+.|+.++|.++++...+..++++++++.
T Consensus       160 ~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~  239 (319)
T 2chq_A          160 PVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTAL  239 (319)
T ss_dssp             CCCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTTCHHHHHHHHHHHHHSSSCBCHHHHHHHTTCCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999887777899999999999999999999999999


Q ss_pred             hccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          279 NESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       279 ~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                      .++...++..+.+++...|.++..++..+.++++.+.++...+..+++.+.+++.+++.|.++.++++.++.+++.++
T Consensus       240 ~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~~~~~~l~~~~~~l~~~~~~l~~~~~~lk~~~~~~~~le~l~~~l~~~~  317 (319)
T 2chq_A          240 KGNFMEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANERIQLDAYLAYLSTLA  317 (319)
T ss_dssp             HTCHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTSCSCTTHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTT
T ss_pred             hCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhh
Confidence            999999999999998438999999999999999987889999999999999999999999999999999999998764

>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=100.00  E-value=1.8e-43  Score=323.20  Aligned_cols=315  Identities=40%  Similarity=0.733  Sum_probs=285.7

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      .+.||+++|+|.+|++++|+++++..+..++..+..+|++|+||+|+|||++++++++.+.+..+...++++++++..+.
T Consensus        11 ~~~~~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   90 (327)
T 1iqp_A           11 LEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGI   90 (327)
T ss_dssp             TTSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHH
T ss_pred             cCCchhhccCCCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCch
Confidence            46799999999999999999999999999999998889999999999999999999999876655566788887765455


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEec
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  198 (364)
                      +.+++.+..+....++ +..  ++++++|||+|.++...++.|++++++++.++++|++++.+.++.+++.+||..+.|+
T Consensus        91 ~~~~~~~~~~~~~~~~-~~~--~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~  167 (327)
T 1iqp_A           91 NVIREKVKEFARTKPI-GGA--SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFR  167 (327)
T ss_dssp             HTTHHHHHHHHHSCCG-GGC--SCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECC
T ss_pred             HHHHHHHHHHHhhCCc-CCC--CCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEec
Confidence            5566666666654443 212  5889999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHH
Q 017884          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (364)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~  278 (364)
                      |++.+++..++..++.++++.+++++++.+++.++||+|.+++.++.+......||.++|...++...+.+++++++++.
T Consensus       168 ~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~  247 (327)
T 1iqp_A          168 PLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLAL  247 (327)
T ss_dssp             CCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSEECHHHHHHHTTCCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999887777899999999999999999999999999


Q ss_pred             hccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          279 NESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       279 ~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                      .++...++..+.+++...|.++.+++..+.++++...++...+..+++.+.+++++++.|.++.++++.++.+++.+.
T Consensus       248 ~~~~~~~~~~~~~ll~~~g~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~lk~~~~~~~~le~l~~~l~~~~  325 (327)
T 1iqp_A          248 KGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEIIQLEALLAQFTLIG  325 (327)
T ss_dssp             HTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhh
Confidence            999999999998887567999999999999999887899999999999999999999999999999999999998765

>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=100.00  E-value=1.5e-41  Score=310.38  Aligned_cols=301  Identities=24%  Similarity=0.361  Sum_probs=259.7

Q ss_pred             CCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           37 DIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        37 ~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ..++.||+++|||.+|++++|+++++..+..++..+..++ ++++||||+|||++++++++.+     ...+++++++..
T Consensus        10 ~~~~~~~~~k~rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l-----~~~~~~i~~~~~   84 (324)
T 3u61_B           10 NEKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV-----NADMMFVNGSDC   84 (324)
T ss_dssp             CTTCSSHHHHSCCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT-----TEEEEEEETTTC
T ss_pred             CcccchHHHhhCCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CCCEEEEccccc
Confidence            3567899999999999999999999999999999998888 5888889999999999999997     567888988764


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-HHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceE
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR  194 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~  194 (364)
                       +.+.+++.+..+....++ ++   .+++++|||+|.++ .+.++.|++++++++.++++|+++|.+.++.+++++||.+
T Consensus        85 -~~~~i~~~~~~~~~~~~~-~~---~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~  159 (324)
T 3u61_B           85 -KIDFVRGPLTNFASAASF-DG---RQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRV  159 (324)
T ss_dssp             -CHHHHHTHHHHHHHBCCC-SS---CEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEE
T ss_pred             -CHHHHHHHHHHHHhhccc-CC---CCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcE
Confidence             477778778777776554 33   58999999999999 9999999999999999999999999999999999999999


Q ss_pred             EEecCCChHH-------HHHHHHHHHHHcCCCCCH-HHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCC
Q 017884          195 FRFAPLEPVH-------VTERLKHVIEAEGLDVTE-GGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPL  266 (364)
Q Consensus       195 i~~~~~~~~~-------~~~~l~~~~~~~~~~i~~-~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~  266 (364)
                      +.|++|+.++       +..++...+..+++.+++ ++++.+++.++||+|.+++.++.++ ..+.||.+++..++..  
T Consensus       160 i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~~-~~~~i~~~~v~~~~~~--  236 (324)
T 3u61_B          160 ITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS-SKGVLDAGILSLVTND--  236 (324)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHHG-GGTCBCC-----------
T ss_pred             EEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHHh-ccCCCCHHHHHHHhCC--
Confidence            9999999876       456677777888999988 9999999999999999999999987 5668999999888765  


Q ss_pred             hHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHH
Q 017884          267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLG  346 (364)
Q Consensus       267 ~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~  346 (364)
                      ...++.+++++..++..+++.++.+++ .   ++..++..++.++.. .++...+.++++.++++|++++.|.++.++|+
T Consensus       237 ~~~i~~~~~~~~~~~~~~a~~~~~~l~-~---~~~~i~~~l~~~~~~-~~~~~~l~~i~~~l~~~d~~l~~g~~~~~~le  311 (324)
T 3u61_B          237 RGAIDDVLESLKNKDVKQLRALAPKYA-A---DYSWFVGKLAEEIYS-RVTPQSIIRMYEIVGENNQYHGIAANTELHLA  311 (324)
T ss_dssp             ---CHHHHHHHHTTCHHHHHHHHHHHS-S---CHHHHHHHHHHHHHH-HSCHHHHHHHHHHHHHHHHHTTTCSCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhc-c---CHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            567889999999999999999999887 4   799999999999877 67899999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 017884          347 SIISTFTQA  355 (364)
Q Consensus       347 ~l~~~l~~~  355 (364)
                      .+++++|..
T Consensus       312 ~~~~~~~~~  320 (324)
T 3u61_B          312 YLFIQLACE  320 (324)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999863

>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=100.00  E-value=1.1e-41  Score=314.71  Aligned_cols=322  Identities=35%  Similarity=0.594  Sum_probs=276.9

Q ss_pred             CCCCCCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC-CCCCcEEEE
Q 017884           32 SGTPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILEL  110 (364)
Q Consensus        32 ~~~~~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~  110 (364)
                      +....+..+.||+++|+|.+|++++|++++++.+..++..+..+|++|+||||+|||++++++++.+.+. .....+..+
T Consensus        16 ~~~~~~~~~~~~~~k~~p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~   95 (353)
T 1sxj_D           16 LAAEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILEL   95 (353)
T ss_dssp             ----------CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEE
T ss_pred             cchhhcccCccHHHhcCCCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEE
Confidence            3344456678999999999999999999999999999999988889999999999999999999998643 234567788


Q ss_pred             eCCCCCChHHHHHHHHHHHhcCccc-------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          111 NASDDRGIDVVRQQIQDFASTQSFS-------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       111 ~~~~~~~~~~~~~~i~~~~~~~~~~-------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      ++++..+...+++.+..+.......       .....++++|+|||++.++...++.|++++++++.++++|++++.+..
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~  175 (353)
T 1sxj_D           96 NASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTR  175 (353)
T ss_dssp             CSSSCCCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGG
T ss_pred             ccccccchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhh
Confidence            8877667777766666554431100       011125789999999999999999999999999989999999999999


Q ss_pred             CchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc------cCchHH
Q 017884          184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ------QITEEA  257 (364)
Q Consensus       184 l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~------~i~~~~  257 (364)
                      +.+++++||..+.|++++.+++..++..++.++++.+++++++.|++.++||+|.+++.++.+....+      .||.++
T Consensus       176 l~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~~~~~~~It~~~  255 (353)
T 1sxj_D          176 IIDPLASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQ  255 (353)
T ss_dssp             SCHHHHHHSEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHH
T ss_pred             CcchhhccCceEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCccCccccHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998776542      699999


Q ss_pred             HHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-CCChHHHHHHHHHHHHHHHHHh
Q 017884          258 VYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-KMPSDVRVRLMNDLADIEYRLS  336 (364)
Q Consensus       258 v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~i~~~l~~~~~~l~  336 (364)
                      |..+++......++.+++++..++...++.++.++. ..|+++..++..+.++++.. .++...+..++..+.+++++++
T Consensus       256 v~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~  334 (353)
T 1sxj_D          256 VEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFM-KSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLN  334 (353)
T ss_dssp             HHHHHTCCCSHHHHHHHHHHHSCCHHHHHHHHHHHH-HTSCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHH
Confidence            999999888889999999999999999999999998 88999999999999998764 6889999999999999999999


Q ss_pred             cCCChHHHHHHHHHHHHH
Q 017884          337 FGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       337 ~~~~~~~~l~~l~~~l~~  354 (364)
                      .|.|+.++++.++.+++.
T Consensus       335 ~g~~~~l~l~~~~~~~~~  352 (353)
T 1sxj_D          335 NGTNEHIQLLNLLVKISQ  352 (353)
T ss_dssp             TCCCHHHHHHHHHHHHHH
T ss_pred             hCCChHHHHHHHHHHHHh
Confidence            999999999999999975

>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=100.00  E-value=2.6e-41  Score=308.41  Aligned_cols=313  Identities=36%  Similarity=0.623  Sum_probs=280.7

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      ...||.++|+|.+|++++|++..+..+..++..+..+|++|+||+|+|||++++.+++.+.+..+...++++++.+..+.
T Consensus         7 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   86 (323)
T 1sxj_B            7 LQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGI   86 (323)
T ss_dssp             CCCCHHHHTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSH
T ss_pred             ccCcHHHhcCCCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccCh
Confidence            46799999999999999999999999999999998889999999999999999999999877666667888888876677


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEec
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  198 (364)
                      +.+++.+..+...... +.. +++++|+|||+|.++...++.|++++++++.++++|++++...++.+++.+||..+.|+
T Consensus        87 ~~i~~~~~~~~~~~~~-~~~-~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~  164 (323)
T 1sxj_B           87 DVVRNQIKHFAQKKLH-LPP-GKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYS  164 (323)
T ss_dssp             HHHHTHHHHHHHBCCC-CCT-TCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HHHHHHHHHHHhcccc-CCC-CCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeec
Confidence            7777777766532221 211 14899999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHHHHHHHH
Q 017884          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWLL  278 (364)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~l~  278 (364)
                      +++.+++.+++..++.++++.+++++++.+++.++||+|.+++.++......+.|+.++|.++++......+++++++  
T Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~~~~~--  242 (323)
T 1sxj_B          165 KLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKMLLA--  242 (323)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSBCHHHHHHHHTSCCHHHHHHHHSC--
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCcCHHHHHHHHCCCCHHHHHHHHhc--
Confidence            999999999999999999999999999999999999999999999988766678999999999999888889998887  


Q ss_pred             hccHHHHHHHHHH-HHHhcCCCHHHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          279 NESFADSFKRISE-MKMRKGLALVDIVREVTMFVFKIK-MPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       279 ~~~~~~~~~~l~~-l~~~~~~~~~~i~~~l~~~~~~~~-~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                       ++...++.++.. ++ ..|.++.+++..+.++++.+. ++...+..+++.+.+++++++.|.|+.++++.++.+++.+.
T Consensus       243 -~~~~~~l~~l~~dl~-~~g~~~~~i~~~l~~~~~~l~~~~~~~l~~~l~~l~~~~~~l~~~~~~~l~le~l~~~~~~~~  320 (323)
T 1sxj_B          243 -SNLEDSIQILRTDLW-KKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQLASMLAKIHKLN  320 (323)
T ss_dssp             -SSHHHHHHHHHHTTT-TTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHT
T ss_pred             -CCHHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHhhc
Confidence             788888888887 77 789999999999999998765 88999999999999999999999999999999999998765


Q ss_pred             H
Q 017884          357 S  357 (364)
Q Consensus       357 ~  357 (364)
                      +
T Consensus       321 ~  321 (323)
T 1sxj_B          321 N  321 (323)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=100.00  E-value=5e-41  Score=310.59  Aligned_cols=312  Identities=25%  Similarity=0.459  Sum_probs=254.9

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHH-hcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCC----------------
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLT-SENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYH----------------  104 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~-~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~----------------  104 (364)
                      ||++||||.+|++++|++.++..+..++ ..+..+|++|+||+|+|||++++++++.+.+...+                
T Consensus         3 ~w~~kyrP~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~   82 (354)
T 1sxj_E            3 LWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRK   82 (354)
T ss_dssp             -CTTTTCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC---------------
T ss_pred             cchhccCCCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeeccccccc
Confidence            8999999999999999999999999999 88888889999999999999999999987664421                


Q ss_pred             --------CcEEEEeCCCCCChH--HHHHHHHHHHhcCcccc----CC-ccceEEEEEeCCCCCCHHHHHHHHHHHHHhc
Q 017884          105 --------NMILELNASDDRGID--VVRQQIQDFASTQSFSF----GV-KASVKLVLLDEADAMTKDAQFALRRVIEKYT  169 (364)
Q Consensus       105 --------~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~~~~----~~-~~~~~viiiDe~~~l~~~~~~~L~~~le~~~  169 (364)
                              ..+++++........  .+++.+..+....+...    +. ..++++++|||++.+....++.|++++++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~  162 (354)
T 1sxj_E           83 LELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  162 (354)
T ss_dssp             ---CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             ceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhhc
Confidence                    124455543321111  35566666554433210    01 2258899999999999999999999999998


Q ss_pred             cCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHHH
Q 017884          170 KNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKALNILQSTHM  248 (364)
Q Consensus       170 ~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~~~~l~~~~~g~~r~a~~~l~~~~~  248 (364)
                      .++.+|++|+.+.++.+++++||..++|++++.+++.+++..++.++|+.++ +++++.+++.++||+|.+++.++.+..
T Consensus       163 ~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~i~~~~~G~~r~a~~~l~~~~~  242 (354)
T 1sxj_E          163 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMAL  242 (354)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999999999999 999999999999999999999999887


Q ss_pred             hcc-cCchHHHHHhcCCCChHHHHHHHHHHHhcc----HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-CCChHHHH
Q 017884          249 ASQ-QITEEAVYLCTGNPLPKDIEQISYWLLNES----FADSFKRISEMKMRKGLALVDIVREVTMFVFKI-KMPSDVRV  322 (364)
Q Consensus       249 ~~~-~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~----~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~  322 (364)
                      +.. .||.+.+  +........++++++++..++    +..+...+.+++ ..|+++.+++..+++++... .++...+.
T Consensus       243 ~~~~~i~~~~~--~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~l~  319 (354)
T 1sxj_E          243 NNELALKSSSP--IIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLL-AHCIPANIILKELTFSLLDVETLNTTNKS  319 (354)
T ss_dssp             TTTTEECSSCC--CCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHH-TTTCCHHHHHHHHHHTTTTCTTSCHHHHH
T ss_pred             hCCCCcCcCcC--CCCccHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhccCCCHHHHH
Confidence            665 5776553  222222357899999998754    444555666666 78999999999998888754 38899999


Q ss_pred             HHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          323 RLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       323 ~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                      ++++.++++|++++.|.++.++|+.+++++|.++
T Consensus       320 ~~~~~l~~~d~~l~~g~~~~~~le~~~~~~~~~~  353 (354)
T 1sxj_E          320 SIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL  353 (354)
T ss_dssp             HHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999998764

>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=100.00  E-value=2.4e-37  Score=287.88  Aligned_cols=310  Identities=19%  Similarity=0.299  Sum_probs=270.0

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC---------------
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY---------------  103 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~---------------  103 (364)
                      ..||.++|+|.+|++++|++.+++.|..++..+..+| ++|+||+|+|||++++++++.+.|...               
T Consensus         3 ~~~l~~k~rp~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~   82 (373)
T 1jr3_A            3 YQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREI   82 (373)
T ss_dssp             CCCHHHHTCCCSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHH
T ss_pred             cHHHHHhhCCCchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHH
Confidence            4689999999999999999999999999999998888 799999999999999999999976432               


Q ss_pred             ----CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          104 ----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       104 ----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                          ...++.++.....+.+.+++.+.... ..+. .+   ++++|+|||+|.++...++.|++++++++.++.+|++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~-~~---~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~  157 (373)
T 1jr3_A           83 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQ-YAPA-RG---RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  157 (373)
T ss_dssp             HTSCCSSCEEEETTCSCCSSCHHHHHHHTT-SCCS-SS---SSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEES
T ss_pred             hccCCCceEEecccccCCHHHHHHHHHHHh-hccc-cC---CeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeC
Confidence                12456666654445556666555433 2222 22   588999999999999999999999999999999999999


Q ss_pred             ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHHH
Q 017884          180 QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEAV  258 (364)
Q Consensus       180 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~v  258 (364)
                      ...++.+++.+||..+.|++++.+++..++..++.+.|+.+++++++.+++.++||+|.+.++++++..+. +.|+.++|
T Consensus       158 ~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G~~r~~~~~l~~~~~~~~~~i~~~~v  237 (373)
T 1jr3_A          158 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAV  237 (373)
T ss_dssp             CGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSSCHHHHHHHHHHHHHHTTTCBCHHHH
T ss_pred             ChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcCCcccHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998876544 58999999


Q ss_pred             HHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc------------------------
Q 017884          259 YLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI------------------------  314 (364)
Q Consensus       259 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~------------------------  314 (364)
                      .++++......++++++++..++...++..+..+. ..|.++..++..+.++++.+                        
T Consensus       238 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~-~~g~~~~~~l~~l~~~~r~l~~~~~~~~~~~~~~~~~~~~~~~~  316 (373)
T 1jr3_A          238 SAMLGTLDDDQALSLVEAMVEANGERVMALINEAA-ARGIEWEALLVEMLGLLHRIAMVQLSPAALGNDMAAIELRMREL  316 (373)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHTCHHHHHHHHHHHH-HTTCCHHHHHHHHHHHHHHHHHHTTCTTCCCSGGGGTHHHHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCcCHHHHHHHHHHHHHHHHHHhhcCccccccchhHHHHHHHH
Confidence            99999998899999999999999999999999988 88999999888888777654                        


Q ss_pred             --CCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Q 017884          315 --KMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQA  355 (364)
Q Consensus       315 --~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~  355 (364)
                        .++...+..+++.+.+++..++.+.++.+.++.++.+++..
T Consensus       317 a~~~~~~~l~~~~~~l~~~~~~lk~~~~~~l~le~~ll~~~~~  359 (373)
T 1jr3_A          317 ARTIPPTDIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALAF  359 (373)
T ss_dssp             HHHSCHHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhc
Confidence              34666778999999999999998889999999999999864

>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=100.00  E-value=7.3e-35  Score=261.64  Aligned_cols=282  Identities=16%  Similarity=0.188  Sum_probs=230.1

Q ss_pred             ccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc-CCCCCCcEEEEeCCC-CCChHHHHHHHHHHHhcCcc
Q 017884           57 AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASD-DRGIDVVRQQIQDFASTQSF  134 (364)
Q Consensus        57 g~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~~  134 (364)
                      ||+++++.|.+.++.++.|+++||||||+|||++++++++... |...+.++.++++.. ..+++.+++.+..+ ...|+
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~-~~~p~   79 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFL-NYSPE   79 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHH-TSCCS
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHH-hhccc
Confidence            6889999999999999866699999999999999999998642 333456788888764 57888888866554 44443


Q ss_pred             ccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHH
Q 017884          135 SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE  214 (364)
Q Consensus       135 ~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~  214 (364)
                       ++   +++|+||||+|.|+..++++|+++||+||++++||++|+++.++.++++||  +++|++++.+++.+|+...+ 
T Consensus        80 -~~---~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR--~~~f~~l~~~~i~~~L~~~~-  152 (305)
T 2gno_A           80 -LY---TRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR--VFRVVVNVPKEFRDLVKEKI-  152 (305)
T ss_dssp             -SS---SSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCHHHHHHHHHHH-
T ss_pred             -cC---CceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce--eEeCCCCCHHHHHHHHHHHh-
Confidence             33   489999999999999999999999999999999999999999999999999  99999999999999999887 


Q ss_pred             HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-------cc-cCchHHHHHhcCCCChH--HHHHHHHHHHhccHHH
Q 017884          215 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-------SQ-QITEEAVYLCTGNPLPK--DIEQISYWLLNESFAD  284 (364)
Q Consensus       215 ~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-------~~-~i~~~~v~~~~~~~~~~--~~~~l~~~l~~~~~~~  284 (364)
                          .++++++    ..++||+|.+++.++.....       .. .-+.++|..+++.+...  +++++++++.+++...
T Consensus       153 ----~i~~~~~----~~~~g~~~~al~~l~~~~~~~~~l~~~~~~~~~~~~v~~~~~~~~~~~~~v~~l~~ai~~~~~~~  224 (305)
T 2gno_A          153 ----GDLWEEL----PLLERDFKTALEAYKLGAEKLSGLMESLKVLETEKLLKKVLSKGLEGYLACRELLERFSKVESKE  224 (305)
T ss_dssp             ----TTHHHHC----GGGGTCHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHTTTTTCSHHHHHHHHHHHHHHHHHSCGGG
T ss_pred             ----CCCHHHH----HHHCCCHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHccCCcchHHHHHHHHHHHCCCHHH
Confidence                3666665    45789999999888632211       01 12467888888877744  8999999999999999


Q ss_pred             HHHHHHHHHHh-cCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhc---CCChHHHHHHHHHHHHHHH
Q 017884          285 SFKRISEMKMR-KGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSF---GCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       285 ~~~~l~~l~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~---~~~~~~~l~~l~~~l~~~~  356 (364)
                      ++..+++++.. .|+++.+++..+++.+...+  .....+.++.++.+++++..   |.++.++|+.+++.+|+..
T Consensus       225 a~~~~~~l~~~~~g~~~~~~i~~~~r~l~~~~--~~~~~~~l~~~~~~~~~~~~k~~g~~~~lql~~l~~~~~~~~  298 (305)
T 2gno_A          225 FFALFDQVTNTITGKDAFLLIQRLTRIILHEN--TWESVEDQKSVSFLDSILRVKIANLNNKLTLMNILAIHRERK  298 (305)
T ss_dssp             HHHHHHHHHHHSCTHHHHHHHHHHHHHHHHTS--CCCSHHHHHHHHHHHHHHTCCGGGCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCCHHHHHHHHHHHHHhhc--hhhhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhc
Confidence            99999999943 89999999999999887543  22235566688999999988   8899999999999999544

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=100.00  E-value=9e-32  Score=253.80  Aligned_cols=298  Identities=19%  Similarity=0.276  Sum_probs=233.2

Q ss_pred             CCChhhccCCCCCcchhccHHHH---HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIV---DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~---~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      ..||.++|||.+|++++|+++++   ..|...+..+..++++|+||||+|||++|+.+++.+     ...+..+++.. .
T Consensus        13 ~~pla~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~-----~~~f~~l~a~~-~   86 (447)
T 3pvs_A           13 FQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA-----NADVERISAVT-S   86 (447)
T ss_dssp             -CCHHHHTCCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEEETTT-C
T ss_pred             cCChHHHhCCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEEecc-C
Confidence            37999999999999999999999   799999999998889999999999999999999997     45677777655 4


Q ss_pred             ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe--eccccCchhhhccceE
Q 017884          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC--NQVNKIIPALQSRCTR  194 (364)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~--~~~~~l~~~l~sr~~~  194 (364)
                      +...++..+........  .+   .+++|+|||+|.++...++.|++++++  ..+.+|+++  +....+.+++.+||.+
T Consensus        87 ~~~~ir~~~~~a~~~~~--~~---~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~sR~~v  159 (447)
T 3pvs_A           87 GVKEIREAIERARQNRN--AG---RRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALLSRARV  159 (447)
T ss_dssp             CHHHHHHHHHHHHHHHH--TT---CCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHHTTEEE
T ss_pred             CHHHHHHHHHHHHHhhh--cC---CCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHhCceeE
Confidence            56666666655433211  12   478999999999999999999999997  356677776  4445789999999999


Q ss_pred             EEecCCChHHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-------cCchHHHHH
Q 017884          195 FRFAPLEPVHVTERLKHVIEA-------EGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ-------QITEEAVYL  260 (364)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~-------~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~-------~i~~~~v~~  260 (364)
                      +.|++++.+++..++...+..       .++.+++++++.|+++++||+|.+++.++.+...+.       .||.++|.+
T Consensus       160 ~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~a~~~a~~~~~~~~~It~e~v~~  239 (447)
T 3pvs_A          160 YLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEVDDSGKRVLKPELLTE  239 (447)
T ss_dssp             EECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCBCTTSCEECCHHHHHH
T ss_pred             EeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccccCCCCccCHHHHHH
Confidence            999999999999999999987       567799999999999999999999999998887553       699999999


Q ss_pred             hcCCCC----------hHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHh-cCCChHHHHHHHHHHH
Q 017884          261 CTGNPL----------PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFK-IKMPSDVRVRLMNDLA  329 (364)
Q Consensus       261 ~~~~~~----------~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~i~~~l~  329 (364)
                      ++....          .+.+..+.+++.+.+...++.++.+++ ..|++|..|.+.+.+.... .++-+..-..+.....
T Consensus       240 ~l~~~~~~~dk~gd~~yd~isal~ksirgsd~daAl~~la~ml-~~Gedp~~i~rrl~~~a~edig~a~p~a~~~~~~~~  318 (447)
T 3pvs_A          240 IAGERSARFDNKGDRFYDLISALHKSVRGSAPDAALYWYARII-TAGGDPLYVARRCLAIASEDVGNADPRAMQVAIAAW  318 (447)
T ss_dssp             HHTCCCCC---CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTCCHHHHHHHHHHHHHHTTGGGCTHHHHHHHHHH
T ss_pred             HHhhhhhccCCccchHHHHHHHHHHHHhCCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccCCChhHHHHHHHHH
Confidence            987653          356777888889999999999999999 8999999999998887764 3333333333333333


Q ss_pred             HHHHHHhcCC-ChHHHHHHHHHHHH
Q 017884          330 DIEYRLSFGC-NDKLQLGSIISTFT  353 (364)
Q Consensus       330 ~~~~~l~~~~-~~~~~l~~l~~~l~  353 (364)
                      +.-.+  .|. .-++.|...+..+|
T Consensus       319 ~~~~~--~g~pe~~~~l~~~~~~la  341 (447)
T 3pvs_A          319 DCFTR--VGPAEGERAIAQAIVYLA  341 (447)
T ss_dssp             HHHHH--SCHHHHHHHHHHHHHHHH
T ss_pred             HHHHH--hCCcHHHHHHHHHHHHHH
Confidence            33322  343 33666776666665

>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=100.00  E-value=4.8e-31  Score=241.23  Aligned_cols=285  Identities=21%  Similarity=0.291  Sum_probs=218.6

Q ss_pred             hccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC-------------------CCcEEEEeCC--
Q 017884           56 AAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY-------------------HNMILELNAS--  113 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~--  113 (364)
                      ..+++..+.|...+.+++.+| ++|+||+|+|||++|+++++.+.|...                   +.++..+++.  
T Consensus         5 pw~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~   84 (334)
T 1a5t_A            5 PWLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG   84 (334)
T ss_dssp             GGGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT
T ss_pred             CchHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEecccc
Confidence            345678889999999999999 899999999999999999999988642                   2456777764  


Q ss_pred             -CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccc
Q 017884          114 -DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (364)
Q Consensus       114 -~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~  192 (364)
                       ...+.+.+++.+..+. ..++ .+   +++|+||||+|.|+...+++|++++|+|+.++.+|++|+.++++.++++|||
T Consensus        85 ~~~~~i~~ir~l~~~~~-~~~~-~~---~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc  159 (334)
T 1a5t_A           85 KNTLGVDAVREVTEKLN-EHAR-LG---GAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRC  159 (334)
T ss_dssp             CSSBCHHHHHHHHHHTT-SCCT-TS---SCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             CCCCCHHHHHHHHHHHh-hccc-cC---CcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcc
Confidence             4467778887655543 3332 22   5899999999999999999999999999999999999999999999999999


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcCCCChHHHHH
Q 017884          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQ  272 (364)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~  272 (364)
                      +.+.|++++.+++.+|+..++     .+++++++.+++.++|++|.+++.++........++.+.+..+...   .+++.
T Consensus       160 ~~~~~~~~~~~~~~~~L~~~~-----~~~~~~~~~l~~~s~G~~r~a~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~  231 (334)
T 1a5t_A          160 RLHYLAPPPEQYAVTWLSREV-----TMSQDALLAALRLSAGSPGAALALFQGDNWQARETLCQALAYSVPS---GDWYS  231 (334)
T ss_dssp             EEEECCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHHTTTCHHHHHHTTSSHHHHHHHHHHHHHHHHHHH---CCCGG
T ss_pred             eeeeCCCCCHHHHHHHHHHhc-----CCCHHHHHHHHHHcCCCHHHHHHHhccchHHHHHHHHHHHHHHHhC---hHHHH
Confidence            999999999999999998764     6799999999999999999999999765543344555555555431   22334


Q ss_pred             HHHHHHhccHHHHHHHHHHHHH---hc-----CCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHh--cCCChH
Q 017884          273 ISYWLLNESFADSFKRISEMKM---RK-----GLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLS--FGCNDK  342 (364)
Q Consensus       273 l~~~l~~~~~~~~~~~l~~l~~---~~-----~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~--~~~~~~  342 (364)
                      +.+.+.+.+....+.++..++.   ..     +....+....+.....  .++...+..+++.+.+++.+++  .+.|+.
T Consensus       232 ~~~~l~~~~~~~~l~~l~~~~rdll~~~~~~~~~~~~~~~~~~~~~a~--~~~~~~l~~~~~~l~~~~~~l~~~~~~n~~  309 (334)
T 1a5t_A          232 LLAALNHEQAPARLHWLATLLMDALKRHHGAAQVTNVDVPGLVAELAN--HLSPSRLQAILGDVCHIREQLMSVTGINRE  309 (334)
T ss_dssp             GHHHHCSTTHHHHHHHHHHHHHHHTCC------CCCTTCHHHHHHHHH--HSCHHHHHHHHHHHHHHHHHHHHHCCSSHH
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHHHhccCCccccCHHHHHHHHHHHH--hCCHHHHHHHHHHHHHHHHHHHhcCCCCHH
Confidence            5555655666665554443321   11     1111122333333333  3688899999999999999999  888999


Q ss_pred             HHHHHHHHHHHHH
Q 017884          343 LQLGSIISTFTQA  355 (364)
Q Consensus       343 ~~l~~l~~~l~~~  355 (364)
                      ++++.++.+++..
T Consensus       310 l~le~ll~~l~~~  322 (334)
T 1a5t_A          310 LLITDLLLRIEHY  322 (334)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999754

>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=100.00  E-value=9e-31  Score=225.46  Aligned_cols=222  Identities=45%  Similarity=0.804  Sum_probs=196.7

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      +-.||.++|+|.+|++++|++..+..+..++..+..++++|+||+|+|||++++.+++.+.+.+....++.+++....+.
T Consensus         3 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   82 (226)
T 2chg_A            3 NFEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI   82 (226)
T ss_dssp             -CCCHHHHTSCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCH
T ss_pred             chhhHHHhcCCCCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccCh
Confidence            45799999999999999999999999999999988778999999999999999999999876666677888888877777


Q ss_pred             HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEec
Q 017884          119 DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFA  198 (364)
Q Consensus       119 ~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~  198 (364)
                      +.+...+..+.......   ..++.+|+|||++.+....++.|+.+++.++.++.+|++++....+.+.+.+|+..+.|+
T Consensus        83 ~~~~~~~~~~~~~~~~~---~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~  159 (226)
T 2chg_A           83 DVVRHKIKEFARTAPIG---GAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFK  159 (226)
T ss_dssp             HHHHHHHHHHHTSCCST---TCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HHHHHHHHHHhcccCCC---ccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecC
Confidence            77777666665443221   125889999999999999999999999998888999999998889999999999999999


Q ss_pred             CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcC
Q 017884          199 PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (364)
Q Consensus       199 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~  263 (364)
                      +++.+++..++...+...+..+++++++.+++.++||+|.+++.++.++...+.|+.++|.++++
T Consensus       160 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~~~~I~~~~v~~~~~  224 (226)
T 2chg_A          160 PVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA  224 (226)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSCBCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCceecHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999988778899999988764

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=99.98  E-value=1.6e-31  Score=245.68  Aligned_cols=278  Identities=12%  Similarity=0.089  Sum_probs=232.8

Q ss_pred             HHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCC-cEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccce
Q 017884           65 IDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHN-MILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV  142 (364)
Q Consensus        65 l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~  142 (364)
                      +.+.++ ++.+| ++||||+|+||++.+..+++.+.+.+... .++.+++  .   ..+++.+. .+.+.|+ |+   ++
T Consensus         9 l~~~l~-~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~--~---~~~~~l~~-~~~~~pl-f~---~~   77 (343)
T 1jr3_D            9 LRAQLN-EGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP--N---TDWNAIFS-LCQAMSL-FA---SR   77 (343)
T ss_dssp             HHHHHH-HCCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT--T---CCHHHHHH-HHHHHHH-CC---SC
T ss_pred             HHHHHh-cCCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC--C---CCHHHHHH-HhcCcCC-cc---CC
Confidence            344455 34455 89999999999999999999987654322 3444442  1   23344333 3444454 55   48


Q ss_pred             EEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeecc------ccCchhhhccceEEEecCCChHHHHHHHHHHHHH
Q 017884          143 KLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQV------NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA  215 (364)
Q Consensus       143 ~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~------~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~  215 (364)
                      +||+|||++. ++.+.+++|++++++|++++++|++++..      .++.+++.+||.++.|.+++.+++..|+..++++
T Consensus        78 kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~  157 (343)
T 1jr3_D           78 QTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQ  157 (343)
T ss_dssp             EEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHH
Confidence            9999999999 99999999999999999999999998653      4688999999999999999999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--ccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHH
Q 017884          216 EGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS--QQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMK  293 (364)
Q Consensus       216 ~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~--~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~  293 (364)
                      +|+.+++++++.|++.++||++.+.++++++..+.  +.||.++|..+++.....+++++++++..++...++..+..+.
T Consensus       158 ~g~~i~~~a~~~l~~~~~gdl~~~~~elekl~l~~~~~~It~e~V~~~~~~~~~~~if~l~~ai~~~d~~~al~~l~~l~  237 (343)
T 1jr3_D          158 LNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLR  237 (343)
T ss_dssp             TTCEECHHHHHHHHHSSTTCHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHCCCCHHHHHHHHTTSCHHHHHHHHTSST
T ss_pred             cCCCCCHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999998863  5799999999988888889999999999999999999999987


Q ss_pred             HhcCCCHHHHHHHHHHHHHhc----------------------------------CCChHHHHHHHHHHHHHHHHHhcCC
Q 017884          294 MRKGLALVDIVREVTMFVFKI----------------------------------KMPSDVRVRLMNDLADIEYRLSFGC  339 (364)
Q Consensus       294 ~~~~~~~~~i~~~l~~~~~~~----------------------------------~~~~~~~~~i~~~l~~~~~~l~~~~  339 (364)
                       ..|.++..++..+.++++.+                                  .++...+..++..+.++|.++|.+.
T Consensus       238 -~~g~~~~~il~~l~~~~r~l~~~~~~~~~g~~~~i~~~l~i~~~~~~~~~~~~~~~s~~~L~~~l~~l~~~d~~lK~~~  316 (343)
T 1jr3_D          238 -LEGSEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRGMMGEALNRLSQTQLRQAVQLLTRTELTLKQDY  316 (343)
T ss_dssp             -TTTCCHHHHHHHHHHHHHHHHHHHTCSSSSCHHHHHHHHTCCSSHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             -HCCCcHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCC
Confidence             88999999999888887753                                  2345567889999999999999974


Q ss_pred             --ChHHHHHHHHHHHHH
Q 017884          340 --NDKLQLGSIISTFTQ  354 (364)
Q Consensus       340 --~~~~~l~~l~~~l~~  354 (364)
                        ++.+.|+.++.++|.
T Consensus       317 ~~~~~~~le~l~l~l~~  333 (343)
T 1jr3_D          317 GQSVWAELEGLSLLLCH  333 (343)
T ss_dssp             CSCHHHHHHHHHHHTTS
T ss_pred             CCCHHHHHHHHHHHHcC
Confidence              678999999998874

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.96  E-value=2.6e-27  Score=206.46  Aligned_cols=220  Identities=23%  Similarity=0.392  Sum_probs=179.7

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC--------------
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY--------------  103 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~--------------  103 (364)
                      ...||.++|+|..|++++|++..+..+..++..+..++ ++|+||+|+|||++++.+++.+.+...              
T Consensus         9 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (250)
T 1njg_A            9 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   88 (250)
T ss_dssp             --CCHHHHTCCCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHH
T ss_pred             HHHHHhhccCCccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            35789999999999999999999999999999887766 799999999999999999998865321              


Q ss_pred             -----CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          104 -----HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       104 -----~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                           ...++.++.......+.+...+.... .    .....++.+|+|||+|.+....++.|++++++++..+.+|+++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~----~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t  163 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQ-Y----APARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLAT  163 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHHHHHHSCC-C----SCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEE
T ss_pred             HhccCCcceEEecCcccccHHHHHHHHHHhh-h----chhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEe
Confidence                 11334444443223333333322211 1    1112247899999999999999999999999988889999999


Q ss_pred             eccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccCchHH
Q 017884          179 NQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-QQITEEA  257 (364)
Q Consensus       179 ~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-~~i~~~~  257 (364)
                      +....+.+.+.+|+..+.|++++.+++.+++..++.+.+..+++++++.+++.++|++|.+.+.++.+.... +.||.++
T Consensus       164 ~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~~~~~~~~~~~~~~~~~~i~~~~  243 (250)
T 1njg_A          164 TDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQA  243 (250)
T ss_dssp             SCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHTTTTSSBCHHH
T ss_pred             CChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCceecHHH
Confidence            988889999999999999999999999999999999999999999999999999999999999998877654 4799999


Q ss_pred             HHHhcC
Q 017884          258 VYLCTG  263 (364)
Q Consensus       258 v~~~~~  263 (364)
                      |.++++
T Consensus       244 v~~~~~  249 (250)
T 1njg_A          244 VSAMLG  249 (250)
T ss_dssp             HHHHSC
T ss_pred             HHHHhC
Confidence            988765

>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=99.96  E-value=1.9e-27  Score=229.52  Aligned_cols=241  Identities=24%  Similarity=0.386  Sum_probs=186.3

Q ss_pred             CCCCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcC-----------------CCCcEEEeCCCCccHHHHHHHHHH
Q 017884           34 TPPDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN-----------------RLPHLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        34 ~~~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~-----------------~~~~lll~G~~G~GKt~la~~l~~   96 (364)
                      .+......+|+++|+|.+|++++|++..++.|..++...                 ..++++|+||||+|||++|+++++
T Consensus        20 ~~~~~~~~lW~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~   99 (516)
T 1sxj_A           20 GPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQ   99 (516)
T ss_dssp             ------CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCccCCCcccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            445566789999999999999999999999999998751                 234599999999999999999999


Q ss_pred             HHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc--ccC-------CccceEEEEEeCCCCCCHHHH---HHHHHH
Q 017884           97 KLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF--SFG-------VKASVKLVLLDEADAMTKDAQ---FALRRV  164 (364)
Q Consensus        97 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~--~~~-------~~~~~~viiiDe~~~l~~~~~---~~L~~~  164 (364)
                      ++     ...+++++++.......+...+.........  .+.       ....+.+|+|||+|.+....+   +.|+.+
T Consensus       100 ~l-----~~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~  174 (516)
T 1sxj_A          100 EL-----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQF  174 (516)
T ss_dssp             HT-----TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHH
T ss_pred             Hc-----CCCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHH
Confidence            97     5678899988776655444433332211110  011       113578999999999976443   778888


Q ss_pred             HHHhccCccEEEEeeccc-cCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Q 017884          165 IEKYTKNTRFALICNQVN-KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL  243 (364)
Q Consensus       165 le~~~~~~~~Il~~~~~~-~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l  243 (364)
                      ++..  ...+|++++... ...+++.+||..+.|++|+.+++.+++..++.++++.+++++++.|++.++||+|.+++.+
T Consensus       175 l~~~--~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          175 CRKT--STPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             HHHC--SSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHhc--CCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            8863  456777776543 4456788999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcccCchHHHHHhcC---CCChHHHHHHHHHHHhcc
Q 017884          244 QSTHMASQQITEEAVYLCTG---NPLPKDIEQISYWLLNES  281 (364)
Q Consensus       244 ~~~~~~~~~i~~~~v~~~~~---~~~~~~~~~l~~~l~~~~  281 (364)
                      +.++.....|+.+++..++.   ......+|++++.++...
T Consensus       253 ~~~~~~~~~It~~~v~~~~~~~~~~~~~~~f~~~~~il~~~  293 (516)
T 1sxj_A          253 STISTTTKTINHENINEISKAWEKNIALKPFDIAHKMLDGQ  293 (516)
T ss_dssp             THHHHHSSCCCTTHHHHHHHHHHTTTTSHHHHHHHHHTBGG
T ss_pred             HHHHhcCCCCchHHHHHHHHhhccCCCCCHHHHHHHHhcCC
Confidence            98887778899998877664   344457788888877643

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.93  E-value=1.1e-24  Score=199.84  Aligned_cols=209  Identities=15%  Similarity=0.202  Sum_probs=165.0

Q ss_pred             CCCCChhhccCCCCCcchhccHHHHHHHHHHHhc-----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      .....|.++|+|.+|++++|++..+..+..++..     ...++++|+||+|+|||++|+++++.+     ...++.+++
T Consensus        14 ~~~~~~~~~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~-----~~~~~~~~~   88 (338)
T 3pfi_A           14 SFDETYETSLRPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM-----SANIKTTAA   88 (338)
T ss_dssp             ---------CCCCSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT-----TCCEEEEEG
T ss_pred             chhhhhhhccCCCCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh-----CCCeEEecc
Confidence            5567899999999999999999999999888874     344569999999999999999999986     345677777


Q ss_pred             CCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhcc------------------CccE
Q 017884          113 SDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK------------------NTRF  174 (364)
Q Consensus       113 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~------------------~~~~  174 (364)
                      ........+...+..        .+   .+.+++|||++.+....++.|++.+++...                  .+.+
T Consensus        89 ~~~~~~~~~~~~~~~--------~~---~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A           89 PMIEKSGDLAAILTN--------LS---EGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             GGCCSHHHHHHHHHT--------CC---TTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             hhccchhHHHHHHHh--------cc---CCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence            655444444433322        11   478999999999999999999999987531                  2568


Q ss_pred             EEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----
Q 017884          175 ALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA----  249 (364)
Q Consensus       175 Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~----  249 (364)
                      |.+||....+.+++.+|+ ..+.|++|+.+++..++...+...+..+++++++.++..++|++|.+.+.++.+...    
T Consensus       158 i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~  237 (338)
T 3pfi_A          158 IGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRSTPRIALRLLKRVRDFADVN  237 (338)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             EEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHhh
Confidence            888888888999999999 899999999999999999999999999999999999999999999999999876432    


Q ss_pred             -cccCchHHHHHhc
Q 017884          250 -SQQITEEAVYLCT  262 (364)
Q Consensus       250 -~~~i~~~~v~~~~  262 (364)
                       ...|+.+++...+
T Consensus       238 ~~~~i~~~~~~~~~  251 (338)
T 3pfi_A          238 DEEIITEKRANEAL  251 (338)
T ss_dssp             TCSEECHHHHHHHH
T ss_pred             cCCccCHHHHHHHH
Confidence             2358888776544

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.92  E-value=2.7e-24  Score=199.38  Aligned_cols=225  Identities=16%  Similarity=0.231  Sum_probs=168.8

Q ss_pred             CCCCCCCCChhhccCCCC-CcchhccHHHHHH---HHHHHhcCCCC--cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcE
Q 017884           34 TPPDIKASPWVEKYRPQS-LADVAAHRDIVDT---IDRLTSENRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (364)
Q Consensus        34 ~~~~~~~~~~~~~~~p~~-~~~~vg~~~~~~~---l~~~~~~~~~~--~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~  107 (364)
                      .+....+.++.++++|.. |++++|++..+..   +...+..+..+  +++|+||||+|||++|+++++.+.+.   ..+
T Consensus        24 ~~~~~~~l~l~~~~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~---~~~  100 (368)
T 3uk6_A           24 AHSHIRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD---TPF  100 (368)
T ss_dssp             CCTTCCSCCBCTTSCBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSS---CCE
T ss_pred             hhhhhhccCcccccCcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhccc---CCc
Confidence            345566788899999998 9999999999776   55666677655  59999999999999999999998642   222


Q ss_pred             EEEeCCC-------------------------------------------------------CCChHHHHHHHHHHHhcC
Q 017884          108 LELNASD-------------------------------------------------------DRGIDVVRQQIQDFASTQ  132 (364)
Q Consensus       108 ~~~~~~~-------------------------------------------------------~~~~~~~~~~i~~~~~~~  132 (364)
                      +.+++..                                                       ......++..+.......
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~  180 (368)
T 3uk6_A          101 TAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEW  180 (368)
T ss_dssp             EEEEGGGGSCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHH
T ss_pred             ccccchhhhhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHh
Confidence            3333211                                                       000233333333322211


Q ss_pred             ccccCC-ccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee------------ccccCchhhhccceEEEecC
Q 017884          133 SFSFGV-KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------------QVNKIIPALQSRCTRFRFAP  199 (364)
Q Consensus       133 ~~~~~~-~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~------------~~~~l~~~l~sr~~~i~~~~  199 (364)
                      .. .+. ...+++|+|||+|.+....++.|++.+++++... ++++++            .+..+.+++.+||..+.|++
T Consensus       181 ~~-~g~~~~~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~~-~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~  258 (368)
T 3uk6_A          181 RE-EGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTP  258 (368)
T ss_dssp             HH-HTC---CBCEEEEESGGGSBHHHHHHHHHHTTCTTCCE-EEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECC
T ss_pred             hh-hccccccCceEEEhhccccChHHHHHHHHHhhCcCCCe-eeeecccceeeeeccCCCCcccCCHHHHhhccEEEecC
Confidence            10 000 0014699999999999999999999999876543 444443            36678899999999999999


Q ss_pred             CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-CCHHHHHHHHHHHHHhc-----ccCchHHHHHhcC
Q 017884          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCN-GDMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (364)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~-g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (364)
                      |+.+++.+++..++...+..+++++++.+++++. ||+|.++++++.+...+     ..|+.++|.+++.
T Consensus       259 ~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~  328 (368)
T 3uk6_A          259 YSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYS  328 (368)
T ss_dssp             CCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999999998 99999999998776543     4799998887765

>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=99.91  E-value=2.9e-23  Score=189.09  Aligned_cols=205  Identities=19%  Similarity=0.250  Sum_probs=164.3

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhc-----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG  117 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~  117 (364)
                      |.++|+|.+|++++|++..+..+..++..     ....+++|+||+|+|||++|+++++.+     ...+..+++.....
T Consensus         2 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~-----~~~~~~~~~~~~~~   76 (324)
T 1hqc_A            2 EDLALRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL-----GVNLRVTSGPAIEK   76 (324)
T ss_dssp             ---CCCCCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH-----TCCEEEECTTTCCS
T ss_pred             CccccCcccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeccccCC
Confidence            56899999999999999999988888763     233559999999999999999999987     34556677665544


Q ss_pred             hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------cCccEEEEee
Q 017884          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFALICN  179 (364)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~------------------~~~~~Il~~~  179 (364)
                      ...+...+..   .    +   ..+.+|+|||++.+....++.|+.++++..                  .++.+|++++
T Consensus        77 ~~~l~~~l~~---~----~---~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~  146 (324)
T 1hqc_A           77 PGDLAAILAN---S----L---EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATT  146 (324)
T ss_dssp             HHHHHHHHTT---T----C---CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEES
T ss_pred             hHHHHHHHHH---h----c---cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCC
Confidence            3333322211   0    1   146799999999999999999999999853                  2467888888


Q ss_pred             ccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----ccC
Q 017884          180 QVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQI  253 (364)
Q Consensus       180 ~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----~~i  253 (364)
                      ....+.+++.+|+ .++.|++|+.+++..++...+...+..+++++++.++.+++|++|.+.+.++.+...+     ..|
T Consensus       147 ~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~~~~i  226 (324)
T 1hqc_A          147 RPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVI  226 (324)
T ss_dssp             CCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHHHHHTTTSTTTSCSCC
T ss_pred             CcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence            8888999999999 6999999999999999999999889999999999999999999999999998876543     367


Q ss_pred             chHHHHHhc
Q 017884          254 TEEAVYLCT  262 (364)
Q Consensus       254 ~~~~v~~~~  262 (364)
                      +.+++..+.
T Consensus       227 ~~~~~~~~~  235 (324)
T 1hqc_A          227 TRERALEAL  235 (324)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            877776543

>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=99.90  E-value=4.5e-23  Score=179.47  Aligned_cols=211  Identities=14%  Similarity=0.202  Sum_probs=163.5

Q ss_pred             CCCCChhhccCC-CCCcchhc---cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           38 IKASPWVEKYRP-QSLADVAA---HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        38 ~~~~~~~~~~~p-~~~~~~vg---~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ..+.+|..+++| .+|+++++   +..++..+..++..+..++++|+||+|+|||++++++++.+...+.  .+..+++.
T Consensus        12 ~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~--~~~~~~~~   89 (242)
T 3bos_A           12 PLQLSLPVHLPDDETFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANELER--RSFYIPLG   89 (242)
T ss_dssp             -CCCEEECCCCTTCSTTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEEGG
T ss_pred             hhhcCCCCCCCCCCChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--eEEEEEHH
Confidence            456889999999 79999997   3588888998888766667999999999999999999999865533  34445443


Q ss_pred             CCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHH--HHHHHHHHHHhccCc--cEEEEeeccc----cCc
Q 017884          114 DDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA--QFALRRVIEKYTKNT--RFALICNQVN----KII  185 (364)
Q Consensus       114 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~--~~~L~~~le~~~~~~--~~Il~~~~~~----~l~  185 (364)
                      ...  ..+    ....       .....+.+|+|||++.+....  ++.|+.+++......  .+|++++...    ...
T Consensus        90 ~~~--~~~----~~~~-------~~~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~  156 (242)
T 3bos_A           90 IHA--SIS----TALL-------EGLEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVL  156 (242)
T ss_dssp             GGG--GSC----GGGG-------TTGGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCC
T ss_pred             HHH--HHH----HHHH-------HhccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhh
Confidence            211  000    0001       111247899999999997655  888999888765433  4777776443    455


Q ss_pred             hhhhccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----ccCchHHH
Q 017884          186 PALQSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAV  258 (364)
Q Consensus       186 ~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~----~~i~~~~v  258 (364)
                      +.+.+|+   .++.|++|+.+++.+++...+...++.+++++++.+++.++||+|.+.+.++.+...+    ..||.+++
T Consensus       157 ~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~a~~~~~~It~~~v  236 (242)
T 3bos_A          157 PDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMARDLRTLFDVLDRLDKASMVHQRKLTIPFV  236 (242)
T ss_dssp             HHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHTCCCCHHHH
T ss_pred             hhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCCCcHHHH
Confidence            8899998   8999999999999999999999999999999999999999999999999998776543    46888888


Q ss_pred             HHhcC
Q 017884          259 YLCTG  263 (364)
Q Consensus       259 ~~~~~  263 (364)
                      .+++.
T Consensus       237 ~~~l~  241 (242)
T 3bos_A          237 KEMLR  241 (242)
T ss_dssp             HHHHT
T ss_pred             HHHhh
Confidence            77654

>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=99.90  E-value=3.1e-22  Score=190.26  Aligned_cols=121  Identities=17%  Similarity=0.246  Sum_probs=107.9

Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe---------ec----cccCchhhhccceEEEecCCChHHHHHHH
Q 017884          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC---------NQ----VNKIIPALQSRCTRFRFAPLEPVHVTERL  209 (364)
Q Consensus       143 ~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~---------~~----~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  209 (364)
                      +|++|||+|.|+.+++++|+++||+++.. .||+++         ..    +..++++++|||..+.|++++.+++.++|
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            69999999999999999999999999888 577777         33    67899999999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc-----ccCchHHHHHhcCC
Q 017884          210 KHVIEAEGLDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-----QQITEEAVYLCTGN  264 (364)
Q Consensus       210 ~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~~~  264 (364)
                      ..++..+++.++++++..++..+ +|++|.++++++.+...+     ..|+.++|..+.+.
T Consensus       376 ~~~~~~~~~~~~~~~~~~i~~~a~~g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~~~~~  436 (456)
T 2c9o_A          376 KIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISEL  436 (456)
T ss_dssp             HHHHHHHTCCBCHHHHHHHHHHHHHSCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhhcCCCccCHHHHHHHHHH
Confidence            99999999999999999999999 999999999998764332     47999999877643

>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=99.89  E-value=1.5e-21  Score=178.30  Aligned_cols=208  Identities=17%  Similarity=0.225  Sum_probs=158.9

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcC-----CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSEN-----RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~-----~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ...|+++++|.+|++++|++.++..+...+..+     ...+++|+||+|+||||++++++..+.+     .+...++..
T Consensus        12 ~~~~~~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~-----~~~~~sg~~   86 (334)
T 1in4_A           12 YDSGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT-----NIHVTSGPV   86 (334)
T ss_dssp             -----CTTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC-----CEEEEETTT
T ss_pred             HHHHHHHcCCccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCC-----CEEEEechH
Confidence            346899999999999999999999888887643     3456999999999999999999999843     233344443


Q ss_pred             CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc------------------cCccEEE
Q 017884          115 DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT------------------KNTRFAL  176 (364)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~------------------~~~~~Il  176 (364)
                      ......+...+.    .    ..   .+.|++|||++.+.+..++.|+..++...                  ....++.
T Consensus        87 ~~~~~~l~~~~~----~----~~---~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~  155 (334)
T 1in4_A           87 LVKQGDMAAILT----S----LE---RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVG  155 (334)
T ss_dssp             CCSHHHHHHHHH----H----CC---TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEE
T ss_pred             hcCHHHHHHHHH----H----cc---CCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEE
Confidence            333333322211    1    11   35799999999999888888888776532                  1244566


Q ss_pred             EeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----
Q 017884          177 ICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----  250 (364)
Q Consensus       177 ~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----  250 (364)
                      +++.+..+.+.+++|| ....|.+++.+++.+++.+.+...++.++++++..|+..++|++|.+.+.++.+..++     
T Consensus       156 at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~~~  235 (334)
T 1in4_A          156 ATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKA  235 (334)
T ss_dssp             EESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             ecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCC
Confidence            6778889999999998 5689999999999999999999899999999999999999999999999998764432     


Q ss_pred             ccCchHHHHHhcC
Q 017884          251 QQITEEAVYLCTG  263 (364)
Q Consensus       251 ~~i~~~~v~~~~~  263 (364)
                      +.||.+++.+++.
T Consensus       236 ~~It~~~v~~al~  248 (334)
T 1in4_A          236 DRINTDIVLKTME  248 (334)
T ss_dssp             SSBCHHHHHHHHH
T ss_pred             CCcCHHHHHHHHH
Confidence            4788888877653

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.88  E-value=7.9e-21  Score=177.20  Aligned_cols=286  Identities=17%  Similarity=0.157  Sum_probs=188.4

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhc----CCCC--cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~----~~~~--~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ..+|..+|+|   ++++|++..+..+..++..    ....  +++|+||+|+|||++++.+++.+.+.. ...++.+++.
T Consensus         7 ~~~l~~~~~p---~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~i~~~   82 (389)
T 1fnn_A            7 DSVFSPSYVP---KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGF   82 (389)
T ss_dssp             GGGGSTTCCC---SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETT
T ss_pred             HhhcCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc-CeeEEEEeCc
Confidence            4578888988   6799999999988888765    2223  699999999999999999999985442 3567778865


Q ss_pred             CCCChHHH-HHHHHHHHhcCccc--------------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc----cCccE
Q 017884          114 DDRGIDVV-RQQIQDFASTQSFS--------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT----KNTRF  174 (364)
Q Consensus       114 ~~~~~~~~-~~~i~~~~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~----~~~~~  174 (364)
                      .......+ ......+....+..              +....++.+|+|||++.+....+..|+++++..+    .++.+
T Consensus        83 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~i  162 (389)
T 1fnn_A           83 IYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIAL  162 (389)
T ss_dssp             TCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEE
T ss_pred             cCCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEE
Confidence            54332222 22121111100000              0001247799999999999899999999998755    37778


Q ss_pred             EEEeecc---ccCchhhhccce--EEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHc---------CCCHHH
Q 017884          175 ALICNQV---NKIIPALQSRCT--RFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLC---------NGDMRK  238 (364)
Q Consensus       175 Il~~~~~---~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~---------~g~~r~  238 (364)
                      |++++.+   ..+.+.+.+|+.  .+.|+|++.+++.+++...+..  ....+++++++.+++.+         +||+|.
T Consensus       163 I~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~  242 (389)
T 1fnn_A          163 VIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARL  242 (389)
T ss_dssp             EEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHH
T ss_pred             EEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHH
Confidence            8888766   567888888874  7999999999999999998875  23478999999999999         899999


Q ss_pred             HHHHHHHHHHh-----cccCchHHHHHhcCCCChHHHHHHHHHHHhccHHHHHHHHHHHHH-hcC--CCHHHHHHHHHHH
Q 017884          239 ALNILQSTHMA-----SQQITEEAVYLCTGNPLPKDIEQISYWLLNESFADSFKRISEMKM-RKG--LALVDIVREVTMF  310 (364)
Q Consensus       239 a~~~l~~~~~~-----~~~i~~~~v~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~-~~~--~~~~~i~~~l~~~  310 (364)
                      +++.++.+...     ...|+.+++..+........+...++.+.. ....++..+..+.. ..+  .....+...+...
T Consensus       243 ~~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~~~~~~~~~~l~~l~~-~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~  321 (389)
T 1fnn_A          243 AIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPL-HEKLFLLAIVRSLKISHTPYITFGDAEESYKIV  321 (389)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHSCCCCHHHHHHSCH-HHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHhhhhHHHHHHcCCH-HHHHHHHHHHHHHhhccCCCccHHHHHHHHHHH
Confidence            99999877653     247888888766543333333333433321 22223333333321 122  3445555444444


Q ss_pred             HHhcCC---ChHHHHHHHHHHHH
Q 017884          311 VFKIKM---PSDVRVRLMNDLAD  330 (364)
Q Consensus       311 ~~~~~~---~~~~~~~i~~~l~~  330 (364)
                      +...+.   +......+++.+.+
T Consensus       322 ~~~~~~~~~~~~~~~~~l~~L~~  344 (389)
T 1fnn_A          322 CEEYGERPRVHSQLWSYLNDLRE  344 (389)
T ss_dssp             HHHTTCCCCCHHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCHHHHHHHHHHHHh
Confidence            443333   33444444444433

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.88  E-value=8e-22  Score=183.68  Aligned_cols=217  Identities=20%  Similarity=0.260  Sum_probs=161.4

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc----CCCCcEEEeCCCCccHHHHHHHHHHHHcCC----CCCCcEEEEeC
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNA  112 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~----~~~~~lll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~  112 (364)
                      .+|...|.|   ++++|++..+..+..++..    +..++++|+||+|+|||++++.+++.+...    +....++.+++
T Consensus        10 ~~l~~~~~p---~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (387)
T 2v1u_A           10 WVLLPDYVP---DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA   86 (387)
T ss_dssp             HHHSTTCCC---SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEET
T ss_pred             HhcCCccCC---CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEEC
Confidence            456667777   7799999999999988853    344559999999999999999999987432    22466778887


Q ss_pred             CCCCChHHHHHH-------------------HHHHHhcCccccCCccceEEEEEeCCCCCCHH--HHHHHHHHHHHh---
Q 017884          113 SDDRGIDVVRQQ-------------------IQDFASTQSFSFGVKASVKLVLLDEADAMTKD--AQFALRRVIEKY---  168 (364)
Q Consensus       113 ~~~~~~~~~~~~-------------------i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--~~~~L~~~le~~---  168 (364)
                      ........+...                   +..+...    ....+.+.+|+|||+|.+...  .++.|..+++..   
T Consensus        87 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~----l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~  162 (387)
T 2v1u_A           87 RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKR----LSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQEL  162 (387)
T ss_dssp             TTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHH----HTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC
T ss_pred             CcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHH----HhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhc
Confidence            654332221111                   1111111    111124779999999999876  778888888765   


Q ss_pred             --ccCccEEEEeecc---ccCchhhhccc--eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC---CCH
Q 017884          169 --TKNTRFALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLCN---GDM  236 (364)
Q Consensus       169 --~~~~~~Il~~~~~---~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~~---g~~  236 (364)
                        +..+.+|++++..   ..+.+.+.+|+  ..+.|+|++.+++..++...+..  .+..+++++++.+++.++   ||+
T Consensus       163 ~~~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~  242 (387)
T 2v1u_A          163 GDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDA  242 (387)
T ss_dssp             -----CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCH
T ss_pred             CCCceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCH
Confidence              4466788888766   67888999998  68999999999999999999876  567889999999999998   999


Q ss_pred             HHHHHHHHHHHHhc-----ccCchHHHHHhcCC
Q 017884          237 RKALNILQSTHMAS-----QQITEEAVYLCTGN  264 (364)
Q Consensus       237 r~a~~~l~~~~~~~-----~~i~~~~v~~~~~~  264 (364)
                      |.+++.++.+...+     ..|+.+++..++..
T Consensus       243 r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~  275 (387)
T 2v1u_A          243 RRALDLLRVAGEIAERRREERVRREHVYSARAE  275 (387)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence            99999998776532     47899998877653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.87  E-value=2.3e-20  Score=174.09  Aligned_cols=189  Identities=19%  Similarity=0.235  Sum_probs=147.8

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhc------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      -|+++|+|.+|++++|++.+++.|..++..            ....++||+||||+|||++|+++++.+     ...++.
T Consensus       104 ~~~~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~-----~~~~~~  178 (389)
T 3vfd_A          104 EIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES-----NATFFN  178 (389)
T ss_dssp             TTBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT-----TCEEEE
T ss_pred             hhhccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh-----cCcEEE
Confidence            589999999999999999999999888732            223459999999999999999999986     467778


Q ss_pred             EeCCCCCC------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHhc---
Q 017884          110 LNASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYT---  169 (364)
Q Consensus       110 ~~~~~~~~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~~---  169 (364)
                      +++....+      ...+...+......         .+.+|+|||+|.+.           ...++.|+..++...   
T Consensus       179 v~~~~l~~~~~g~~~~~~~~~~~~a~~~---------~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  249 (389)
T 3vfd_A          179 ISAASLTSKYVGEGEKLVRALFAVAREL---------QPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAG  249 (389)
T ss_dssp             ECSCCC-------CHHHHHHHHHHHHHS---------SSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---
T ss_pred             eeHHHhhccccchHHHHHHHHHHHHHhc---------CCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccC
Confidence            87765422      11222222222111         35799999999883           345667788777543   


Q ss_pred             -cCccEEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 017884          170 -KNTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (364)
Q Consensus       170 -~~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~  244 (364)
                       ..+++|.++|.+..+.+.+.+|| ..+.|+.|+.++...++..++...+..++++.+..|+..+.|..+..+..|.
T Consensus       250 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~  326 (389)
T 3vfd_A          250 DDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALA  326 (389)
T ss_dssp             --CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence             45677888899999999999999 5799999999999999999999989999999999999999998887666553

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.86  E-value=4.5e-20  Score=165.89  Aligned_cols=191  Identities=18%  Similarity=0.226  Sum_probs=145.8

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhc------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      -|.++++|.+|++++|++.+++.+...+..            ....+++|+||||+|||++|+++++.+     ...++.
T Consensus        10 ~~~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~-----~~~~~~   84 (297)
T 3b9p_A           10 EIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC-----SATFLN   84 (297)
T ss_dssp             TTBCCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT-----TCEEEE
T ss_pred             HhccCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh-----CCCeEE
Confidence            377889999999999999999999888743            123459999999999999999999987     455667


Q ss_pred             EeCCCCCC-----h-HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHhcc--
Q 017884          110 LNASDDRG-----I-DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYTK--  170 (364)
Q Consensus       110 ~~~~~~~~-----~-~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~~~--  170 (364)
                      +++....+     . ...+..+.....         ..+.+|+|||++.+.           ...++.|+..++..+.  
T Consensus        85 i~~~~l~~~~~~~~~~~~~~~~~~~~~---------~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  155 (297)
T 3b9p_A           85 ISAASLTSKYVGDGEKLVRALFAVARH---------MQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNP  155 (297)
T ss_dssp             EESTTTSSSSCSCHHHHHHHHHHHHHH---------TCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC---
T ss_pred             eeHHHHhhcccchHHHHHHHHHHHHHH---------cCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccC
Confidence            77654321     1 122222222211         146899999999884           3456678888887653  


Q ss_pred             ---CccEEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH-HHHH
Q 017884          171 ---NTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALN-ILQS  245 (364)
Q Consensus       171 ---~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~-~l~~  245 (364)
                         .+.+|.+||.+..+.+++.+|| ..+.++.|+.++...++...+...+..++++.++.+++.+.|..+..+. +++.
T Consensus       156 ~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~~  235 (297)
T 3b9p_A          156 DGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKD  235 (297)
T ss_dssp             ---CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence               4667788888889999999998 7788999999999999999988888889999999999999998776664 4443


Q ss_pred             H
Q 017884          246 T  246 (364)
Q Consensus       246 ~  246 (364)
                      .
T Consensus       236 a  236 (297)
T 3b9p_A          236 A  236 (297)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.85  E-value=1.5e-20  Score=175.07  Aligned_cols=220  Identities=17%  Similarity=0.127  Sum_probs=157.7

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhc----CCCCcEEEeCCCCccHHHHHHHHHHHHcCC-----CC-CCcEE
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGA-----QY-HNMIL  108 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~----~~~~~lll~G~~G~GKt~la~~l~~~l~~~-----~~-~~~~~  108 (364)
                      +..+|..+|+|   ++++|++..+..+..++..    +..++++|+||+|+|||++++++++.+.+.     +. ...++
T Consensus         9 ~~~~l~~~~~p---~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~   85 (384)
T 2qby_B            9 PKVFIDPLSVF---KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQA   85 (384)
T ss_dssp             TTTTTCHHHHC---SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEE
T ss_pred             cHhhcCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEE
Confidence            45679999999   7799999999988766653    334459999999999999999999987432     12 56677


Q ss_pred             EEeCCCCC-ChHH-HHHHHHHHHhcCcc---------------ccCCccceEEEEEeCCCCCCHHH-HHH-HHHHHHHhc
Q 017884          109 ELNASDDR-GIDV-VRQQIQDFASTQSF---------------SFGVKASVKLVLLDEADAMTKDA-QFA-LRRVIEKYT  169 (364)
Q Consensus       109 ~~~~~~~~-~~~~-~~~~i~~~~~~~~~---------------~~~~~~~~~viiiDe~~~l~~~~-~~~-L~~~le~~~  169 (364)
                      .+++.... .... +...+..+......               ....  .+.+|+|||+|.+.... ++. +..+++.. 
T Consensus        86 ~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~--~~~vlilDEi~~l~~~~~~~~~l~~l~~~~-  162 (384)
T 2qby_B           86 YVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN--IRAIIYLDEVDTLVKRRGGDIVLYQLLRSD-  162 (384)
T ss_dssp             EEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSS--SCEEEEEETTHHHHHSTTSHHHHHHHHTSS-
T ss_pred             EEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcc--CCCEEEEECHHHhccCCCCceeHHHHhcCC-
Confidence            77754322 2111 11111111000000               0111  12399999999996542 455 44554444 


Q ss_pred             cCccEEEEeecc---ccCchhhhccc-eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHcC---CCHHHHH
Q 017884          170 KNTRFALICNQV---NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLCN---GDMRKAL  240 (364)
Q Consensus       170 ~~~~~Il~~~~~---~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~~---g~~r~a~  240 (364)
                      .++.+|++++..   ..+.+.+.+|+ ..+.|+|++.+++.+++..++..  .+..+++++++.+++.++   ||+|.++
T Consensus       163 ~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~  242 (384)
T 2qby_B          163 ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAV  242 (384)
T ss_dssp             SCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHH
T ss_pred             cceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHH
Confidence            677888888876   57888998994 79999999999999999998875  456789999999999998   9999999


Q ss_pred             HHHHHHHHhc---ccCchHHHHHhcCC
Q 017884          241 NILQSTHMAS---QQITEEAVYLCTGN  264 (364)
Q Consensus       241 ~~l~~~~~~~---~~i~~~~v~~~~~~  264 (364)
                      +.++.+...+   ..|+.+++..++..
T Consensus       243 ~~l~~a~~~a~~~~~i~~~~v~~~~~~  269 (384)
T 2qby_B          243 NLLFRAAQLASGGGIIRKEHVDKAIVD  269 (384)
T ss_dssp             HHHHHHHHHTTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCccCHHHHHHHHHH
Confidence            9998876544   47898988877654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.85  E-value=2.6e-20  Score=168.42  Aligned_cols=200  Identities=20%  Similarity=0.260  Sum_probs=150.7

Q ss_pred             CChhhccCCCCC-------c-chhccHHHHHHHHHHHh---------------cCCCCcEEEeCCCCccHHHHHHHHHHH
Q 017884           41 SPWVEKYRPQSL-------A-DVAAHRDIVDTIDRLTS---------------ENRLPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        41 ~~~~~~~~p~~~-------~-~~vg~~~~~~~l~~~~~---------------~~~~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++.+.|++..+       + +++|++.+++.+...+.               .....+++|+||||+|||++|+++++.
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~   90 (309)
T 3syl_A           11 IDLRAEYEGSGAKEVLEELDRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGL   90 (309)
T ss_dssp             CCHHHHHHHTTHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCChhhccccHHHHHHHHHHHccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            445566666543       3 68999999998887765               223345999999999999999999999


Q ss_pred             HcCCCC--CCcEEEEeCCCCCC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC---------CHHHHHHHHHH
Q 017884           98 LYGAQY--HNMILELNASDDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM---------TKDAQFALRRV  164 (364)
Q Consensus        98 l~~~~~--~~~~~~~~~~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l---------~~~~~~~L~~~  164 (364)
                      +.+.+.  ...++.+++....+  .......+.......        .+.+|+|||+|.+         ....++.|++.
T Consensus        91 l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~--------~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~  162 (309)
T 3syl_A           91 LHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA--------MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQV  162 (309)
T ss_dssp             HHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHH--------TTSEEEEETGGGSCCCC---CCTHHHHHHHHHH
T ss_pred             HHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhc--------CCCEEEEEChhhhccCCCcccccHHHHHHHHHH
Confidence            865432  33566666544211  111111122221110        2569999999987         77889999999


Q ss_pred             HHHhccCccEEEEeeccc-----cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-------
Q 017884          165 IEKYTKNTRFALICNQVN-----KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL-------  231 (364)
Q Consensus       165 le~~~~~~~~Il~~~~~~-----~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~-------  231 (364)
                      +++.+.++.+|++++...     .+.+++++|| ..+.|++|+.+++..++..++.+.+..+++++++.++.+       
T Consensus       163 l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~  242 (309)
T 3syl_A          163 MENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQ  242 (309)
T ss_dssp             HHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTS
T ss_pred             HhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccC
Confidence            999888888888886432     3468999999 899999999999999999999999999999999999986       


Q ss_pred             -cCCCHHHHHHHHHHHHH
Q 017884          232 -CNGDMRKALNILQSTHM  248 (364)
Q Consensus       232 -~~g~~r~a~~~l~~~~~  248 (364)
                       ..||+|.+.+.++.+..
T Consensus       243 ~~~gn~r~l~~~l~~a~~  260 (309)
T 3syl_A          243 PHFANARSIRNALDRARL  260 (309)
T ss_dssp             SSCCHHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHH
Confidence             35999999999987764

>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=99.84  E-value=9.5e-20  Score=167.50  Aligned_cols=193  Identities=18%  Similarity=0.201  Sum_probs=138.7

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc-----------CCC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEE
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------NRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~  108 (364)
                      ..|..++.+.+|++++|++.+++.|...+..           ... .+++|+||||+|||++|+++++.+     ...++
T Consensus        39 ~~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~-----~~~~~  113 (355)
T 2qp9_X           39 SAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFF  113 (355)
T ss_dssp             --------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH-----TCEEE
T ss_pred             hhhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEE
Confidence            4567788899999999999999999888731           122 349999999999999999999998     34566


Q ss_pred             EEeCCCC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHh---
Q 017884          109 ELNASDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---  168 (364)
Q Consensus       109 ~~~~~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~---  168 (364)
                      .+++...      .....++..+.....         ..+.||+|||+|.+..           ..++.|+..|+..   
T Consensus       114 ~v~~~~l~~~~~g~~~~~~~~~f~~a~~---------~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~  184 (355)
T 2qp9_X          114 SVSSSDLVSKWMGESEKLVKQLFAMARE---------NKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND  184 (355)
T ss_dssp             EEEHHHHHSCC---CHHHHHHHHHHHHH---------TSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC--
T ss_pred             EeeHHHHhhhhcchHHHHHHHHHHHHHH---------cCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccccc
Confidence            6654321      111222222222211         1368999999999973           2467788888753   


Q ss_pred             ccCccEEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q 017884          169 TKNTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (364)
Q Consensus       169 ~~~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~  246 (364)
                      ...+.+|.+||.+..+.+++.+|| ..+.+++|+.++...++..++...+..+++..++.|++.+.| +.+.+.++++.+
T Consensus       185 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A  264 (355)
T 2qp9_X          185 SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDA  264 (355)
T ss_dssp             -CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            446677888899999999999999 789999999999999999999888777899999999999987 555555555444


Q ss_pred             H
Q 017884          247 H  247 (364)
Q Consensus       247 ~  247 (364)
                      .
T Consensus       265 ~  265 (355)
T 2qp9_X          265 L  265 (355)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.84  E-value=5.5e-20  Score=173.64  Aligned_cols=213  Identities=11%  Similarity=0.203  Sum_probs=158.2

Q ss_pred             ccCCC-CCcchh-c--cHHHHHHHHHHHhcCC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           46 KYRPQ-SLADVA-A--HRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        46 ~~~p~-~~~~~v-g--~~~~~~~l~~~~~~~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      .+.|. +|++++ |  +......+........ .++++|+||+|+|||++++++++.+.+......++.+++...  ...
T Consensus        97 ~l~~~~tfd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~--~~~  174 (440)
T 2z4s_A           97 PLNPDYTFENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LND  174 (440)
T ss_dssp             CCCTTCSGGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH--HHH
T ss_pred             CCCCCCChhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH--HHH
Confidence            34554 789988 5  4445556666666544 456999999999999999999999865444556666665431  111


Q ss_pred             HHHHHH-----HHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhcc-CccEEEEeeccc----cCchhh
Q 017884          121 VRQQIQ-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYTK-NTRFALICNQVN----KIIPAL  188 (364)
Q Consensus       121 ~~~~i~-----~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~~-~~~~Il~~~~~~----~l~~~l  188 (364)
                      +...+.     .+...    +..  .+.+++|||++.+..  ..++.|+.+++.... ...+|++++.+.    .+.+.+
T Consensus       175 ~~~~~~~~~~~~~~~~----~~~--~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L  248 (440)
T 2z4s_A          175 LVDSMKEGKLNEFREK----YRK--KVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRL  248 (440)
T ss_dssp             HHHHHHTTCHHHHHHH----HTT--TCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHH
T ss_pred             HHHHHHcccHHHHHHH----hcC--CCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHH
Confidence            111111     11111    110  367999999999986  788899999987544 455677776532    377899


Q ss_pred             hccc---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----ccCchHHHHHh
Q 017884          189 QSRC---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS----QQITEEAVYLC  261 (364)
Q Consensus       189 ~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~----~~i~~~~v~~~  261 (364)
                      .+||   .++.+++|+.+++..++...+...++.++++++++|+..++||+|.+.+.++.+...+    ..||.+++.++
T Consensus       249 ~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~  328 (440)
T 2z4s_A          249 VSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILL  328 (440)
T ss_dssp             HHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHH
T ss_pred             HhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            9998   6899999999999999999999999999999999999999999999999998776543    47999999988


Q ss_pred             cCCCC
Q 017884          262 TGNPL  266 (364)
Q Consensus       262 ~~~~~  266 (364)
                      +....
T Consensus       329 l~~~~  333 (440)
T 2z4s_A          329 LKDFI  333 (440)
T ss_dssp             TSTTT
T ss_pred             HHHHh
Confidence            87644

>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=99.84  E-value=5.9e-20  Score=166.88  Aligned_cols=196  Identities=16%  Similarity=0.217  Sum_probs=144.9

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHh----------cC-C-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEE
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTS----------EN-R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~----------~~-~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~  108 (364)
                      ..|..++.+.+|++++|++.+++.|+..+.          .+ . ..+++|+||||+|||++|+++++.+     ...++
T Consensus         6 ~~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~~   80 (322)
T 3eie_A            6 TAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFF   80 (322)
T ss_dssp             CCSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH-----TCEEE
T ss_pred             cceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH-----CCCEE
Confidence            357888999999999999999999998872          12 2 2349999999999999999999997     45666


Q ss_pred             EEeCCCC--CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHh---ccCc
Q 017884          109 ELNASDD--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY---TKNT  172 (364)
Q Consensus       109 ~~~~~~~--~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~---~~~~  172 (364)
                      .++++..  .........+........     ...+.+|+|||+|.+..           ..++.|+..++..   ...+
T Consensus        81 ~v~~~~l~~~~~g~~~~~~~~~f~~a~-----~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v  155 (322)
T 3eie_A           81 SVSSSDLVSKWMGESEKLVKQLFAMAR-----ENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV  155 (322)
T ss_dssp             EEEHHHHHTTTGGGHHHHHHHHHHHHH-----HTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCE
T ss_pred             EEchHHHhhcccchHHHHHHHHHHHHH-----hcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCce
Confidence            7765431  111112222222211100     01368999999999853           3467788888754   3456


Q ss_pred             cEEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q 017884          173 RFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~  246 (364)
                      .+|.+||.+..+++++.+|+ ..+.++.|+.++..+++...+...+..+++..++.|++.+.| +.+.+.++++.+
T Consensus       156 ~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a  231 (322)
T 3eie_A          156 LVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDA  231 (322)
T ss_dssp             EEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHH
T ss_pred             EEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            67778899999999999999 778999999999999999999888888899999999999977 455555555443

>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=99.83  E-value=4.3e-19  Score=163.35  Aligned_cols=195  Identities=15%  Similarity=0.190  Sum_probs=142.8

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhc------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      +.++++|.+|++++|++.+++.|...+..            ....+++|+||||+|||++|+++++.+     ...++.+
T Consensus        74 i~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~~~i  148 (357)
T 3d8b_A           74 IMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS-----GATFFSI  148 (357)
T ss_dssp             TBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT-----TCEEEEE
T ss_pred             cccCCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc-----CCeEEEE
Confidence            46678999999999999999999888752            233449999999999999999999986     4566777


Q ss_pred             eCCCCCC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHh----ccCcc
Q 017884          111 NASDDRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKY----TKNTR  173 (364)
Q Consensus       111 ~~~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~----~~~~~  173 (364)
                      +++....  .......+........     ...+.+|+|||+|.+..           ..++.|+..++..    ..++.
T Consensus       149 ~~~~l~~~~~g~~~~~~~~~~~~a~-----~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~  223 (357)
T 3d8b_A          149 SASSLTSKWVGEGEKMVRALFAVAR-----CQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRIL  223 (357)
T ss_dssp             EGGGGCCSSTTHHHHHHHHHHHHHH-----HTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEE
T ss_pred             ehHHhhccccchHHHHHHHHHHHHH-----hcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEE
Confidence            7654321  1111112222111100     01368999999988742           3456677777643    34566


Q ss_pred             EEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH
Q 017884          174 FALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTH  247 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~  247 (364)
                      +|.+||.+..+.+++.+|| ..+.++.|+.++...++...+...+..++++.++.|+..+.| ..+.+..+++..+
T Consensus       224 vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~a~  299 (357)
T 3d8b_A          224 VVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREAS  299 (357)
T ss_dssp             EEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             EEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            7778888889999999999 578999999999999999999988888999999999999988 4444444444443

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.83  E-value=3.9e-19  Score=156.38  Aligned_cols=205  Identities=18%  Similarity=0.207  Sum_probs=145.7

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhc-----------C-CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------N-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      +|.+++.+.+|++++|.+.+++.+...+..           . ...+++|+||||+|||++++++++.+.     ..++.
T Consensus         1 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~-----~~~~~   75 (257)
T 1lv7_A            1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK-----VPFFT   75 (257)
T ss_dssp             CEEECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT-----CCEEE
T ss_pred             CCCccCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC-----CCEEE
Confidence            588999999999999999999988776542           1 233499999999999999999999873     34566


Q ss_pred             EeCCCCC------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHh-
Q 017884          110 LNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY-  168 (364)
Q Consensus       110 ~~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~-  168 (364)
                      +++....      ....+...+......         .+.+++|||+|.+..              ...+.++..++.. 
T Consensus        76 i~~~~~~~~~~~~~~~~~~~~~~~a~~~---------~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  146 (257)
T 1lv7_A           76 ISGSDFVEMFVGVGASRVRDMFEQAKKA---------APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE  146 (257)
T ss_dssp             ECSCSSTTSCCCCCHHHHHHHHHHHHTT---------CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCC
T ss_pred             EeHHHHHHHhhhhhHHHHHHHHHHHHHc---------CCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcc
Confidence            6665421      122333333332211         357999999977642              2345566666643 


Q ss_pred             -ccCccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHHH
Q 017884          169 -TKNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG-DMRKALNI  242 (364)
Q Consensus       169 -~~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g-~~r~a~~~  242 (364)
                       ...+.+|.++|.+..+.+.+.+  |+ ..+.+++|+.++..+++...++..+  ++++ ....++..+.| +.|.+.+.
T Consensus       147 ~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~--l~~~~~~~~la~~~~G~~~~dl~~l  224 (257)
T 1lv7_A          147 GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVP--LAPDIDAAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHHHHHH
T ss_pred             cCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCC--CCccccHHHHHHHcCCCCHHHHHHH
Confidence             3345677788888889999887  76 6788999999999999988776543  3333 36778888999 99999988


Q ss_pred             HHHHHHhc-----ccCchHHHHHhc
Q 017884          243 LQSTHMAS-----QQITEEAVYLCT  262 (364)
Q Consensus       243 l~~~~~~~-----~~i~~~~v~~~~  262 (364)
                      ++.+...+     ..|+.+++..++
T Consensus       225 ~~~a~~~a~~~~~~~i~~~~~~~a~  249 (257)
T 1lv7_A          225 VNEAALFAARGNKRVVSMVEFEKAK  249 (257)
T ss_dssp             HHHHHHHHHHTTCSSBCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcccHHHHHHHH
Confidence            87665432     367777776543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.82  E-value=7e-19  Score=157.42  Aligned_cols=191  Identities=10%  Similarity=0.101  Sum_probs=136.3

Q ss_pred             hhccHHHHHHHH----HHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCCCCChHHHHHHH
Q 017884           55 VAAHRDIVDTID----RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        55 ~vg~~~~~~~l~----~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      +.|+++.+..+.    ..+..+..++++|+||||||||++++.+++++....     ..+.++++|+........+...+
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            778877777655    445567777899999999999999999999985321     24578889987644332222111


Q ss_pred             ------------------HHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc---cCccEEEEeeccc--
Q 017884          126 ------------------QDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT---KNTRFALICNQVN--  182 (364)
Q Consensus       126 ------------------~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~---~~~~~Il~~~~~~--  182 (364)
                                        .......+   .......||+|||+|.+.  .++.|+.+++.+.   ....+|+++|..+  
T Consensus       102 ~~~L~g~~~~~~~~~~~L~~~f~~~~---~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~  176 (318)
T 3te6_A          102 WFAISKENLCGDISLEALNFYITNVP---KAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNVTI  176 (318)
T ss_dssp             HHHHSCCC--CCCCHHHHHHHHHHSC---GGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSCCC
T ss_pred             HHHhcCCCCCchHHHHHHHHHHHHhh---hccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcccc
Confidence                              11111110   011246799999999998  6777888877542   2445677777654  


Q ss_pred             --cCchhhhccc--eEEEecCCChHHHHHHHHHHHHHcCC-----------------------------------CCCHH
Q 017884          183 --KIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAEGL-----------------------------------DVTEG  223 (364)
Q Consensus       183 --~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~~~-----------------------------------~i~~~  223 (364)
                        .+.+.++||+  .++.|+|++.+++.+++..++.....                                   .++++
T Consensus       177 ~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  256 (318)
T 3te6_A          177 REQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNK  256 (318)
T ss_dssp             HHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECCHH
T ss_pred             hhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccCHH
Confidence              2456778887  67999999999999999999986421                                   37999


Q ss_pred             HHHHHHH---HcCCCHHHHHHHHHHHHHhc
Q 017884          224 GLAALVR---LCNGDMRKALNILQSTHMAS  250 (364)
Q Consensus       224 ~~~~l~~---~~~g~~r~a~~~l~~~~~~~  250 (364)
                      +++.+++   ..+||+|.|++.|+.+...+
T Consensus       257 ai~~~A~~vA~~~GD~R~Al~ilr~A~~~a  286 (318)
T 3te6_A          257 ITQLIAKNVANVSGSTEKAFKICEAAVEIS  286 (318)
T ss_dssp             HHHHHHHHHHHHHCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCChHHHHHHHHHHHHHHH
Confidence            9999998   46899999999998776543

>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=99.82  E-value=6.7e-20  Score=166.80  Aligned_cols=187  Identities=15%  Similarity=0.233  Sum_probs=138.9

Q ss_pred             CCCcchh-c--cHHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH
Q 017884           50 QSLADVA-A--HRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ  124 (364)
Q Consensus        50 ~~~~~~v-g--~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (364)
                      .+|++++ |  +......+..++....  .++++|+||||+|||++++++++.+...  ...++.+++...  ...+...
T Consensus         8 ~~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~~~~~~i~~~~~--~~~~~~~   83 (324)
T 1l8q_A            8 YTLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSADDF--AQAMVEH   83 (324)
T ss_dssp             CCSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHHHH--HHHHHHH
T ss_pred             CCcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEHHHH--HHHHHHH
Confidence            3688887 4  5556667777777653  3569999999999999999999998544  345566654321  1111111


Q ss_pred             HH-----HHHhcCccccCCccceEEEEEeCCCCCCH--HHHHHHHHHHHHhc-cCccEEEEeecc-c---cCchhhhccc
Q 017884          125 IQ-----DFASTQSFSFGVKASVKLVLLDEADAMTK--DAQFALRRVIEKYT-KNTRFALICNQV-N---KIIPALQSRC  192 (364)
Q Consensus       125 i~-----~~~~~~~~~~~~~~~~~viiiDe~~~l~~--~~~~~L~~~le~~~-~~~~~Il~~~~~-~---~l~~~l~sr~  192 (364)
                      +.     .+...    +   ..+.+++|||++.+..  ..++.++.+++... ....+|++++.. .   .+.+.+.+|+
T Consensus        84 ~~~~~~~~~~~~----~---~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~  156 (324)
T 1l8q_A           84 LKKGTINEFRNM----Y---KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRF  156 (324)
T ss_dssp             HHHTCHHHHHHH----H---HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHH
T ss_pred             HHcCcHHHHHHH----h---cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcc
Confidence            11     11110    1   1367999999999986  67888888887654 345566666543 2   5788999998


Q ss_pred             ---eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          193 ---TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       193 ---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                         .++.|+| +.++...++...+...++.++++++++|+..+ ||+|.+.+.++.+...
T Consensus       157 ~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          157 EGGILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKLK  214 (324)
T ss_dssp             HTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHHH
T ss_pred             cCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-CCHHHHHHHHHHHHHc
Confidence               7899999 99999999999999999999999999999999 9999999999887765

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.82  E-value=1.3e-18  Score=161.83  Aligned_cols=214  Identities=21%  Similarity=0.328  Sum_probs=152.5

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-CCcEEEEeCCCC
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNASDD  115 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-~~~~~~~~~~~~  115 (364)
                      .+|..+|.|   ++++|++..+..+..++..    +...+++|+||+|+|||++++.+++.+..... ...++.+++...
T Consensus        11 ~~l~~~~~p---~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~   87 (386)
T 2qby_A           11 EYLLPDYIP---DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQI   87 (386)
T ss_dssp             GGGSSSCCC---SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHH
T ss_pred             hhCCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCC
Confidence            456667777   6789999999999988874    33445999999999999999999998743211 345566664321


Q ss_pred             C----------------------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC----HHHHHHHHHHHHHh-
Q 017884          116 R----------------------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT----KDAQFALRRVIEKY-  168 (364)
Q Consensus       116 ~----------------------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~----~~~~~~L~~~le~~-  168 (364)
                      .                      ........+......       .+.+.+|+|||++.+.    ......|++.++.. 
T Consensus        88 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~-------~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~  160 (386)
T 2qby_A           88 DTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD-------YGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVN  160 (386)
T ss_dssp             CSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHT-------CCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCC
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhc-------cCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcC
Confidence            1                      122222223332221       1137899999999986    34455566666542 


Q ss_pred             ccCccEEEEeecc---ccCchhhhccc--eEEEecCCChHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHcC---CCHHH
Q 017884          169 TKNTRFALICNQV---NKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGGLAALVRLCN---GDMRK  238 (364)
Q Consensus       169 ~~~~~~Il~~~~~---~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~~~~~l~~~~~---g~~r~  238 (364)
                      ..++.+|++++..   ..+.+.+.+|+  ..+.|+|++.+++.+++...+...  ...+++++++.+++.++   |++|.
T Consensus       161 ~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~  240 (386)
T 2qby_A          161 KSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARR  240 (386)
T ss_dssp             C--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHH
T ss_pred             CCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHH
Confidence            3456678888765   46777888998  689999999999999999987643  36789999999999998   99999


Q ss_pred             HHHHHHHHHHhc-----ccCchHHHHHhcCC
Q 017884          239 ALNILQSTHMAS-----QQITEEAVYLCTGN  264 (364)
Q Consensus       239 a~~~l~~~~~~~-----~~i~~~~v~~~~~~  264 (364)
                      +++.++.+...+     ..|+.+++..++..
T Consensus       241 ~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~  271 (386)
T 2qby_A          241 ALDLLRVSGEIAERMKDTKVKEEYVYMAKEE  271 (386)
T ss_dssp             HHHHHHHHHHHHHHTTCSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCccCHHHHHHHHHH
Confidence            999887765432     37899998877653

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.82  E-value=6.8e-19  Score=161.17  Aligned_cols=201  Identities=21%  Similarity=0.303  Sum_probs=136.9

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      ++....+|+++.|.+++++.|+..+.-           | ..| .+|||||||||||.+|+++|.++     ...++.++
T Consensus       140 ~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~-----~~~f~~v~  214 (405)
T 4b4t_J          140 EKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT-----DCKFIRVS  214 (405)
T ss_dssp             ECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH-----TCEEEEEE
T ss_pred             cCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh-----CCCceEEE
Confidence            333446999999999999999887642           2 223 39999999999999999999997     56777777


Q ss_pred             CCCCCC------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhc--
Q 017884          112 ASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT--  169 (364)
Q Consensus       112 ~~~~~~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~--  169 (364)
                      ++....      ...++..+......         .+.||+|||+|.+..              .....|+..|+...  
T Consensus       215 ~s~l~sk~vGese~~vr~lF~~Ar~~---------aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  285 (405)
T 4b4t_J          215 GAELVQKYIGEGSRMVRELFVMAREH---------APSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS  285 (405)
T ss_dssp             GGGGSCSSTTHHHHHHHHHHHHHHHT---------CSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCC
T ss_pred             hHHhhccccchHHHHHHHHHHHHHHh---------CCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCC
Confidence            654321      12333333322221         368999999999852              12455666677543  


Q ss_pred             cCccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHH
Q 017884          170 KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQS  245 (364)
Q Consensus       170 ~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~  245 (364)
                      .++.+|.+||.++.+++++.+  |+ ..++|+.|+.++..++++.++++.++. ++-.++.|++.+.| +...+.+++..
T Consensus       286 ~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~-~dvdl~~lA~~t~G~SGADi~~l~~e  364 (405)
T 4b4t_J          286 KNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLT-RGINLRKVAEKMNGCSGADVKGVCTE  364 (405)
T ss_dssp             CCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCC-SSCCHHHHHHHCCSCCHHHHHHHHHH
T ss_pred             CCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCC-ccCCHHHHHHHCCCCCHHHHHHHHHH
Confidence            345678889999999999988  77 789999999999999998887654432 12247888988865 33333333333


Q ss_pred             HHHh-----cccCchHHHHH
Q 017884          246 THMA-----SQQITEEAVYL  260 (364)
Q Consensus       246 ~~~~-----~~~i~~~~v~~  260 (364)
                      ++..     ...|+.+++..
T Consensus       365 A~~~Air~~~~~vt~~Df~~  384 (405)
T 4b4t_J          365 AGMYALRERRIHVTQEDFEL  384 (405)
T ss_dssp             HHHHHHHTTCSBCCHHHHHH
T ss_pred             HHHHHHHcCCCCcCHHHHHH
Confidence            3221     13566555543

>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=99.82  E-value=1.4e-19  Score=163.40  Aligned_cols=208  Identities=19%  Similarity=0.271  Sum_probs=144.7

Q ss_pred             cchhccHHHHHHHHHHHhc--------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC-
Q 017884           53 ADVAAHRDIVDTIDRLTSE--------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG-  117 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~--------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-  117 (364)
                      ++++|++.++..+...+..              ....+++|+||||+|||++|+++++.+.     ..++.+++..... 
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~-----~~~~~i~~~~~~~~   89 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN-----APFIKVEATKFTEV   89 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT-----CCEEEEEGGGGSSC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEcchhcccC
Confidence            3589999999998887754              2345599999999999999999999983     3456666543211 


Q ss_pred             --h-HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHH------------HHHHHHHHHHh----------ccCc
Q 017884          118 --I-DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA------------QFALRRVIEKY----------TKNT  172 (364)
Q Consensus       118 --~-~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~------------~~~L~~~le~~----------~~~~  172 (364)
                        . ......+.......+..+.....+.+|+|||+|.+....            ++.|+.++++.          ...+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~  169 (310)
T 1ofh_A           90 GYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHI  169 (310)
T ss_dssp             CSGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTC
T ss_pred             CccCccHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccccccCCcE
Confidence              0 000111222221111001100136799999999997544            88999999964          2345


Q ss_pred             cEEEEe----eccccCchhhhccc-eEEEecCCChHHHHHHHHH-----------HHHHcC--CCCCHHHHHHHHHHc--
Q 017884          173 RFALIC----NQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEG--LDVTEGGLAALVRLC--  232 (364)
Q Consensus       173 ~~Il~~----~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~--~~i~~~~~~~l~~~~--  232 (364)
                      .+|+++    +.+..+.+++.+|| ..+.|++|+.+++.+++..           .+...+  +.+++++++.|++++  
T Consensus       170 ~~i~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~  249 (310)
T 1ofh_A          170 LFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFR  249 (310)
T ss_dssp             EEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHH
T ss_pred             EEEEcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHhhh
Confidence            566664    35667889999999 5699999999999999882           233344  368999999999998  


Q ss_pred             ------CCCHHHHHHHHHHHHHh-----c---c---cCchHHHHHhcCCC
Q 017884          233 ------NGDMRKALNILQSTHMA-----S---Q---QITEEAVYLCTGNP  265 (364)
Q Consensus       233 ------~g~~r~a~~~l~~~~~~-----~---~---~i~~~~v~~~~~~~  265 (364)
                            +||+|.+.+.++.+...     .   +   .|+.++|..++...
T Consensus       250 ~~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~~  299 (310)
T 1ofh_A          250 VNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEV  299 (310)
T ss_dssp             HHHHSCCCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTCSS
T ss_pred             hcccccccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHHhh
Confidence                  79999999999876521     1   1   38888888877643

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.82  E-value=1.4e-18  Score=157.63  Aligned_cols=190  Identities=18%  Similarity=0.198  Sum_probs=139.9

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhc-----------CCC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSE-----------NRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      .++.+.+|++++|++.+++.|+..+..           ... .+++||||||+|||++|+++++.+.    ...++.+++
T Consensus         4 ~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~----~~~~~~i~~   79 (322)
T 1xwi_A            4 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN----NSTFFSISS   79 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT----SCEEEEEEC
T ss_pred             ecCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC----CCcEEEEEh
Confidence            345677999999999999999887741           122 3499999999999999999999962    345666666


Q ss_pred             CCCC------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHh---ccCc
Q 017884          113 SDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY---TKNT  172 (364)
Q Consensus       113 ~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~---~~~~  172 (364)
                      +...      ....++..+......         .+.+|+|||+|.+.           ....+.|+..++..   ...+
T Consensus        80 ~~l~~~~~g~~~~~~~~lf~~a~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v  150 (322)
T 1xwi_A           80 SDLVSKWLGESEKLVKNLFQLAREN---------KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGI  150 (322)
T ss_dssp             CSSCCSSCCSCHHHHHHHHHHHHHT---------SSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTE
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHHhc---------CCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCE
Confidence            5421      222333333222211         36799999999983           23456677777753   3456


Q ss_pred             cEEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHH
Q 017884          173 RFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTH  247 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~-~r~a~~~l~~~~  247 (364)
                      .+|.+||.++.+++++++|+ ..+.+++|+.++..+++...+...+..+++..++.|++.+.|- .+.+..+++.++
T Consensus       151 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A~  227 (322)
T 1xwi_A          151 LVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDAL  227 (322)
T ss_dssp             EEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHHH
T ss_pred             EEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            67778899999999999999 7899999999999999999988878788999999999999875 444444444433

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.81  E-value=1.7e-19  Score=164.68  Aligned_cols=211  Identities=15%  Similarity=0.155  Sum_probs=149.1

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      .+|.++++|..+++++|++.++..+...+..+  .+++|+||||+|||++++++++.+.     ..+..+++........
T Consensus        15 ~~~~~~~~~~~~~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~-----~~~~~i~~~~~~~~~~   87 (331)
T 2r44_A           15 RNKIKEVIDEVGKVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMD-----LDFHRIQFTPDLLPSD   87 (331)
T ss_dssp             HHHHHHHHHHHTTTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTT-----CCEEEEECCTTCCHHH
T ss_pred             HHHHHHHHHHhccceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhC-----CCeEEEecCCCCChhh
Confidence            36999999999999999999999998888775  4799999999999999999999873     3345555543222221


Q ss_pred             HHHHHHHHHhc---CccccCC-ccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeeccc---
Q 017884          121 VRQQIQDFAST---QSFSFGV-KASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQVN---  182 (364)
Q Consensus       121 ~~~~i~~~~~~---~~~~~~~-~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~~---  182 (364)
                      +   +......   ..+.+.. .-...+++|||++.+....++.|+..|++.           +..+.+|.++|...   
T Consensus        88 l---~g~~~~~~~~~~~~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~  164 (331)
T 2r44_A           88 L---IGTMIYNQHKGNFEVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEG  164 (331)
T ss_dssp             H---HEEEEEETTTTEEEEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSC
T ss_pred             c---CCceeecCCCCceEeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccC
Confidence            1   1100000   0000000 001369999999999999999999999974           33344444445322   


Q ss_pred             --cCchhhhccce-EEEecCCChHHHHHHHHHHHHH----------------------cCCCCCHHHHHHHHHHc-----
Q 017884          183 --KIIPALQSRCT-RFRFAPLEPVHVTERLKHVIEA----------------------EGLDVTEGGLAALVRLC-----  232 (364)
Q Consensus       183 --~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~----------------------~~~~i~~~~~~~l~~~~-----  232 (364)
                        .+.+++.+||. .+.+++|+.++..+++...+..                      .++.+++++++++++.+     
T Consensus       165 ~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~~~~r~  244 (331)
T 2r44_A          165 TYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELVFATRF  244 (331)
T ss_dssp             CCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHHHHHHS
T ss_pred             cccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhc
Confidence              37899999996 5999999999999999887654                      26778999999998764     


Q ss_pred             CC---------------CHHHHHHHHHHHHHhc-----ccCchHHHHHh
Q 017884          233 NG---------------DMRKALNILQSTHMAS-----QQITEEAVYLC  261 (364)
Q Consensus       233 ~g---------------~~r~a~~~l~~~~~~~-----~~i~~~~v~~~  261 (364)
                      .+               ++|.++++++.+...+     ..++.++|..+
T Consensus       245 ~~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~~  293 (331)
T 2r44_A          245 PAEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNNRDYVLPEDIKEV  293 (331)
T ss_dssp             GGGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHH
T ss_pred             cccccccccccccccCcChhHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence            22               6999988887654322     24666666543

>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=99.81  E-value=5.2e-18  Score=149.43  Aligned_cols=186  Identities=20%  Similarity=0.189  Sum_probs=127.5

Q ss_pred             CCCCcchhccHHHHHHHHHHHhc------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSE------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      +.+|++++|++.+++.+++++..            ....+++|+||||+|||++|+++++.+     ...++.+++....
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~~~~~~~~   76 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA-----QVPFLAMAGAEFV   76 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCCEEEEETTTTS
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEechHHHH
Confidence            35799999999999988777642            223348999999999999999999997     3456667665432


Q ss_pred             C------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH------------HHHHHHHHHHHH-----hccCcc
Q 017884          117 G------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK------------DAQFALRRVIEK-----YTKNTR  173 (364)
Q Consensus       117 ~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~------------~~~~~L~~~le~-----~~~~~~  173 (364)
                      .      ...+...+......         .+.+|+|||+|.+..            ..+..+..+++.     .+..+.
T Consensus        77 ~~~~~~~~~~~~~~~~~a~~~---------~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~  147 (262)
T 2qz4_A           77 EVIGGLGAARVRSLFKEARAR---------APCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVI  147 (262)
T ss_dssp             SSSTTHHHHHHHHHHHHHHHT---------CSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEE
T ss_pred             hhccChhHHHHHHHHHHHHhc---------CCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEE
Confidence            1      11222222222111         367999999999932            223344444443     233567


Q ss_pred             EEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCC-HHHHHHHHHHHHH
Q 017884          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGD-MRKALNILQSTHM  248 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-~~~l~~~~~g~-~r~a~~~l~~~~~  248 (364)
                      +|.++|.+..+++++.+  |+ ..+.|++|+.++..+++...+...+...+.+. ...++..+.|. .+.+.++++.+..
T Consensus       148 vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~  227 (262)
T 2qz4_A          148 VLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAAL  227 (262)
T ss_dssp             EEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHT
T ss_pred             EEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            78888888888899988  88 78999999999999999999998888777664 57888888764 4455566665543

>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=99.81  E-value=7.7e-19  Score=166.08  Aligned_cols=194  Identities=18%  Similarity=0.194  Sum_probs=141.4

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc-----------C-CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEE
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------N-RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~  108 (364)
                      ..+..++.+.+|++++|++.++..|...+..           . ...+++|+||||+|||++|+++++.+.    ...++
T Consensus       122 ~~i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~----~~~~~  197 (444)
T 2zan_A          122 GAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN----NSTFF  197 (444)
T ss_dssp             --CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC----SSEEE
T ss_pred             cceeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC----CCCEE
Confidence            3456678889999999999999999988731           1 223499999999999999999999962    34556


Q ss_pred             EEeCCCCCC------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHh---
Q 017884          109 ELNASDDRG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKY---  168 (364)
Q Consensus       109 ~~~~~~~~~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~---  168 (364)
                      .++++....      ...++..+......         .+.||+|||+|.+.           ....+.|+..++..   
T Consensus       198 ~v~~~~l~~~~~g~~~~~~~~~f~~a~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  268 (444)
T 2zan_A          198 SISSSDLVSKWLGESEKLVKNLFQLAREN---------KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVD  268 (444)
T ss_dssp             EECCC---------CCCTHHHHHHHHHHS---------CSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCC
T ss_pred             EEeHHHHHhhhcchHHHHHHHHHHHHHHc---------CCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccC
Confidence            666554211      11223322222111         36899999999983           23456677766653   


Q ss_pred             ccCccEEEEeeccccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q 017884          169 TKNTRFALICNQVNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (364)
Q Consensus       169 ~~~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~  246 (364)
                      +.++.+|.+||.+..+++++.+|| ..+.++.|+.++...++...+...+..+++..++.|+..+.| +.+.+..+++.+
T Consensus       269 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~a  348 (444)
T 2zan_A          269 NDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDA  348 (444)
T ss_dssp             CSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             CCCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            456778888999999999999999 689999999999999999988877777899999999999988 444555555444


Q ss_pred             H
Q 017884          247 H  247 (364)
Q Consensus       247 ~  247 (364)
                      .
T Consensus       349 ~  349 (444)
T 2zan_A          349 L  349 (444)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.80  E-value=1.6e-18  Score=154.75  Aligned_cols=206  Identities=18%  Similarity=0.235  Sum_probs=140.1

Q ss_pred             ccCCCCCcchhccHHHHHHHHHHHhc-------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           46 KYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        46 ~~~p~~~~~~vg~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      ...+.+|++++|++.+++.+...+..             ....+++|+||||+|||++++++++.+     ...++.+++
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~-----~~~~~~v~~   84 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET-----NATFIRVVG   84 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT-----TCEEEEEEG
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEeh
Confidence            34456899999999999999888753             233459999999999999999999997     445666655


Q ss_pred             CCCC--ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC-----------CHHHHHHHHHHHHHh-----ccCccE
Q 017884          113 SDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM-----------TKDAQFALRRVIEKY-----TKNTRF  174 (364)
Q Consensus       113 ~~~~--~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l-----------~~~~~~~L~~~le~~-----~~~~~~  174 (364)
                      ....  ........+........     ...+.+|+|||+|.+           ....+..+..+++..     ..++.+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~v  159 (285)
T 3h4m_A           85 SELVKKFIGEGASLVKDIFKLAK-----EKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKI  159 (285)
T ss_dssp             GGGCCCSTTHHHHHHHHHHHHHH-----HTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEE
T ss_pred             HHHHHhccchHHHHHHHHHHHHH-----HcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEE
Confidence            4321  11111222222111100     013579999999988           345566777766653     235678


Q ss_pred             EEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHHhc
Q 017884          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHMAS  250 (364)
Q Consensus       175 Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~~~~  250 (364)
                      |+++|.+..+.+.+.+  |+ ..+.|++|+.++..+++...+...+.. ++..+..++..+.| +.+.+..++..+...+
T Consensus       160 I~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a  238 (285)
T 3h4m_A          160 IGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLA-EDVNLEEIAKMTEGCVGAELKAICTEAGMNA  238 (285)
T ss_dssp             EEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCC-CcCCHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            8888989999999988  77 679999999999999999887765543 23346778888866 4555555554443322


Q ss_pred             -----ccCchHHHHHhc
Q 017884          251 -----QQITEEAVYLCT  262 (364)
Q Consensus       251 -----~~i~~~~v~~~~  262 (364)
                           ..|+.+++..++
T Consensus       239 ~~~~~~~I~~~d~~~al  255 (285)
T 3h4m_A          239 IRELRDYVTMDDFRKAV  255 (285)
T ss_dssp             HHTTCSSBCHHHHHHHH
T ss_pred             HHhccCcCCHHHHHHHH
Confidence                 357777776544

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.80  E-value=4.5e-18  Score=156.13  Aligned_cols=204  Identities=21%  Similarity=0.286  Sum_probs=137.3

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEE
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMIL  108 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~  108 (364)
                      +-.++-...+|+++.|.+++++.|+..+..           + ..| .+|||||||||||++|+++|.++     ...++
T Consensus       171 ~~~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~-----~~~fi  245 (437)
T 4b4t_I          171 MKMDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT-----SATFL  245 (437)
T ss_dssp             CEEESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH-----TCEEE
T ss_pred             eeeccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh-----CCCEE
Confidence            344555557999999999999999887641           2 223 39999999999999999999997     56777


Q ss_pred             EEeCCCCC----C--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHh
Q 017884          109 ELNASDDR----G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY  168 (364)
Q Consensus       109 ~~~~~~~~----~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~  168 (364)
                      .++++...    +  ...++..+......         .+.||+|||+|.+..              .....|+..|+..
T Consensus       246 ~v~~s~l~sk~vGesek~ir~lF~~Ar~~---------aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~  316 (437)
T 4b4t_I          246 RIVGSELIQKYLGDGPRLCRQIFKVAGEN---------APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF  316 (437)
T ss_dssp             EEESGGGCCSSSSHHHHHHHHHHHHHHHT---------CSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHC
T ss_pred             EEEHHHhhhccCchHHHHHHHHHHHHHhc---------CCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCc
Confidence            77765432    1  11233333322221         368999999998842              1234566666654


Q ss_pred             c--cCccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCC-CHHHHHH
Q 017884          169 T--KNTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNG-DMRKALN  241 (364)
Q Consensus       169 ~--~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g-~~r~a~~  241 (364)
                      .  .++.+|.+||.++.+++++.+  |+ ..++|+.|+.++..++++.++++..  ++++ .++.|++.+.| +...+.+
T Consensus       317 ~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~--l~~dvdl~~LA~~T~GfSGADI~~  394 (437)
T 4b4t_I          317 DDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN--LSEDVNLETLVTTKDDLSGADIQA  394 (437)
T ss_dssp             CCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC--BCSCCCHHHHHHHCCSCCHHHHHH
T ss_pred             CCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC--CCCcCCHHHHHHhCCCCCHHHHHH
Confidence            3  345688889999999999998  77 6799999999999999988876544  3332 37888888765 3333333


Q ss_pred             HHHHHHHh-----cccCchHHHHHh
Q 017884          242 ILQSTHMA-----SQQITEEAVYLC  261 (364)
Q Consensus       242 ~l~~~~~~-----~~~i~~~~v~~~  261 (364)
                      ++..++..     ...|+.+++..+
T Consensus       395 l~~eA~~~Air~~~~~It~eDf~~A  419 (437)
T 4b4t_I          395 MCTEAGLLALRERRMQVTAEDFKQA  419 (437)
T ss_dssp             HHHHHHHHHHHTTCSCBCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCccCHHHHHHH
Confidence            33333221     135666655443

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.79  E-value=7.1e-18  Score=156.87  Aligned_cols=199  Identities=19%  Similarity=0.250  Sum_probs=134.9

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ...+|+++.|.+++++.|+..+..           | .+| .+|||||||||||++|+++|+++     +..++.++++.
T Consensus       176 p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~-----~~~~~~v~~s~  250 (437)
T 4b4t_L          176 GEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI-----GANFIFSPASG  250 (437)
T ss_dssp             CSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEEEEEEGGG
T ss_pred             CCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEehhh
Confidence            345899999999999998887642           2 223 39999999999999999999998     56677777654


Q ss_pred             CC----Ch--HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhc--cCc
Q 017884          115 DR----GI--DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYT--KNT  172 (364)
Q Consensus       115 ~~----~~--~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~--~~~  172 (364)
                      ..    +.  ..++..+......         .+.||+|||+|.+..              .....|+..|+...  .++
T Consensus       251 l~sk~~Gese~~ir~~F~~A~~~---------~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~v  321 (437)
T 4b4t_L          251 IVDKYIGESARIIREMFAYAKEH---------EPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQT  321 (437)
T ss_dssp             TCCSSSSHHHHHHHHHHHHHHHS---------CSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSS
T ss_pred             hccccchHHHHHHHHHHHHHHhc---------CCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCe
Confidence            32    11  1222222222211         478999999998841              12456777777544  346


Q ss_pred             cEEEEeeccccCchhhhcc--c-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHH
Q 017884          173 RFALICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~~  248 (364)
                      .+|++||.++.+++++.++  + ..++|+.|+.++..++++.++.+.... ++-.++.|++.+.| +...+.+++..++.
T Consensus       322 ivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~d~dl~~lA~~t~G~sGADi~~l~~eA~~  400 (437)
T 4b4t_L          322 KIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKT-GEFDFEAAVKMSDGFNGADIRNCATEAGF  400 (437)
T ss_dssp             EEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBC-SCCCHHHHHHTCCSCCHHHHHHHHHHHHH
T ss_pred             EEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            7888999999999999886  4 579999999999999999888765432 22236788888765 33333333333222


Q ss_pred             h-----cccCchHHHHHh
Q 017884          249 A-----SQQITEEAVYLC  261 (364)
Q Consensus       249 ~-----~~~i~~~~v~~~  261 (364)
                      .     ...|+.+++..+
T Consensus       401 ~air~~~~~i~~~d~~~A  418 (437)
T 4b4t_L          401 FAIRDDRDHINPDDLMKA  418 (437)
T ss_dssp             HHHHTTCSSBCHHHHHHH
T ss_pred             HHHHcCCCCCCHHHHHHH
Confidence            1     235666655443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.79  E-value=2.7e-18  Score=159.54  Aligned_cols=204  Identities=20%  Similarity=0.278  Sum_probs=136.8

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHh-----------cC-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTS-----------EN-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~-----------~~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      ++-.+.+|+++.|.+++++.|+..+.           .| ..| .+|||||||||||++|+++|.++     +..++.++
T Consensus       173 ~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~-----~~~f~~v~  247 (434)
T 4b4t_M          173 DEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT-----NATFLKLA  247 (434)
T ss_dssp             ESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEEEEEE
T ss_pred             CCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh-----CCCEEEEe
Confidence            33345689999999999999887653           12 223 39999999999999999999998     56777777


Q ss_pred             CCCCC----C--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------H---HHHHHHHHHHHhcc-
Q 017884          112 ASDDR----G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKYTK-  170 (364)
Q Consensus       112 ~~~~~----~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~---~~~~L~~~le~~~~-  170 (364)
                      ++...    +  ...++..+......         .+.||+|||+|.+..           .   ....|+..|+.... 
T Consensus       248 ~s~l~~~~vGese~~ir~lF~~A~~~---------aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~  318 (434)
T 4b4t_M          248 APQLVQMYIGEGAKLVRDAFALAKEK---------APTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSD  318 (434)
T ss_dssp             GGGGCSSCSSHHHHHHHHHHHHHHHH---------CSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSS
T ss_pred             hhhhhhcccchHHHHHHHHHHHHHhc---------CCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCC
Confidence            65432    1  12233333222221         368999999998731           1   23456666665433 


Q ss_pred             -CccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHH
Q 017884          171 -NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQS  245 (364)
Q Consensus       171 -~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~  245 (364)
                       ++.+|.+||.++.+++++.+  |+ ..++|+.|+.++..++++.++++.... ++-.++.|++.+.| +...+.+++..
T Consensus       319 ~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~dvdl~~lA~~t~G~sGADi~~l~~e  397 (434)
T 4b4t_M          319 DRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTD-DDINWQELARSTDEFNGAQLKAVTVE  397 (434)
T ss_dssp             CSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBC-SCCCHHHHHHHCSSCCHHHHHHHHHH
T ss_pred             CCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCC-CcCCHHHHHHhCCCCCHHHHHHHHHH
Confidence             45677788999999999988  77 679999999999999999888765432 11236788888765 33333333333


Q ss_pred             HHH-----hcccCchHHHHHhcC
Q 017884          246 THM-----ASQQITEEAVYLCTG  263 (364)
Q Consensus       246 ~~~-----~~~~i~~~~v~~~~~  263 (364)
                      ++.     ....|+.+++..++.
T Consensus       398 A~~~a~r~~~~~i~~~Df~~Al~  420 (434)
T 4b4t_M          398 AGMIALRNGQSSVKHEDFVEGIS  420 (434)
T ss_dssp             HHHHHHHHTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHcCCCCcCHHHHHHHHH
Confidence            222     224677777665543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.78  E-value=1.6e-18  Score=164.97  Aligned_cols=195  Identities=16%  Similarity=0.236  Sum_probs=142.1

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCC
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNAS  113 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~  113 (364)
                      ...+|.++|+|..|++++|++..+..+...+.....++++|+||||+|||++++.+++.+.+..     ....++.+++.
T Consensus       166 ~~~~l~~~~r~~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~  245 (468)
T 3pxg_A          166 LARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG  245 (468)
T ss_dssp             SCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---
T ss_pred             HHHHHHHHHhcCCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC
Confidence            4568999999999999999999999999999888888899999999999999999999986532     13345555543


Q ss_pred             CC-CC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc-----cCc
Q 017884          114 DD-RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-----KII  185 (364)
Q Consensus       114 ~~-~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~-----~l~  185 (364)
                      .. .+  ...++..+......         ++.+++||    ...+.++.|+..|+.  ..+++|.+++...     .++
T Consensus       246 ~~~~g~~e~~~~~~~~~~~~~---------~~~iLfiD----~~~~a~~~L~~~L~~--g~v~vI~at~~~e~~~~~~~~  310 (468)
T 3pxg_A          246 TKYRGEFEDRLKKVMDEIRQA---------GNIILFID----AAIDASNILKPSLAR--GELQCIGATTLDEYRKYIEKD  310 (468)
T ss_dssp             -------CTTHHHHHHHHHTC---------CCCEEEEC----C--------CCCTTS--SSCEEEEECCTTTTHHHHTTC
T ss_pred             ccccchHHHHHHHHHHHHHhc---------CCeEEEEe----CchhHHHHHHHhhcC--CCEEEEecCCHHHHHHHhhcC
Confidence            11 01  12233333333221         36799999    444567778777763  3677888887665     578


Q ss_pred             hhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHHH
Q 017884          186 PALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (364)
Q Consensus       186 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~a~~~l~~~~~  248 (364)
                      +++.+||.++.|++|+.++...++...+.+    .++.++++++..++.++.+      -++.++++++..+.
T Consensus       311 ~al~~Rf~~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~  383 (468)
T 3pxg_A          311 AALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGS  383 (468)
T ss_dssp             SHHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHH
T ss_pred             HHHHHhCccceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHH
Confidence            999999999999999999999999988766    6889999999999988743      36689988876653

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.78  E-value=9.6e-18  Score=155.45  Aligned_cols=170  Identities=22%  Similarity=0.374  Sum_probs=121.5

Q ss_pred             CCCcchhccHHHHHHHHHHHhc-----------C-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           50 QSLADVAAHRDIVDTIDRLTSE-----------N-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      .+|+++.|.+++++.|+..+.-           | ..|. +|||||||||||++|+++|+++     ...++.++++...
T Consensus       206 vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~-----~~~fi~vs~s~L~  280 (467)
T 4b4t_H          206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT-----DATFIRVIGSELV  280 (467)
T ss_dssp             CCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH-----TCEEEEEEGGGGC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CCCeEEEEhHHhh
Confidence            5899999999999999887531           2 2333 9999999999999999999998     5667777765432


Q ss_pred             ----C--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------H---HHHHHHHHHHHhc--cCccE
Q 017884          117 ----G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKYT--KNTRF  174 (364)
Q Consensus       117 ----~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~---~~~~L~~~le~~~--~~~~~  174 (364)
                          +  ...++..+......         .+.||+|||+|.+..           .   ....|+..|+...  ..+.+
T Consensus       281 sk~vGesek~ir~lF~~Ar~~---------aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViV  351 (467)
T 4b4t_H          281 QKYVGEGARMVRELFEMARTK---------KACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKV  351 (467)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHT---------CSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEE
T ss_pred             cccCCHHHHHHHHHHHHHHhc---------CCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEE
Confidence                1  12233333322221         368999999999842           1   2344555555433  34567


Q ss_pred             EEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       175 Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      |++||.++.+++++++  |+ ..++|+.|+.++..++++.++++..+. .+-.++.|++.+.|
T Consensus       352 IaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~-~dvdl~~LA~~T~G  413 (467)
T 4b4t_H          352 MFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVE-RGIRWELISRLCPN  413 (467)
T ss_dssp             EEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHHCCS
T ss_pred             EeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHHCCC
Confidence            8888999999999988  77 789999999999999998887654332 11236778888865

>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=99.78  E-value=1.8e-18  Score=159.04  Aligned_cols=216  Identities=15%  Similarity=0.160  Sum_probs=139.6

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC----CCCC---------------
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA----QYHN---------------  105 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~----~~~~---------------  105 (364)
                      ..-+|.+|++++|++.++..+..........+++|+||||+|||++|+++++.+...    +...               
T Consensus        16 ~~~~~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (350)
T 1g8p_A           16 KTRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVL   95 (350)
T ss_dssp             --CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCS
T ss_pred             CCCCCCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhh
Confidence            344678899999999988776665554445679999999999999999999987421    0000               


Q ss_pred             ---------cEEEEeCCCCCChHHH------HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh--
Q 017884          106 ---------MILELNASDDRGIDVV------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY--  168 (364)
Q Consensus       106 ---------~~~~~~~~~~~~~~~~------~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~--  168 (364)
                               .++.+...  .....+      ...+...........-....+++++|||++.++...++.|+.++++.  
T Consensus        96 ~~~~~~~~~~~~~~~~~--~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~  173 (350)
T 1g8p_A           96 STNVIRKPTPVVDLPLG--VSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGEN  173 (350)
T ss_dssp             CCCEEEECCCEEEECTT--CCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEE
T ss_pred             ccccccCCCcccccCCC--cchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCce
Confidence                     11111111  011111      11111110000000000113679999999999999999999999974  


Q ss_pred             -----------ccCccEEEEeeccc-cCchhhhccceE-EEecCCChH-HHHHHHHHH----------------------
Q 017884          169 -----------TKNTRFALICNQVN-KIIPALQSRCTR-FRFAPLEPV-HVTERLKHV----------------------  212 (364)
Q Consensus       169 -----------~~~~~~Il~~~~~~-~l~~~l~sr~~~-i~~~~~~~~-~~~~~l~~~----------------------  212 (364)
                                 +.++.+|.++|... .+.+++.+||.. +.+++|+.. +..+++...                      
T Consensus       174 ~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~  253 (350)
T 1g8p_A          174 VVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIR  253 (350)
T ss_dssp             EECCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHH
T ss_pred             EEEecceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHH
Confidence                       23556667777534 788999999954 999999654 333555441                      


Q ss_pred             -------HHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHHHHHhc-----ccCchHHHHHhc
Q 017884          213 -------IEAEGLDVTEGGLAALVRLCNG----DMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (364)
Q Consensus       213 -------~~~~~~~i~~~~~~~l~~~~~g----~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~  262 (364)
                             ....++.++++++++|++++.+    ++|.+.+.++.+...+     ..|+.+++..++
T Consensus       254 ~~i~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~~~~v~~~~v~~a~  319 (350)
T 1g8p_A          254 NQILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRVA  319 (350)
T ss_dssp             HHHHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHH
Confidence                   2234668999999999998865    8999999997655432     357777776543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.76  E-value=4.2e-17  Score=151.48  Aligned_cols=198  Identities=21%  Similarity=0.286  Sum_probs=133.6

Q ss_pred             CCCCcchhccHHHHHHHHHHHhc-----------C-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSE-----------N-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ..+|+++.|.+++++.|+..+..           | ..|. +|||||||||||++|+++|+++     +..++.++++..
T Consensus       168 ~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~-----~~~~~~v~~~~l  242 (428)
T 4b4t_K          168 DVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST-----KAAFIRVNGSEF  242 (428)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH-----TCEEEEEEGGGT
T ss_pred             CCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCeEEEecchh
Confidence            35899999999999998887641           2 2233 9999999999999999999998     567777776543


Q ss_pred             CC------hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC--------------HHHHHHHHHHHHHhc--cCcc
Q 017884          116 RG------IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------------KDAQFALRRVIEKYT--KNTR  173 (364)
Q Consensus       116 ~~------~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~--------------~~~~~~L~~~le~~~--~~~~  173 (364)
                      .+      ...++..+......         .+.|++|||+|.+.              ......|+..|+...  .++.
T Consensus       243 ~~~~~Ge~e~~ir~lF~~A~~~---------aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~  313 (428)
T 4b4t_K          243 VHKYLGEGPRMVRDVFRLAREN---------APSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVK  313 (428)
T ss_dssp             CCSSCSHHHHHHHHHHHHHHHT---------CSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEE
T ss_pred             hccccchhHHHHHHHHHHHHHc---------CCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEE
Confidence            21      12333333322221         36899999998762              123566778888653  3456


Q ss_pred             EEEEeeccccCchhhhc--cc-eEEEec-CCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHH
Q 017884          174 FALICNQVNKIIPALQS--RC-TRFRFA-PLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM  248 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l~s--r~-~~i~~~-~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~~  248 (364)
                      +|++||.++.+++++.+  |+ ..++|+ .|+.++...+++.++++.++. ++..++.|+..+.| +...+.+++..++.
T Consensus       314 vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~-~~~dl~~lA~~t~G~sgadi~~l~~eA~~  392 (428)
T 4b4t_K          314 VIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLA-PEADLDSLIIRNDSLSGAVIAAIMQEAGL  392 (428)
T ss_dssp             EEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBC-TTCCHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             EEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            78889999999999988  66 568896 677888888888887755432 22237888888765 33333333333322


Q ss_pred             h-----cccCchHHHHHh
Q 017884          249 A-----SQQITEEAVYLC  261 (364)
Q Consensus       249 ~-----~~~i~~~~v~~~  261 (364)
                      .     ...|+.+++..+
T Consensus       393 ~a~r~~~~~i~~~d~~~A  410 (428)
T 4b4t_K          393 RAVRKNRYVILQSDLEEA  410 (428)
T ss_dssp             HHHHTTCSSBCHHHHHHH
T ss_pred             HHHHCCCCCCCHHHHHHH
Confidence            1     235666666544

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.76  E-value=7.1e-18  Score=152.44  Aligned_cols=186  Identities=16%  Similarity=0.245  Sum_probs=138.7

Q ss_pred             cchhccHHHHHHHHHHHhcCC--------C-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHH
Q 017884           53 ADVAAHRDIVDTIDRLTSENR--------L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQ  123 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~--------~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  123 (364)
                      ++++|++.+++.+...+..+.        + .+++|+||||+|||++|+++++.+.+.+.  .++.+++...........
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~--~~~~~~~~~~~~~~~~~~   94 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEE--AMIRIDMTEYMEKHAVSR   94 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGG--GEEEEEGGGCCSTTHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCc--ceEEeecccccccccHHH
Confidence            458899999998888877542        1 24899999999999999999999865433  345555543222111111


Q ss_pred             H---------------HHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEE
Q 017884          124 Q---------------IQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (364)
Q Consensus       124 ~---------------i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~  177 (364)
                      .               +......        ..+++++|||++.++...++.|++++++..           .++.+|++
T Consensus        95 l~g~~~~~~~~~~~~~~~~~~~~--------~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~t  166 (311)
T 4fcw_A           95 LIGAPPGYVGYEEGGQLTEAVRR--------RPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMT  166 (311)
T ss_dssp             HHCCCTTSTTTTTCCHHHHHHHH--------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEE
T ss_pred             hcCCCCccccccccchHHHHHHh--------CCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEe
Confidence            1               1111111        135799999999999999999999999865           25558888


Q ss_pred             eec--------------------------cccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHc---------CCCCC
Q 017884          178 CNQ--------------------------VNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVT  221 (364)
Q Consensus       178 ~~~--------------------------~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~i~  221 (364)
                      +|.                          ...+.+++.+|+ .++.|.||+.+++..++...+.+.         ...++
T Consensus       167 tn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~  246 (311)
T 4fcw_A          167 SNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKRISLELT  246 (311)
T ss_dssp             ESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTTCEEEEC
T ss_pred             cccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCCcEEEeC
Confidence            887                          446788899999 789999999999999888866542         45689


Q ss_pred             HHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q 017884          222 EGGLAALVRLC---NGDMRKALNILQSTHM  248 (364)
Q Consensus       222 ~~~~~~l~~~~---~g~~r~a~~~l~~~~~  248 (364)
                      +++++.|+++.   +||+|.+.+.++.+..
T Consensus       247 ~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~  276 (311)
T 4fcw_A          247 EAAKDFLAERGYDPVFGARPLRRVIQRELE  276 (311)
T ss_dssp             HHHHHHHHHHSCBTTTBTTTHHHHHHHHTH
T ss_pred             HHHHHHHHHhCCCccCCchhHHHHHHHHHH
Confidence            99999999975   5999999999887654

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.75  E-value=3.4e-18  Score=142.96  Aligned_cols=164  Identities=14%  Similarity=0.178  Sum_probs=117.8

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-----CCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~  114 (364)
                      ..+|.++|+|..|++++|+++.+..+...+..+...+++|+||+|+|||++++.+++.+.+...     ...++.+++..
T Consensus         9 ~~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (195)
T 1jbk_A            9 TIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA   88 (195)
T ss_dssp             EEEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH
T ss_pred             hHHHHHHHhhccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH
Confidence            3579999999999999999999999999998877777999999999999999999999854221     23444554321


Q ss_pred             ----CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------HHHHHHHHHHHhccCccEEEEeeccc
Q 017884          115 ----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       115 ----~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                          ..........+........    ...++.+|+|||+|.+...        .++.|..+++.  .++.+|++++...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~--~~~~~i~~~~~~~  162 (195)
T 1jbk_A           89 LVAGAKYRGEFEERLKGVLNDLA----KQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDE  162 (195)
T ss_dssp             HHTTTCSHHHHHHHHHHHHHHHH----HSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHH
T ss_pred             HhccCCccccHHHHHHHHHHHHh----hcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc--CCeEEEEeCCHHH
Confidence                1112222223333222110    0113679999999999632        25666666654  3677888887665


Q ss_pred             -----cCchhhhccceEEEecCCChHHHHHHH
Q 017884          183 -----KIIPALQSRCTRFRFAPLEPVHVTERL  209 (364)
Q Consensus       183 -----~l~~~l~sr~~~i~~~~~~~~~~~~~l  209 (364)
                           .+.+++.+||..+.|++|+.++..+++
T Consensus       163 ~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          163 YRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence                 678999999989999999999887664

>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=99.75  E-value=5.7e-17  Score=153.07  Aligned_cols=199  Identities=21%  Similarity=0.298  Sum_probs=140.0

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhc-----------CCCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSE-----------NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~-----------~~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      .+.+|++++|++.++..++..+..           ...| +++|+||||+|||+++++++...     ...++.++++..
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~-----~~~f~~is~~~~   85 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA-----NVPFFHISGSDF   85 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGGT
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCeeeCCHHHH
Confidence            345899999999999988877642           1233 49999999999999999999987     345666665442


Q ss_pred             C----C--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHh--ccCcc
Q 017884          116 R----G--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKY--TKNTR  173 (364)
Q Consensus       116 ~----~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~--~~~~~  173 (364)
                      .    +  ...++..+......         .+.+|+|||+|.+..              ..++.|+..|+..  ...+.
T Consensus        86 ~~~~~g~~~~~~r~lf~~A~~~---------~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~vi  156 (476)
T 2ce7_A           86 VELFVGVGAARVRDLFAQAKAH---------APCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGII  156 (476)
T ss_dssp             TTCCTTHHHHHHHHHHHHHHHT---------CSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEE
T ss_pred             HHHHhcccHHHHHHHHHHHHhc---------CCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEE
Confidence            2    1  12233333332211         368999999999853              2356677777643  34567


Q ss_pred             EEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHcCCCH-HHHHHHHHHHHH
Q 017884          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEG-GLAALVRLCNGDM-RKALNILQSTHM  248 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g~~-r~a~~~l~~~~~  248 (364)
                      +|.+||.++.+++++.+  |+ ..+.+++|+.++..++++..++..+  +.++ .+..++..+.|+. +.+.++++.++.
T Consensus       157 VIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~--l~~~v~l~~la~~t~G~sgadL~~lv~~Aal  234 (476)
T 2ce7_A          157 VMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKP--LAEDVNLEIIAKRTPGFVGADLENLVNEAAL  234 (476)
T ss_dssp             EEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHHHHHHHHHHHH
T ss_pred             EEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCC--CcchhhHHHHHHhcCCCcHHHHHHHHHHHHH
Confidence            78888888888888876  66 5789999999999999987776543  3333 3778999998877 667777765544


Q ss_pred             hc-----ccCchHHHHHhc
Q 017884          249 AS-----QQITEEAVYLCT  262 (364)
Q Consensus       249 ~~-----~~i~~~~v~~~~  262 (364)
                      .+     ..|+.+++..++
T Consensus       235 ~A~~~~~~~I~~~dl~~al  253 (476)
T 2ce7_A          235 LAAREGRDKITMKDFEEAI  253 (476)
T ss_dssp             HHHHTTCSSBCHHHHHHHH
T ss_pred             HHHHcCCCeecHHHHHHHH
Confidence            32     468888876654

>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=99.75  E-value=3.4e-17  Score=147.21  Aligned_cols=187  Identities=19%  Similarity=0.240  Sum_probs=129.2

Q ss_pred             ccCCCCCcchhccHHHHHHHHHHHhc-----------C-CC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           46 KYRPQSLADVAAHRDIVDTIDRLTSE-----------N-RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        46 ~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      ++.+.+|++++|.+.+++.|+.++..           + .. .+++|+||||+|||++|+++++.+     ...++.+++
T Consensus         8 ~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~-----~~~~i~v~~   82 (301)
T 3cf0_A            8 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKG   82 (301)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT-----TCEEEEECH
T ss_pred             cCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh-----CCCEEEEEh
Confidence            45667899999999999999888753           1 22 349999999999999999999987     345666654


Q ss_pred             CCC------CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------------HHHHHHHHHHHh--cc
Q 017884          113 SDD------RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY--TK  170 (364)
Q Consensus       113 ~~~------~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------------~~~~L~~~le~~--~~  170 (364)
                      ...      .....++..+......         .+.+++|||+|.+...              .++.|+..++..  ..
T Consensus        83 ~~l~~~~~g~~~~~~~~~f~~a~~~---------~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  153 (301)
T 3cf0_A           83 PELLTMWFGESEANVREIFDKARQA---------APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  153 (301)
T ss_dssp             HHHHHHHHTTCTTHHHHHHHHHHHT---------CSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTS
T ss_pred             HHHHhhhcCchHHHHHHHHHHHHhc---------CCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCC
Confidence            321      0111222322222111         3679999999987543              357788888753  34


Q ss_pred             CccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Q 017884          171 NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQST  246 (364)
Q Consensus       171 ~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~  246 (364)
                      ++.+|.+||.++.+.+++.+  |+ ..+.+++|+.++..+++...+++.+.. .+..++.++..+.| ..+.+.++++.+
T Consensus       154 ~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~-~~~~~~~la~~~~g~sg~dl~~l~~~a  232 (301)
T 3cf0_A          154 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRA  232 (301)
T ss_dssp             SEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHTCSSCCHHHHHHHHHHH
T ss_pred             CEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCC-ccchHHHHHHHcCCCCHHHHHHHHHHH
Confidence            56788888999899999888  77 679999999999999999888766542 22234566666644 233444444444


Q ss_pred             H
Q 017884          247 H  247 (364)
Q Consensus       247 ~  247 (364)
                      .
T Consensus       233 ~  233 (301)
T 3cf0_A          233 C  233 (301)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.74  E-value=6.4e-18  Score=172.32  Aligned_cols=203  Identities=14%  Similarity=0.188  Sum_probs=141.1

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCC
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD  114 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~  114 (364)
                      ..+|.++|+|..|++++|++..+..+...+..+..++++|+||||+|||++++.+++.+.+..     ....++.+++..
T Consensus       157 ~~~l~~~~r~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~  236 (854)
T 1qvr_A          157 GIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS  236 (854)
T ss_dssp             EEEHHHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--
T ss_pred             HHhHHHHHhcCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHH
Confidence            357899999999999999999999999999888778899999999999999999999985422     144566666543


Q ss_pred             CCC----hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC--------HHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          115 DRG----IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT--------KDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       115 ~~~----~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~--------~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ...    .......+.........  .  .++.+++|||+|.+.        ....+.|..+++.  ....+|.+++...
T Consensus       237 l~~g~~~~g~~~~~l~~~~~~~~~--~--~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at~~~~  310 (854)
T 1qvr_A          237 LLAGAKYRGEFEERLKAVIQEVVQ--S--QGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDE  310 (854)
T ss_dssp             ---------CHHHHHHHHHHHHHT--T--CSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHH
T ss_pred             hhccCccchHHHHHHHHHHHHHHh--c--CCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEecCchH
Confidence            211    11122222222211100  0  136799999999996        3445667777764  3566777776543


Q ss_pred             ----cCchhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHHHHHHHH
Q 017884          183 ----KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNILQSTHM  248 (364)
Q Consensus       183 ----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~a~~~l~~~~~  248 (364)
                          .+.+++.+||..+.|++|+.++...++...+..    .++.++++++..++..++|      -+.+++++++.++.
T Consensus       311 ~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~lldea~a  390 (854)
T 1qvr_A          311 YREIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAA  390 (854)
T ss_dssp             HHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHH
T ss_pred             HhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHHHHHHHHHH
Confidence                468899999999999999999999999876653    4788999999999988743      38888888876654

>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=99.73  E-value=7e-17  Score=142.53  Aligned_cols=204  Identities=16%  Similarity=0.147  Sum_probs=134.7

Q ss_pred             CCcchhccHHHHHHHHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      +|++++|+...+..+...+..  ....+++|+||+|+|||++|+++++.....  ...++.++++... .+.+...+...
T Consensus         4 ~f~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~--~~~~~~v~~~~~~-~~~~~~~l~g~   80 (265)
T 2bjv_A            4 YKDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAALN-ENLLDSELFGH   80 (265)
T ss_dssp             ------CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTT--TSCEEEEEGGGSC-HHHHHHHHHCC
T ss_pred             ccccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCcc--CCCeEEEecCCCC-hhHHHHHhcCC
Confidence            688999999888877766553  223459999999999999999999886432  3456777776532 22222221100


Q ss_pred             -----Hhc---CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeecc-------c
Q 017884          129 -----AST---QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV-------N  182 (364)
Q Consensus       129 -----~~~---~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~-------~  182 (364)
                           ...   ....+. ...+++|+|||++.++...++.|+.++++.           +.++++|+++|..       .
T Consensus        81 ~~~~~~g~~~~~~~~l~-~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~  159 (265)
T 2bjv_A           81 EAGAFTGAQKRHPGRFE-RADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEG  159 (265)
T ss_dssp             C---------CCCCHHH-HTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHHHT
T ss_pred             cccccccccccccchhh-hcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHHcC
Confidence                 000   000000 013579999999999999999999999974           3467888888763       2


Q ss_pred             cCchhhhccce--EEEecCCCh--HHHHHHH----HHHHHHcCC----CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHh
Q 017884          183 KIIPALQSRCT--RFRFAPLEP--VHVTERL----KHVIEAEGL----DVTEGGLAALVRLC-NGDMRKALNILQSTHMA  249 (364)
Q Consensus       183 ~l~~~l~sr~~--~i~~~~~~~--~~~~~~l----~~~~~~~~~----~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~  249 (364)
                      .+.+.+.+|+.  .+.++|+..  +++..++    ...+...+.    .+++++++.|..+. .||+|.+.+.++.+...
T Consensus       160 ~~~~~L~~Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L~~~~~~gn~reL~~~l~~~~~~  239 (265)
T 2bjv_A          160 TFRADLLDALAFDVVQLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYR  239 (265)
T ss_dssp             SSCHHHHHHHCSEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHHHHSCCTTHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHhhcCcEEeCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHh
Confidence            46688889973  577788775  4555444    444444554    68999999998775 89999999999887654


Q ss_pred             c--ccCchHHH
Q 017884          250 S--QQITEEAV  258 (364)
Q Consensus       250 ~--~~i~~~~v  258 (364)
                      .  ..|+.+++
T Consensus       240 ~~~~~i~~~~l  250 (265)
T 2bjv_A          240 HGTSDYPLDDI  250 (265)
T ss_dssp             HCCSSSCBCCC
T ss_pred             CCCCcCcHHHc
Confidence            3  35766665

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.72  E-value=1.4e-17  Score=138.63  Aligned_cols=158  Identities=15%  Similarity=0.160  Sum_probs=111.4

Q ss_pred             CCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeC
Q 017884           38 IKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNA  112 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~  112 (364)
                      ....+|.++|+|..|++++|++..+..+...+.....++++|+||+|+|||++++.+++.+.+..     ....++.++.
T Consensus         7 ~~~~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (187)
T 2p65_A            7 KYSRDLTALARAGKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDL   86 (187)
T ss_dssp             TTEEEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECH
T ss_pred             HHHHHHHHHHhccccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeH
Confidence            34568999999999999999999999999999887777799999999999999999999985522     1334444443


Q ss_pred             CCC----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC---------HHHHHHHHHHHHHhccCccEEEEee
Q 017884          113 SDD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       113 ~~~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~---------~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ...    .........+........    ...++.+++|||++.+.         ....+.|...++.  ..+.+|++++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~--~~~~ii~~~~  160 (187)
T 2p65_A           87 SSLIAGAKYRGDFEERLKSILKEVQ----DAEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLAR--GELRCIGATT  160 (187)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHH----HTTTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHT--TCSCEEEEEC
T ss_pred             HHhhcCCCchhHHHHHHHHHHHHHH----hcCCceEEEEeCHHHhcccccccccchHHHHHHHHHHhc--CCeeEEEecC
Confidence            211    111222222222221111    00136799999999996         3445667666654  4577888887


Q ss_pred             ccc-----cCchhhhccceEEEecCCC
Q 017884          180 QVN-----KIIPALQSRCTRFRFAPLE  201 (364)
Q Consensus       180 ~~~-----~l~~~l~sr~~~i~~~~~~  201 (364)
                      ...     .+.+++.+||..+.+++|+
T Consensus       161 ~~~~~~~~~~~~~l~~R~~~i~i~~p~  187 (187)
T 2p65_A          161 VSEYRQFIEKDKALERRFQQILVEQPS  187 (187)
T ss_dssp             HHHHHHHTTTCHHHHHHEEEEECCSCC
T ss_pred             HHHHHHHHhccHHHHHhcCcccCCCCC
Confidence            654     5789999999989998875

>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=99.71  E-value=5.2e-17  Score=157.10  Aligned_cols=203  Identities=20%  Similarity=0.258  Sum_probs=136.5

Q ss_pred             CcchhccHHHHHHHHHHHh------cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH----
Q 017884           52 LADVAAHRDIVDTIDRLTS------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV----  121 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~------~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~----  121 (364)
                      .++++|.+++...+...+.      ....++++|+||||+|||+++++++..+     ...+..+++.........    
T Consensus        80 ~~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l-----~~~~~~i~~~~~~~~~~~~g~~  154 (543)
T 3m6a_A           80 DEEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL-----GRKFVRISLGGVRDESEIRGHR  154 (543)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH-----TCEEEEECCCC-----------
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEecccchhhhhhhHH
Confidence            4568999999887765543      1234458999999999999999999998     334555554332111111    


Q ss_pred             -------HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH----HHHHHHHHHHHhc---------------cCccEE
Q 017884          122 -------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD----AQFALRRVIEKYT---------------KNTRFA  175 (364)
Q Consensus       122 -------~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~----~~~~L~~~le~~~---------------~~~~~I  175 (364)
                             ...+.......    ..  ...+++|||++.+...    .++.|++.|+...               .++.+|
T Consensus       155 ~~~ig~~~~~~~~~~~~a----~~--~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI  228 (543)
T 3m6a_A          155 RTYVGAMPGRIIQGMKKA----GK--LNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFI  228 (543)
T ss_dssp             ---------CHHHHHHTT----CS--SSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEE
T ss_pred             HHHhccCchHHHHHHHHh----hc--cCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEE
Confidence                   11111111110    01  2449999999999876    4578888886432               456788


Q ss_pred             EEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHH-----Hc-----CCCCCHHHHHHHHHHc--CCCHHHHHHHH
Q 017884          176 LICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE-----AE-----GLDVTEGGLAALVRLC--NGDMRKALNIL  243 (364)
Q Consensus       176 l~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~-----~~-----~~~i~~~~~~~l~~~~--~g~~r~a~~~l  243 (364)
                      +++|....+++++++||.++.|++|+.++...++...+.     ..     ++.++++++..++..+  .|++|.+.+.+
T Consensus       229 ~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~vR~L~~~i  308 (543)
T 3m6a_A          229 ATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAGVRSLERQL  308 (543)
T ss_dssp             EECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSSSHHHHHHH
T ss_pred             eccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhchhHHHHHH
Confidence            888999999999999999999999999999988887652     22     4567899999988744  37888888777


Q ss_pred             HHHHHhc-----------ccCchHHHHHhcCCC
Q 017884          244 QSTHMAS-----------QQITEEAVYLCTGNP  265 (364)
Q Consensus       244 ~~~~~~~-----------~~i~~~~v~~~~~~~  265 (364)
                      +.++...           ..|+.+++.+.++..
T Consensus       309 ~~~~~~aa~~~~~~~~~~~~It~~~l~~~Lg~~  341 (543)
T 3m6a_A          309 AAICRKAAKAIVAEERKRITVTEKNLQDFIGKR  341 (543)
T ss_dssp             HHHHHHHHHHHHTTCCSCCEECTTTTHHHHCSC
T ss_pred             HHHHHHHHHHHHhcCCcceecCHHHHHHHhCCc
Confidence            6544321           157788887776543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.71  E-value=6.8e-17  Score=162.97  Aligned_cols=195  Identities=15%  Similarity=0.204  Sum_probs=141.7

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCC
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNAS  113 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~  113 (364)
                      ...+|.++++|..+++++|++..+..+...+.....++++|+||||+|||++|+++++.+.+..     ....++.++..
T Consensus       166 ~~~~l~~~~~~~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g  245 (758)
T 3pxi_A          166 LARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG  245 (758)
T ss_dssp             SCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---
T ss_pred             HHHHHHHHHhhCCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEeccc
Confidence            3568999999999999999999999999999988888899999999999999999999985432     12334444431


Q ss_pred             CC-C--ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc-----cCc
Q 017884          114 DD-R--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-----KII  185 (364)
Q Consensus       114 ~~-~--~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~-----~l~  185 (364)
                      .. .  ....++..+......         ++.+++||    ...+.++.|+..++  ...+++|.+|+...     .+.
T Consensus       246 ~~~~G~~e~~l~~~~~~~~~~---------~~~iLfiD----~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d  310 (758)
T 3pxi_A          246 TKYRGEFEDRLKKVMDEIRQA---------GNIILFID----AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKD  310 (758)
T ss_dssp             -------CTTHHHHHHHHHTC---------CCCEEEEC----C--------CCCTT--SSSCEEEEECCTTTTHHHHTTC
T ss_pred             ccccchHHHHHHHHHHHHHhc---------CCEEEEEc----CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhcc
Confidence            10 0  111334434433221         46799999    34456777877777  34677888887666     688


Q ss_pred             hhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHHH
Q 017884          186 PALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (364)
Q Consensus       186 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~------g~~r~a~~~l~~~~~  248 (364)
                      +++.+||..+.|++|+.++...++...+..    .++.++++++..++.++.      ..++.++.+++.++.
T Consensus       311 ~al~rRf~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a~~  383 (758)
T 3pxi_A          311 AALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGS  383 (758)
T ss_dssp             SHHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHH
T ss_pred             HHHHhhCcEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHHHH
Confidence            999999999999999999999999977665    578899999999998763      346788888876543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.71  E-value=1.5e-16  Score=160.65  Aligned_cols=220  Identities=12%  Similarity=0.128  Sum_probs=153.0

Q ss_pred             CCCCCCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-----CCcEEEE
Q 017884           36 PDIKASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILEL  110 (364)
Q Consensus        36 ~~~~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~  110 (364)
                      ......+|.++++|..|++++|++..+..+.+.+......+++|+||||+|||++++.+++.+.+...     ...++.+
T Consensus       169 l~~~~~~l~~~~~~~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~  248 (758)
T 1r6b_X          169 LENFTTNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL  248 (758)
T ss_dssp             CCSSSCBHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEEC
T ss_pred             HHHHhHhHHHHHhcCCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEE
Confidence            34456789999999999999999999999999998887788999999999999999999999854332     2233333


Q ss_pred             eCCCC----CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC---------HHHHHHHHHHHHHhccCccEEEE
Q 017884          111 NASDD----RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT---------KDAQFALRRVIEKYTKNTRFALI  177 (364)
Q Consensus       111 ~~~~~----~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~---------~~~~~~L~~~le~~~~~~~~Il~  177 (364)
                      +....    .........+........   .  ..+.+++|||+|.+.         .+..+.|..+++.  ....+|.+
T Consensus       249 ~~~~l~~~~~~~g~~e~~l~~~~~~~~---~--~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~--~~~~~I~a  321 (758)
T 1r6b_X          249 DIGSLLAGTKYRGDFEKRFKALLKQLE---Q--DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGS  321 (758)
T ss_dssp             CCC---CCCCCSSCHHHHHHHHHHHHS---S--SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEE
T ss_pred             cHHHHhccccccchHHHHHHHHHHHHH---h--cCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC--CCeEEEEE
Confidence            32211    011122223333222111   1  136899999999993         2234444444442  35667777


Q ss_pred             eeccc-----cCchhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHcCC------CHHHHHHH
Q 017884          178 CNQVN-----KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLCNG------DMRKALNI  242 (364)
Q Consensus       178 ~~~~~-----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~a~~~  242 (364)
                      ++...     ..++++.+||..+.|++|+.++..+++...+..    .++.++++++..++..+.|      .+..+++.
T Consensus       322 t~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~~i~l  401 (758)
T 1r6b_X          322 TTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDV  401 (758)
T ss_dssp             ECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHH
T ss_pred             eCchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchHHHHH
Confidence            76432     456889999999999999999999999887765    5888999999999887643      45677777


Q ss_pred             HHHHHHh---------cccCchHHHHHhc
Q 017884          243 LQSTHMA---------SQQITEEAVYLCT  262 (364)
Q Consensus       243 l~~~~~~---------~~~i~~~~v~~~~  262 (364)
                      ++.+...         ...++.+++..++
T Consensus       402 ld~a~~~~~~~~~~~~~~~v~~~di~~~~  430 (758)
T 1r6b_X          402 IDEAGARARLMPVSKRKKTVNVADIESVV  430 (758)
T ss_dssp             HHHHHHHHHHSSSCCCCCSCCHHHHHHHH
T ss_pred             HHHHHHHHhcccccccCCccCHHHHHHHH
Confidence            7655432         1357777776553

>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=99.70  E-value=8.5e-17  Score=142.54  Aligned_cols=183  Identities=14%  Similarity=0.214  Sum_probs=116.3

Q ss_pred             cchhccHHHHHHHHH-------HHh---cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC---ChH
Q 017884           53 ADVAAHRDIVDTIDR-------LTS---ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GID  119 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~-------~~~---~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---~~~  119 (364)
                      ..++|+...+..+..       .+.   .....+++|+||||+|||++|+++++.+     ...++.++++...   ...
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~-----~~~~~~i~~~~~~~g~~~~  107 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSET  107 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEeCHHHhcCCchH
Confidence            346666555443333       343   2233349999999999999999999996     3455666654311   111


Q ss_pred             HHHHHHHHHHhcCccccCCccceEEEEEeCCCCC----------CHHHHHHHHHHHHH---hccCccEEEEeeccccCch
Q 017884          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM----------TKDAQFALRRVIEK---YTKNTRFALICNQVNKIIP  186 (364)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l----------~~~~~~~L~~~le~---~~~~~~~Il~~~~~~~l~~  186 (364)
                      .....+.......   ..  ..+.+|+|||+|.+          ....++.|...++.   .+..+.+|.++|.+..+.+
T Consensus       108 ~~~~~~~~~~~~~---~~--~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~  182 (272)
T 1d2n_A          108 AKCQAMKKIFDDA---YK--SQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQE  182 (272)
T ss_dssp             HHHHHHHHHHHHH---HT--SSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHH
T ss_pred             HHHHHHHHHHHHH---Hh--cCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcch
Confidence            1111222211110   00  14789999999887          34445555555553   2223446666776665655


Q ss_pred             -hhhccc-eEEEecCCCh-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-----CHHHHHHHHHHHHHhc
Q 017884          187 -ALQSRC-TRFRFAPLEP-VHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-----DMRKALNILQSTHMAS  250 (364)
Q Consensus       187 -~l~sr~-~~i~~~~~~~-~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-----~~r~a~~~l~~~~~~~  250 (364)
                       .+.+|+ ..+.+++++. +++..++...     ..++++.+..+++.+.|     ++|.+++.++.+....
T Consensus       183 ~~l~~rf~~~i~~p~l~~r~~i~~i~~~~-----~~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~  249 (272)
T 1d2n_A          183 MEMLNAFSTTIHVPNIATGEQLLEALELL-----GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMD  249 (272)
T ss_dssp             TTCTTTSSEEEECCCEEEHHHHHHHHHHH-----TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSC
T ss_pred             hhhhcccceEEcCCCccHHHHHHHHHHhc-----CCCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhc
Confidence             577884 8899988887 6666665542     25789999999999987     9999999999876433

>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=99.70  E-value=1.9e-18  Score=152.83  Aligned_cols=205  Identities=20%  Similarity=0.236  Sum_probs=135.0

Q ss_pred             ccCCCCCcchhccHHHHHHHHHHHhc-----------CC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           46 KYRPQSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        46 ~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ++.+.+|++++|++.+++.+...+..           .. ..+++|+||||+|||++|+++++.+...     ++.+++.
T Consensus         4 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~-----~~~v~~~   78 (268)
T 2r62_A            4 EKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP-----FFSMGGS   78 (268)
T ss_dssp             CCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCC-----CCCCCSC
T ss_pred             cCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC-----EEEechH
Confidence            45667899999999999988887651           22 2348999999999999999999997432     2333332


Q ss_pred             CCC------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHH---------------HHHHHHHHHHhcc--
Q 017884          114 DDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDA---------------QFALRRVIEKYTK--  170 (364)
Q Consensus       114 ~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~---------------~~~L~~~le~~~~--  170 (364)
                      ...      +...++..+......         .+.+|+|||+|.+....               ++.|+..++....  
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~a~~~---------~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  149 (268)
T 2r62_A           79 SFIEMFVGLGASRVRDLFETAKKQ---------APSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSEN  149 (268)
T ss_dssp             TTTTSCSSSCSSSSSTTHHHHHHS---------CSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSC
T ss_pred             HHHHhhcchHHHHHHHHHHHHHhc---------CCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCC
Confidence            211      111111222222111         35799999999996532               3456666654432  


Q ss_pred             -CccEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHH
Q 017884          171 -NTRFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQS  245 (364)
Q Consensus       171 -~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~  245 (364)
                       .+.+|.++|.+..+.+.+.+  |+ ..+.|++|+.++..+++...++..+.. ++..++.++..+.| ..+.+.+.++.
T Consensus       150 ~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~~g~dl~~l~~~  228 (268)
T 2r62_A          150 APVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLA-NDVNLQEVAKLTAGLAGADLANIINE  228 (268)
T ss_dssp             SCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCC-SSCCTTTTTSSSCSSCHHHHHHHHHH
T ss_pred             CCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCC-CccCHHHHHHHcCCCCHHHHHHHHHH
Confidence             25567777888888888888  65 679999999999999998877644322 22235667777766 44566666665


Q ss_pred             HHHhc-----ccCchHHHHHhcCCC
Q 017884          246 THMAS-----QQITEEAVYLCTGNP  265 (364)
Q Consensus       246 ~~~~~-----~~i~~~~v~~~~~~~  265 (364)
                      +...+     ..|+.+++..++...
T Consensus       229 a~~~a~~~~~~~i~~~~~~~a~~~~  253 (268)
T 2r62_A          229 AALLAGRNNQKEVRQQHLKEAVERG  253 (268)
T ss_dssp             HHHTTSSSCCCSCCHHHHHTSCTTC
T ss_pred             HHHHHHHhccCCcCHHHHHHHHHHH
Confidence            55433     368999988776644

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.70  E-value=1.3e-15  Score=136.79  Aligned_cols=203  Identities=16%  Similarity=0.189  Sum_probs=138.9

Q ss_pred             cchhccHHHHHHHHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHh
Q 017884           53 ADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  130 (364)
                      ++++|+...+..+...+..  ....+++|+||||+|||++|+++++.....  ...++.+++.... .+.+...+..   
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~--~~~~v~v~~~~~~-~~l~~~~lfg---   75 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARS--DRPLVTLNCAALN-ESLLESELFG---   75 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCS--SSCCCEEECSSCC-HHHHHHHHTC---
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCccc--CCCeEEEeCCCCC-hHHHHHHhcC---
Confidence            3578988888888777664  233459999999999999999999976433  2345667766532 2222221111   


Q ss_pred             cCccccC----------CccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------c
Q 017884          131 TQSFSFG----------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------N  182 (364)
Q Consensus       131 ~~~~~~~----------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~  182 (364)
                      ...-.|.          ....+++++|||++.++...+..|++++++..           .++++|++||..       .
T Consensus        76 ~~~g~~tg~~~~~~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~v~~g  155 (304)
T 1ojl_A           76 HEKGAFTGADKRREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVSAG  155 (304)
T ss_dssp             CCSSCCC---CCCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHHHT
T ss_pred             ccccccCchhhhhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHHhC
Confidence            0000000          00135699999999999999999999999752           457788888754       2


Q ss_pred             cCchhhhccc--eEEEecCCC--hHHHHHHHHHHHH----HcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          183 KIIPALQSRC--TRFRFAPLE--PVHVTERLKHVIE----AEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       183 ~l~~~l~sr~--~~i~~~~~~--~~~~~~~l~~~~~----~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                      .+.+.+.+|+  ..+.++|+.  .+++..++...+.    +.+   ..+++++++.|..++ .||+|.+.+.++.+...+
T Consensus       156 ~fr~~L~~Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~~wpGnvReL~~~l~~~~~~~  235 (304)
T 1ojl_A          156 RFRQDLYYRLNVVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHYDWPGNIRELENAIERAVVLL  235 (304)
T ss_dssp             SSCHHHHHHHSSEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHCCCSSHHHHHHHHHHHHHHHC
T ss_pred             CcHHHHHhhcCeeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHhC
Confidence            4567788886  446788877  4566655554433    333   578999999999987 999999999998877654


Q ss_pred             --ccCchHHHHHh
Q 017884          251 --QQITEEAVYLC  261 (364)
Q Consensus       251 --~~i~~~~v~~~  261 (364)
                        ..|+.+++...
T Consensus       236 ~~~~i~~~~l~~~  248 (304)
T 1ojl_A          236 TGEYISERELPLA  248 (304)
T ss_dssp             CSSSBCGGGSCGG
T ss_pred             CCCcccHHhhhhh
Confidence              46777776443

>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=99.70  E-value=1e-16  Score=152.47  Aligned_cols=188  Identities=20%  Similarity=0.273  Sum_probs=134.0

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhc-------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSE-------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      +.+++.+|++++|++..+..|..++..             ....++||+||||+|||++|+++++.+     ...++.++
T Consensus       196 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~-----~~~fv~vn  270 (489)
T 3hu3_A          196 ESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLIN  270 (489)
T ss_dssp             HHHTCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC-----SSEEEEEE
T ss_pred             cccCCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh-----CCCEEEEE
Confidence            456788999999999999999888763             223349999999999999999999986     45677777


Q ss_pred             CCCC----CC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--cCc
Q 017884          112 ASDD----RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYT--KNT  172 (364)
Q Consensus       112 ~~~~----~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~~--~~~  172 (364)
                      +...    .+  ...++..+......         .+.+|+|||+|.+..           ..++.|+..|+...  .++
T Consensus       271 ~~~l~~~~~g~~~~~~~~~f~~A~~~---------~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v  341 (489)
T 3hu3_A          271 GPEIMSKLAGESESNLRKAFEEAEKN---------APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (489)
T ss_dssp             HHHHHTSCTTHHHHHHHHHHHHHHHT---------CSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCE
T ss_pred             chHhhhhhcchhHHHHHHHHHHHHhc---------CCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCce
Confidence            5331    11  11222222222111         357999999977753           56788999999643  356


Q ss_pred             cEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHH
Q 017884          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGD-MRKALNILQSTH  247 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~-~r~a~~~l~~~~  247 (364)
                      ++|.+||.+..+.+.+++  |+ ..+.|++|+.++..+++..++...+.. .+..+..++..+.|. .+.+..+++.++
T Consensus       342 ~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~-~~~~l~~la~~t~g~s~~dL~~L~~~A~  419 (489)
T 3hu3_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEAA  419 (489)
T ss_dssp             EEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHH
T ss_pred             EEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCc-chhhHHHHHHHccCCcHHHHHHHHHHHH
Confidence            677788888889999998  55 579999999999999999887655443 223467788888774 444444444444

>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=99.68  E-value=1.9e-16  Score=146.86  Aligned_cols=203  Identities=19%  Similarity=0.239  Sum_probs=133.8

Q ss_pred             chhccHHHHHHHHHHHh----c--------------------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           54 DVAAHRDIVDTIDRLTS----E--------------------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~----~--------------------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .++|++.+++.+...+.    .                          ....+++|+||||+|||++|+++++.+     
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l-----   96 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL-----   96 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT-----
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh-----
Confidence            47999999998887762    1                          123459999999999999999999997     


Q ss_pred             CCcEEEEeCCCCCCh----HHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------------HHHHHHHHH
Q 017884          104 HNMILELNASDDRGI----DVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVI  165 (364)
Q Consensus       104 ~~~~~~~~~~~~~~~----~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------------~~~~L~~~l  165 (364)
                      ...++.+++......    ......+..........+ ....+++++|||++.+...              .++.|+.+|
T Consensus        97 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~-~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~l  175 (376)
T 1um8_A           97 DIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNV-QKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIV  175 (376)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHTTTCH-HHHTTSEEEEETGGGC--------------CHHHHHHHHHHH
T ss_pred             CCCEEEecchhhhhcCcCCccHHHHHHHHHhhccchh-hhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHh
Confidence            334555655432110    111122222221111000 0113679999999999877              899999999


Q ss_pred             HHhc---------------------cCccEEEEeec-----------------------------------------ccc
Q 017884          166 EKYT---------------------KNTRFALICNQ-----------------------------------------VNK  183 (364)
Q Consensus       166 e~~~---------------------~~~~~Il~~~~-----------------------------------------~~~  183 (364)
                      +...                     .++.+|++++.                                         ...
T Consensus       176 e~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~  255 (376)
T 1um8_A          176 EGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYG  255 (376)
T ss_dssp             HCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTT
T ss_pred             hccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcC
Confidence            9541                     33455655541                                         113


Q ss_pred             Cchhhhccc-eEEEecCCChHHHHHHHHH----HHH-------H--cCCCCCHHHHHHHHHHcC---CCHHHHHHHHHHH
Q 017884          184 IIPALQSRC-TRFRFAPLEPVHVTERLKH----VIE-------A--EGLDVTEGGLAALVRLCN---GDMRKALNILQST  246 (364)
Q Consensus       184 l~~~l~sr~-~~i~~~~~~~~~~~~~l~~----~~~-------~--~~~~i~~~~~~~l~~~~~---g~~r~a~~~l~~~  246 (364)
                      +.+.+.+|+ .++.|+|++.+++..++..    ++.       .  .++.+++++++.|++++.   |++|.+.+.++.+
T Consensus       256 ~~p~l~~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~  335 (376)
T 1um8_A          256 LIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDF  335 (376)
T ss_dssp             CCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHH
T ss_pred             CChHHhcCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHH
Confidence            567888998 8899999999999988862    211       1  245689999999999864   9999999999876


Q ss_pred             HHhc-----c------cCchHHHHHhc
Q 017884          247 HMAS-----Q------QITEEAVYLCT  262 (364)
Q Consensus       247 ~~~~-----~------~i~~~~v~~~~  262 (364)
                      ....     .      .||.++|....
T Consensus       336 ~~~~~~~~~~~~~~~~~i~~~~v~~~~  362 (376)
T 1um8_A          336 CLDIMFDLPKLKGSEVRITKDCVLKQA  362 (376)
T ss_dssp             HHHHHHTGGGGTTSEEEECHHHHTTSS
T ss_pred             HHHHHhhccCCCCCEEEEeHHHhcCCC
Confidence            6421     1      47777776644

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.67  E-value=3.7e-16  Score=157.62  Aligned_cols=185  Identities=21%  Similarity=0.301  Sum_probs=134.6

Q ss_pred             cchhccHHHHHHHHHHHhcCC-------CC--cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH-H
Q 017884           53 ADVAAHRDIVDTIDRLTSENR-------LP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV-R  122 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~-------~~--~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~  122 (364)
                      +.++|++.++..+...+....       .|  +++|+||||+|||++|+++++.+...+  ..++.++++........ .
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~--~~~i~i~~s~~~~~~~~~~  568 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDE--ESMIRIDMSEYMEKHSTSG  568 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCT--TCEEEEEGGGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC--cceEEEechhccccccccc
Confidence            568999999988888776321       12  599999999999999999999986543  34566665432111000 1


Q ss_pred             HHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHH-----------hccCccEEEEeecccc--------
Q 017884          123 QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEK-----------YTKNTRFALICNQVNK--------  183 (364)
Q Consensus       123 ~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~-----------~~~~~~~Il~~~~~~~--------  183 (364)
                      ..+.......        .+++|+|||++.+.+..++.|+++|++           ...++++|++||....        
T Consensus       569 ~~l~~~~~~~--------~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~  640 (758)
T 3pxi_A          569 GQLTEKVRRK--------PYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGE  640 (758)
T ss_dssp             --CHHHHHHC--------SSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHH
T ss_pred             chhhHHHHhC--------CCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHH
Confidence            1111222111        356999999999999999999999998           3356788999885432        


Q ss_pred             ----Cchhhhccc-eEEEecCCChHHHHHHHHHHHHHc---------CCCCCHHHHHHHHHH---cCCCHHHHHHHHHHH
Q 017884          184 ----IIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTEGGLAALVRL---CNGDMRKALNILQST  246 (364)
Q Consensus       184 ----l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~i~~~~~~~l~~~---~~g~~r~a~~~l~~~  246 (364)
                          +.+.+.+|+ .++.|+|++.+++..++...+...         .+.++++++++|++.   ..|+.|.+.+.++..
T Consensus       641 ~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~i~~~  720 (758)
T 3pxi_A          641 LKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKH  720 (758)
T ss_dssp             HHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCTTTTTTTHHHHHHHH
T ss_pred             HHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCCCCCChHHHHHHHHH
Confidence                778899999 899999999999999888776542         457899999999875   368888888888765


Q ss_pred             H
Q 017884          247 H  247 (364)
Q Consensus       247 ~  247 (364)
                      .
T Consensus       721 v  721 (758)
T 3pxi_A          721 V  721 (758)
T ss_dssp             T
T ss_pred             H
Confidence            4

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.65  E-value=9.6e-16  Score=150.46  Aligned_cols=219  Identities=17%  Similarity=0.201  Sum_probs=146.7

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC------
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR------  116 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------  116 (364)
                      ...+|+|..|++++|++.+++.+...+..+  .+++|+||+|+|||+++++++..+.+.......+..+.....      
T Consensus        31 ~~~~~rp~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~~p~i~~  108 (604)
T 3k1j_A           31 EEIEVPEKLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIKT  108 (604)
T ss_dssp             GGSCCCSSHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTTSCEEEE
T ss_pred             CcccccccccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCcccccCCcEEE
Confidence            457899999999999999999999999988  479999999999999999999987543211111111110000      


Q ss_pred             ---C-hHHHHHHHHH----------------------------------------------HHhcC---c-----ccc--
Q 017884          117 ---G-IDVVRQQIQD----------------------------------------------FASTQ---S-----FSF--  136 (364)
Q Consensus       117 ---~-~~~~~~~i~~----------------------------------------------~~~~~---~-----~~~--  136 (364)
                         + ...+.+....                                              .....   +     ...  
T Consensus       109 ~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~~~g~  188 (604)
T 3k1j_A          109 VPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGLGTPA  188 (604)
T ss_dssp             EETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----CCCCG
T ss_pred             EecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCccccc
Confidence               0 0011100000                                              00000   0     000  


Q ss_pred             --------CCccceEEEEEeCCCCCCHHHHHHHHHHHHHh---------------------ccCccEEEEeecc--ccCc
Q 017884          137 --------GVKASVKLVLLDEADAMTKDAQFALRRVIEKY---------------------TKNTRFALICNQV--NKII  185 (364)
Q Consensus       137 --------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~---------------------~~~~~~Il~~~~~--~~l~  185 (364)
                              -....+++++|||++.+.+..++.|+++|++.                     +.++++|+++|..  ..+.
T Consensus       189 ~~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~~~l~  268 (604)
T 3k1j_A          189 HERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKMH  268 (604)
T ss_dssp             GGGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHHHHSC
T ss_pred             cccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHHhhcC
Confidence                    00113569999999999999999999999953                     2356788888865  5799


Q ss_pred             hhhhccce----EEEecCCC---hHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHc---CC-------CHHHHHHHH
Q 017884          186 PALQSRCT----RFRFAPLE---PVHVTERLKHVIEAE-----GLDVTEGGLAALVRLC---NG-------DMRKALNIL  243 (364)
Q Consensus       186 ~~l~sr~~----~i~~~~~~---~~~~~~~l~~~~~~~-----~~~i~~~~~~~l~~~~---~g-------~~r~a~~~l  243 (364)
                      +++.+||.    .+.|++..   ++.+..++...++..     ...++++++..|++++   .|       ++|.+.+++
T Consensus       269 ~~l~~R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~ll  348 (604)
T 3k1j_A          269 PALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIV  348 (604)
T ss_dssp             HHHHHHHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHHH
T ss_pred             HHHHHHhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHHH
Confidence            99999984    56664432   344565655544432     2578999999999876   55       699999999


Q ss_pred             HHHHHhc-----ccCchHHHHHhcC
Q 017884          244 QSTHMAS-----QQITEEAVYLCTG  263 (364)
Q Consensus       244 ~~~~~~~-----~~i~~~~v~~~~~  263 (364)
                      +.+...+     ..|+.++|.+++.
T Consensus       349 r~A~~~A~~~~~~~I~~edv~~A~~  373 (604)
T 3k1j_A          349 RAAGDIAVKKGKKYVEREDVIEAVK  373 (604)
T ss_dssp             HHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHhcCcccccHHHHHHHHH
Confidence            7655332     4788888887763

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.65  E-value=1.6e-15  Score=153.14  Aligned_cols=182  Identities=18%  Similarity=0.231  Sum_probs=133.5

Q ss_pred             cchhccHHHHHHHHHHHhcC--------C-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC------
Q 017884           53 ADVAAHRDIVDTIDRLTSEN--------R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG------  117 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~--------~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------  117 (364)
                      ..++|++.++..+...+...        + ..+++|+||||+|||++|+++++.+     ...++.++++....      
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l-----~~~~~~i~~s~~~~~~~~~~  532 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSR  532 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCCSS
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh-----cCCEEEEechhhcchhhHhh
Confidence            45889999998887776532        1 1259999999999999999999998     24556666543211      


Q ss_pred             --------hH-HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEE
Q 017884          118 --------ID-VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALI  177 (364)
Q Consensus       118 --------~~-~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~  177 (364)
                              .. .....+......        ..+.||+|||++.+.++.++.|+++|++..           .++.+|++
T Consensus       533 l~g~~~g~~g~~~~~~l~~~~~~--------~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~t  604 (758)
T 1r6b_X          533 LIGAPPGYVGFDQGGLLTDAVIK--------HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMT  604 (758)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHHH--------CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEE
T ss_pred             hcCCCCCCcCccccchHHHHHHh--------CCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEe
Confidence                    00 000111222211        136899999999999999999999999753           35668888


Q ss_pred             eeccc-------------------------cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHc---------CCCCCH
Q 017884          178 CNQVN-------------------------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDVTE  222 (364)
Q Consensus       178 ~~~~~-------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~i~~  222 (364)
                      +|...                         .+.+++.+|+ .++.|+|++.+++..++...+.+.         .+.+++
T Consensus       605 sN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~  684 (758)
T 1r6b_X          605 TNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQ  684 (758)
T ss_dssp             ECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECH
T ss_pred             cCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEeCH
Confidence            87633                         5678899999 789999999999999998877632         356899


Q ss_pred             HHHHHHHHHc---CCCHHHHHHHHHHHH
Q 017884          223 GGLAALVRLC---NGDMRKALNILQSTH  247 (364)
Q Consensus       223 ~~~~~l~~~~---~g~~r~a~~~l~~~~  247 (364)
                      ++++.|+++.   +++.|.+.+.++...
T Consensus       685 ~a~~~l~~~~~~~~~g~R~l~~~i~~~~  712 (758)
T 1r6b_X          685 EARNWLAEKGYDRAMGARPMARVIQDNL  712 (758)
T ss_dssp             HHHHHHHHHHCBTTTBTTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcCCCchHHHHHHHHHH
Confidence            9999999876   445888888776654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.65  E-value=1.6e-15  Score=144.00  Aligned_cols=207  Identities=21%  Similarity=0.270  Sum_probs=138.5

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhc-----------CCCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      |.+. .+.+|++++|+++++..+++.+..           ...+ +++|+||||+|||+++++++..+     ...++.+
T Consensus        22 ~~~~-~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~-----~~~~i~i   95 (499)
T 2dhr_A           22 LTEA-PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITA   95 (499)
T ss_dssp             ECSC-CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT-----TCCEEEE
T ss_pred             eccC-CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEE
Confidence            4444 677999999999999988777542           1223 39999999999999999999986     2456677


Q ss_pred             eCCCCC--ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------H---HHHHHHHHHHHhc--cCc
Q 017884          111 NASDDR--GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------D---AQFALRRVIEKYT--KNT  172 (364)
Q Consensus       111 ~~~~~~--~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~---~~~~L~~~le~~~--~~~  172 (364)
                      ++....  ........+....+...     ...+.+++|||+|.+..           .   ..+.|+..|+...  ...
T Consensus        96 ~g~~~~~~~~g~~~~~v~~lfq~a~-----~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~v  170 (499)
T 2dhr_A           96 SGSDFVEMFVGVGAARVRDLFETAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAI  170 (499)
T ss_dssp             EGGGGTSSCTTHHHHHHHHHTTTSS-----SSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCC
T ss_pred             ehhHHHHhhhhhHHHHHHHHHHHHH-----hcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccE
Confidence            765421  11222233333332211     01357999999988742           1   2234444444322  233


Q ss_pred             cEEEEeeccccCchhhhcc--c-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHHHHH
Q 017884          173 RFALICNQVNKIIPALQSR--C-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGDM-RKALNILQSTH  247 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-~~~l~~~~~g~~-r~a~~~l~~~~  247 (364)
                      .++.++|.++.+++++.++  + ..+.+++|+.++..++++..++  +..++++. +..++..+.|+. +.+.+.++.++
T Consensus       171 iviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~--~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa  248 (499)
T 2dhr_A          171 VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAA  248 (499)
T ss_dssp             EEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS--SSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHH
T ss_pred             EEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4555668888889999884  4 5799999999999998876654  44555443 788999998887 77777777655


Q ss_pred             Hhc-----ccCchHHHHHhc
Q 017884          248 MAS-----QQITEEAVYLCT  262 (364)
Q Consensus       248 ~~~-----~~i~~~~v~~~~  262 (364)
                      ..+     ..|+.+++..++
T Consensus       249 ~~A~~~~~~~It~~dl~~al  268 (499)
T 2dhr_A          249 LLAAREGRRKITMKDLEEAA  268 (499)
T ss_dssp             HHHTTTCCSSCCSHHHHHHH
T ss_pred             HHHHHhCCCccCHHHHHHHH
Confidence            432     368888877654

>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=99.64  E-value=9.7e-15  Score=127.92  Aligned_cols=206  Identities=21%  Similarity=0.250  Sum_probs=131.3

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhc-----------CC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSE-----------NR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      ....+.+|++++|.++++..+++....           .. .++++|+||+|+|||+++++++..+.     ..++.+++
T Consensus         8 ~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~-----~~~i~~~~   82 (254)
T 1ixz_A            8 TEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASG   82 (254)
T ss_dssp             CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEH
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCEEEeeH
Confidence            345567899999999888877766542           11 23489999999999999999999863     34455554


Q ss_pred             CCC--CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhccC--ccE
Q 017884          113 SDD--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYTKN--TRF  174 (364)
Q Consensus       113 ~~~--~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~~~--~~~  174 (364)
                      ...  .........+....+...   .  ..+.++++||++.+..              ...+.++..++.....  ..+
T Consensus        83 ~~~~~~~~~~~~~~i~~~~~~~~---~--~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~  157 (254)
T 1ixz_A           83 SDFVEMFVGVGAARVRDLFETAK---R--HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVV  157 (254)
T ss_dssp             HHHHHSCTTHHHHHHHHHHHHHT---T--SSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEE
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH---h--cCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEE
Confidence            211  001111122222222111   0  0357999999976631              1133444445433222  334


Q ss_pred             EEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHHHHHHh
Q 017884          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGDM-RKALNILQSTHMA  249 (364)
Q Consensus       175 Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-~~~l~~~~~g~~-r~a~~~l~~~~~~  249 (364)
                      +.+++.++.+++++.+  |+ ..+.+++|+.++..++++..++  +..++++. +..++..+.|+. +.+.+.++.+...
T Consensus       158 ~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~G~~~~dl~~~~~~a~~~  235 (254)
T 1ixz_A          158 MAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALL  235 (254)
T ss_dssp             EEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHH
T ss_pred             EEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHc--CCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            5566888889999988  55 6799999999999999987664  44454443 788999998865 6666666655432


Q ss_pred             c-----ccCchHHHHHhc
Q 017884          250 S-----QQITEEAVYLCT  262 (364)
Q Consensus       250 ~-----~~i~~~~v~~~~  262 (364)
                      +     ..|+.+++.+++
T Consensus       236 a~~~~~~~I~~~dl~~a~  253 (254)
T 1ixz_A          236 AAREGRRKITMKDLEEAA  253 (254)
T ss_dssp             HHHTTCSSBCHHHHHHHT
T ss_pred             HHHhcCCCcCHHHHHHHh
Confidence            2     368888877654

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.63  E-value=1.2e-14  Score=136.20  Aligned_cols=218  Identities=17%  Similarity=0.241  Sum_probs=141.5

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHH-hc---C---CCCcEEE--eCCCCccHHHHHHHHHHHHcCC----CCCCcEE
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLT-SE---N---RLPHLLL--YGPPGTGKTSTILAVARKLYGA----QYHNMIL  108 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~-~~---~---~~~~lll--~G~~G~GKt~la~~l~~~l~~~----~~~~~~~  108 (364)
                      ++...|.|   +.++|++..++.|...+ ..   +   ...+++|  +||+|+|||++++.+++.+...    +....++
T Consensus        14 ~~~~~~~p---~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~   90 (412)
T 1w5s_A           14 VFDENYIP---PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQA   90 (412)
T ss_dssp             GGSTTCCC---SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             hcCCccCC---CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEE
Confidence            34445555   67899999999888877 42   2   3345888  9999999999999999887431    1234566


Q ss_pred             EEeCCCCCChHHHH-HHHHHHHhcCcc--------------ccCCccceEEEEEeCCCCCCH------HHHHHHHHHHHH
Q 017884          109 ELNASDDRGIDVVR-QQIQDFASTQSF--------------SFGVKASVKLVLLDEADAMTK------DAQFALRRVIEK  167 (364)
Q Consensus       109 ~~~~~~~~~~~~~~-~~i~~~~~~~~~--------------~~~~~~~~~viiiDe~~~l~~------~~~~~L~~~le~  167 (364)
                      .+++........+. ..+.......+.              .+....++.+|+|||+|.+..      +....|++++..
T Consensus        91 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~  170 (412)
T 1w5s_A           91 YVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEE  170 (412)
T ss_dssp             EEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHh
Confidence            67653322222221 111111100000              000011467999999999853      556667777776


Q ss_pred             hc-----cCccEEEEeeccc---cCc---hhhhccc-eEEEecCCChHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcC
Q 017884          168 YT-----KNTRFALICNQVN---KII---PALQSRC-TRFRFAPLEPVHVTERLKHVIEAEG--LDVTEGGLAALVRLCN  233 (364)
Q Consensus       168 ~~-----~~~~~Il~~~~~~---~l~---~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~--~~i~~~~~~~l~~~~~  233 (364)
                      .+     ..+.+|++++.+.   .+.   +.+.+++ ..+.|+|++.+++.+++...+...+  ..++++++..+++.++
T Consensus       171 ~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~  250 (412)
T 1w5s_A          171 IPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYG  250 (412)
T ss_dssp             SCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHC
T ss_pred             cccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHH
Confidence            54     4455777776543   233   4555554 4499999999999999988776433  3578999999999999


Q ss_pred             ------CCHHHHHHHHHHHHHhc-----ccCchHHHHHhc
Q 017884          234 ------GDMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (364)
Q Consensus       234 ------g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~  262 (364)
                            |+++.+..++..+...+     ..++.+++..++
T Consensus       251 ~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~  290 (412)
T 1w5s_A          251 EDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAV  290 (412)
T ss_dssp             GGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHH
T ss_pred             HhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence                  99999999887654321     357777765443

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.61  E-value=2.4e-14  Score=127.15  Aligned_cols=204  Identities=22%  Similarity=0.249  Sum_probs=130.0

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhcC-----------C-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSEN-----------R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~~-----------~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ..+.+|++++|.++++..+++....-           . .++++|+||+|+|||+++++++..+.     ..++.+++..
T Consensus        34 ~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~-----~~~i~~~~~~  108 (278)
T 1iy2_A           34 APKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR-----VPFITASGSD  108 (278)
T ss_dssp             CCCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT-----CCEEEEEHHH
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC-----CCEEEecHHH
Confidence            35678999999999988877665421           1 23489999999999999999999873     3445555422


Q ss_pred             C--CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC-----------HHHHHHHHHHHHHhc---c--CccEEE
Q 017884          115 D--RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT-----------KDAQFALRRVIEKYT---K--NTRFAL  176 (364)
Q Consensus       115 ~--~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~-----------~~~~~~L~~~le~~~---~--~~~~Il  176 (364)
                      .  .........+....+...   ..  .+.++++||++.+.           ......+..++....   .  ...++.
T Consensus       109 ~~~~~~~~~~~~i~~~~~~~~---~~--~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a  183 (278)
T 1iy2_A          109 FVEMFVGVGAARVRDLFETAK---RH--APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMA  183 (278)
T ss_dssp             HHHSTTTHHHHHHHHHHHHHH---TS--CSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEE
T ss_pred             HHHHHhhHHHHHHHHHHHHHH---hc--CCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEE
Confidence            1  001111122222221110   00  25799999997652           122333444444332   1  234455


Q ss_pred             EeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHH-HHHHHHHcCCCH-HHHHHHHHHHHHhc-
Q 017884          177 ICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGG-LAALVRLCNGDM-RKALNILQSTHMAS-  250 (364)
Q Consensus       177 ~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-~~~l~~~~~g~~-r~a~~~l~~~~~~~-  250 (364)
                      +++.++.+++++.+  |+ ..+.|++|+.++..+++...++  +..++++. +..++..+.|+. +.+.+.++.+...+ 
T Consensus       184 ~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~  261 (278)
T 1iy2_A          184 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAA  261 (278)
T ss_dssp             EESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHH
T ss_pred             ecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHc--cCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            66888889999887  55 6799999999999999987764  34454443 788999998876 56666666554322 


Q ss_pred             ----ccCchHHHHHhc
Q 017884          251 ----QQITEEAVYLCT  262 (364)
Q Consensus       251 ----~~i~~~~v~~~~  262 (364)
                          ..|+.+++.+++
T Consensus       262 ~~~~~~I~~~dl~~a~  277 (278)
T 1iy2_A          262 REGRRKITMKDLEEAA  277 (278)
T ss_dssp             HTTCCSBCHHHHHHHT
T ss_pred             HhCCCCcCHHHHHHHh
Confidence                368888887654

>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=99.60  E-value=1.3e-15  Score=155.23  Aligned_cols=187  Identities=18%  Similarity=0.261  Sum_probs=137.6

Q ss_pred             CcchhccHHHHHHHHHHHhcCC--------C-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHH
Q 017884           52 LADVAAHRDIVDTIDRLTSENR--------L-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVR  122 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~--------~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~  122 (364)
                      ++.++|++..+..+...+....        + .+++|+||+|+|||++|+++++.+.+.+  ..++.++++.........
T Consensus       557 ~~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~--~~~i~i~~~~~~~~~~~s  634 (854)
T 1qvr_A          557 HKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE--EAMIRIDMTEYMEKHAVS  634 (854)
T ss_dssp             HHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG--GGEEEECTTTCCSSGGGG
T ss_pred             hcccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC--CcEEEEechhccchhHHH
Confidence            3568999999998888776431        1 2589999999999999999999986543  456677765432211000


Q ss_pred             ---------------HHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEE
Q 017884          123 ---------------QQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFAL  176 (364)
Q Consensus       123 ---------------~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il  176 (364)
                                     ..+......        ..+++|+|||++.+..+.++.|+++|++..           .++.+|+
T Consensus       635 ~l~g~~~~~~G~~~~g~l~~~~~~--------~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~  706 (854)
T 1qvr_A          635 RLIGAPPGYVGYEEGGQLTEAVRR--------RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIIL  706 (854)
T ss_dssp             GC--------------CHHHHHHH--------CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEE
T ss_pred             HHcCCCCCCcCccccchHHHHHHh--------CCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEE
Confidence                           111111111        136799999999999999999999999763           3556888


Q ss_pred             Eeec--------------------------cccCchhhhccc-eEEEecCCChHHHHHHHHHHHHHc---------CCCC
Q 017884          177 ICNQ--------------------------VNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE---------GLDV  220 (364)
Q Consensus       177 ~~~~--------------------------~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~i  220 (364)
                      +||.                          ...+.+.+.+|+ .++.|.|++.+++..++...+.+.         .+.+
T Consensus       707 tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~~~~~~~~  786 (854)
T 1qvr_A          707 TSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLEL  786 (854)
T ss_dssp             ECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEE
T ss_pred             ecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHhCCceEEE
Confidence            8885                          124567788998 788999999999999887766521         3468


Q ss_pred             CHHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q 017884          221 TEGGLAALVRLC---NGDMRKALNILQSTHM  248 (364)
Q Consensus       221 ~~~~~~~l~~~~---~g~~r~a~~~l~~~~~  248 (364)
                      ++++++.|++++   .|++|.+.+.++....
T Consensus       787 ~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~  817 (854)
T 1qvr_A          787 TEAAKDFLAERGYDPVFGARPLRRVIQRELE  817 (854)
T ss_dssp             CHHHHHHHHHHHCBTTTBTSTHHHHHHHHTH
T ss_pred             CHHHHHHHHHcCCCCCCChHHHHHHHHHHHH
Confidence            999999999876   4999999999887653

>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=99.58  E-value=3.2e-15  Score=137.95  Aligned_cols=189  Identities=22%  Similarity=0.265  Sum_probs=125.3

Q ss_pred             chhccHHHHHHHHHHHh-------------cC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCCh
Q 017884           54 DVAAHRDIVDTIDRLTS-------------EN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGI  118 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~-------------~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~  118 (364)
                      .++|++.++..+...+.             ..  ...+++|+||||||||++|+++++.+     ...++.++++.....
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~-----~~~~~~~~~~~l~~~   90 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL-----DVPFTMADATTLTEA   90 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHTTC
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCEEEechHHhccc
Confidence            36999999999888773             11  23459999999999999999999997     455667766432211


Q ss_pred             H----HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------------HHHHHHHHHHHh------------
Q 017884          119 D----VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKY------------  168 (364)
Q Consensus       119 ~----~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------------~~~~L~~~le~~------------  168 (364)
                      .    .....+.......+..+ ....+.+|+|||++.+...              .++.|+++|+..            
T Consensus        91 ~~~g~~~~~~~~~~~~~~~~~~-~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~  169 (363)
T 3hws_A           91 GYVGEDVENIIQKLLQKCDYDV-QKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKH  169 (363)
T ss_dssp             HHHHHHHTHHHHHHHHHTTTCH-HHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC------------
T ss_pred             ccccccHHHHHHHHHHHhhhhH-HhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCcccccc
Confidence            1    11222233222211100 1114679999999988755              899999999921            


Q ss_pred             ---------ccCccEEEEeecc----------cc-----------------------------------Cchhhhccc-e
Q 017884          169 ---------TKNTRFALICNQV----------NK-----------------------------------IIPALQSRC-T  193 (364)
Q Consensus       169 ---------~~~~~~Il~~~~~----------~~-----------------------------------l~~~l~sr~-~  193 (364)
                               ..+..||++++..          .+                                   +.+.+.+|+ .
T Consensus       170 ~~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~R~~~  249 (363)
T 3hws_A          170 PQQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPV  249 (363)
T ss_dssp             ----CCCCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHTTCCE
T ss_pred             CCCceEEEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhcccCe
Confidence                     1233445554421          11                                   678888998 5


Q ss_pred             EEEecCCChHHHHHHHHH----HH-------HHcC--CCCCHHHHHHHHHHc---CCCHHHHHHHHHHHHH
Q 017884          194 RFRFAPLEPVHVTERLKH----VI-------EAEG--LDVTEGGLAALVRLC---NGDMRKALNILQSTHM  248 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~----~~-------~~~~--~~i~~~~~~~l~~~~---~g~~r~a~~~l~~~~~  248 (364)
                      ++.|.|++.+++.+++..    ..       ...+  +.+++++++.|++.+   +++.|.+.+.++....
T Consensus       250 ~~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~  320 (363)
T 3hws_A          250 VATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALL  320 (363)
T ss_dssp             EEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             eeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHH
Confidence            566999999998887764    22       2223  457999999999653   6778888888876654

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.58  E-value=1.6e-13  Score=130.53  Aligned_cols=201  Identities=13%  Similarity=0.119  Sum_probs=128.7

Q ss_pred             cchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH--HHHHHh
Q 017884           53 ADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ--IQDFAS  130 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--i~~~~~  130 (364)
                      ..++|+++++..+...+..+  .|++|+||||+|||++|+++++.+..   ...+...++.. ...+.+...  ......
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~~---~~~f~~~~~~~-~t~~dL~G~~~~~~~~~   95 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQN---ARAFEYLMTRF-STPEEVFGPLSIQALKD   95 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBSS---CCEEEEECCTT-CCHHHHHCCBC------
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHhh---hhHHHHHHHhc-CCHHHhcCcccHHHHhh
Confidence            35889999999988888776  57999999999999999999998632   11222333321 111111110  000000


Q ss_pred             cCcc-ccCC--ccceEEEEEeCCCCCCHHHHHHHHHHHHHhc---------cCccE-EEEeecccc---Cchhhhccc-e
Q 017884          131 TQSF-SFGV--KASVKLVLLDEADAMTKDAQFALRRVIEKYT---------KNTRF-ALICNQVNK---IIPALQSRC-T  193 (364)
Q Consensus       131 ~~~~-~~~~--~~~~~viiiDe~~~l~~~~~~~L~~~le~~~---------~~~~~-Il~~~~~~~---l~~~l~sr~-~  193 (364)
                      ...+ .+..  ...+.|++|||++.+++..++.|+..|++..         ....+ |++||....   ..+++.+|+ .
T Consensus        96 ~g~~~~~~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~lpe~~~~~~aLldRF~~  175 (500)
T 3nbx_X           96 EGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELPEADSSLEALYDRMLI  175 (500)
T ss_dssp             ----CBCCTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCCCTTCTTHHHHTTCCE
T ss_pred             chhHHhhhccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCCCccccHHHHHHHHHH
Confidence            0000 0111  1135699999999999999999999998531         12334 667764332   445888997 5


Q ss_pred             EEEecCCCh-HHHHHHHHHHH-----------------------HHcCCCCCHHHHHHHHHHc----------CCCHHHH
Q 017884          194 RFRFAPLEP-VHVTERLKHVI-----------------------EAEGLDVTEGGLAALVRLC----------NGDMRKA  239 (364)
Q Consensus       194 ~i~~~~~~~-~~~~~~l~~~~-----------------------~~~~~~i~~~~~~~l~~~~----------~g~~r~a  239 (364)
                      .+.+++|+. ++...++....                       ...++.++++.++++++..          +.+.|.+
T Consensus       176 ~i~v~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~d~v~e~i~~l~~~lr~~r~~~~iS~R~~  255 (500)
T 3nbx_X          176 RLWLDKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLPDHVFELIFMLRQQLDKLPDAPYVSDRRW  255 (500)
T ss_dssp             EEECCSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCCHHHHHHHHHHHHHHHHCSSSCCCCHHHH
T ss_pred             HHHHHHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCchHHHHHHHHHHHHhhcCCCCCccchhHH
Confidence            588888887 55666665432                       1236778999999998776          5688887


Q ss_pred             HHHHHHHHHhc-----ccCchHHHH
Q 017884          240 LNILQSTHMAS-----QQITEEAVY  259 (364)
Q Consensus       240 ~~~l~~~~~~~-----~~i~~~~v~  259 (364)
                      +..+..+...+     ..++.++|.
T Consensus       256 ~~llr~A~A~A~l~gr~~Vt~eDv~  280 (500)
T 3nbx_X          256 KKAIRLLQASAFFSGRSAVAPVDLI  280 (500)
T ss_dssp             HHHHHHHHHHHHHTTCSBCCGGGGG
T ss_pred             HHHHHHHHHHHhhcCCccccchHHH
Confidence            77765443322     378888887

>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=99.58  E-value=1.6e-14  Score=143.72  Aligned_cols=172  Identities=22%  Similarity=0.325  Sum_probs=122.9

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ...+|+++.|.++.++.|+..+.-           + .+| ++|||||||||||++|+++++++     ...++.+++.+
T Consensus       199 ~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el-----g~~~~~v~~~~  273 (806)
T 3cf2_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPE  273 (806)
T ss_dssp             SSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT-----TCEEEEEEHHH
T ss_pred             CCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh-----CCeEEEEEhHH
Confidence            346899999999999988887641           1 223 39999999999999999999987     55677777543


Q ss_pred             C----CC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH-----------HHHHHHHHHHHHhcc--CccEE
Q 017884          115 D----RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK-----------DAQFALRRVIEKYTK--NTRFA  175 (364)
Q Consensus       115 ~----~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~-----------~~~~~L~~~le~~~~--~~~~I  175 (364)
                      .    .+  ...++..+.....         ..+.||+|||+|.+.+           ...+.|+..|+....  ++.+|
T Consensus       274 l~sk~~gese~~lr~lF~~A~~---------~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VI  344 (806)
T 3cf2_A          274 IMSKLAGESESNLRKAFEEAEK---------NAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVM  344 (806)
T ss_dssp             HHSSCTTHHHHHHHHHHHHHTT---------SCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEE
T ss_pred             hhcccchHHHHHHHHHHHHHHH---------cCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEE
Confidence            1    11  1123332222211         1478999999999953           235677888887543  45677


Q ss_pred             EEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          176 LICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       176 l~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      .+||.++.+++++++  |+ ..++++.|+.++..++++..++..... ++..+..|+..+.|
T Consensus       345 aaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~-~dvdl~~lA~~T~G  405 (806)
T 3cf2_A          345 AATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHG  405 (806)
T ss_dssp             EECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEEC-TTCCHHHHHHHCCS
T ss_pred             EecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhcCC
Confidence            788999999999998  77 679999999999999998766543222 22346788888765

>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=99.52  E-value=1.6e-14  Score=143.65  Aligned_cols=181  Identities=17%  Similarity=0.240  Sum_probs=113.5

Q ss_pred             CCCCcchhccHHHHHHHHHHHhc-----------C-CC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC-
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSE-----------N-RL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-  114 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~-----------~-~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-  114 (364)
                      ..+|+++.|.+++++.|...+..           + .. ..+|||||||||||.+|++++.++     ...++.++++. 
T Consensus       473 ~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~-----~~~f~~v~~~~l  547 (806)
T 3cf2_A          473 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKGPEL  547 (806)
T ss_dssp             CCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT-----TCEEEECCHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh-----CCceEEeccchh
Confidence            45799999999999998877642           1 12 239999999999999999999996     45666655432 


Q ss_pred             -----CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------------HHHHHHHHHHHhcc--Ccc
Q 017884          115 -----DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYTK--NTR  173 (364)
Q Consensus       115 -----~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------------~~~~L~~~le~~~~--~~~  173 (364)
                           ..+...+++.+......         .+.||+|||+|.+...              ..+.|+..|+....  ++.
T Consensus       548 ~s~~vGese~~vr~lF~~Ar~~---------~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~  618 (806)
T 3cf2_A          548 LTMWFGESEANVREIFDKARQA---------APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF  618 (806)
T ss_dssp             HTTTCSSCHHHHHHHHHHHHTT---------CSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEE
T ss_pred             hccccchHHHHHHHHHHHHHHc---------CCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEE
Confidence                 12333455544433222         3689999999998521              25668888886543  344


Q ss_pred             EEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH----cCCCHHHHHHHHH
Q 017884          174 FALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL----CNGDMRKALNILQ  244 (364)
Q Consensus       174 ~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~----~~g~~r~a~~~l~  244 (364)
                      +|.+||.++.+++++.+  |+ ..++|+.|+.++..++++..+++..+. ++-.++.|++.    ++.|+..+.+...
T Consensus       619 vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~-~~~dl~~la~~t~g~SGadi~~l~~~A~  695 (806)
T 3cf2_A          619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRAC  695 (806)
T ss_dssp             EECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--C-CC----------------CHHHHHHHHH
T ss_pred             EEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            55678999999999998  87 789999999999999988776544332 12235566655    4567777665543

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.50  E-value=9.9e-14  Score=110.62  Aligned_cols=132  Identities=17%  Similarity=0.206  Sum_probs=91.4

Q ss_pred             chhccHHHHHHHHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhc
Q 017884           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (364)
                      +++|+...+..+...+..  ....+++|+||+|+|||++|+++++.....+.  .++ +++............+...   
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~--~~v-~~~~~~~~~~~~~~~~~~a---   75 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQG--EFV-YRELTPDNAPQLNDFIALA---   75 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTS--CCE-EEECCTTTSSCHHHHHHHH---
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCC--CEE-EECCCCCcchhhhcHHHHc---
Confidence            578988888888777753  23345999999999999999999987533332  344 6655432222222222211   


Q ss_pred             CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc-------cCchhhhccc--eEEEecCC
Q 017884          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN-------KIIPALQSRC--TRFRFAPL  200 (364)
Q Consensus       132 ~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~-------~l~~~l~sr~--~~i~~~~~  200 (364)
                               .+++++|||++.++...+..|+.+|+..+.++++|++||...       .+.+.+..|+  ..+.++|+
T Consensus        76 ---------~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~~~~~~~~~~~~~~L~~rl~~~~i~lPpL  144 (145)
T 3n70_A           76 ---------QGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTSLVELAASNHIIAELYYCFAMTQIACLPL  144 (145)
T ss_dssp             ---------TTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSCHHHHHHHSCCCHHHHHHHHHHEEECCCC
T ss_pred             ---------CCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcCHHHHHHcCCCCHHHHHHhcCCEEeCCCC
Confidence                     246999999999999999999999988777889999997532       3455666664  45667665

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.49  E-value=1.5e-12  Score=115.02  Aligned_cols=172  Identities=19%  Similarity=0.204  Sum_probs=106.7

Q ss_pred             CCCCcchhccHHHHHHHHHHHh------------cCCC-CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           49 PQSLADVAAHRDIVDTIDRLTS------------ENRL-PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~------------~~~~-~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      ..+|+++.|.+++++.|...+.            +-.. .+++|+||||+|||+++++++..+     ...++.+++...
T Consensus         6 ~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~-----~~~~i~i~g~~l   80 (274)
T 2x8a_A            6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES-----GLNFISVKGPEL   80 (274)
T ss_dssp             ------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT-----TCEEEEEETTTT
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc-----CCCEEEEEcHHH
Confidence            4689999999999998877542            1122 239999999999999999999986     335677776553


Q ss_pred             CC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-----------HHHHHHHHHHHhcc--CccEEEEeec
Q 017884          116 RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKYTK--NTRFALICNQ  180 (364)
Q Consensus       116 ~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-----------~~~~L~~~le~~~~--~~~~Il~~~~  180 (364)
                      ..  .......+....+....     ..+.++++||++.+...           ..+.++..|+....  ...++.++|.
T Consensus        81 ~~~~~~~~~~~i~~vf~~a~~-----~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~  155 (274)
T 2x8a_A           81 LNMYVGESERAVRQVFQRAKN-----SAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNR  155 (274)
T ss_dssp             CSSTTHHHHHHHHHHHHHHHH-----TCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESC
T ss_pred             HhhhhhHHHHHHHHHHHHHHh-----cCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCC
Confidence            22  12222223332221100     03579999999987421           23444555553322  2345566788


Q ss_pred             cccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHc-CCCCC-HHHHHHHHH
Q 017884          181 VNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAE-GLDVT-EGGLAALVR  230 (364)
Q Consensus       181 ~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~-~~~i~-~~~~~~l~~  230 (364)
                      ++.+++++.+  |+ ..+.++.|+.++..++++..++.. ...++ +-.++.++.
T Consensus       156 p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~  210 (274)
T 2x8a_A          156 PDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAG  210 (274)
T ss_dssp             GGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHT
T ss_pred             hhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHH
Confidence            9999999987  77 779999999999999998876532 22222 223556665

>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=99.48  E-value=6.2e-13  Score=123.82  Aligned_cols=124  Identities=20%  Similarity=0.260  Sum_probs=86.6

Q ss_pred             ceEEEEEeCCCCCCH------------HHHHHHHHHHHHh----------ccCccEEEEe----eccccCchhhhccceE
Q 017884          141 SVKLVLLDEADAMTK------------DAQFALRRVIEKY----------TKNTRFALIC----NQVNKIIPALQSRCTR  194 (364)
Q Consensus       141 ~~~viiiDe~~~l~~------------~~~~~L~~~le~~----------~~~~~~Il~~----~~~~~l~~~l~sr~~~  194 (364)
                      ...++++||+|.+..            ..|++|+++|+..          ..++.||+++    +.+..+.|.+.+|+.+
T Consensus       250 ~~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~~dlipel~~R~~i  329 (444)
T 1g41_A          250 QNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPI  329 (444)
T ss_dssp             HHCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHTTCCE
T ss_pred             cCCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEeccccccCChhhcchHHhcccce
Confidence            356899999999953            2678999999952          2334455554    2455677999999855


Q ss_pred             -EEecCCChHHHHHHHHH-----------HHHHcC--CCCCHHHHHHHHHH--------cCCCHHHHHHHHHHHHHhc--
Q 017884          195 -FRFAPLEPVHVTERLKH-----------VIEAEG--LDVTEGGLAALVRL--------CNGDMRKALNILQSTHMAS--  250 (364)
Q Consensus       195 -i~~~~~~~~~~~~~l~~-----------~~~~~~--~~i~~~~~~~l~~~--------~~g~~r~a~~~l~~~~~~~--  250 (364)
                       +.|++++.+++.+++..           .+..++  +.++++++..|++.        -++..|.+.+.++++....  
T Consensus       330 ~i~l~~lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~~~~~~~~  409 (444)
T 1g41_A          330 RVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISF  409 (444)
T ss_dssp             EEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHH
T ss_pred             eeeCCCCCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHHHHHHHHh
Confidence             99999999999999841           222234  35799999999985        2467888877777655321  


Q ss_pred             ---------ccCchHHHHHhcCC
Q 017884          251 ---------QQITEEAVYLCTGN  264 (364)
Q Consensus       251 ---------~~i~~~~v~~~~~~  264 (364)
                               -.||.+.|...++.
T Consensus       410 ~~~~~~~~~~~i~~~~v~~~l~~  432 (444)
T 1g41_A          410 SASDMNGQTVNIDAAYVADALGE  432 (444)
T ss_dssp             HGGGCTTCEEEECHHHHHHHHTT
T ss_pred             hccccCCCeEEEeHHHHHHhcCc
Confidence                     13667777665554

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.47  E-value=1.5e-12  Score=116.22  Aligned_cols=148  Identities=16%  Similarity=0.214  Sum_probs=92.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC----CC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD----RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~  150 (364)
                      ++||||||+|||++|+++++.+     +..++.++++..    .+  ...++..+.......     ....+.||+|||+
T Consensus        39 lLl~GppGtGKT~la~aiA~~l-----~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~-----~~~~~~vl~iDEi  108 (293)
T 3t15_A           39 LGIWGGKGQGKSFQCELVFRKM-----GINPIMMSAGELESGNAGEPAKLIRQRYREAAEII-----RKGNMCCLFINDL  108 (293)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH-----TCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHH-----TTSSCCCEEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHH-----hcCCCeEEEEech
Confidence            8999999999999999999998     345566664321    11  112223232221100     0114679999999


Q ss_pred             CCCCH-------------HHHHHHHHHHHH-------------hccCccEEEEeeccccCchhhhc--cceEEEecCCCh
Q 017884          151 DAMTK-------------DAQFALRRVIEK-------------YTKNTRFALICNQVNKIIPALQS--RCTRFRFAPLEP  202 (364)
Q Consensus       151 ~~l~~-------------~~~~~L~~~le~-------------~~~~~~~Il~~~~~~~l~~~l~s--r~~~i~~~~~~~  202 (364)
                      |.+..             ..+..|+.+|+.             ...++.+|++||.++.+++++++  |+..+.+ .|+.
T Consensus       109 D~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~-~P~~  187 (293)
T 3t15_A          109 DAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW-APTR  187 (293)
T ss_dssp             C--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE-CCCH
T ss_pred             hhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe-CcCH
Confidence            98864             234778888862             22467789999999999999986  5644333 4589


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CCCHH
Q 017884          203 VHVTERLKHVIEAEGLDVTEGGLAALVRLC-NGDMR  237 (364)
Q Consensus       203 ~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~-~g~~r  237 (364)
                      ++..++++.++...+  ++.+.+..+.... +.++.
T Consensus       188 ~~r~~Il~~~~~~~~--~~~~~l~~~~~~~~~~~l~  221 (293)
T 3t15_A          188 EDRIGVCTGIFRTDN--VPAEDVVKIVDNFPGQSID  221 (293)
T ss_dssp             HHHHHHHHHHHGGGC--CCHHHHHHHHHHSCSCCHH
T ss_pred             HHHHHHHHHhccCCC--CCHHHHHHHhCCCCcccHH
Confidence            999999998877554  4566666555544 45553

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.43  E-value=7.3e-12  Score=114.48  Aligned_cols=185  Identities=18%  Similarity=0.161  Sum_probs=122.5

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC------ChHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR------GIDVVRQQ  124 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~~~~~  124 (364)
                      .-+.++|++..+..|..++..+  +.++|+||+|+|||++++.+++..     .  ++.+++....      ....+...
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~-----~--~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER-----P--GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS-----S--EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc-----C--cEEEEeecccccccCCCHHHHHHH
Confidence            3467999999999999999875  568999999999999999999875     1  3444432110      11111111


Q ss_pred             HHHHHhc------------------Ccc---c----------cCCccceEEEEEeCCCCCCH-------HHHHHHHHHHH
Q 017884          125 IQDFAST------------------QSF---S----------FGVKASVKLVLLDEADAMTK-------DAQFALRRVIE  166 (364)
Q Consensus       125 i~~~~~~------------------~~~---~----------~~~~~~~~viiiDe~~~l~~-------~~~~~L~~~le  166 (364)
                      +......                  .+.   .          .....++.+|+|||+|.+..       .....|...++
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~  160 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD  160 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH
Confidence            1111000                  000   0          00001267999999999864       34455555555


Q ss_pred             HhccCccEEEEeeccc---------cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCH
Q 017884          167 KYTKNTRFALICNQVN---------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDM  236 (364)
Q Consensus       167 ~~~~~~~~Il~~~~~~---------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~  236 (364)
                      .. .++.+|+++....         ....++..|. ..+.+.|++.++..+++...+...+..++++.+..++..++|++
T Consensus       161 ~~-~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tgG~P  239 (350)
T 2qen_A          161 SL-PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLDGIP  239 (350)
T ss_dssp             HC-TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHTTCH
T ss_pred             hc-CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCH
Confidence            43 4677788775421         1122344444 58999999999999999988877788899999999999999999


Q ss_pred             HHHHHHHHH
Q 017884          237 RKALNILQS  245 (364)
Q Consensus       237 r~a~~~l~~  245 (364)
                      ..+......
T Consensus       240 ~~l~~~~~~  248 (350)
T 2qen_A          240 GWLVVFGVE  248 (350)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            865554443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.43  E-value=8.8e-14  Score=135.67  Aligned_cols=205  Identities=17%  Similarity=0.195  Sum_probs=122.4

Q ss_pred             CcchhccHHHHHHHHHHHhcCCCC-----------cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           52 LADVAAHRDIVDTIDRLTSENRLP-----------HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~~~-----------~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      ...++|++.++..+...+..+...           |++|+||||+|||++|+++++.+....+.... ..++....+ ..
T Consensus       294 ~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~-~~~~~~l~~-~~  371 (595)
T 3f9v_A          294 APSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGK-GSTAAGLTA-AV  371 (595)
T ss_dssp             SSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTT-CSTTTTSEE-EC
T ss_pred             cchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCC-ccccccccc-ee
Confidence            356899999988887666665311           79999999999999999999876321110000 000000000 00


Q ss_pred             HHHHHHHHHhcCccccC--CccceEEEEEeCCCCCCHHHHHHHHHHHHHh-------------ccCccEEEEeeccc---
Q 017884          121 VRQQIQDFASTQSFSFG--VKASVKLVLLDEADAMTKDAQFALRRVIEKY-------------TKNTRFALICNQVN---  182 (364)
Q Consensus       121 ~~~~i~~~~~~~~~~~~--~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-------------~~~~~~Il~~~~~~---  182 (364)
                      ..+.   .........+  ..+.+++++|||++.+.++.++.|+..|++.             +.++.+|.++|...   
T Consensus       372 ~~~~---~~g~~~~~~G~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~  448 (595)
T 3f9v_A          372 VREK---GTGEYYLEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRY  448 (595)
T ss_dssp             SSGG---GTSSCSEEECHHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCS
T ss_pred             eecc---ccccccccCCeeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCcc
Confidence            0000   0000000000  0013579999999999999999999999963             23566788887664   


Q ss_pred             ----------cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHc-------------------------CCCCCHHHHH
Q 017884          183 ----------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAE-------------------------GLDVTEGGLA  226 (364)
Q Consensus       183 ----------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~-------------------------~~~i~~~~~~  226 (364)
                                .+.+++.+|+ .++.+.+++..+...+...+....                         ...+++++.+
T Consensus       449 ~~~~~~~~ni~l~~aLl~RFDl~~~~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~~~~p~ls~ea~~  528 (595)
T 3f9v_A          449 ISERPVSDNINLPPTILSRFDLIFILKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARKYVTPKITSEAKN  528 (595)
T ss_dssp             CTTSCSCTTTCSCSSSGGGCSCCEEECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHHHHCCCCCCCTHH
T ss_pred             CcccCchhccCCCHHHHhhCeEEEEeCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHHhCCCCCCHHHHH
Confidence                      7889999999 455555555544333333333211                         2356777777


Q ss_pred             HHHHH---------------cCCCHHHHHHHHHHHHHhc-----ccCchHHHHHh
Q 017884          227 ALVRL---------------CNGDMRKALNILQSTHMAS-----QQITEEAVYLC  261 (364)
Q Consensus       227 ~l~~~---------------~~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~  261 (364)
                      .|.++               .++++|.+.+++......+     ..++.+++..+
T Consensus       529 ~l~~~y~~lR~~~~~~~~~~~~~s~R~l~~lirla~a~A~l~~~~~V~~~dv~~A  583 (595)
T 3f9v_A          529 LITDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMALKAEVTREDAERA  583 (595)
T ss_dssp             HHHHHHTTSSCSCCBCSSSCBCSSTTTTTHHHHHHHHHHHTTSSCCSSHHHHHHH
T ss_pred             HHHHHHHHHHHhhccCCCccccccHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHH
Confidence            77776               4677777777665443322     36777776554

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.42  E-value=3.8e-13  Score=106.90  Aligned_cols=128  Identities=12%  Similarity=0.132  Sum_probs=86.5

Q ss_pred             chhccHHHHHHHHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhc
Q 017884           54 DVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (364)
                      +++|++..+..+.+.+..  ....+++|+||||+|||++|+++++...      .++.+++....  +..   .......
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~------~~~~~~~~~~~--~~~---~~~~~~~   73 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT------PWVSPARVEYL--IDM---PMELLQK   73 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS------CEECCSSTTHH--HHC---HHHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC------CeEEechhhCC--hHh---hhhHHHh
Confidence            478988888888777653  3335699999999999999999988642      56666665421  111   1111111


Q ss_pred             CccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-cCccEEEEeeccc-c----Cchhhhccc--eEEEecCC
Q 017884          132 QSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALICNQVN-K----IIPALQSRC--TRFRFAPL  200 (364)
Q Consensus       132 ~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~-~----l~~~l~sr~--~~i~~~~~  200 (364)
                           .   .+++++|||++.++.+.+..|++++++.. .++++|++||... .    +.+.+..|.  ..+.+||+
T Consensus        74 -----a---~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~~~~~~~~~~~~~L~~rl~~~~i~lPpL  142 (143)
T 3co5_A           74 -----A---EGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSYAAGSDGISCEEKLAGLFSESVVRIPPL  142 (143)
T ss_dssp             -----T---TTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEECTTTC--CHHHHHHHHSSSEEEEECCC
T ss_pred             -----C---CCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCCCHHHHHhCccHHHHHHhcCcEEeCCCC
Confidence                 1   25699999999999999999999999863 5678888887542 2    334555664  45666665

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=99.35  E-value=2.8e-11  Score=111.33  Aligned_cols=193  Identities=18%  Similarity=0.227  Sum_probs=129.7

Q ss_pred             cchhccHHHHHHHHHHHhc--CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHh
Q 017884           53 ADVAAHRDIVDTIDRLTSE--NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS  130 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  130 (364)
                      .+++|....+..+...+..  ....+++++|++|+||+.+|+.++..-...+   .++.+|+..... +.+...+.....
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~r~~---~fv~vnc~~~~~-~~~~~~lfg~~~  204 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSGRKG---AFVDLNCASIPQ-ELAESELFGHEK  204 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHCCCS---CEEEEESSSSCT-TTHHHHHHEECS
T ss_pred             ccccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhccccC---CcEEEEcccCCh-HHHHHHhcCccc
Confidence            3577877766665555432  1223489999999999999999998763322   288888876432 222222221110


Q ss_pred             cCccccC--------CccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeecc-------ccC
Q 017884          131 TQSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQV-------NKI  184 (364)
Q Consensus       131 ~~~~~~~--------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~-------~~l  184 (364)
                       ..+.-+        ..++++++++||++.|+...|..|++++++..           .++++|.+|+..       ..+
T Consensus       205 -g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v~~g~f  283 (368)
T 3dzd_A          205 -GAFTGALTRKKGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEIKKGNF  283 (368)
T ss_dssp             -CSSSSCCCCEECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHHHTTSS
T ss_pred             -cccCCcccccCChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHHHcCCc
Confidence             001000        01245689999999999999999999999742           356788888643       245


Q ss_pred             chhhhccc--eEEEecCCCh--HHHHHHHHHHH----HHcC---CCCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc
Q 017884          185 IPALQSRC--TRFRFAPLEP--VHVTERLKHVI----EAEG---LDVTEGGLAALVRLC-NGDMRKALNILQSTHMAS  250 (364)
Q Consensus       185 ~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~~----~~~~---~~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~  250 (364)
                      .+.+..|+  ..+.+||+.+  +++..++...+    .+.+   ..+++++++.|..+. +||+|.+.+.++.+...+
T Consensus       284 r~dL~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpGNvreL~n~i~~~~~~~  361 (368)
T 3dzd_A          284 REDLYYRLSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMKQEWKGNVRELKNLIERAVILC  361 (368)
T ss_dssp             CHHHHHHHTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHTCCCTTHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHhCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhC
Confidence            55677776  4577888877  56655544443    3333   458999999999886 999999999999887643

>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=99.33  E-value=1.3e-11  Score=102.08  Aligned_cols=131  Identities=13%  Similarity=0.161  Sum_probs=82.9

Q ss_pred             hccCCCCCcchhc----cHHHHHHHHHHHhcCC---CCcEEEeCCCCccHHHHHHHHHHHHc-CCCCCCcEEEEeCCCCC
Q 017884           45 EKYRPQSLADVAA----HRDIVDTIDRLTSENR---LPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASDDR  116 (364)
Q Consensus        45 ~~~~p~~~~~~vg----~~~~~~~l~~~~~~~~---~~~lll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~  116 (364)
                      ++|++.+|+++++    +..++..++.++.+..   ...++|+||+|+|||+++++++..+. ..+....+  ++.    
T Consensus         2 ~r~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~--~~~----   75 (180)
T 3ec2_A            2 KRYWNANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYF--FDT----   75 (180)
T ss_dssp             CSCTTCCSSSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCE--EEH----
T ss_pred             chhhhCccccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEE--EEH----
Confidence            5899999999986    4566667777776543   23489999999999999999999884 22322222  221    


Q ss_pred             ChHHHHHHHHHHHhcCcc--ccCCccceEEEEEeCCC--CCCHHHHHHHHHHHHHhc-cCccEEEEeecccc
Q 017884          117 GIDVVRQQIQDFASTQSF--SFGVKASVKLVLLDEAD--AMTKDAQFALRRVIEKYT-KNTRFALICNQVNK  183 (364)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~--~~~~~~~~~viiiDe~~--~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~~~  183 (364)
                        ..+...+.........  .......+.+++|||++  .+.+..+..|..+++... ....+|++||....
T Consensus        76 --~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~~~  145 (180)
T 3ec2_A           76 --KDLIFRLKHLMDEGKDTKFLKTVLNSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYSLQ  145 (180)
T ss_dssp             --HHHHHHHHHHHHHTCCSHHHHHHHTCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCCSC
T ss_pred             --HHHHHHHHHHhcCchHHHHHHHhcCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCChh
Confidence              1111111111110000  00001136799999998  466777888888887764 45678888876544

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=99.32  E-value=5.2e-11  Score=110.37  Aligned_cols=204  Identities=19%  Similarity=0.199  Sum_probs=134.8

Q ss_pred             CcchhccHHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHH
Q 017884           52 LADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFA  129 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (364)
                      +..++|....+..+...+..-.  ..+++++|++|+||+++|++++....  .....++.+|+... ..+.+...+....
T Consensus       136 ~~~~ig~s~~m~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lAr~ih~~s~--r~~~~fv~v~~~~~-~~~~~~~elfg~~  212 (387)
T 1ny5_A          136 EEEYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSD--RSKEPFVALNVASI-PRDIFEAELFGYE  212 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHST--TTTSCEEEEETTTS-CHHHHHHHHHCBC
T ss_pred             chhhhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhcC--CCCCCeEEEecCCC-CHHHHHHHhcCCC
Confidence            4567787777776666655322  22389999999999999999988743  23456788888763 2233333222211


Q ss_pred             hcCccc--------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEEeecc-------cc
Q 017884          130 STQSFS--------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALICNQV-------NK  183 (364)
Q Consensus       130 ~~~~~~--------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~~~~~-------~~  183 (364)
                      .. .+.        .-..++++++++||++.|+...|..|++++++.           +.++++|.+||..       ..
T Consensus       213 ~g-~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~~g~  291 (387)
T 1ny5_A          213 KG-AFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGK  291 (387)
T ss_dssp             TT-SSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTS
T ss_pred             CC-CCCCcccccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHHcCC
Confidence            00 000        000124679999999999999999999999973           2467788888742       24


Q ss_pred             Cchhhhccc--eEEEecCCCh--HHHHHHHHH----HHHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc-
Q 017884          184 IIPALQSRC--TRFRFAPLEP--VHVTERLKH----VIEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS-  250 (364)
Q Consensus       184 l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~----~~~~~~~---~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~-  250 (364)
                      +.+.+-.|.  ..+.+||+.+  +++..++..    .+.+.+.   .+++++++.|..+. .||+|.+.+.++.++..+ 
T Consensus       292 fr~dl~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~~wpGNvreL~~~i~~~~~~~~  371 (387)
T 1ny5_A          292 FREDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSE  371 (387)
T ss_dssp             SCHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCC
T ss_pred             ccHHHHHhhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCC
Confidence            455565664  4577777765  455444433    3344443   47999999999776 999999999999887654 


Q ss_pred             -ccCchHHHH
Q 017884          251 -QQITEEAVY  259 (364)
Q Consensus       251 -~~i~~~~v~  259 (364)
                       ..|+.+++.
T Consensus       372 ~~~i~~~~l~  381 (387)
T 1ny5_A          372 GKFIDRGELS  381 (387)
T ss_dssp             SSEECHHHHH
T ss_pred             CCcCcHHHCc
Confidence             356666653

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.30  E-value=8.9e-11  Score=107.45  Aligned_cols=184  Identities=16%  Similarity=0.152  Sum_probs=117.4

Q ss_pred             CCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC-----CChHHHHHHH
Q 017884           51 SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD-----RGIDVVRQQI  125 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-----~~~~~~~~~i  125 (364)
                      ..+.++|++..+..|.. +..   +.++|+||+|+|||++++.+++.+..     .++.+++...     .........+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHHH
Confidence            34678999999999998 765   57899999999999999999998732     2344544321     1112221111


Q ss_pred             HHHHh--------------cC------------------ccc-------cCCcc-ceEEEEEeCCCCCCH----HHHHHH
Q 017884          126 QDFAS--------------TQ------------------SFS-------FGVKA-SVKLVLLDEADAMTK----DAQFAL  161 (364)
Q Consensus       126 ~~~~~--------------~~------------------~~~-------~~~~~-~~~viiiDe~~~l~~----~~~~~L  161 (364)
                      .....              ..                  ...       +.... ++.+|+|||+|.+..    .....|
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHH
Confidence            11100              00                  000       00000 267999999999853    234445


Q ss_pred             HHHHHHhccCccEEEEeeccc---------cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 017884          162 RRVIEKYTKNTRFALICNQVN---------KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL  231 (364)
Q Consensus       162 ~~~le~~~~~~~~Il~~~~~~---------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~  231 (364)
                      ....+.. .++.+|+++....         ....++..|. ..+.+.|++.++..+++...+...+...++.  ..++..
T Consensus       162 ~~~~~~~-~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~--~~i~~~  238 (357)
T 2fna_A          162 AYAYDNL-KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDY--EVVYEK  238 (357)
T ss_dssp             HHHHHHC-TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCH--HHHHHH
T ss_pred             HHHHHcC-CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcH--HHHHHH
Confidence            4455543 3667788775432         1112344454 7899999999999999998776666665544  889999


Q ss_pred             cCCCHHHHHHHHHHH
Q 017884          232 CNGDMRKALNILQST  246 (364)
Q Consensus       232 ~~g~~r~a~~~l~~~  246 (364)
                      ++|++..+......+
T Consensus       239 t~G~P~~l~~~~~~~  253 (357)
T 2fna_A          239 IGGIPGWLTYFGFIY  253 (357)
T ss_dssp             HCSCHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHH
Confidence            999999776655443

>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=99.18  E-value=2.2e-10  Score=99.20  Aligned_cols=138  Identities=17%  Similarity=0.227  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHhcC-C-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccC
Q 017884           60 DIVDTIDRLTSEN-R-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG  137 (364)
Q Consensus        60 ~~~~~l~~~~~~~-~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  137 (364)
                      .....+..+++.. . ..+++||||||+|||.++.++++.+.     . ...++....               .  +.+.
T Consensus        88 ~~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~-----l-~G~vn~~~~---------------~--f~l~  144 (267)
T 1u0j_A           88 YAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP-----F-YGCVNWTNE---------------N--FPFN  144 (267)
T ss_dssp             HHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS-----C-EEECCTTCS---------------S--CTTG
T ss_pred             HHHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhc-----c-cceeecccc---------------c--cccc
Confidence            3444577777765 2 23499999999999999999999742     1 112222210               1  1122


Q ss_pred             CccceEEEEEeCCCCCCHHHHHHHHHHHH--------Hhc-----cCccEEEEeec----------c-ccCchhhhccce
Q 017884          138 VKASVKLVLLDEADAMTKDAQFALRRVIE--------KYT-----KNTRFALICNQ----------V-NKIIPALQSRCT  193 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~~~~~~~L~~~le--------~~~-----~~~~~Il~~~~----------~-~~l~~~l~sr~~  193 (364)
                      ....+++++.||+. +..+.++.+..+++        .+.     ..+.+|++||.          . ....+.|++|+.
T Consensus       145 ~~~~k~i~l~Ee~~-~~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~~~L~sR~~  223 (267)
T 1u0j_A          145 DCVDKMVIWWEEGK-MTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMF  223 (267)
T ss_dssp             GGSSCSEEEECSCC-EETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTTEE
T ss_pred             cccccEEEEecccc-chhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhhHHHhhhEE
Confidence            21235666666654 44566677888887        333     56788999875          1 256688999999


Q ss_pred             EEEec--------CCChHHHHHHHHHHHHHcCCCCCH
Q 017884          194 RFRFA--------PLEPVHVTERLKHVIEAEGLDVTE  222 (364)
Q Consensus       194 ~i~~~--------~~~~~~~~~~l~~~~~~~~~~i~~  222 (364)
                      +++|.        +++++++..++. +++.+..++++
T Consensus       224 ~f~F~~~~p~~~~~lt~~~~~~f~~-w~~~~~~~~~~  259 (267)
T 1u0j_A          224 KFELTRRLDHDFGKVTKQEVKDFFR-WAKDHVVEVEH  259 (267)
T ss_dssp             EEECCSCCCTTSCCCCHHHHHHHHH-HHHHTCCCCCC
T ss_pred             EEECCCcCCcccCCCCHHHHHHHHH-HHHHcCCCCcc
Confidence            99998        899999999998 55666666543

>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=99.12  E-value=1.8e-10  Score=109.38  Aligned_cols=140  Identities=14%  Similarity=0.195  Sum_probs=80.7

Q ss_pred             CCCCCCCChhhccCCCCCcchh-ccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           35 PPDIKASPWVEKYRPQSLADVA-AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        35 ~~~~~~~~~~~~~~p~~~~~~v-g~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      +-..++.||..+|||.+|+++- +|..++..+...+..+. ++++|.|++|+|||+++.+++..+.+.+. ..++-+..+
T Consensus         6 ~~~~~~~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~~~-~~il~~a~T   83 (459)
T 3upu_A            6 HHHHHSSGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALISTGE-TGIILAAPT   83 (459)
T ss_dssp             ---------------CCSSCCCHHHHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHTTC-CCEEEEESS
T ss_pred             CCCCccCCCccccCCCccccCCHHHHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhcCC-ceEEEecCc
Confidence            3445689999999999999997 68888888888887765 37999999999999999999999866544 122222222


Q ss_pred             CCCChHHHHHHH-------HHHHhcCccc------c-----CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEE
Q 017884          114 DDRGIDVVRQQI-------QDFASTQSFS------F-----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFA  175 (364)
Q Consensus       114 ~~~~~~~~~~~i-------~~~~~~~~~~------~-----~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~I  175 (364)
                      . .....+.+.+       ..+....+..      +     ......++++|||++.++...+..|...+.   ..+.++
T Consensus        84 ~-~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~---~~~~~~  159 (459)
T 3upu_A           84 H-AAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP---PWCTII  159 (459)
T ss_dssp             H-HHHHHHHHHHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC---TTCEEE
T ss_pred             H-HHHHHHHhhhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc---CCCEEE
Confidence            1 1112222211       1112110000      0     011246799999999999887777777653   567788


Q ss_pred             EEeec
Q 017884          176 LICNQ  180 (364)
Q Consensus       176 l~~~~  180 (364)
                      ++++.
T Consensus       160 ~vGD~  164 (459)
T 3upu_A          160 GIGDN  164 (459)
T ss_dssp             EEECT
T ss_pred             EECCH
Confidence            88853

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.07  E-value=4.8e-10  Score=89.41  Aligned_cols=98  Identities=14%  Similarity=0.242  Sum_probs=69.0

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMT  154 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~  154 (364)
                      ..++|+||+|+|||+++++++..+...  ...++.++.......        .        +..  ...+++|||++.+.
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~~~~~~--g~~~~~~~~~~~~~~--------~--------~~~--~~~lLilDE~~~~~   96 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVAQALEA--GKNAAYIDAASMPLT--------D--------AAF--EAEYLAVDQVEKLG   96 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHHHHHTT--TCCEEEEETTTSCCC--------G--------GGG--GCSEEEEESTTCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEcHHHhhHH--------H--------HHh--CCCEEEEeCccccC
Confidence            458999999999999999999988643  334566666543222        0        111  46799999999998


Q ss_pred             HHHHHHHHHHHHHhccC-cc-EEEEeecccc-C--chhhhccc
Q 017884          155 KDAQFALRRVIEKYTKN-TR-FALICNQVNK-I--IPALQSRC  192 (364)
Q Consensus       155 ~~~~~~L~~~le~~~~~-~~-~Il~~~~~~~-l--~~~l~sr~  192 (364)
                      ...++.|+.+++..... .. +|++++.... +  .+.+.||+
T Consensus        97 ~~~~~~l~~li~~~~~~g~~~iiits~~~p~~l~~~~~L~SRl  139 (149)
T 2kjq_A           97 NEEQALLFSIFNRFRNSGKGFLLLGSEYTPQQLVIREDLRTRM  139 (149)
T ss_dssp             SHHHHHHHHHHHHHHHHTCCEEEEEESSCTTTSSCCHHHHHHG
T ss_pred             hHHHHHHHHHHHHHHHcCCcEEEEECCCCHHHccccHHHHHHH
Confidence            77788899998865432 33 7777764322 1  28888886

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.07  E-value=2.9e-10  Score=95.60  Aligned_cols=131  Identities=18%  Similarity=0.186  Sum_probs=75.8

Q ss_pred             hhhccCCCCCcchhccH----HHHHHHHHHHhcCCC----CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           43 WVEKYRPQSLADVAAHR----DIVDTIDRLTSENRL----PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~----~~~~~l~~~~~~~~~----~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      +..+|++.+|+++++..    .++..+..++.....    .+++|+||+|+|||++++++++.+...+..  ++.+++..
T Consensus        15 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~--~~~~~~~~   92 (202)
T 2w58_A           15 MPREILRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVS--SLIVYVPE   92 (202)
T ss_dssp             SCGGGGCCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCC--EEEEEHHH
T ss_pred             CCHHHHcCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCe--EEEEEhHH
Confidence            44577888999999743    355566777765421    569999999999999999999998654433  33343321


Q ss_pred             CCChHHHHHHHHHHHhcCccc--cCCccceEEEEEeCCCCCCH--HHHHHHH-HHHHHh-ccCccEEEEeecc
Q 017884          115 DRGIDVVRQQIQDFASTQSFS--FGVKASVKLVLLDEADAMTK--DAQFALR-RVIEKY-TKNTRFALICNQV  181 (364)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~~~~--~~~~~~~~viiiDe~~~l~~--~~~~~L~-~~le~~-~~~~~~Il~~~~~  181 (364)
                            +...+..........  +.......+|+|||++....  ..+..++ .+++.. .....+|++||..
T Consensus        93 ------~~~~~~~~~~~~~~~~~~~~~~~~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~~  159 (202)
T 2w58_A           93 ------LFRELKHSLQDQTMNEKLDYIKKVPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNFD  159 (202)
T ss_dssp             ------HHHHHHHC---CCCHHHHHHHHHSSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESSC
T ss_pred             ------HHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCCC
Confidence                  111111100000000  00000245999999977543  2244344 466553 4566788888743

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=99.00  E-value=1e-09  Score=90.63  Aligned_cols=120  Identities=19%  Similarity=0.290  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHhcCCCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC
Q 017884           60 DIVDTIDRLTSENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  138 (364)
                      ..+..|+.++++-... +++||||||+|||+++.++++.+.+.     ++.+  ...... .       ...  +  +. 
T Consensus        43 ~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~g~-----i~~f--ans~s~-f-------~l~--~--l~-  102 (212)
T 1tue_A           43 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGA-----VISF--VNSTSH-F-------WLE--P--LT-  102 (212)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTCE-----ECCC--CCSSSC-G-------GGG--G--GT-
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCCC-----eeeE--Eeccch-h-------hhc--c--cC-
Confidence            4566777777753212 59999999999999999999998421     1111  110000 0       000  0  11 


Q ss_pred             ccceEEEEEeCCCCCCHHH-HHHHHHHHHHhc-------------cCccEEEEeec---cccCchhhhccceEEEecCCC
Q 017884          139 KASVKLVLLDEADAMTKDA-QFALRRVIEKYT-------------KNTRFALICNQ---VNKIIPALQSRCTRFRFAPLE  201 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~~~~-~~~L~~~le~~~-------------~~~~~Il~~~~---~~~l~~~l~sr~~~i~~~~~~  201 (364)
                        +.++++|||++.-.-.. ...+..+++..+             ....+|++||.   .....+.|.||+..+.|+.+-
T Consensus       103 --~~kIiiLDEad~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~SRi~~f~F~~~~  180 (212)
T 1tue_A          103 --DTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEFPNAF  180 (212)
T ss_dssp             --TCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEECCSCC
T ss_pred             --CCCEEEEECCCchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhhhEEEEEcCCCC
Confidence              36799999998432111 234555555532             13578889986   334557899999999987443

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.99  E-value=1.4e-08  Score=94.21  Aligned_cols=165  Identities=10%  Similarity=0.045  Sum_probs=103.1

Q ss_pred             hhccHHHHHHHHHHHhcCC-----CCcEEEeCCCCccHHHHHHHH-HHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           55 VAAHRDIVDTIDRLTSENR-----LPHLLLYGPPGTGKTSTILAV-ARKLYGAQYHNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~-----~~~lll~G~~G~GKt~la~~l-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      ++|++.++..+.-.+-+|.     .-|+||.|+||+ ||.+++++ ++.+ .   .  ..+..+.. .....+...+...
T Consensus       215 I~G~e~vK~aLll~L~GG~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~-p---R--~~ft~g~~-ss~~gLt~s~r~~  286 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLA-P---R--GVYVDLRR-TELTDLTAVLKED  286 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTC-S---S--EEEEEGGG-CCHHHHSEEEEES
T ss_pred             cCCCHHHHHHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhC-C---C--eEEecCCC-CCccCceEEEEcC
Confidence            8899998888877776662     127999999999 99999999 5543 1   1  11111110 0000000000000


Q ss_pred             HhcCccccCC----ccceEEEEEeCCCCCCHHHHHHHHHHHHHh---------ccCccEEEEeeccc-----------cC
Q 017884          129 ASTQSFSFGV----KASVKLVLLDEADAMTKDAQFALRRVIEKY---------TKNTRFALICNQVN-----------KI  184 (364)
Q Consensus       129 ~~~~~~~~~~----~~~~~viiiDe~~~l~~~~~~~L~~~le~~---------~~~~~~Il~~~~~~-----------~l  184 (364)
                        +. +.+..    .++++++++||++.+++..+.+|++.|++.         +..+.+|.++|...           .+
T Consensus       287 --tG-~~~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~~~s~~~~~L  363 (506)
T 3f8t_A          287 --RG-WALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPSDPPIARIDL  363 (506)
T ss_dssp             --SS-EEEEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CCSCGGGGCCS
T ss_pred             --CC-cccCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCCCCCccccCC
Confidence              00 00000    114689999999999999999999999974         55677777887653           77


Q ss_pred             chhhhccceE-EEe-c-------------CCChHHHHHHHHHHHH--HcCCCCCHHHHHHHHHH
Q 017884          185 IPALQSRCTR-FRF-A-------------PLEPVHVTERLKHVIE--AEGLDVTEGGLAALVRL  231 (364)
Q Consensus       185 ~~~l~sr~~~-i~~-~-------------~~~~~~~~~~l~~~~~--~~~~~i~~~~~~~l~~~  231 (364)
                      .+++.+|+.. +.. .             .++.+.+++++.. ++  ...+.+++++.++|+++
T Consensus       364 p~alLDRFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~-ar~~~~~p~ls~ea~~yI~~~  426 (506)
T 3f8t_A          364 DQDFLSHFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLY-AIREHPAPELTEEARKRLEHW  426 (506)
T ss_dssp             CHHHHTTCSEEEETTC--------------CCHHHHHHHHHH-HHHHCSCCEECHHHHHHHHHH
T ss_pred             ChHHhhheeeEEEecCCCChhHhhcccCCCCCHHHHHHHHHH-HHhcCCCceeCHHHHHHHHHH
Confidence            8899999833 222 1             2334555555553 33  23677899988888765

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.98  E-value=6.9e-09  Score=114.90  Aligned_cols=145  Identities=15%  Similarity=0.197  Sum_probs=101.4

Q ss_pred             HHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc----ccCC--
Q 017884           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF----SFGV--  138 (364)
Q Consensus        65 l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~----~~~~--  138 (364)
                      +..++..+  .+++|+||||||||++|+.+....    ....+..++.+.......+...+.........    .+++  
T Consensus      1260 l~~~l~~~--~~vLL~GPpGtGKT~la~~~l~~~----~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~ 1333 (2695)
T 4akg_A         1260 FYDLLNSK--RGIILCGPPGSGKTMIMNNALRNS----SLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKS 1333 (2695)
T ss_dssp             HHHHHHHT--CEEEEECSTTSSHHHHHHHHHHSC----SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBS
T ss_pred             HHHHHHCC--CeEEEECCCCCCHHHHHHHHHhcC----CCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCC
Confidence            45555555  469999999999999997766553    23556667776665666666666654332110    0111  


Q ss_pred             ccceEEEEEeCCCCCCH------HHHHHHHHHHHHhc------------cCccEEEEeecc-----ccCchhhhccceEE
Q 017884          139 KASVKLVLLDEADAMTK------DAQFALRRVIEKYT------------KNTRFALICNQV-----NKIIPALQSRCTRF  195 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~~------~~~~~L~~~le~~~------------~~~~~Il~~~~~-----~~l~~~l~sr~~~i  195 (364)
                      .+.+.|++|||++....      ...+.|+.+++...            .++.+|.++|.+     ..+.+++.+||.++
T Consensus      1334 ~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi 1413 (2695)
T 4akg_A         1334 DIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAIL 1413 (2695)
T ss_dssp             SSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEE
T ss_pred             CCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEE
Confidence            22467999999876542      36777888887411            245677778877     37899999999999


Q ss_pred             EecCCChHHHHHHHHHHHHH
Q 017884          196 RFAPLEPVHVTERLKHVIEA  215 (364)
Q Consensus       196 ~~~~~~~~~~~~~l~~~~~~  215 (364)
                      .++.|+.+++..++..++..
T Consensus      1414 ~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1414 YLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             ECCCCTTTHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHH
Confidence            99999999999999888764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.95  E-value=7.1e-10  Score=99.44  Aligned_cols=131  Identities=17%  Similarity=0.182  Sum_probs=74.0

Q ss_pred             hhhccCCCCCcchhcc----HHHHHHHHHHHhcCC---CCcEEEeCCCCccHHHHHHHHHHHHc-CCCCCCcEEEEeCCC
Q 017884           43 WVEKYRPQSLADVAAH----RDIVDTIDRLTSENR---LPHLLLYGPPGTGKTSTILAVARKLY-GAQYHNMILELNASD  114 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~----~~~~~~l~~~~~~~~---~~~lll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~  114 (364)
                      +...+++.+|+++++.    ..++..+..++....   ..+++|+||+|+|||+++.++++.+. ..+..  +..++.. 
T Consensus       114 l~~~~~~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~--v~~~~~~-  190 (308)
T 2qgz_A          114 LPKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVS--TTLLHFP-  190 (308)
T ss_dssp             SCGGGGSCCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCC--EEEEEHH-
T ss_pred             CCHHHHhCCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCc--EEEEEHH-
Confidence            3455677899999973    335556667777532   35699999999999999999999886 54433  3333322 


Q ss_pred             CCChHHHHHHHHHHHhcC--ccccCCccceEEEEEeCCCCCC--HHHHHHHH-HHHHHh-ccCccEEEEeecc
Q 017884          115 DRGIDVVRQQIQDFASTQ--SFSFGVKASVKLVLLDEADAMT--KDAQFALR-RVIEKY-TKNTRFALICNQV  181 (364)
Q Consensus       115 ~~~~~~~~~~i~~~~~~~--~~~~~~~~~~~viiiDe~~~l~--~~~~~~L~-~~le~~-~~~~~~Il~~~~~  181 (364)
                           .+...+.......  ...+.......+|+|||++...  ...++.|+ .+++.. .....+|++||.+
T Consensus       191 -----~l~~~l~~~~~~~~~~~~~~~~~~~~lLiiDdig~~~~~~~~~~~ll~~ll~~r~~~~~~~IitSN~~  258 (308)
T 2qgz_A          191 -----SFAIDVKNAISNGSVKEEIDAVKNVPVLILDDIGAEQATSWVRDEVLQVILQYRMLEELPTFFTSNYS  258 (308)
T ss_dssp             -----HHHHHHHCCCC----CCTTHHHHTSSEEEEETCCC------CTTTTHHHHHHHHHHHTCCEEEEESSC
T ss_pred             -----HHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHHHCCCcEEEECCCC
Confidence                 1111111100000  0000000135699999996653  23334343 366653 3466788888743

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=98.71  E-value=1.5e-07  Score=92.21  Aligned_cols=184  Identities=13%  Similarity=0.127  Sum_probs=105.0

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHc--CCCCCCcEEEEeCCCCCChHHHHH
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLY--GAQYHNMILELNASDDRGIDVVRQ  123 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~~~~  123 (364)
                      -|.....++|++..+..|...+...  ....+.|+|++|+|||++|..+++...  ...+...+..++.... ....+..
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~  197 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLM  197 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHH
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHH
Confidence            3556677999999999999998743  223379999999999999999875320  1112222333332221 1122222


Q ss_pred             HHHHHHhcCc-------cc--------------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          124 QIQDFASTQS-------FS--------------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       124 ~i~~~~~~~~-------~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      .+........       ..              .....++-+|||||++..  .       .++..+..+.+|++|....
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--~-------~l~~l~~~~~ilvTsR~~~  268 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--W-------VLKAFDSQCQILLTTRDKS  268 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--H-------HHHTTCSSCEEEEEESCGG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--H-------HHHHhcCCCeEEEECCCcH
Confidence            2221111000       00              000013579999999752  1       2334466777888775433


Q ss_pred             cCchhhhccceEEEe---cCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHH
Q 017884          183 KIIPALQSRCTRFRF---APLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQS  245 (364)
Q Consensus       183 ~l~~~l~sr~~~i~~---~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~  245 (364)
                      - .....  ...+.+   .+++.++..+++...+.... .-.++.+..|++.++|.|-.+......
T Consensus       269 ~-~~~~~--~~~~~v~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~i~~~~~G~PLal~~~a~~  330 (591)
T 1z6t_A          269 V-TDSVM--GPKYVVPVESSLGKEKGLEILSLFVNMKK-ADLPEQAHSIIKECKGSPLVVSLIGAL  330 (591)
T ss_dssp             G-GTTCC--SCEEEEECCSSCCHHHHHHHHHHHHTSCG-GGSCTHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             H-HHhcC--CCceEeecCCCCCHHHHHHHHHHHhCCCc-ccccHHHHHHHHHhCCCcHHHHHHHHH
Confidence            1 11111  223333   48999999999988764311 112456788999999998766544443

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.56  E-value=2.1e-06  Score=95.55  Aligned_cols=166  Identities=16%  Similarity=0.250  Sum_probs=111.7

Q ss_pred             HHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCcc
Q 017884           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKA  140 (364)
Q Consensus        61 ~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  140 (364)
                      ....+...+..+  -+.++.||+|+|||++++.+|+.+     +..++.+++++......+...+...+.          
T Consensus       634 ~~~tl~~Al~~~--~~~~l~GpaGtGKTe~vk~LA~~l-----g~~~v~~nc~e~ld~~~lg~~~~g~~~----------  696 (2695)
T 4akg_A          634 GFATLTDSLHQK--YGGCFFGPAGTGKTETVKAFGQNL-----GRVVVVFNCDDSFDYQVLSRLLVGITQ----------  696 (2695)
T ss_dssp             HHHHHHHHHHTT--CEEEEECCTTSCHHHHHHHHHHTT-----TCCCEEEETTSSCCHHHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHhC--CCCcccCCCCCCcHHHHHHHHHHh-----CCcEEEEECCCCCChhHhhHHHHHHHh----------
Confidence            334455555544  247899999999999999999998     556678898887766666555555443          


Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHH-------HHHh-------------ccCccEEEEee----ccccCchhhhccceEEE
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRV-------IEKY-------------TKNTRFALICN----QVNKIIPALQSRCTRFR  196 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~-------le~~-------------~~~~~~Il~~~----~~~~l~~~l~sr~~~i~  196 (364)
                      .+..+++||++.+..+....+...       +.+.             .+++.++++.|    ....+++.+++||..+.
T Consensus       697 ~Gaw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~Fr~v~  776 (2695)
T 4akg_A          697 IGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFS  776 (2695)
T ss_dssp             HTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTTEEEEE
T ss_pred             cCCEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhheEEEE
Confidence            256999999999999887776333       3221             12344555555    23468899999999999


Q ss_pred             ecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-------c------CCCHHHHHHHHHHH
Q 017884          197 FAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL-------C------NGDMRKALNILQST  246 (364)
Q Consensus       197 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~-------~------~g~~r~a~~~l~~~  246 (364)
                      +..|+.+.+.+++...   .|....+.....++..       .      +..+|.+...|..+
T Consensus       777 m~~Pd~~~i~ei~l~s---~Gf~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~a  836 (2695)
T 4akg_A          777 MKSPQSGTIAEMILQI---MGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNC  836 (2695)
T ss_dssp             CCCCCHHHHHHHHHHH---HHCSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHH
T ss_pred             eeCCCHHHHHHHHHHh---cCCCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHH
Confidence            9999988888876432   3554444444433321       1      23577777766543

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.53  E-value=9.1e-07  Score=99.04  Aligned_cols=178  Identities=17%  Similarity=0.171  Sum_probs=115.4

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcC------ccccC
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQ------SFSFG  137 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~------~~~~~  137 (364)
                      .+..++..+  .+++|+||+|+|||.++..+...+    ....++.++.+.......+...+.......      +. ++
T Consensus      1296 ll~~ll~~~--~pvLL~GptGtGKT~li~~~L~~l----~~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~-~~ 1368 (3245)
T 3vkg_A         1296 VLHAWLSEH--RPLILCGPPGSGKTMTLTSTLRAF----PDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETV-LR 1368 (3245)
T ss_dssp             HHHHHHHTT--CCCEEESSTTSSHHHHHHHHGGGC----TTEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEE-EE
T ss_pred             HHHHHHHCC--CcEEEECCCCCCHHHHHHHHHHhC----CCCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcc-cC
Confidence            345555555  459999999999998887665554    234566778777666667766666543211      11 22


Q ss_pred             C--ccceEEEEEeCCCCCCH------HHHHHHHHHHHHh------------ccCccEEEEeecc-----ccCchhhhccc
Q 017884          138 V--KASVKLVLLDEADAMTK------DAQFALRRVIEKY------------TKNTRFALICNQV-----NKIIPALQSRC  192 (364)
Q Consensus       138 ~--~~~~~viiiDe~~~l~~------~~~~~L~~~le~~------------~~~~~~Il~~~~~-----~~l~~~l~sr~  192 (364)
                      +  .++..|++|||++.-..      ...+.|+.+++..            ..++.+|.++|++     ..+.+.+.+||
T Consensus      1369 p~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F 1448 (3245)
T 3vkg_A         1369 PTQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHA 1448 (3245)
T ss_dssp             ESSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTC
T ss_pred             CCcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhc
Confidence            2  13456999999976653      3677888888852            1345567777765     35889999999


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCC------CCCHHHHHHHHHH---------------cCCCHHHHHHHHHHHHH
Q 017884          193 TRFRFAPLEPVHVTERLKHVIEAEGL------DVTEGGLAALVRL---------------CNGDMRKALNILQSTHM  248 (364)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~------~i~~~~~~~l~~~---------------~~g~~r~a~~~l~~~~~  248 (364)
                      .++.++.|+.+++..+...+....--      .+.+..++..++.               .--|+|.+-..++.+..
T Consensus      1449 ~vi~i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~ati~ly~~v~~~~lp~~k~HY~FnLRDLsrv~qGll~ 1525 (3245)
T 3vkg_A         1449 PILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAMVEFYSESQKRFTPDIQAHYIYSPRELSRWDRALLE 1525 (3245)
T ss_dssp             CEEECCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHHHHHHHHHHHHSCTTTSTTCCCCHHHHHHHHHHHHH
T ss_pred             eEEEeCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCccccHHHHHHHHHHHHH
Confidence            99999999999999987766543210      1123333333321               12488888888776554

>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=98.50  E-value=4e-06  Score=88.95  Aligned_cols=188  Identities=13%  Similarity=0.134  Sum_probs=109.8

Q ss_pred             CCCCCcchhccHHHHHHHHHHHhcCC--CCcEEEeCCCCccHHHHHHHHHHHH--cCCCCCCcEEEEeCCCCCChHH---
Q 017884           48 RPQSLADVAAHRDIVDTIDRLTSENR--LPHLLLYGPPGTGKTSTILAVARKL--YGAQYHNMILELNASDDRGIDV---  120 (364)
Q Consensus        48 ~p~~~~~~vg~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~~---  120 (364)
                      -|.....++|++..+..|...+....  ...+.|+|+.|+|||++|..+++..  ....+...++.++.........   
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  198 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK  198 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHH
Confidence            45566779999999999999986432  2237999999999999999887652  1222333344444433211111   


Q ss_pred             HHHHHHHHHhcCcc-----------------ccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          121 VRQQIQDFASTQSF-----------------SFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       121 ~~~~i~~~~~~~~~-----------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +.............                 ......++-+||||+++..  .       .++...+.+++|++|....-
T Consensus       199 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~-------~~~~~~~~~~ilvTtR~~~~  269 (1249)
T 3sfz_A          199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--W-------VLKAFDNQCQILLTTRDKSV  269 (1249)
T ss_dssp             HHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--H-------HHTTTCSSCEEEEEESSTTT
T ss_pred             HHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--H-------HHHhhcCCCEEEEEcCCHHH
Confidence            11111111100000                 0011113679999999853  1       22334567788888865432


Q ss_pred             CchhhhccceEEEecC-CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Q 017884          184 IIPALQSRCTRFRFAP-LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQST  246 (364)
Q Consensus       184 l~~~l~sr~~~i~~~~-~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~  246 (364)
                       ..........+.+.+ ++.++..+.+...+...... .++....|++.++|-|-.+......+
T Consensus       270 -~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~-~~~~~~~i~~~~~glPLal~~~~~~l  331 (1249)
T 3sfz_A          270 -TDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKED-LPAEAHSIIKECKGSPLVVSLIGALL  331 (1249)
T ss_dssp             -TTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCSTT-CCTHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             -HHhhcCCceEEEecCCCCHHHHHHHHHHhhCCChhh-CcHHHHHHHHHhCCCHHHHHHHHHHh
Confidence             212222345677775 99999999988776433222 23567889999999776554443333

>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=98.50  E-value=1.3e-06  Score=84.65  Aligned_cols=177  Identities=18%  Similarity=0.171  Sum_probs=101.8

Q ss_pred             hccHHHHHHHHHHHhcC---CCCcEEEeCCCCccHHHHHHHHHH---HHcCCCCCCcEEEEeCCCCC--ChH-HHHHHHH
Q 017884           56 AAHRDIVDTIDRLTSEN---RLPHLLLYGPPGTGKTSTILAVAR---KLYGAQYHNMILELNASDDR--GID-VVRQQIQ  126 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~---~~~~lll~G~~G~GKt~la~~l~~---~l~~~~~~~~~~~~~~~~~~--~~~-~~~~~i~  126 (364)
                      +|++..+..|..++..+   ....+.|+|+.|+|||++|+.+++   .-....+ ...+.++.+...  +.. .....+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F-~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY-DSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTB-SEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccC-CcEEEEEECCCCCCCHHHHHHHHHH
Confidence            49999999999998654   223379999999999999999997   2222223 233344444322  122 2222222


Q ss_pred             HHHhcC---cc-ccCC--------------ccc-eEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchh
Q 017884          127 DFASTQ---SF-SFGV--------------KAS-VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPA  187 (364)
Q Consensus       127 ~~~~~~---~~-~~~~--------------~~~-~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~  187 (364)
                      ......   .. ....              .++ +-+||+|++.....  . .+    ... ..+++|+||.... +...
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~--~-~~----~~~-~gs~ilvTTR~~~-v~~~  280 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET--I-RW----AQE-LRLRCLVTTRDVE-ISNA  280 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHH--H-HH----HHH-TTCEEEEEESBGG-GGGG
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchh--h-cc----ccc-CCCEEEEEcCCHH-HHHH
Confidence            222110   00 0000              123 67999999987421  1 11    111 4677777775432 2211


Q ss_pred             hhccceEEEecCCChHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHH
Q 017884          188 LQSRCTRFRFAPLEPVHVTERLKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALNI  242 (364)
Q Consensus       188 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~i~~~~~~~l~~~~~g~~r~a~~~  242 (364)
                      .......+.+++++.++..+++...+..... .-.++....|++.++|.|-.+...
T Consensus       281 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~  336 (549)
T 2a5y_B          281 ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  336 (549)
T ss_dssp             CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHH
Confidence            1112356899999999999888876422111 111345788999999987665543

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.35  E-value=4.3e-07  Score=75.66  Aligned_cols=60  Identities=10%  Similarity=0.094  Sum_probs=40.2

Q ss_pred             ceEEEEEeCCCCCCH---HHH--HHHHHHHHHhcc-CccEEEEeeccccCchhhhccc-eEEEecCC
Q 017884          141 SVKLVLLDEADAMTK---DAQ--FALRRVIEKYTK-NTRFALICNQVNKIIPALQSRC-TRFRFAPL  200 (364)
Q Consensus       141 ~~~viiiDe~~~l~~---~~~--~~L~~~le~~~~-~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~~  200 (364)
                      .+.||+|||++.+.+   ...  ..++..++.... ...+|+++..+..+...+++|+ ..+++.++
T Consensus        87 ~~~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r~~~~~iil~tq~~~~l~~~lr~ri~~~~~l~~~  153 (199)
T 2r2a_A           87 IGSIVIVDEAQDVWPARSAGSKIPENVQWLNTHRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIASN  153 (199)
T ss_dssp             TTCEEEETTGGGTSBCCCTTCCCCHHHHGGGGTTTTTCEEEEEESCGGGBCHHHHTTEEEEEEEEEC
T ss_pred             CceEEEEEChhhhccCccccchhHHHHHHHHhcCcCCeEEEEECCCHHHHhHHHHHHhheEEEEcCc
Confidence            377999999999832   111  134444444332 3458889988889999999997 55667663

>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=98.34  E-value=2e-06  Score=70.35  Aligned_cols=69  Identities=13%  Similarity=0.243  Sum_probs=48.5

Q ss_pred             ceEEEEEeCCC---CCCHHHHHHHHHHHHHhccCccEEEEee--ccccCchhhhcc--ceEEEecCCChHHHHHHHHH
Q 017884          141 SVKLVLLDEAD---AMTKDAQFALRRVIEKYTKNTRFALICN--QVNKIIPALQSR--CTRFRFAPLEPVHVTERLKH  211 (364)
Q Consensus       141 ~~~viiiDe~~---~l~~~~~~~L~~~le~~~~~~~~Il~~~--~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~  211 (364)
                      ++.++++||++   .+.....+.+.+++++.  .+.+|++++  ....+...+.+|  +.++++.+.+.+++...+..
T Consensus        99 ~p~llilDEigp~~~ld~~~~~~l~~~l~~~--~~~~i~~~H~~h~~~~~~~i~~r~~~~i~~~~~~~r~~~~~~l~~  174 (178)
T 1ye8_A           99 RRKVIIIDEIGKMELFSKKFRDLVRQIMHDP--NVNVVATIPIRDVHPLVKEIRRLPGAVLIELTPENRDVILEDILS  174 (178)
T ss_dssp             TTCEEEECCCSTTGGGCHHHHHHHHHHHTCT--TSEEEEECCSSCCSHHHHHHHTCTTCEEEECCTTTTTTHHHHHHH
T ss_pred             CCCEEEEeCCCCcccCCHHHHHHHHHHHhcC--CCeEEEEEccCCCchHHHHHHhcCCcEEEEecCcCHHHHHHHHHH
Confidence            47799999954   34567788888888862  343666663  334566677777  78999988887777665543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.28  E-value=6.5e-07  Score=73.75  Aligned_cols=114  Identities=11%  Similarity=0.114  Sum_probs=60.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH------------HHHHHhcCccccCCccceEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ------------IQDFASTQSFSFGVKASVKL  144 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------------i~~~~~~~~~~~~~~~~~~v  144 (364)
                      .+++||+|+|||+++..++..+...+....++........+...+...            ..++...    ..  .+..+
T Consensus         6 ~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~----~~--~~~dv   79 (184)
T 2orw_A            6 TVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKY----IE--EDTRG   79 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGG----CC--TTEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHH----hc--CCCCE
Confidence            689999999999999777766543333222221111000000000000            0011110    11  14789


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee------ccccCchhhhccc-eEEEecC
Q 017884          145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN------QVNKIIPALQSRC-TRFRFAP  199 (364)
Q Consensus       145 iiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~------~~~~l~~~l~sr~-~~i~~~~  199 (364)
                      |+|||++.++++..+.|..+.+.   +..+|+++.      .+....+.+.+++ .+.++..
T Consensus        80 viIDE~Q~~~~~~~~~l~~l~~~---~~~Vi~~Gl~~~f~~~~f~~~~~ll~~ad~v~~l~~  138 (184)
T 2orw_A           80 VFIDEVQFFNPSLFEVVKDLLDR---GIDVFCAGLDLTHKQNPFETTALLLSLADTVIKKKA  138 (184)
T ss_dssp             EEECCGGGSCTTHHHHHHHHHHT---TCEEEEEEESBCTTSCBCHHHHHHHHHCSEEEECCB
T ss_pred             EEEECcccCCHHHHHHHHHHHHC---CCCEEEEeeccccccCCccchHHHHHHhhheEEeee
Confidence            99999999987777777666654   555666664      2234445666666 3444433

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.26  E-value=1.9e-05  Score=80.26  Aligned_cols=148  Identities=16%  Similarity=0.124  Sum_probs=83.2

Q ss_pred             hccHHHHHHHHHHHhcC-CCCcEEEeCCCCccHHHHHHHHHHHH-cCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCc
Q 017884           56 AAHRDIVDTIDRLTSEN-RLPHLLLYGPPGTGKTSTILAVARKL-YGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS  133 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~-~~~~lll~G~~G~GKt~la~~l~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  133 (364)
                      +|++..+..|..++... ..+.+.|+|+.|+|||++|+.+++.. ....+...++.++.+.......+...+........
T Consensus       131 VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i~  210 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID  210 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhcC
Confidence            89999999999998763 33347999999999999999998631 01112222334443333222222222222110000


Q ss_pred             ------c-------------------cc-CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchh
Q 017884          134 ------F-------------------SF-GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPA  187 (364)
Q Consensus       134 ------~-------------------~~-~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~  187 (364)
                            .                   .+ ....++-+||+||++.  ....       +..+..+++|++|...... ..
T Consensus       211 ~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd--~eqL-------e~f~pGSRILVTTRd~~Va-~~  280 (1221)
T 1vt4_I          211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAW-------NAFNLSCKILLTTRFKQVT-DF  280 (1221)
T ss_dssp             SSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCC--HHHH-------HHHHSSCCEEEECSCSHHH-HH
T ss_pred             cccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcCh--HHHH-------HhhCCCeEEEEeccChHHH-Hh
Confidence                  0                   00 0012467999999988  2222       2224678888888654321 11


Q ss_pred             hhc-cceEEEec----CCChHHHHHHHHHHH
Q 017884          188 LQS-RCTRFRFA----PLEPVHVTERLKHVI  213 (364)
Q Consensus       188 l~s-r~~~i~~~----~~~~~~~~~~l~~~~  213 (364)
                      +.. +...+.++    +++.++..+++....
T Consensus       281 l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~  311 (1221)
T 1vt4_I          281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYL  311 (1221)
T ss_dssp             HHHHSSCEEEECSSSSCCCHHHHHHHHHHHH
T ss_pred             cCCCeEEEecCccccCCcCHHHHHHHHHHHc
Confidence            111 12344444    789999999888764

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.11  E-value=5.9e-05  Score=84.85  Aligned_cols=167  Identities=15%  Similarity=0.189  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCc
Q 017884           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~  139 (364)
                      .-.-.|..++..+.  ...+.||+|+|||.+++.+++.+     +..++.+|+++......+...+...+.         
T Consensus       592 rcy~tl~~Al~~~~--gg~~~GPaGtGKTet~k~La~~l-----gr~~~vfnC~~~~d~~~~g~i~~G~~~---------  655 (3245)
T 3vkg_A          592 RCYLTLTQALESRM--GGNPFGPAGTGKTETVKALGSQL-----GRFVLVFCCDEGFDLQAMSRIFVGLCQ---------  655 (3245)
T ss_dssp             HHHHHHHHHHHTTC--EEEEECSTTSSHHHHHHHHHHHT-----TCCEEEEECSSCCCHHHHHHHHHHHHH---------
T ss_pred             HHHHHHHHHHHhcC--CCCCCCCCCCCHHHHHHHHHHHh-----CCeEEEEeCCCCCCHHHHHHHHhhHhh---------
Confidence            33445555565542  24688999999999999999998     456677888876665555554555443         


Q ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHH-------Hh--------------ccCccEEEEeec----cccCchhhhccceE
Q 017884          140 ASVKLVLLDEADAMTKDAQFALRRVIE-------KY--------------TKNTRFALICNQ----VNKIIPALQSRCTR  194 (364)
Q Consensus       140 ~~~~viiiDe~~~l~~~~~~~L~~~le-------~~--------------~~~~~~Il~~~~----~~~l~~~l~sr~~~  194 (364)
                       .+...++||++++..+....+...+.       ..              .+++.++++.|+    ...+++.+++||..
T Consensus       656 -~GaW~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lFr~  734 (3245)
T 3vkg_A          656 -CGAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRS  734 (3245)
T ss_dssp             -HTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTEEE
T ss_pred             -cCcEEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhcEE
Confidence             25588999999999887766655444       11              123445555553    35789999999999


Q ss_pred             EEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-------------cCCCHHHHHHHHHHH
Q 017884          195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRL-------------CNGDMRKALNILQST  246 (364)
Q Consensus       195 i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~-------------~~g~~r~a~~~l~~~  246 (364)
                      +.+..|+.+.+.+++..   ..|+.-.......++..             .+-.+|.+...|..+
T Consensus       735 v~m~~Pd~~~i~ei~L~---s~Gf~~a~~La~k~~~~~~l~~e~LS~Q~HYDfGLRalKsVL~~A  796 (3245)
T 3vkg_A          735 MAMIKPDREMIAQVMLY---SQGFKTAEVLAGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSA  796 (3245)
T ss_dssp             EECCSCCHHHHHHHHHH---TTTCSCHHHHHHHHHHHHHHHHHSSCCCTTCCCSHHHHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHH
Confidence            99999999888887643   44654333333333321             123478888777554

>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=98.05  E-value=2.7e-05  Score=69.07  Aligned_cols=65  Identities=14%  Similarity=0.237  Sum_probs=39.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE------eCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL------NASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~------~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~  150 (364)
                      ++|+||||+|||+++.+++...   +....++..      +... ...+.....+.+....         .. +||||++
T Consensus       126 iLI~GpPGsGKTtLAlqlA~~~---G~~VlyIs~~~eE~v~~~~-~~le~~l~~i~~~l~~---------~~-LLVIDsI  191 (331)
T 2vhj_A          126 VIVTGKGNSGKTPLVHALGEAL---GGKDKYATVRFGEPLSGYN-TDFNVFVDDIARAMLQ---------HR-VIVIDSL  191 (331)
T ss_dssp             EEEECSCSSSHHHHHHHHHHHH---HTTSCCEEEEBSCSSTTCB-CCHHHHHHHHHHHHHH---------CS-EEEEECC
T ss_pred             EEEEcCCCCCHHHHHHHHHHhC---CCCEEEEEecchhhhhhhh-cCHHHHHHHHHHHHhh---------CC-EEEEecc
Confidence            6999999999999999999872   223334444      1111 1223332223222221         13 9999999


Q ss_pred             CCCCH
Q 017884          151 DAMTK  155 (364)
Q Consensus       151 ~~l~~  155 (364)
                      +.+..
T Consensus       192 ~aL~~  196 (331)
T 2vhj_A          192 KNVIG  196 (331)
T ss_dssp             TTTC-
T ss_pred             ccccc
Confidence            99853

>1jql_B DNA polymerase III, delta subunit; processivity clamp, clamp loader, DNA replication, AAA+ ATPase, transferase; HET: DNA; 2.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.00  E-value=7.2e-05  Score=58.43  Aligned_cols=122  Identities=14%  Similarity=0.049  Sum_probs=80.2

Q ss_pred             HHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEE
Q 017884           67 RLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVL  146 (364)
Q Consensus        67 ~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vii  146 (364)
                      ..++++-.|.++|||+.-.-....+..+.+.+...+..    +.+.....+...+. .+.+.+.+.|+ |+.   +++|+
T Consensus        11 ~~l~~~~~pvyll~G~E~~l~~~~~~~i~~~~~~~~~~----e~~~~~~~~~~~~~-~l~~~~~s~sl-F~~---rrlV~   81 (140)
T 1jql_B           11 AQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFE----EHHTFSIDPNTDWN-AIFSLCQAMSL-FAS---RQTLL   81 (140)
T ss_dssp             HHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCC----EEECCCCSTTCCHH-HHHHHHHCCCT-TCC---CEEEE
T ss_pred             HHHhccCCceEEEEcCcHHHHHHHHHHHHHHHHHCCCc----ceeEEEecCCCCHH-HHHHHHhcCCC-CCC---CEEEE
Confidence            33444444558999999888888888887776543322    22222211112223 34455777787 776   89999


Q ss_pred             EeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeecc------ccCchhhhccceEEEe
Q 017884          147 LDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQV------NKIIPALQSRCTRFRF  197 (364)
Q Consensus       147 iDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~------~~l~~~l~sr~~~i~~  197 (364)
                      |.+.+. +.++..+.|..+++.+++++.+|++....      .++.+.+...+.++.+
T Consensus        82 v~~~~~~~~~~~~~~L~~yl~~p~~~~~lvi~~~kld~~~~~~k~~k~l~k~g~~v~~  139 (140)
T 1jql_B           82 LLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             EECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             EECCCCCCChHHHHHHHHHHhcCCCCEEEEEEeCCcChhHHhhHHHHHHHhCeEEEEe
Confidence            999765 56677788999999999999999987432      2455666666666654

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.89  E-value=7.8e-06  Score=69.16  Aligned_cols=95  Identities=14%  Similarity=0.169  Sum_probs=53.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC--------CCCCh-------HHHHHHHHHHHhcCccccCCccc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS--------DDRGI-------DVVRQQIQDFASTQSFSFGVKAS  141 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~--------~~~~~-------~~~~~~i~~~~~~~~~~~~~~~~  141 (364)
                      ++++||+|+||||++..++..+...+....++...-.        ...+.       ....+ +.......   . ....
T Consensus        15 ~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~-i~~~i~~~---~-~~~~   89 (223)
T 2b8t_A           15 EFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPE-ILNYIMSN---S-FNDE   89 (223)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHH-HHHHHHST---T-SCTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHH-HHHHHHHH---h-hCCC
Confidence            6999999999999999888887555443333321110        00010       00011 11111110   0 0114


Q ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          142 VKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      +.+|+|||++.+..+..+.+..+.+ .  ...+|+++.
T Consensus        90 ~dvViIDEaQ~l~~~~ve~l~~L~~-~--gi~Vil~Gl  124 (223)
T 2b8t_A           90 TKVIGIDEVQFFDDRICEVANILAE-N--GFVVIISGL  124 (223)
T ss_dssp             CCEEEECSGGGSCTHHHHHHHHHHH-T--TCEEEEECC
T ss_pred             CCEEEEecCccCcHHHHHHHHHHHh-C--CCeEEEEec
Confidence            7899999999998776555544333 2  566777774

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.78  E-value=9.3e-05  Score=62.20  Aligned_cols=157  Identities=18%  Similarity=0.211  Sum_probs=83.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc---cc-----C-------Cccc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF---SF-----G-------VKAS  141 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~---~~-----~-------~~~~  141 (364)
                      +++.|++|+|||+++-.++..+...+....++.++..  .... .-..+... ...+.   .+     .       -...
T Consensus         9 I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q--~~~~-~~al~~gl-~~~~~~~~~~~~~~~~e~~l~~~L~~~   84 (228)
T 2r8r_A            9 VFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETH--GRAE-TEALLNGL-PQQPLLRTEYRGMTLEEMDLDALLKAA   84 (228)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCT--TCHH-HHHHHTTS-CBCCCEEEEETTEEEEECCHHHHHHHC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCC--CChh-HHHHhcCc-cccCcceeecCCcccccccHHHHHhcC
Confidence            8999999999999999999998766655444444332  1111 11111111 00000   00     0       0014


Q ss_pred             eEEEEEeCCCCCCHH-H--HHHHHHHHHHhccCccEEEEeecc------------------ccCchhhhccceEEEecCC
Q 017884          142 VKLVLLDEADAMTKD-A--QFALRRVIEKYTKNTRFALICNQV------------------NKIIPALQSRCTRFRFAPL  200 (364)
Q Consensus       142 ~~viiiDe~~~l~~~-~--~~~L~~~le~~~~~~~~Il~~~~~------------------~~l~~~l~sr~~~i~~~~~  200 (364)
                      +.+++|||+...+.. .  ...+..+.+-++....++.++|-.                  ..++..+..++..+.+-.+
T Consensus        85 pdlvIVDElG~~~~~~~r~~~~~qDV~~~l~sgidVitT~Nlqh~esl~d~v~~itg~~v~e~vpd~~~~~a~~v~lvD~  164 (228)
T 2r8r_A           85 PSLVLVDELAHTNAPGSRHTKRWQDIQELLAAGIDVYTTVNVQHLESLNDQVRGITGVQVRETLPDWVLQEAFDLVLIDL  164 (228)
T ss_dssp             CSEEEESCTTCBCCTTCSSSBHHHHHHHHHHTTCEEEEEEEGGGBGGGHHHHHHHHSCCCCSCBCHHHHHTCSEEEEBCC
T ss_pred             CCEEEEeCCCCCCcccchhHHHHHHHHHHHcCCCCEEEEccccccccHHHHHHHHcCCCcCCcCccHHHhhCCeEEEecC
Confidence            679999998765211 0  011112222344455677777521                  2344555566766788788


Q ss_pred             ChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc-CCCHHHHHH
Q 017884          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLC-NGDMRKALN  241 (364)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~a~~  241 (364)
                      +++++.+.+..    -++...+.+-..+..+. .||+..+..
T Consensus       165 ~p~~l~~rl~~----g~vy~~~~~~~a~~~~f~~~nl~~lre  202 (228)
T 2r8r_A          165 PPRELLERLRD----GKVYVPEQARAAIDAFFTQTNLTALRE  202 (228)
T ss_dssp             CHHHHHHHHHT----TCCCCTTCCHHHHHHHCCHHHHHHHHH
T ss_pred             CHHHHHHHHHC----CCccChhHHHHHHHhhhchhhHHHHHH
Confidence            88887666442    23333334444444444 355555444

>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=97.75  E-value=1.8e-05  Score=76.69  Aligned_cols=113  Identities=19%  Similarity=0.269  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHH-------HHHHHhc
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQ-------IQDFAST  131 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------i~~~~~~  131 (364)
                      +.....+...+.   .+.+++.|+||||||+++..++..+...+..  ++... ........+.+.       +..+...
T Consensus       192 ~~Q~~Av~~~~~---~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~--Vl~~A-pT~~Aa~~L~e~~~~~a~Tih~ll~~  265 (574)
T 3e1s_A          192 EEQASVLDQLAG---HRLVVLTGGPGTGKSTTTKAVADLAESLGLE--VGLCA-PTGKAARRLGEVTGRTASTVHRLLGY  265 (574)
T ss_dssp             HHHHHHHHHHTT---CSEEEEECCTTSCHHHHHHHHHHHHHHTTCC--EEEEE-SSHHHHHHHHHHHTSCEEEHHHHTTE
T ss_pred             HHHHHHHHHHHh---CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCe--EEEec-CcHHHHHHhHhhhcccHHHHHHHHcC
Confidence            444555554443   2458999999999999999999887654432  33222 221111122211       1122211


Q ss_pred             Cc--ccc--CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          132 QS--FSF--GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       132 ~~--~~~--~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      .+  +..  .......+|||||+..+.......|++.+   +..+++|++.+.
T Consensus       266 ~~~~~~~~~~~~~~~dvlIIDEasml~~~~~~~Ll~~~---~~~~~lilvGD~  315 (574)
T 3e1s_A          266 GPQGFRHNHLEPAPYDLLIVDEVSMMGDALMLSLLAAV---PPGARVLLVGDT  315 (574)
T ss_dssp             ETTEESCSSSSCCSCSEEEECCGGGCCHHHHHHHHTTS---CTTCEEEEEECT
T ss_pred             CcchhhhhhcccccCCEEEEcCccCCCHHHHHHHHHhC---cCCCEEEEEecc
Confidence            11  000  01114679999999999887666665544   467889999864

>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=97.64  E-value=9e-05  Score=60.88  Aligned_cols=107  Identities=12%  Similarity=0.158  Sum_probs=67.0

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC-CCChH-----------------------------HHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-DRGID-----------------------------VVRQQ  124 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-~~~~~-----------------------------~~~~~  124 (364)
                      +.+++|+++|.||||+|-.++-...+.+....++.+.-.. ..+..                             .....
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~~  108 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAV  108 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHHH
Confidence            4589999999999999999998887777666555543221 11110                             11111


Q ss_pred             HHHHHhcCccccCCccceEEEEEeCC------CCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccc
Q 017884          125 IQDFASTQSFSFGVKASVKLVLLDEA------DAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (364)
Q Consensus       125 i~~~~~~~~~~~~~~~~~~viiiDe~------~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~  192 (364)
                      +......    + ....+.+||+||+      +.+..   +.++.++...|....+|++++...   +.|...+
T Consensus       109 l~~a~~~----l-~~~~yDlvILDEi~~al~~g~l~~---~ev~~~l~~Rp~~~~vIlTGr~ap---~~l~e~A  171 (196)
T 1g5t_A          109 WQHGKRM----L-ADPLLDMVVLDELTYMVAYDYLPL---EEVISALNARPGHQTVIITGRGCH---RDILDLA  171 (196)
T ss_dssp             HHHHHHH----T-TCTTCSEEEEETHHHHHHTTSSCH---HHHHHHHHTSCTTCEEEEECSSCC---HHHHHHC
T ss_pred             HHHHHHH----H-hcCCCCEEEEeCCCccccCCCCCH---HHHHHHHHhCcCCCEEEEECCCCc---HHHHHhC
Confidence            1111111    1 1125889999998      44443   457888888888999999997653   3444444

>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=97.63  E-value=0.00013  Score=60.88  Aligned_cols=100  Identities=12%  Similarity=0.131  Sum_probs=50.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc-----ccCC-ccceEEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSF-----SFGV-KASVKLVLLDEA  150 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~-~~~~~viiiDe~  150 (364)
                      .+++|+.|+|||+.+...+......+....++...-....+...+...+.......+.     .+.. .....+|+|||+
T Consensus        31 ~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~dvViIDEa  110 (214)
T 2j9r_A           31 EVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSASKDIFKHITEEMDVIAIDEV  110 (214)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------CCEEECSSGGGGGGGCCSSCCEEEECCG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCCcchHHHHHhhcCCeeEEeecCCHHHHHHHHhcCCCEEEEECc
Confidence            5899999999999988888877655544433332211111222222222111100000     0000 013679999999


Q ss_pred             CCCCHHHHHHHHHHHHHhccCccEEEEee
Q 017884          151 DAMTKDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       151 ~~l~~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      +.++++..+.+..+.+   .+..+|+++-
T Consensus       111 QF~~~~~V~~l~~l~~---~~~~Vi~~Gl  136 (214)
T 2j9r_A          111 QFFDGDIVEVVQVLAN---RGYRVIVAGL  136 (214)
T ss_dssp             GGSCTTHHHHHHHHHH---TTCEEEEEEC
T ss_pred             ccCCHHHHHHHHHHhh---CCCEEEEEec
Confidence            9998776654444322   3566777763

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.60  E-value=0.00021  Score=77.46  Aligned_cols=41  Identities=22%  Similarity=0.220  Sum_probs=29.7

Q ss_pred             HHHHHh-cC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           65 IDRLTS-EN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        65 l~~~~~-~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      |...+. .+  +...++|+||||+|||++|.+++.+....+...
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v 1458 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTC 1458 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCE
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcE
Confidence            555555 33  223389999999999999999998876554433

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.60  E-value=0.00097  Score=55.89  Aligned_cols=33  Identities=24%  Similarity=0.383  Sum_probs=24.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      ++|+||+|+|||+++..++. .    ....++.++...
T Consensus        23 ~~i~G~~GsGKTtl~~~l~~-~----~~~~v~~i~~~~   55 (220)
T 2cvh_A           23 TQVYGPYASGKTTLALQTGL-L----SGKKVAYVDTEG   55 (220)
T ss_dssp             EEEECSTTSSHHHHHHHHHH-H----HCSEEEEEESSC
T ss_pred             EEEECCCCCCHHHHHHHHHH-H----cCCcEEEEECCC
Confidence            79999999999999999988 2    123445555443

>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=97.52  E-value=0.00062  Score=57.29  Aligned_cols=97  Identities=11%  Similarity=0.190  Sum_probs=53.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccc-----cCCccceEEEEEeCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-----FGVKASVKLVLLDEAD  151 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-----~~~~~~~~viiiDe~~  151 (364)
                      .+++|+.|+|||+.+...+......+....++...-....+ ..+...+..........     +.......+|+|||++
T Consensus        22 ~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg-~~i~sr~G~~~~a~~i~~~~di~~~~~~~dvViIDEaQ  100 (234)
T 2orv_A           22 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDEGQ  100 (234)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC------------CEEEEESSGGGGHHHHTTCSEEEESSGG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccch-HHHHhhcCCeeEEEecCCHHHHHHHhccCCEEEEEchh
Confidence            59999999999987777776666555555444433333223 33333221111100000     0000146799999999


Q ss_pred             CCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          152 AMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       152 ~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      .+.+  ...+.+.+.+  .+..+|+++
T Consensus       101 F~~~--v~el~~~l~~--~gi~VI~~G  123 (234)
T 2orv_A          101 FFPD--IVEFCEAMAN--AGKTVIVAA  123 (234)
T ss_dssp             GCTT--HHHHHHHHHH--TTCEEEEEC
T ss_pred             hhhh--HHHHHHHHHh--CCCEEEEEe
Confidence            9975  6666777776  356677776

>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=97.51  E-value=0.0029  Score=60.56  Aligned_cols=69  Identities=19%  Similarity=0.248  Sum_probs=48.8

Q ss_pred             eEEEEEeCCCCCC----HHHHHHHHHHHHHhcc-CccEEEEeeccc--cCchhhhccc-eEEEecCCChHHHHHHHH
Q 017884          142 VKLVLLDEADAMT----KDAQFALRRVIEKYTK-NTRFALICNQVN--KIIPALQSRC-TRFRFAPLEPVHVTERLK  210 (364)
Q Consensus       142 ~~viiiDe~~~l~----~~~~~~L~~~le~~~~-~~~~Il~~~~~~--~l~~~l~sr~-~~i~~~~~~~~~~~~~l~  210 (364)
                      +-+|+|||++.+.    +.....|.++...... .+.+|+++..+.  .+...+++.+ ..+.|...+..+...++.
T Consensus       344 ~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GRa~GIhLIlaTQRPs~d~I~~~Iran~~~RI~lrv~s~~Dsr~ILd  420 (574)
T 2iut_A          344 TIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKIDSRTILD  420 (574)
T ss_dssp             EEEEEESCCTTHHHHTCHHHHHHHHHHHHHCTTTTEEEEEEESCCCTTTSCHHHHHTCCEEEEECCSCHHHHHHHHS
T ss_pred             cEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHhhCCeEEEEEecCcccccccHHHHhhhccEEEEEcCCHHHHHHhcC
Confidence            5799999999874    3445566666665443 455777776665  6777788877 668888888877776663

>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=97.48  E-value=8.2e-05  Score=61.33  Aligned_cols=93  Identities=13%  Similarity=0.219  Sum_probs=50.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH------------HHHHhcCccccCCccceEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI------------QDFASTQSFSFGVKASVKL  144 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i------------~~~~~~~~~~~~~~~~~~v  144 (364)
                      .+++||.|+|||+.+..+++.....+....++........+...+...+            .+....    ...  ...+
T Consensus        11 ~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~~~i~~~----~~~--~~dv   84 (191)
T 1xx6_A           11 EVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKY----FEE--DTEV   84 (191)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHH----CCT--TCSE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCHHHHHHH----Hhc--cCCE
Confidence            5999999999999998888887554443333321111100000000000            001100    011  3679


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       145 iiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      |+|||++.++++..+.+..+.+   .+..+|+++
T Consensus        85 ViIDEaqfl~~~~v~~l~~l~~---~~~~Vi~~G  115 (191)
T 1xx6_A           85 IAIDEVQFFDDEIVEIVNKIAE---SGRRVICAG  115 (191)
T ss_dssp             EEECSGGGSCTHHHHHHHHHHH---TTCEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---CCCEEEEEe
Confidence            9999999998776555544432   256677766

>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=97.42  E-value=0.003  Score=52.84  Aligned_cols=22  Identities=36%  Similarity=0.573  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999886

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.42  E-value=0.0024  Score=56.44  Aligned_cols=51  Identities=16%  Similarity=0.092  Sum_probs=33.0

Q ss_pred             HHHHHHh----cCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           64 TIDRLTS----ENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        64 ~l~~~~~----~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      .|...+.    .|-.+. ++++||||+|||+++..++......+....++++++..
T Consensus        13 ~LD~~LGg~~~GGl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~   68 (333)
T 3io5_A           13 MMNIALSGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEF   68 (333)
T ss_dssp             HHHHHHHSSTTCCBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSC
T ss_pred             HHHHHhCCCCCCCCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccc
Confidence            4455566    443333 69999999999999988887764322233455555443

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=97.42  E-value=0.00019  Score=70.20  Aligned_cols=102  Identities=16%  Similarity=0.204  Sum_probs=56.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCC--CCCCcEEEEeCCCCCChHHHHHHHHHHHhcC---------------c----
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGA--QYHNMILELNASDDRGIDVVRQQIQDFASTQ---------------S----  133 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~---------------~----  133 (364)
                      +.++++|+||||||+++..+...+...  .....++-. ++.......+.+.+.......               .    
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~-APTg~AA~~L~e~~~~~~~~l~l~~~~~~~~~~~~~Tih~l  243 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLA-APTGKAAARLTESLGKALRQLPLTDEQKKRIPEDASTLHRL  243 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEE-BSSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBTTTSC
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEE-eCChhHHHHHHHHHHHHHhcCCCCHHHHhccchhhhhhHhh
Confidence            458999999999999999888776421  122233322 222111222222222111000               0    


Q ss_pred             ---------cccC--CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          134 ---------FSFG--VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       134 ---------~~~~--~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                               +...  ......++||||++.+.......|+   ...+..+++|++++.
T Consensus       244 l~~~~~~~~~~~~~~~~l~~d~lIIDEAsml~~~~~~~Ll---~~l~~~~~liLvGD~  298 (608)
T 1w36_D          244 LGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSRLI---DALPDHARVIFLGDR  298 (608)
T ss_dssp             C-----------CTTSCCSCSEEEECSGGGCBHHHHHHHH---HTCCTTCEEEEEECT
T ss_pred             hccCCCchHHHhccCCCCCCCEEEEechhhCCHHHHHHHH---HhCCCCCEEEEEcch
Confidence                     0000  0013569999999988765545554   444667889999864

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=97.37  E-value=0.0014  Score=56.02  Aligned_cols=38  Identities=21%  Similarity=0.293  Sum_probs=27.5

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++.....+..++..   ..++++||+|+|||.++..++..+
T Consensus        95 ~~~Q~~ai~~~~~~---~~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           95 RDYQEKALERWLVD---KRGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CHHHHHHHHHHTTT---SEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHhC---CCEEEEeCCCCCHHHHHHHHHHHc
Confidence            34444455555543   349999999999999998888775

>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=97.37  E-value=0.00079  Score=61.01  Aligned_cols=25  Identities=32%  Similarity=0.571  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++|+||||+|||+++..++..+...
T Consensus        64 v~I~G~pGsGKTtLal~la~~~~~~   88 (349)
T 2zr9_A           64 IEIYGPESSGKTTVALHAVANAQAA   88 (349)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhC
Confidence            7999999999999999998776543

>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=97.33  E-value=0.002  Score=58.66  Aligned_cols=25  Identities=36%  Similarity=0.535  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++|+|+||+|||+++..++..+...
T Consensus        77 i~I~G~pGsGKTtlal~la~~~~~~  101 (366)
T 1xp8_A           77 TEIYGPESGGKTTLALAIVAQAQKA  101 (366)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCChHHHHHHHHHHHHHC
Confidence            7999999999999999998876433

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.32  E-value=0.0023  Score=54.46  Aligned_cols=38  Identities=16%  Similarity=0.097  Sum_probs=27.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC----CCCcEEEEeCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASD  114 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~  114 (364)
                      +.|+||+|+|||+++..++.......    ....++.++...
T Consensus        27 ~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           27 TEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            79999999999999999998642211    133456665544

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.29  E-value=0.00067  Score=54.94  Aligned_cols=21  Identities=33%  Similarity=0.512  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|+||+||||+++.+++.
T Consensus         5 I~i~G~~GsGKST~a~~L~~~   25 (181)
T 1ly1_A            5 ILTIGCPGSGKSTWAREFIAK   25 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHhh
Confidence            799999999999999999983

>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=97.28  E-value=0.0036  Score=58.16  Aligned_cols=29  Identities=38%  Similarity=0.575  Sum_probs=24.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      +++.|++|+||||++..++..+...+...
T Consensus       103 IlivG~~G~GKTTt~~kLA~~l~~~G~kV  131 (443)
T 3dm5_A          103 LLMVGIQGSGKTTTVAKLARYFQKRGYKV  131 (443)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTCCE
T ss_pred             EEEECcCCCCHHHHHHHHHHHHHHCCCeE
Confidence            79999999999999999999887655443

>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=97.27  E-value=0.006  Score=52.15  Aligned_cols=23  Identities=26%  Similarity=0.615  Sum_probs=21.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||||+||||+++.+++.+
T Consensus        31 ~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           31 RYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999886

>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=97.27  E-value=0.0012  Score=59.86  Aligned_cols=34  Identities=26%  Similarity=0.355  Sum_probs=25.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      ++|+|+||+|||+++..++..+...+.  .++.++.
T Consensus        66 i~I~G~pGsGKTtLal~la~~~~~~g~--~vlyid~   99 (356)
T 1u94_A           66 VEIYGPESSGKTTLTLQVIAAAQREGK--TCAFIDA   99 (356)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC--eEEEEeC
Confidence            799999999999999999987654332  3444444

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.27  E-value=0.0023  Score=57.96  Aligned_cols=48  Identities=19%  Similarity=0.175  Sum_probs=31.5

Q ss_pred             HHHHHHh-cCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           64 TIDRLTS-ENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        64 ~l~~~~~-~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      .|...+. .|-.+.  ++|+||||+|||+++..++..+...+.  .+++++..
T Consensus        48 ~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg--~VlyId~E   98 (356)
T 3hr8_A           48 AIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGG--VAAFIDAE   98 (356)
T ss_dssp             HHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTC--CEEEEESS
T ss_pred             HHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCC--eEEEEecc
Confidence            4455555 343223  699999999999999999988653322  33444443

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.26  E-value=0.0004  Score=56.89  Aligned_cols=95  Identities=15%  Similarity=0.140  Sum_probs=50.3

Q ss_pred             EEEeCCCCccHH-HHHHHHHHHHcCCCCCCcEEEEeCCCC-CChHHHHHHHHHHHhcCccc-----cCCccceEEEEEeC
Q 017884           77 LLLYGPPGTGKT-STILAVARKLYGAQYHNMILELNASDD-RGIDVVRQQIQDFASTQSFS-----FGVKASVKLVLLDE  149 (364)
Q Consensus        77 lll~G~~G~GKt-~la~~l~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~~~~~~~-----~~~~~~~~viiiDe  149 (364)
                      +++|||.|+||| .+++++.+.... +  ..++.+.+... .....+...+.......+..     +.......+|+|||
T Consensus        23 ~fiyG~MgsGKTt~Ll~~i~n~~~~-~--~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~~~~DvIlIDE   99 (195)
T 1w4r_A           23 QVILGPMFSGKSTELMRRVRRFQIA-Q--YKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDE   99 (195)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT-T--CCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHHHTCSEEEESS
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHc-C--CeEEEEccccCccchhhhhhccCCcccceecCCHHHHHHhccCCCEEEEEc
Confidence            699999999999 788888877543 2  34444443211 11111222222111110000     00011356999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          150 ADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       150 ~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ++.+ ++ +..+++.+.+  .+..+|+++
T Consensus       100 aQFf-k~-~ve~~~~L~~--~gk~VI~~G  124 (195)
T 1w4r_A          100 GQFF-PD-IVEFCEAMAN--AGKTVIVAA  124 (195)
T ss_dssp             GGGC-TT-HHHHHHHHHH--TTCEEEEEE
T ss_pred             hhhh-HH-HHHHHHHHHH--CCCeEEEEe
Confidence            9999 55 4455555543  244566665

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.26  E-value=0.0027  Score=57.41  Aligned_cols=50  Identities=16%  Similarity=0.099  Sum_probs=32.6

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCC----CCCcEEEEeCCC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASD  114 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~  114 (364)
                      |...+..+-.+.  ++|+||||+|||+++..++.....+.    ....+++++...
T Consensus       111 LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          111 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             HHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            444444443333  69999999999999999998743211    234566666554

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.26  E-value=0.0011  Score=56.08  Aligned_cols=23  Identities=43%  Similarity=0.489  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|+||+|+|||++++.++..+.
T Consensus        26 ~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           26 IALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999997653

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.25  E-value=0.001  Score=57.72  Aligned_cols=24  Identities=33%  Similarity=0.523  Sum_probs=21.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .++|.|+||+||||+++.++..+.
T Consensus         6 lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            6 LIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            479999999999999999999864

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.25  E-value=0.0035  Score=52.43  Aligned_cols=22  Identities=32%  Similarity=0.603  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999987

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.20  E-value=0.0015  Score=53.56  Aligned_cols=70  Identities=14%  Similarity=0.173  Sum_probs=43.1

Q ss_pred             ceEEEEEeCCCCC---CHHHHHHHHHHHHHhccCccEEE-Ee--ecc-ccCchhhhcc--ceEEEecCCChHHHHHHHHH
Q 017884          141 SVKLVLLDEADAM---TKDAQFALRRVIEKYTKNTRFAL-IC--NQV-NKIIPALQSR--CTRFRFAPLEPVHVTERLKH  211 (364)
Q Consensus       141 ~~~viiiDe~~~l---~~~~~~~L~~~le~~~~~~~~Il-~~--~~~-~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~  211 (364)
                      ++.++++||+..+   .....+.+.++++.+  .+.++. ++  ... ..+...+..+  +.++.+.+-+.+.+...+..
T Consensus       105 ~~dvlilDE~g~~~~~~~~~~~~l~~~l~~~--~~~ilgti~vsh~~~~~~vd~i~~~~~~~i~~~~~~nr~~~~~~i~~  182 (189)
T 2i3b_A          105 GQRVCVIDEIGKMELFSQLFIQAVRQTLSTP--GTIILGTIPVPKGKPLALVEEIRNRKDVKVFNVTKENRNHLLPDIVT  182 (189)
T ss_dssp             CCCCEEECCCSTTTTTCSHHHHHHHHHHHCS--SCCEEEECCCCCSSCCTTHHHHHTTCCSEEEECCSSSGGGHHHHHHH
T ss_pred             CCCEEEEeCCCccccccHHHHHHHHHHHhCC--CcEEEEEeecCCCCchHHHHHHeecCCcEEEEeChHhHHHHHHHHHH
Confidence            5789999997666   345677777777753  233321 22  222 2445566554  58888887777766666544


Q ss_pred             H
Q 017884          212 V  212 (364)
Q Consensus       212 ~  212 (364)
                      .
T Consensus       183 ~  183 (189)
T 2i3b_A          183 C  183 (189)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.16  E-value=0.0011  Score=53.19  Aligned_cols=22  Identities=27%  Similarity=0.520  Sum_probs=19.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+||||+++.+ +.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            4789999999999999999 654

>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=97.07  E-value=0.0012  Score=61.38  Aligned_cols=75  Identities=15%  Similarity=0.113  Sum_probs=42.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD  156 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~  156 (364)
                      ++++|+||+||||+++.+++.+     ..  ..++.........+...+.....          .+..+|+|... ....
T Consensus       261 Iil~G~pGSGKSTla~~L~~~~-----~~--~~i~~D~~~~~~~~~~~~~~~l~----------~g~~vIiD~~~-~~~~  322 (416)
T 3zvl_A          261 VVAVGFPGAGKSTFIQEHLVSA-----GY--VHVNRDTLGSWQRCVSSCQAALR----------QGKRVVIDNTN-PDVP  322 (416)
T ss_dssp             EEEESCTTSSHHHHHHHHTGGG-----TC--EECCGGGSCSHHHHHHHHHHHHH----------TTCCEEEESCC-CSHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----Cc--EEEccchHHHHHHHHHHHHHHHh----------cCCcEEEeCCC-CCHH
Confidence            7999999999999999998875     22  23333222222233333332222          13356677553 3445


Q ss_pred             HHHHHHHHHHHhc
Q 017884          157 AQFALRRVIEKYT  169 (364)
Q Consensus       157 ~~~~L~~~le~~~  169 (364)
                      ....+...+....
T Consensus       323 ~r~~~~~~~~~~~  335 (416)
T 3zvl_A          323 SRARYIQCAKDAG  335 (416)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcC
Confidence            5556666655543

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.07  E-value=0.0035  Score=53.39  Aligned_cols=23  Identities=39%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|+||||+|||+++..++..+.
T Consensus        26 ~~i~G~~GsGKTtl~~~~~~~~~   48 (247)
T 2dr3_A           26 VLLSGGPGTGKTIFSQQFLWNGL   48 (247)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999988877654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.06  E-value=0.0015  Score=58.19  Aligned_cols=23  Identities=39%  Similarity=0.676  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+|||+++..+++.+
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            37999999999999999999986

>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=97.04  E-value=0.0055  Score=55.54  Aligned_cols=46  Identities=24%  Similarity=0.463  Sum_probs=31.4

Q ss_pred             CCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           49 PQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.+++++...+ .   +........ ..+++.||+|+||||++++++..+.
T Consensus       103 ~~~l~~lg~~~-~---l~~l~~~~~-g~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          103 VLTMEELGMGE-V---FKRVSDVPR-GLVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             CCCTTTTTCCH-H---HHHHHHCSS-EEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             CCCHHHcCChH-H---HHHHHhCCC-CEEEEECCCCCCHHHHHHHHHhccc
Confidence            34566665433 3   333333221 2489999999999999999998874

>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=97.03  E-value=0.0034  Score=52.43  Aligned_cols=106  Identities=15%  Similarity=0.253  Sum_probs=57.6

Q ss_pred             CCCCcEEEeCCCCccHHHHHHHHHHHHcCCC---CCC---------cEEEEeCCCCCChHHHHHHHHHHHhcCccccCCc
Q 017884           72 NRLPHLLLYGPPGTGKTSTILAVARKLYGAQ---YHN---------MILELNASDDRGIDVVRQQIQDFASTQSFSFGVK  139 (364)
Q Consensus        72 ~~~~~lll~G~~G~GKt~la~~l~~~l~~~~---~~~---------~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~  139 (364)
                      ...+++++.|++|+|||+++.++........   ...         .+.-++.+   |.+..+.....+.....    ..
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~---G~~~~~~~~~~~~~~~~----~~   82 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFP---GHVKLRYKLSDYLKTRA----KF   82 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTGGGSSCEEEECC---CCGGGTHHHHHHHHHHG----GG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEeeCceEEEEECC---CcHHHHHHHHHHHHhcc----cc
Confidence            3445699999999999999999988653221   111         11112222   22333333333332100    00


Q ss_pred             cceEEEEEeCC-CC-CCHHHHHHHHHHHHH----hccCccEEEEeeccccC
Q 017884          140 ASVKLVLLDEA-DA-MTKDAQFALRRVIEK----YTKNTRFALICNQVNKI  184 (364)
Q Consensus       140 ~~~~viiiDe~-~~-l~~~~~~~L~~~le~----~~~~~~~Il~~~~~~~l  184 (364)
                      ...-++++|-. +. -.......+..++..    .+.+..+++++|..+..
T Consensus        83 ~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~  133 (218)
T 1nrj_B           83 VKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELF  133 (218)
T ss_dssp             EEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTST
T ss_pred             CCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhc
Confidence            13557778866 21 123445556666654    23567788888877643

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=97.00  E-value=0.0014  Score=54.64  Aligned_cols=37  Identities=16%  Similarity=0.293  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.....+..++.+   .++++.||+|+|||.++...+...
T Consensus        36 ~~Q~~~i~~~~~~---~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           36 PYQMEVAQPALEG---KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             HHHHHHHHHHHTT---CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC---CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            3444444444432   469999999999999887776654

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.99  E-value=0.0045  Score=57.48  Aligned_cols=33  Identities=27%  Similarity=0.340  Sum_probs=26.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      +++.|++|+||||++..++..+...+....++.
T Consensus       100 I~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~  132 (433)
T 3kl4_A          100 IMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVA  132 (433)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            699999999999999999998865554433333

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.96  E-value=0.0012  Score=53.31  Aligned_cols=17  Identities=29%  Similarity=0.583  Sum_probs=15.9

Q ss_pred             EEEeCCCCccHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILA   93 (364)
Q Consensus        77 lll~G~~G~GKt~la~~   93 (364)
                      +.|.||+|+||||+++.
T Consensus        12 ~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           12 VVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEECCTTSCHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            79999999999999993

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.94  E-value=0.0082  Score=54.31  Aligned_cols=22  Identities=27%  Similarity=0.378  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|+||+|+|||++++.++..+
T Consensus       134 ~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          134 TEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6999999999999999999876

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=96.92  E-value=0.004  Score=55.10  Aligned_cols=51  Identities=18%  Similarity=0.295  Sum_probs=32.6

Q ss_pred             CCCCcchhccHHHHHHHHH---------------HHhcCCCCcEEEeCCCCccHHHHHH-HHHHHHc
Q 017884           49 PQSLADVAAHRDIVDTIDR---------------LTSENRLPHLLLYGPPGTGKTSTIL-AVARKLY   99 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~---------------~~~~~~~~~lll~G~~G~GKt~la~-~l~~~l~   99 (364)
                      ..+|+++--.+.++..|..               .+..+...++++++|+|+|||.... .+...+.
T Consensus        91 ~~~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~~~~~~~l~~a~TGsGKT~a~~lp~l~~l~  157 (300)
T 3fmo_B           91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVE  157 (300)
T ss_dssp             CCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSSSCCCEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             cCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCCccHHHHHHHHHhhh
Confidence            3578888767776665543               1223323469999999999997643 4444443

>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=96.92  E-value=0.0015  Score=70.18  Aligned_cols=25  Identities=32%  Similarity=0.515  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      +++|||||||||++|.+++.+-...
T Consensus      1085 ~l~~G~~g~GKT~la~~~~~~~~~~ 1109 (1706)
T 3cmw_A         1085 VEIYGPESSGKTTLTLQVIAAAQRE 1109 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCChHHHHHHHHHHhhhc
Confidence            8999999999999999999875433

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=96.92  E-value=0.00079  Score=55.98  Aligned_cols=35  Identities=11%  Similarity=0.216  Sum_probs=25.4

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      +..+|+|||++.++++..+.+..+.+   .+..+|+.+
T Consensus       101 ~~dvV~IDEaQFf~~~~v~~l~~la~---~gi~Vi~~G  135 (219)
T 3e2i_A          101 NVDVIGIDEVQFFDDEIVSIVEKLSA---DGHRVIVAG  135 (219)
T ss_dssp             TCSEEEECCGGGSCTHHHHHHHHHHH---TTCEEEEEE
T ss_pred             CCCEEEEechhcCCHHHHHHHHHHHH---CCCEEEEee
Confidence            46799999999999887777776653   244555554

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.91  E-value=0.00068  Score=55.30  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=22.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|.|++|+||||+++.+++.+
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999997

>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=96.89  E-value=0.0082  Score=55.28  Aligned_cols=38  Identities=18%  Similarity=0.102  Sum_probs=26.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC----CCCcEEEEeCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ----YHNMILELNASD  114 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~  114 (364)
                      +.|+||+|+|||+++..++-....+.    ....+++++...
T Consensus       181 ~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~  222 (400)
T 3lda_A          181 TELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEG  222 (400)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCC
Confidence            79999999999999998875543211    233466666554

>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=96.86  E-value=0.012  Score=55.80  Aligned_cols=69  Identities=17%  Similarity=0.223  Sum_probs=44.9

Q ss_pred             eEEEEEeCCCCCCHHH----HHHHHHHHHHhc-cCccEEEEeeccc--cCchhhhccc-eEEEecCCChHHHHHHHH
Q 017884          142 VKLVLLDEADAMTKDA----QFALRRVIEKYT-KNTRFALICNQVN--KIIPALQSRC-TRFRFAPLEPVHVTERLK  210 (364)
Q Consensus       142 ~~viiiDe~~~l~~~~----~~~L~~~le~~~-~~~~~Il~~~~~~--~l~~~l~sr~-~~i~~~~~~~~~~~~~l~  210 (364)
                      +-+++|||++.+....    .+.+..+..... ....+|++|..+.  .+...+++.+ ..+.|.-.+..+.+.++.
T Consensus       298 ~ivlvIDE~~~ll~~~~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~n~~~RI~lrv~s~~dsr~ilg  374 (512)
T 2ius_A          298 YIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSRTILD  374 (512)
T ss_dssp             EEEEEEETHHHHHHHHHHHHHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHHHCCEEEEECCSSHHHHHHHHS
T ss_pred             cEEEEEeCHHHHHhhhhHHHHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHhhcCCeEEEEcCCHHHHHHhcC
Confidence            3599999997765422    333334434333 2566788887665  4666777766 678888888888876664

>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=96.85  E-value=0.0043  Score=56.65  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=21.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|+||+|+||||+++.++...
T Consensus       171 ~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          171 YWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            37999999999999999999876

>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=96.82  E-value=0.0068  Score=54.38  Aligned_cols=37  Identities=19%  Similarity=0.319  Sum_probs=29.3

Q ss_pred             HHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        61 ~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +...+.-.+..+  ..+.+.||+|+||||+++.++..+.
T Consensus       160 ~l~~l~~~i~~g--~~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          160 AISAIKDGIAIG--KNVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             HHHHHHHHHHHT--CCEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             HHhhhhhhccCC--CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            455566666666  3589999999999999999998763

>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=96.82  E-value=0.012  Score=49.11  Aligned_cols=42  Identities=17%  Similarity=0.352  Sum_probs=27.9

Q ss_pred             ceEEEEEeCCCCCCH--HHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ..+++|+||+|.+..  .....+..++...+....+++.|..+.
T Consensus       158 ~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~  201 (220)
T 1t6n_A          158 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLS  201 (220)
T ss_dssp             TCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESCCC
T ss_pred             cCCEEEEcCHHHHhcccCcHHHHHHHHHhCCCcCeEEEEEeecC
Confidence            467999999998843  444556666666665667666664433

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=96.82  E-value=0.002  Score=62.86  Aligned_cols=43  Identities=21%  Similarity=0.307  Sum_probs=29.4

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      |...+..+...+..+. .++++++|+|+|||.++-.++..+...
T Consensus       183 Q~~ai~~~~~~~~~~~-~~~ll~~~TGsGKT~~~~~~~~~l~~~  225 (590)
T 3h1t_A          183 QQIAINRAVQSVLQGK-KRSLITMATGTGKTVVAFQISWKLWSA  225 (590)
T ss_dssp             HHHHHHHHHHHHHTTC-SEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCC-CceEEEecCCCChHHHHHHHHHHHHhc
Confidence            4444444444444443 458999999999999988887776543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.81  E-value=0.0031  Score=54.57  Aligned_cols=24  Identities=33%  Similarity=0.642  Sum_probs=21.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+.|.||+|+||||+++.++..+.
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHhCC
Confidence            379999999999999999998764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.81  E-value=0.00098  Score=59.94  Aligned_cols=39  Identities=21%  Similarity=0.437  Sum_probs=30.5

Q ss_pred             HHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        61 ~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++..+...+..+..++++|.|++|+|||++++.+++.+.
T Consensus        11 il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           11 VLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             HHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            344444445566667799999999999999999999873

>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=96.80  E-value=0.00065  Score=54.98  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=21.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|+|++|+||||+++.+++.+
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            37999999999999999999997

>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=96.77  E-value=0.0013  Score=53.70  Aligned_cols=27  Identities=22%  Similarity=0.348  Sum_probs=23.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      .++|.|++|+||||+++.+++.+...+
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~~~g   31 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLRKEG   31 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            479999999999999999999885443

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.76  E-value=0.00097  Score=54.59  Aligned_cols=28  Identities=25%  Similarity=0.350  Sum_probs=24.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .++|.|++|+||||+++.+++.+...+.
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~   30 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQGI   30 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCc
Confidence            3789999999999999999999864443

>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=96.75  E-value=0.015  Score=49.32  Aligned_cols=21  Identities=24%  Similarity=0.490  Sum_probs=16.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVA   95 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~   95 (364)
                      ..+++.||+|+|||++...+.
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHH
Confidence            358999999999998665544

>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=96.73  E-value=0.00095  Score=53.56  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+||||+++.+++.+
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            47899999999999999999987

>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=96.72  E-value=0.0058  Score=53.93  Aligned_cols=23  Identities=35%  Similarity=0.624  Sum_probs=21.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+|||+++..+++.+
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEECCCcCCHHHHHHHHHHhC
Confidence            37899999999999999999986

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.68  E-value=0.0047  Score=67.30  Aligned_cols=29  Identities=28%  Similarity=0.385  Sum_probs=24.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      ++++||||+|||+++.+++.+....+...
T Consensus      1084 vll~G~~GtGKT~la~~~~~ea~k~Ge~~ 1112 (2050)
T 3cmu_A         1084 VEIYGPESSGKTTLTLQVIAAAQREGKTC 1112 (2050)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeE
Confidence            89999999999999999998876554433

>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=96.66  E-value=0.0013  Score=53.42  Aligned_cols=24  Identities=46%  Similarity=0.689  Sum_probs=22.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|+|++|+||||+++.+++.+
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999987

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.66  E-value=0.0013  Score=54.46  Aligned_cols=24  Identities=46%  Similarity=0.510  Sum_probs=22.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.|++|+||||+++.+++.+
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            458999999999999999999997

>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=96.65  E-value=0.0086  Score=49.43  Aligned_cols=39  Identities=28%  Similarity=0.421  Sum_probs=25.0

Q ss_pred             ceEEEEEeCCCCCCH-HHHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTK-DAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~-~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..+++|+||+|.+.. .....+..++...+.+..+++.|.
T Consensus       146 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SA  185 (206)
T 1vec_A          146 HVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSA  185 (206)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEES
T ss_pred             cCCEEEEEChHHhHhhCcHHHHHHHHHhCCccceEEEEEe
Confidence            467999999997754 334455555655555666666553

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=96.64  E-value=0.0084  Score=54.73  Aligned_cols=39  Identities=31%  Similarity=0.364  Sum_probs=25.5

Q ss_pred             ceEEEEEeCCCCCCH--HHHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ...+||+||+|.+..  .....+..++...+....+++.|.
T Consensus       145 ~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  185 (395)
T 3pey_A          145 KIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSA  185 (395)
T ss_dssp             TCCEEEEETHHHHHHSTTHHHHHHHHHHTSCTTCEEEEEES
T ss_pred             cCCEEEEEChhhhcCccccHHHHHHHHHhCCCCcEEEEEEe
Confidence            467999999998754  233445555555555667766663

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.61  E-value=0.0013  Score=53.05  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=22.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|.|++|+||||+++.+++.+
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            458999999999999999999987

>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=96.61  E-value=0.0053  Score=51.55  Aligned_cols=40  Identities=23%  Similarity=0.380  Sum_probs=25.6

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ...++|+||+|.+... ....+..++...+....+++.|..
T Consensus       155 ~~~~iViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~lSAT  195 (224)
T 1qde_A          155 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSAT  195 (224)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESS
T ss_pred             hCcEEEEcChhHHhhhhhHHHHHHHHHhCCccCeEEEEEee
Confidence            3679999999987542 234455666665556666665543

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.59  E-value=0.002  Score=51.52  Aligned_cols=25  Identities=36%  Similarity=0.530  Sum_probs=22.3

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.+++|.|++|+||||+++.+++.+
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh
Confidence            3458999999999999999999987

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.58  E-value=0.0038  Score=55.29  Aligned_cols=42  Identities=21%  Similarity=0.375  Sum_probs=30.4

Q ss_pred             ceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||.- .|.......+.+.+.+......+|+++....
T Consensus       208 ~p~iLlLDEPts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  250 (306)
T 3nh6_A          208 APGIILLDEATSALDTSNERAIQASLAKVCANRTTIVVAHRLS  250 (306)
T ss_dssp             CCSEEEEECCSSCCCHHHHHHHHHHHHHHHTTSEEEEECCSHH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEEcChH
Confidence            57899999964 4556677778888877655666777876544

>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=96.56  E-value=0.0079  Score=54.29  Aligned_cols=39  Identities=28%  Similarity=0.419  Sum_probs=25.5

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..+++|+||+|.+... ....+..++...+....+++.|.
T Consensus       147 ~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  186 (367)
T 1hv8_A          147 NVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSA  186 (367)
T ss_dssp             SCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECS
T ss_pred             cCCEEEEeCchHhhhhchHHHHHHHHHhCCCCceEEEEee
Confidence            3679999999987432 23455556665556667666653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.54  E-value=0.0014  Score=52.74  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=21.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.++..+
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999986

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.54  E-value=0.0042  Score=61.21  Aligned_cols=42  Identities=24%  Similarity=0.385  Sum_probs=31.1

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++.....+...+...  +..+|+||||||||+++-.+...+...
T Consensus       191 N~~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~~  232 (646)
T 4b3f_X          191 DTSQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVKQ  232 (646)
T ss_dssp             CHHHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHhC
Confidence            567777777777643  347999999999998777666665443

>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=96.54  E-value=0.0018  Score=52.65  Aligned_cols=24  Identities=38%  Similarity=0.654  Sum_probs=22.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|.|++|+||||+++.+++.+
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            348999999999999999999987

>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=96.52  E-value=0.0099  Score=63.97  Aligned_cols=68  Identities=21%  Similarity=0.305  Sum_probs=43.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC---------------------ChHHHHHHHHHHHhcCccc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---------------------GIDVVRQQIQDFASTQSFS  135 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~i~~~~~~~~~~  135 (364)
                      ++|+||||+|||+++..++..+...+  ..++.++.....                     ..+.+.+.+......    
T Consensus       735 VlI~G~PG~GKTtLal~lA~~aa~~g--~~VlyiS~Ees~~ql~A~~lGvd~~~L~i~~~~~leei~~~l~~lv~~----  808 (1706)
T 3cmw_A          735 VEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS----  808 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHH----
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHcC--CCeEEEeccchHHHHHHHHcCCChhheEEecCCcHHHHHHHHHHHHHc----
Confidence            79999999999999999998875332  234454443321                     122233333322211    


Q ss_pred             cCCccceEEEEEeCCCCCC
Q 017884          136 FGVKASVKLVLLDEADAMT  154 (364)
Q Consensus       136 ~~~~~~~~viiiDe~~~l~  154 (364)
                          ...++||||.++.+.
T Consensus       809 ----~~~~lVVIDsLq~l~  823 (1706)
T 3cmw_A          809 ----GAVDVIVVDSVAALT  823 (1706)
T ss_dssp             ----TCCSEEEESCSTTCC
T ss_pred             ----cCCCEEEEechhhhc
Confidence                146799999999987

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.52  E-value=0.036  Score=52.01  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|.|+||+|||+++..++..+.
T Consensus       206 iiI~G~pG~GKTtl~l~ia~~~~  228 (454)
T 2r6a_A          206 IIVAARPSVGKTAFALNIAQNVA  228 (454)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999998764

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.52  E-value=0.017  Score=51.42  Aligned_cols=47  Identities=21%  Similarity=0.309  Sum_probs=32.3

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      .|...+ .|-.+.  ++|.|+||+|||+++..++......+  ..++.++..
T Consensus        57 ~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE  105 (315)
T 3bh0_A           57 ELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE  105 (315)
T ss_dssp             HHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS
T ss_pred             HHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC
Confidence            344445 443333  79999999999999999998765444  455566554

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=96.51  E-value=0.014  Score=53.73  Aligned_cols=39  Identities=28%  Similarity=0.372  Sum_probs=24.9

Q ss_pred             ceEEEEEeCCCCCCH--HHHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..++||+||+|.+..  .....+..++...+.+..+|+.|.
T Consensus       168 ~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  208 (412)
T 3fht_A          168 KIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSA  208 (412)
T ss_dssp             GCCEEEEETHHHHHSTTTTHHHHHHHHHTSCTTCEEEEEES
T ss_pred             hCcEEEEeCHHHHhhcCCcHHHHHHHHhhCCCCceEEEEEe
Confidence            477999999997742  233444455555556667776663

>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=96.50  E-value=0.007  Score=53.40  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+||||+++.+++.+
T Consensus         5 I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            5 ILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7999999999999999999863

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.50  E-value=0.0019  Score=53.47  Aligned_cols=24  Identities=33%  Similarity=0.556  Sum_probs=21.9

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.||+|+||||+++.++..+
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhh
Confidence            448999999999999999999987

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.48  E-value=0.0023  Score=55.14  Aligned_cols=23  Identities=35%  Similarity=0.660  Sum_probs=21.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+||||+++.+++.+
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            36899999999999999999987

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.44  E-value=0.0033  Score=55.25  Aligned_cols=22  Identities=45%  Similarity=0.611  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||+++.+++.+
T Consensus        36 ivl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           36 FLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999886

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=96.43  E-value=0.023  Score=47.54  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|.+|+|||+++..+...-
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCcCHHHHHHHHHhCC
Confidence            8999999999999999988643

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.42  E-value=0.0026  Score=52.63  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=22.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+.|.||+|+||||+++.++..+.
T Consensus        27 ~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           27 VIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            379999999999999999999985

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.40  E-value=0.016  Score=50.47  Aligned_cols=43  Identities=9%  Similarity=0.246  Sum_probs=31.5

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhc-c-CccEEEEeecccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT-K-NTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~-~-~~~~Il~~~~~~~  183 (364)
                      +++++++||. ..|.......+.+++.+.. . ...+|+++.....
T Consensus       161 ~P~lLlLDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHdl~~  206 (275)
T 3gfo_A          161 EPKVLILDEPTAGLDPMGVSEIMKLLVEMQKELGITIIIATHDIDI  206 (275)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHHHHHHHCCEEEEEESCCSS
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHHhhCCCEEEEEecCHHH
Confidence            6889999995 4567777888888887754 2 5567788876554

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.40  E-value=0.0019  Score=52.68  Aligned_cols=26  Identities=35%  Similarity=0.459  Sum_probs=23.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      ++|.|++|+||||+++.++..+...+
T Consensus        16 i~l~G~~GsGKsT~~~~L~~~l~~~~   41 (186)
T 2yvu_A           16 VWLTGLPGSGKTTIATRLADLLQKEG   41 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence            79999999999999999999985443

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=96.38  E-value=0.026  Score=49.25  Aligned_cols=38  Identities=18%  Similarity=0.128  Sum_probs=27.1

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++.....+..++..   ...++.+|+|+|||.++..++...
T Consensus       115 ~~~Q~~ai~~~l~~---~~~ll~~~tGsGKT~~~~~~~~~~  152 (282)
T 1rif_A          115 HWYQKDAVFEGLVN---RRRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             CHHHHHHHHHHHHH---SEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhc---CCeEEEcCCCCCcHHHHHHHHHHH
Confidence            44455555555654   346889999999999987777654

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.38  E-value=0.0018  Score=53.06  Aligned_cols=22  Identities=41%  Similarity=0.607  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+||||+++.+++.+
T Consensus         8 I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            8 IIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999987

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.38  E-value=0.002  Score=53.31  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=21.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+||||+++.+++.+
T Consensus        20 ~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           20 SIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.37  E-value=0.0046  Score=51.16  Aligned_cols=40  Identities=20%  Similarity=0.159  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHhcCC--CCc-EEEeCCCCccHHHHHHHHHHHHc
Q 017884           60 DIVDTIDRLTSENR--LPH-LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        60 ~~~~~l~~~~~~~~--~~~-lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.+..+...+....  .+. +.|.|++|+||||+++.++..+.
T Consensus         5 ~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            5 DRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             HHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            44555555554422  122 79999999999999999999874

>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=96.36  E-value=0.0025  Score=51.13  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=22.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.|++|+||||+++.+++.+
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            348999999999999999999987

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.35  E-value=0.0022  Score=52.17  Aligned_cols=22  Identities=36%  Similarity=0.806  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus         7 I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            7 VIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999987

>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=96.35  E-value=0.017  Score=47.53  Aligned_cols=40  Identities=20%  Similarity=0.254  Sum_probs=24.8

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ..+++|+||+|.+... ....+..++...+....+++.|..
T Consensus       144 ~~~~iViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT  184 (207)
T 2gxq_A          144 RVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSAT  184 (207)
T ss_dssp             TCSEEEEESHHHHHHTTCHHHHHHHHHTSCTTSEEEEECSS
T ss_pred             hceEEEEEChhHhhccchHHHHHHHHHhCCccCeEEEEEEe
Confidence            3679999999987532 234455555555556666665543

>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=96.34  E-value=0.0026  Score=51.89  Aligned_cols=24  Identities=46%  Similarity=0.686  Sum_probs=21.8

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|+|++|+||||+++.+++.+
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~l   34 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAEL   34 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhc
Confidence            458999999999999999999983

>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=96.33  E-value=0.0027  Score=53.38  Aligned_cols=24  Identities=29%  Similarity=0.672  Sum_probs=22.0

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.|+||+||||+++.+++.+
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            348999999999999999999987

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.32  E-value=0.0037  Score=53.84  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+||||+++.+++.+
T Consensus        35 i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           35 ILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             EEEESCGGGTTHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            7999999999999999999986

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.32  E-value=0.012  Score=52.01  Aligned_cols=27  Identities=26%  Similarity=0.397  Sum_probs=23.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      +++.|++|+||||++..++..+...+.
T Consensus       107 i~ivG~~GsGKTTl~~~LA~~l~~~g~  133 (306)
T 1vma_A          107 IMVVGVNGTGKTTSCGKLAKMFVDEGK  133 (306)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEcCCCChHHHHHHHHHHHHHhcCC
Confidence            699999999999999999998754433

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.32  E-value=0.0026  Score=51.68  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.||+|+||||+++.++..+
T Consensus         8 i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            8 LVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7999999999999999999875

>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=96.26  E-value=0.0084  Score=55.53  Aligned_cols=51  Identities=25%  Similarity=0.384  Sum_probs=36.5

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .+++++.-.......|...+. .....++|.||+|+||||++++++..+...
T Consensus       144 ~~l~~Lg~~~~~~~~L~~l~~-~~ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          144 LDLHSLGMTAHNHDNFRRLIK-RPHGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHT-SSSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             CCHHHcCCCHHHHHHHHHHHH-hcCCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            456666555555566666653 222237999999999999999999988543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.25  E-value=0.0042  Score=51.69  Aligned_cols=39  Identities=21%  Similarity=0.271  Sum_probs=27.9

Q ss_pred             HHHHHHHHHhcC-CCCc-EEEeCCCCccHHHHHHHHHHHHc
Q 017884           61 IVDTIDRLTSEN-RLPH-LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        61 ~~~~l~~~~~~~-~~~~-lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++..|...+... ..+. +.|.||+|+||||+++.++..+.
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            444554444432 2222 79999999999999999999875

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.25  E-value=0.0027  Score=52.06  Aligned_cols=24  Identities=25%  Similarity=0.513  Sum_probs=22.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.|++|+||||+++.+++.+
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999987

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.24  E-value=0.0075  Score=54.98  Aligned_cols=42  Identities=17%  Similarity=0.274  Sum_probs=30.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||- ..|....+..++..+.+...  ...+|++|....
T Consensus       151 ~P~lLLLDEPts~LD~~~~~~l~~~l~~l~~~~g~tii~vTHd~~  195 (381)
T 3rlf_A          151 EPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQV  195 (381)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCHH
T ss_pred             CCCEEEEECCCcCCCHHHHHHHHHHHHHHHHhCCCEEEEEECCHH
Confidence            6789999994 56667777888888776532  466788886544

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.23  E-value=0.0027  Score=52.75  Aligned_cols=25  Identities=20%  Similarity=0.207  Sum_probs=22.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++|.|++|+||||+++.+++.+...
T Consensus         7 I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            7 IAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            7999999999999999999998543

>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=96.23  E-value=0.0028  Score=52.42  Aligned_cols=22  Identities=50%  Similarity=0.930  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus        23 I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           23 VLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999987

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.23  E-value=0.0029  Score=52.53  Aligned_cols=23  Identities=35%  Similarity=0.621  Sum_probs=21.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+||||+++.++..+
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            37999999999999999999986

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.22  E-value=0.0029  Score=53.20  Aligned_cols=25  Identities=20%  Similarity=0.393  Sum_probs=22.6

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ..++|.|++|+||||+++.+++.+.
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3489999999999999999999973

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.22  E-value=0.0028  Score=51.81  Aligned_cols=22  Identities=27%  Similarity=0.599  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus         6 I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            6 VFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999987

>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=96.22  E-value=0.0028  Score=52.75  Aligned_cols=22  Identities=36%  Similarity=0.750  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||+|.++.+++.+
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6889999999999999999987

>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=96.21  E-value=0.044  Score=43.58  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        10 i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A           10 VILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999999865

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=96.21  E-value=0.022  Score=47.59  Aligned_cols=39  Identities=15%  Similarity=0.300  Sum_probs=24.9

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..+++|+||+|.+... ....+..++...+....+++.|.
T Consensus       150 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SA  189 (219)
T 1q0u_A          150 TAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSA  189 (219)
T ss_dssp             GCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEES
T ss_pred             cceEEEEcCchHHhhhChHHHHHHHHHhCCcccEEEEEec
Confidence            4678999999987532 23445556665555666665553

>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=96.19  E-value=0.2  Score=38.91  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7999999999999999998653

>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=96.18  E-value=0.0042  Score=49.79  Aligned_cols=37  Identities=11%  Similarity=0.046  Sum_probs=28.5

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEE
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILEL  110 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~  110 (364)
                      ++.+.|.|++|+||||++..++..+...+....++..
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik~   40 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKH   40 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEEe
Confidence            4457999999999999999999988655554444443

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.18  E-value=0.003  Score=51.61  Aligned_cols=23  Identities=26%  Similarity=0.580  Sum_probs=21.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|+||+|+||||+++.+....
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            38999999999999999998875

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=96.18  E-value=0.018  Score=54.31  Aligned_cols=40  Identities=28%  Similarity=0.363  Sum_probs=26.2

Q ss_pred             ceEEEEEeCCCCCCH--HHHHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ..++|||||+|.+..  .....+..++...+.++.+|+.|..
T Consensus       235 ~~~~iViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT  276 (479)
T 3fmp_B          235 KIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSAT  276 (479)
T ss_dssp             GCCEEEECCHHHHHTSTTHHHHHHHHHTTSCTTSEEEEEESC
T ss_pred             cCCEEEEECHHHHhhcCCcHHHHHHHHhhCCccceEEEEeCC
Confidence            477999999997743  3344455555555566777776643

>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=96.18  E-value=0.012  Score=50.00  Aligned_cols=39  Identities=23%  Similarity=0.377  Sum_probs=24.5

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..++||+||+|.+... ....+..++...+....+++.|.
T Consensus       173 ~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~~SA  212 (237)
T 3bor_A          173 WIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSA  212 (237)
T ss_dssp             TCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEECS
T ss_pred             cCcEEEECCchHhhccCcHHHHHHHHHhCCCCCeEEEEEE
Confidence            3679999999977432 23445555555555666666553

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.17  E-value=0.0031  Score=50.77  Aligned_cols=22  Identities=36%  Similarity=0.611  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.++..+
T Consensus        11 i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A           11 YVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHhh
Confidence            7999999999999999999886

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.15  E-value=0.072  Score=43.07  Aligned_cols=24  Identities=29%  Similarity=0.606  Sum_probs=20.9

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..+++.|++|+|||+++..+...-
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            348999999999999999998753

>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=96.15  E-value=0.072  Score=41.49  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=20.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|++|+|||+++..+...-
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            37999999999999999998753

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.15  E-value=0.0031  Score=52.46  Aligned_cols=30  Identities=13%  Similarity=0.175  Sum_probs=24.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      .++|.|++|+||||+++.+++.+...+...
T Consensus        12 ~I~l~G~~GsGKST~~~~L~~~l~~~~~~~   41 (212)
T 2wwf_A           12 FIVFEGLDRSGKSTQSKLLVEYLKNNNVEV   41 (212)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCcE
Confidence            379999999999999999999875444433

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.14  E-value=0.0034  Score=50.08  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999987

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.13  E-value=0.0033  Score=51.83  Aligned_cols=23  Identities=26%  Similarity=0.593  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|.|++|+||||+++.+++.+.
T Consensus         3 I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEECCCccCHHHHHHHHHHhcC
Confidence            68999999999999999999873

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.11  E-value=0.064  Score=50.82  Aligned_cols=33  Identities=21%  Similarity=0.350  Sum_probs=25.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      +.|.|++|+||||++..++..+...+....++.
T Consensus       104 I~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd  136 (504)
T 2j37_W          104 IMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLIC  136 (504)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEe
Confidence            789999999999999999988765444433333

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.11  E-value=0.003  Score=51.90  Aligned_cols=23  Identities=26%  Similarity=0.534  Sum_probs=21.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+||||+++.+++.+
T Consensus        14 ~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           14 IIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>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=96.11  E-value=0.0042  Score=52.69  Aligned_cols=24  Identities=33%  Similarity=0.678  Sum_probs=22.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.|++|+||||+++.|++.+
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999997

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.10  E-value=0.0031  Score=52.94  Aligned_cols=24  Identities=29%  Similarity=0.603  Sum_probs=22.0

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.|+||+||||+++.+++.+
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999987

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.09  E-value=0.0023  Score=51.88  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=17.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+||||+++.+++.+
T Consensus         7 ~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            7 IIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             EEEEECCC----CHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            47999999999999999999986

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.08  E-value=0.0037  Score=52.43  Aligned_cols=22  Identities=27%  Similarity=0.634  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||+|.++.|++.+
T Consensus        32 I~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6889999999999999999987

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=96.08  E-value=0.016  Score=48.90  Aligned_cols=39  Identities=21%  Similarity=0.378  Sum_probs=24.4

Q ss_pred             ceEEEEEeCCCCCCHH--HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD--AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~--~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..+++|+||+|.+...  ....+..++...+....+++.|.
T Consensus       166 ~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~l~lSA  206 (230)
T 2oxc_A          166 SIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSA  206 (230)
T ss_dssp             GCCEEEESSHHHHHSTTSSHHHHHHHHHHSCSSCEEEEEES
T ss_pred             cCCEEEeCCchHhhcCcchHHHHHHHHHhCCCCCeEEEEEe
Confidence            3569999999987432  24445555565555666655553

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.07  E-value=0.0027  Score=51.87  Aligned_cols=21  Identities=48%  Similarity=0.710  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.||+|+||||+++.++..
T Consensus        12 i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           12 LLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            799999999999999999876

>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=96.07  E-value=0.08  Score=41.38  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         7 i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            7 VIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            8999999999999999998753

>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=96.05  E-value=0.0037  Score=52.07  Aligned_cols=28  Identities=21%  Similarity=0.254  Sum_probs=23.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .++|.|++|+||||+++.+++.+...+.
T Consensus        11 ~I~l~G~~GsGKsT~~~~L~~~l~~~~~   38 (215)
T 1nn5_A           11 LIVLEGVDRAGKSTQSRKLVEALCAAGH   38 (215)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            3799999999999999999998754433

>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=96.05  E-value=0.043  Score=43.19  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||++++.+...-
T Consensus         9 i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            9 VCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            7999999999999999998764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.03  E-value=0.0033  Score=53.07  Aligned_cols=24  Identities=21%  Similarity=0.499  Sum_probs=21.8

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.|++|+||||+++.+++.+
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            348999999999999999999986

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.03  E-value=0.0044  Score=51.86  Aligned_cols=45  Identities=18%  Similarity=0.240  Sum_probs=36.1

Q ss_pred             hhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +-.+.+....++........+.+++.|++|+|||+++..++..+.
T Consensus        11 l~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           11 LAENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             HhhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            344566777777777666666789999999999999999998864

>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=96.03  E-value=0.0034  Score=51.20  Aligned_cols=22  Identities=27%  Similarity=0.671  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus         9 I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            9 VFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999987

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.02  E-value=0.011  Score=49.62  Aligned_cols=43  Identities=21%  Similarity=0.315  Sum_probs=34.3

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +++....++........+.+++.|.+|+|||+++..++.....
T Consensus        22 ~~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~   64 (226)
T 2hf9_A           22 NKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKD   64 (226)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            4556667777776666666899999999999999999998754

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.02  E-value=0.044  Score=44.41  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=20.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+|||+++..+...-
T Consensus        26 i~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           26 LLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            8999999999999999998864

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=96.01  E-value=0.01  Score=51.36  Aligned_cols=38  Identities=18%  Similarity=0.322  Sum_probs=24.5

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ..++|||||+|.+... ....+..++...+..+.+++.|
T Consensus       201 ~l~~lViDEah~l~~~~~~~~l~~i~~~~~~~~q~l~~S  239 (262)
T 3ly5_A          201 NLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFS  239 (262)
T ss_dssp             TCCEEEECSHHHHHHTTCHHHHHHHHHHSCSSSEEEEEC
T ss_pred             cCCEEEEcChHHHhhhhHHHHHHHHHHhCCCCCeEEEEE
Confidence            4679999999987543 2344555566555566665555

>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=96.01  E-value=0.0092  Score=52.45  Aligned_cols=23  Identities=30%  Similarity=0.644  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|++|+||||+++.++..+.
T Consensus        34 i~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            69999999999999999999875

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.00  E-value=0.0041  Score=50.81  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|.|++|+||||+++.+++.+.
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999999874

>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=96.00  E-value=0.011  Score=53.50  Aligned_cols=42  Identities=17%  Similarity=0.344  Sum_probs=31.5

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.+..+..+++++.+...  ...+|++|....
T Consensus       181 ~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~  225 (366)
T 3tui_C          181 NPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMD  225 (366)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             CCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHH
Confidence            6889999996 55667788888888887642  556788886554

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.96  E-value=0.067  Score=47.91  Aligned_cols=35  Identities=14%  Similarity=0.251  Sum_probs=26.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ++|.|+||+|||+++..++..+...  ...+..++..
T Consensus        49 iiIaG~pG~GKTt~al~ia~~~a~~--g~~Vl~fSlE   83 (338)
T 4a1f_A           49 VIIGARPSMGKTSLMMNMVLSALND--DRGVAVFSLE   83 (338)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT--TCEEEEEESS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCC
Confidence            7999999999999999998876543  2344455543

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.95  E-value=0.063  Score=43.29  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           24 LVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998753

>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=95.95  E-value=0.0051  Score=51.20  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=21.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+||||+++.++..+
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHST
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            37999999999999999999876

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.94  E-value=0.0046  Score=52.12  Aligned_cols=22  Identities=36%  Similarity=0.659  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999987

>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=95.90  E-value=0.0042  Score=51.94  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999987

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.90  E-value=0.085  Score=41.83  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|++|+|||+++..+...-
T Consensus        17 ~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           17 KYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            38999999999999999998754

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.90  E-value=0.09  Score=49.11  Aligned_cols=48  Identities=19%  Similarity=0.170  Sum_probs=31.9

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      .|...+ .|-.+.  ++|.|+||+|||+++..++....... +..++.++..
T Consensus       189 ~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~-g~~vl~~slE  238 (444)
T 2q6t_A          189 ELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALKE-GVGVGIYSLE  238 (444)
T ss_dssp             HHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESS
T ss_pred             hhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCeEEEEECC
Confidence            344455 443333  69999999999999999998764321 2345555554

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.90  E-value=0.0042  Score=51.33  Aligned_cols=22  Identities=23%  Similarity=0.567  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+||||+++.+++.+
T Consensus        18 I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           18 IFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999886

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.89  E-value=0.0088  Score=48.26  Aligned_cols=38  Identities=21%  Similarity=0.281  Sum_probs=28.4

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      .+.+.|.|++|+||||++..+...+...+.....+...
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~~   43 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHT   43 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccccCCceeEEeeC
Confidence            35589999999999999999999875444444444443

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=95.87  E-value=0.068  Score=53.61  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=18.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      ..+++.||+|+|||+++-.+...
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999976666443

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.86  E-value=0.005  Score=52.68  Aligned_cols=24  Identities=29%  Similarity=0.671  Sum_probs=21.9

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..+.|.||+|+||||+++.+++.+
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999887

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.86  E-value=0.018  Score=45.34  Aligned_cols=22  Identities=23%  Similarity=0.431  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+....
T Consensus         8 i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            8 MVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            7999999999999999998754

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.85  E-value=0.0052  Score=51.72  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=21.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.+++.+
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999986

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.83  E-value=0.0048  Score=50.34  Aligned_cols=22  Identities=36%  Similarity=0.688  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+||||+++.++...
T Consensus         5 i~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            5 YIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCcHHHHHHHHhccc
Confidence            6899999999999999998753

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=95.83  E-value=0.051  Score=45.52  Aligned_cols=39  Identities=18%  Similarity=0.346  Sum_probs=26.2

Q ss_pred             ceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..+++|+||+|.+.... ...+..++...+.+..+++.|.
T Consensus       167 ~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SA  206 (228)
T 3iuy_A          167 SITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSA  206 (228)
T ss_dssp             TCCEEEECCHHHHHHTTCHHHHHHHHHHSCSSCEEEEEES
T ss_pred             cceEEEEECHHHHhccchHHHHHHHHHhCCcCCeEEEEEe
Confidence            46799999999875432 4455566666666677666653

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.83  E-value=0.026  Score=49.69  Aligned_cols=31  Identities=26%  Similarity=0.400  Sum_probs=24.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC-CCCCCcE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG-AQYHNMI  107 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~-~~~~~~~  107 (364)
                      +.|.|++|+||||++..++..+.. .+....+
T Consensus       108 i~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~l  139 (296)
T 2px0_A          108 IVLFGSTGAGKTTTLAKLAAISMLEKHKKIAF  139 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCEEEE
Confidence            799999999999999999988752 4433333

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.83  E-value=0.032  Score=45.04  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        14 i~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           14 FLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998743

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.82  E-value=0.024  Score=46.17  Aligned_cols=23  Identities=26%  Similarity=0.518  Sum_probs=20.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|++|+|||+++.++...-
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            38999999999999999998763

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.82  E-value=0.061  Score=41.90  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=20.5

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.+++.|++|+|||+++..+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999865

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.81  E-value=0.0053  Score=50.68  Aligned_cols=22  Identities=36%  Similarity=0.699  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.||+|+||||+++.++..+
T Consensus        10 i~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A           10 FIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHHhhC
Confidence            7999999999999999999874

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=95.78  E-value=0.041  Score=50.09  Aligned_cols=39  Identities=18%  Similarity=0.356  Sum_probs=26.7

Q ss_pred             ceEEEEEeCCCCCCH--HHHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..++||+||+|.+..  .....+..++...+....+++.|.
T Consensus       152 ~~~~vViDEaH~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  192 (391)
T 1xti_A          152 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA  192 (391)
T ss_dssp             TCSEEEECSHHHHTSSHHHHHHHHHHHHTSCSSSEEEEEES
T ss_pred             ccCEEEEeCHHHHhhccchHHHHHHHHhhCCCCceEEEEEe
Confidence            467899999998864  444556666666555666666653

>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=95.78  E-value=0.02  Score=51.15  Aligned_cols=38  Identities=13%  Similarity=0.187  Sum_probs=28.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC----CCCCcEEEEeCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASD  114 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~  114 (364)
                      ++|+||||+|||+++..++......    +....+++++...
T Consensus       110 ~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          110 TEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             EEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            7999999999999999999875332    1134566666654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.77  E-value=0.008  Score=50.07  Aligned_cols=24  Identities=21%  Similarity=0.416  Sum_probs=21.9

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .++|.|++|+||||+++.++..+.
T Consensus        27 ~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           27 TIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            379999999999999999999874

>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=95.77  E-value=0.021  Score=47.86  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.||+|+||||+++.++..+.
T Consensus        28 ~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           28 TEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            79999999999999999998653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.77  E-value=0.35  Score=38.78  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.5

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.+++.|++|+|||+++..+...
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999998765

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.76  E-value=0.011  Score=50.63  Aligned_cols=24  Identities=38%  Similarity=0.469  Sum_probs=22.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..+.|.|++|+||||+++.++..+
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhc
Confidence            459999999999999999999987

>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=95.75  E-value=0.11  Score=42.27  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+|||+++..+...-
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            38999999999999999998653

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.75  E-value=0.0062  Score=50.26  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=21.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.+...+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999999876

>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=95.74  E-value=0.0094  Score=55.49  Aligned_cols=26  Identities=38%  Similarity=0.510  Sum_probs=22.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .+++.|++|+||||++..++..+...
T Consensus       101 vI~ivG~~GvGKTTla~~La~~l~~~  126 (432)
T 2v3c_C          101 VILLVGIQGSGKTTTAAKLARYIQKR  126 (432)
T ss_dssp             CEEEECCSSSSTTHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            38999999999999999999887533

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.73  E-value=0.0055  Score=50.64  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=21.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.++..+
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            37999999999999999998876

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.73  E-value=0.0063  Score=50.13  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+||||+++.+++..
T Consensus        22 ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           22 LVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHhhC
Confidence            7999999999999999999875

>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=95.73  E-value=0.19  Score=40.06  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        21 i~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           21 VIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            8999999999999999998653

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.71  E-value=0.0046  Score=51.01  Aligned_cols=23  Identities=17%  Similarity=0.391  Sum_probs=21.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+||||+++.+++.+
T Consensus         6 ~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            6 LIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            37999999999999999999986

>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=95.70  E-value=0.03  Score=45.39  Aligned_cols=22  Identities=32%  Similarity=0.594  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||++++.+....
T Consensus        17 i~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           17 IVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEECSTTSSHHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            8999999999999998776643

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=95.69  E-value=0.13  Score=41.80  Aligned_cols=22  Identities=36%  Similarity=0.440  Sum_probs=19.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||++++.+...
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4899999999999999877653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.68  E-value=0.0079  Score=50.60  Aligned_cols=39  Identities=23%  Similarity=0.239  Sum_probs=24.4

Q ss_pred             HHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        62 ~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +..+.......+...+.|.|++|+||||+++.+++.+..
T Consensus         9 ~~~~~~~~~~~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A            9 MGTLEAQTQGPGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             ----------CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            344555555444334799999999999999999999864

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=95.67  E-value=0.013  Score=50.19  Aligned_cols=39  Identities=15%  Similarity=0.345  Sum_probs=23.5

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..++||+||+|.+... ....+..++...+....+++.|.
T Consensus       186 ~~~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~l~~SA  225 (249)
T 3ber_A          186 ALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSA  225 (249)
T ss_dssp             TCCEEEECSHHHHHHTTCHHHHHHHHHSSCSSSEEEEEES
T ss_pred             ccCEEEEcChhhhhccChHHHHHHHHHhCCCCCeEEEEec
Confidence            3568999999977532 23345555555555555555553

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=95.65  E-value=0.054  Score=42.64  Aligned_cols=21  Identities=24%  Similarity=0.441  Sum_probs=18.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~   96 (364)
                      .+++.|++|+|||+++..+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            378999999999999999863

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=95.65  E-value=0.11  Score=41.72  Aligned_cols=22  Identities=23%  Similarity=0.513  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         7 i~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            7 LVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999998654

>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=95.64  E-value=0.11  Score=40.74  Aligned_cols=21  Identities=33%  Similarity=0.593  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++.++...
T Consensus         9 i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            799999999999999999864

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=95.64  E-value=0.0083  Score=49.58  Aligned_cols=40  Identities=13%  Similarity=0.164  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +...+.+.........-.+++.|++|+|||+++..+...-
T Consensus        15 ~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           15 VPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ---------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3444444444444433348999999999999999998653

>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=95.63  E-value=0.061  Score=49.19  Aligned_cols=38  Identities=18%  Similarity=0.318  Sum_probs=23.4

Q ss_pred             ceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ...+||+||+|.+.... ...+..++...+....+++.|
T Consensus       163 ~~~~vIiDEaH~~~~~~~~~~~~~i~~~~~~~~~~i~lS  201 (400)
T 1s2m_A          163 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS  201 (400)
T ss_dssp             TCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEE
T ss_pred             cCCEEEEeCchHhhhhchHHHHHHHHHhCCcCceEEEEE
Confidence            36799999999776543 334444444444455555554

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.61  E-value=0.023  Score=55.25  Aligned_cols=42  Identities=17%  Similarity=0.316  Sum_probs=31.6

Q ss_pred             ceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||.- .+.......+.+.+.+...+..+|++++...
T Consensus       497 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~l~  539 (587)
T 3qf4_A          497 KPKVLILDDCTSSVDPITEKRILDGLKRYTKGCTTFIITQKIP  539 (587)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHSTTCEEEEEESCHH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHhCCCCEEEEEecChH
Confidence            57899999964 4566777788888887666666788887654

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.60  E-value=0.0078  Score=48.60  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|++|+||||+++.++..+.
T Consensus         8 i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            8 VWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            78999999999999999999874

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.60  E-value=0.069  Score=43.25  Aligned_cols=22  Identities=41%  Similarity=0.635  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++.++...-
T Consensus        19 i~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           19 LLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998753

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=95.56  E-value=0.09  Score=49.92  Aligned_cols=38  Identities=18%  Similarity=0.128  Sum_probs=26.8

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.....+..++..   ...+++||+|+|||..+..++...
T Consensus       115 ~~~Q~~ai~~~~~~---~~~ll~~~tGsGKT~~~~~~~~~~  152 (510)
T 2oca_A          115 HWYQKDAVFEGLVN---RRRILNLPTSAGRSLIQALLARYY  152 (510)
T ss_dssp             CHHHHHHHHHHHHH---SEEEEECCSTTTHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhc---CCcEEEeCCCCCHHHHHHHHHHHH
Confidence            34445555555544   458999999999999987766654

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=95.55  E-value=0.013  Score=54.34  Aligned_cols=92  Identities=17%  Similarity=0.168  Sum_probs=50.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHh-c-Ccc--------ccCCc----cce
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAS-T-QSF--------SFGVK----ASV  142 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~-~~~--------~~~~~----~~~  142 (364)
                      .++.|+||+|||+++..++..       ...+-+.+.. ...+.+++.+..... . ...        .+...    ...
T Consensus       164 ~~I~G~aGsGKTt~I~~~~~~-------~~~lVlTpT~-~aa~~l~~kl~~~~~~~~~~~~V~T~dsfL~~~~~~~~~~~  235 (446)
T 3vkw_A          164 VLVDGVPGCGKTKEILSRVNF-------EEDLILVPGR-QAAEMIRRRANASGIIVATKDNVRTVDSFLMNYGKGARCQF  235 (446)
T ss_dssp             EEEEECTTSCHHHHHHHHCCT-------TTCEEEESCH-HHHHHHHHHHTTTSCCCCCTTTEEEHHHHHHTTTSSCCCCC
T ss_pred             EEEEcCCCCCHHHHHHHHhcc-------CCeEEEeCCH-HHHHHHHHHhhhcCccccccceEEEeHHhhcCCCCCCCCcC
Confidence            599999999999999877542       1112223222 122333333221000 0 000        00010    026


Q ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          143 KLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       143 ~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      .++||||+..+.......++..+   + ...+|++++.
T Consensus       236 d~liiDE~sm~~~~~l~~l~~~~---~-~~~vilvGD~  269 (446)
T 3vkw_A          236 KRLFIDEGLMLHTGCVNFLVEMS---L-CDIAYVYGDT  269 (446)
T ss_dssp             SEEEEETGGGSCHHHHHHHHHHT---T-CSEEEEEECT
T ss_pred             CEEEEeCcccCCHHHHHHHHHhC---C-CCEEEEecCc
Confidence            79999999988877766665543   2 3778888853

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.52  E-value=0.02  Score=55.60  Aligned_cols=43  Identities=14%  Similarity=0.386  Sum_probs=31.6

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +++++++||. ..+.......+.+.+.+...+..+|++++..+.
T Consensus       495 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~  538 (578)
T 4a82_A          495 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLST  538 (578)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            5789999996 445566777788888776656667778876654

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.52  E-value=0.093  Score=46.10  Aligned_cols=26  Identities=35%  Similarity=0.428  Sum_probs=22.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      +.+.|++|+||||++..++..+...+
T Consensus       101 i~i~g~~G~GKTT~~~~la~~~~~~~  126 (295)
T 1ls1_A          101 WFLVGLQGSGKTTTAAKLALYYKGKG  126 (295)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            67889999999999999999875443

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=95.52  E-value=0.11  Score=41.23  Aligned_cols=21  Identities=38%  Similarity=0.686  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        15 i~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           15 LVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHcC
Confidence            899999999999999999865

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.51  E-value=0.055  Score=52.46  Aligned_cols=42  Identities=21%  Similarity=0.470  Sum_probs=30.8

Q ss_pred             ceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||.- .+.......+.+.+.+...+..+|++++...
T Consensus       498 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~  540 (582)
T 3b5x_A          498 DAPVLILDEATSALDTESERAIQAALDELQKNKTVLVIAHRLS  540 (582)
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            67899999964 4556677778888887655566777887654

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=95.51  E-value=0.21  Score=52.37  Aligned_cols=40  Identities=18%  Similarity=0.205  Sum_probs=28.0

Q ss_pred             hccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHH
Q 017884           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVA   95 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~   95 (364)
                      ..|...+..+...+.++...+++++||+|+|||.++...+
T Consensus       606 ~~Q~~ai~~il~~~~~g~p~d~ll~~~TGsGKT~val~aa  645 (1151)
T 2eyq_A          606 PDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAA  645 (1151)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCcCcEEEECCCCCCHHHHHHHHH
Confidence            3455555555555555655579999999999998876444

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.51  E-value=0.051  Score=52.01  Aligned_cols=25  Identities=28%  Similarity=0.388  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++|.||+|+|||++++.++......
T Consensus       284 ~~i~G~~GsGKSTLl~~l~g~~~~~  308 (525)
T 1tf7_A          284 ILATGATGTGKTLLVSRFVENACAN  308 (525)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            7999999999999999999877543

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=95.50  E-value=0.059  Score=45.72  Aligned_cols=38  Identities=21%  Similarity=0.316  Sum_probs=23.5

Q ss_pred             ceEEEEEeCCCCCCH----HHHHHHHHHHHHh-ccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTK----DAQFALRRVIEKY-TKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~----~~~~~L~~~le~~-~~~~~~Il~~  178 (364)
                      ..+++||||+|.+..    .....+..++... +....+++.|
T Consensus       175 ~~~~lViDEah~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~S  217 (245)
T 3dkp_A          175 SVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFS  217 (245)
T ss_dssp             TCCEEEESSHHHHHHHC--CHHHHHHHHHHHCCCTTCEEEEEE
T ss_pred             cCcEEEEeChHHhcccccccHHHHHHHHHHhcCCCCcEEEEEe
Confidence            367899999999865    2345555555543 2344555544

>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=95.49  E-value=0.0043  Score=51.64  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|++|+||||+++.+++.+.
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999999884

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=95.48  E-value=0.025  Score=52.05  Aligned_cols=39  Identities=28%  Similarity=0.434  Sum_probs=26.2

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..++||+||+|.+... ....+..++...+.+..+|+.|.
T Consensus       183 ~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SA  222 (414)
T 3eiq_A          183 YIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSA  222 (414)
T ss_dssp             TCCEEEECSHHHHHHTTTHHHHHHHHTTSCTTCEEEEECS
T ss_pred             cCcEEEEECHHHhhccCcHHHHHHHHHhCCCCCeEEEEEE
Confidence            3679999999987533 23455666666666777777663

>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=95.47  E-value=0.024  Score=51.32  Aligned_cols=37  Identities=24%  Similarity=0.384  Sum_probs=29.0

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      +.+.|.|++|+||||++..++..+...+....++..+
T Consensus        80 ~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~D  116 (355)
T 3p32_A           80 HRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVD  116 (355)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecC
Confidence            3489999999999999999999886665555555544

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.45  E-value=0.02  Score=45.73  Aligned_cols=22  Identities=41%  Similarity=0.682  Sum_probs=19.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++.++...
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999998653

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.45  E-value=0.0093  Score=50.52  Aligned_cols=23  Identities=43%  Similarity=0.634  Sum_probs=21.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.+++.+
T Consensus        11 ~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           11 VVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999987

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=95.40  E-value=0.18  Score=41.69  Aligned_cols=24  Identities=21%  Similarity=0.466  Sum_probs=20.8

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+.+++.|++|+|||+++..+...
T Consensus        29 ~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           29 QPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             SCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            345899999999999999998765

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=95.40  E-value=0.086  Score=52.46  Aligned_cols=20  Identities=40%  Similarity=0.468  Sum_probs=17.0

Q ss_pred             CcEEEeCCCCccHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAV   94 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l   94 (364)
                      .++++.||+|+|||+.+...
T Consensus        47 ~~~lv~apTGsGKT~~~~l~   66 (715)
T 2va8_A           47 NRLLLTSPTGSGKTLIAEMG   66 (715)
T ss_dssp             CCEEEECCTTSCHHHHHHHH
T ss_pred             CcEEEEcCCCCcHHHHHHHH
Confidence            56999999999999988443

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.39  E-value=0.11  Score=48.53  Aligned_cols=48  Identities=21%  Similarity=0.279  Sum_probs=32.4

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      .|...+ +|-.+.  ++|.|+||+|||+++..++......  +..++.++...
T Consensus       186 ~LD~~l-gGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEm  235 (444)
T 3bgw_A          186 ELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEM  235 (444)
T ss_dssp             HHHHHH-SSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSS
T ss_pred             HHHhhc-CCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCC
Confidence            344445 343333  7999999999999999998887544  34556665543

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.38  E-value=0.016  Score=49.17  Aligned_cols=28  Identities=25%  Similarity=0.421  Sum_probs=24.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~  104 (364)
                      ++|.|++|+||||+++.++..+...+..
T Consensus        30 i~~eG~~GsGKsT~~~~l~~~l~~~~~~   57 (236)
T 3lv8_A           30 IVIEGLEGAGKSTAIQVVVETLQQNGID   57 (236)
T ss_dssp             EEEEESTTSCHHHHHHHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCC
Confidence            7999999999999999999998655543

>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=95.37  E-value=0.19  Score=40.59  Aligned_cols=24  Identities=33%  Similarity=0.546  Sum_probs=20.8

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      ...+++.|++|+|||+++..+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345999999999999999999754

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.37  E-value=0.088  Score=43.23  Aligned_cols=24  Identities=29%  Similarity=0.594  Sum_probs=20.9

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+++.|++|+|||++++.+.....
T Consensus        28 ki~lvG~~~vGKSsLi~~l~~~~~   51 (201)
T 2ew1_A           28 KIVLIGNAGVGKTCLVRRFTQGLF   51 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCC
Confidence            389999999999999999987543

>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=95.36  E-value=0.23  Score=38.64  Aligned_cols=22  Identities=23%  Similarity=0.533  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||++++++...-
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            7999999999999999998753

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.34  E-value=0.033  Score=49.61  Aligned_cols=35  Identities=20%  Similarity=0.228  Sum_probs=25.4

Q ss_pred             HHHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHH
Q 017884           64 TIDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        64 ~l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .|...+..|-.+.  ++|+|+||+|||+++..++...
T Consensus        86 ~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           86 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             hHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444454442232  6999999999999999999864

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.33  E-value=0.015  Score=54.24  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=21.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ..++|+|++|+|||+++..++....
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhh
Confidence            3589999999999999999987754

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=95.32  E-value=0.12  Score=48.05  Aligned_cols=35  Identities=20%  Similarity=0.162  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .....+..++..    ++++.+|+|+|||..+-.++...
T Consensus        13 ~Q~~~i~~~~~~----~~ll~~~tG~GKT~~~~~~~~~~   47 (494)
T 1wp9_A           13 YQEVIYAKCKET----NCLIVLPTGLGKTLIAMMIAEYR   47 (494)
T ss_dssp             HHHHHHHHGGGS----CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC----CEEEEcCCCCCHHHHHHHHHHHH
Confidence            344444444443    79999999999999887776654

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=95.31  E-value=0.073  Score=55.01  Aligned_cols=56  Identities=14%  Similarity=0.086  Sum_probs=32.5

Q ss_pred             CCCCChhhccCCCCCcchh--ccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHH
Q 017884           38 IKASPWVEKYRPQSLADVA--AHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        38 ~~~~~~~~~~~p~~~~~~v--g~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~   96 (364)
                      ....||.+...|.....+.  -.+.....+..+ ..+  .++++.+|+|+|||.++.....
T Consensus        66 ~~~~~~~~~~~p~~~~~~~f~L~~~Q~eai~~l-~~g--~~vLV~apTGSGKTlva~lai~  123 (1010)
T 2xgj_A           66 YDYTPIAEHKRVNEARTYPFTLDPFQDTAISCI-DRG--ESVLVSAHTSAGKTVVAEYAIA  123 (1010)
T ss_dssp             CCCCCGGGCCCSSCSCCCSSCCCHHHHHHHHHH-HHT--CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccCCCCcccChhhHHhCCCCCCHHHHHHHHHH-HcC--CCEEEECCCCCChHHHHHHHHH
Confidence            3556777766564322221  233333344443 333  4699999999999998754433

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=95.31  E-value=0.1  Score=41.74  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        13 i~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           13 FLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998653

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.31  E-value=0.0085  Score=49.47  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=20.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.|++|+||||+++.++. +
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~   24 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L   24 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C
Confidence            478999999999999999998 5

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=95.30  E-value=0.0097  Score=49.99  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.||+|+||||+++.++..+.
T Consensus        19 i~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           19 YIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhccCC
Confidence            79999999999999999998763

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=95.28  E-value=0.039  Score=50.68  Aligned_cols=38  Identities=29%  Similarity=0.403  Sum_probs=25.3

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ..++||+||+|.+... ....+..++...+....+++.|
T Consensus       179 ~~~~vViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~S  217 (410)
T 2j0s_A          179 AIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS  217 (410)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEE
T ss_pred             heeEEEEccHHHHHhhhhHHHHHHHHHhCccCceEEEEE
Confidence            3679999999987543 2445555665555566666665

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=95.27  E-value=0.08  Score=49.24  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=16.8

Q ss_pred             CcEEEeCCCCccHHHHH-HHHH
Q 017884           75 PHLLLYGPPGTGKTSTI-LAVA   95 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la-~~l~   95 (364)
                      .++++.||+|+|||..+ ..+.
T Consensus         3 ~~~lv~a~TGsGKT~~~l~~~l   24 (431)
T 2v6i_A            3 ELTVLDLHPGAGKTRRVLPQLV   24 (431)
T ss_dssp             CEEEEECCTTSCTTTTHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            45899999999999875 4444

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=95.27  E-value=0.09  Score=44.24  Aligned_cols=39  Identities=26%  Similarity=0.364  Sum_probs=25.2

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..+++|+||+|.+... ....+..++...+....+++.|.
T Consensus       171 ~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SA  210 (236)
T 2pl3_A          171 DLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSA  210 (236)
T ss_dssp             TCCEEEETTHHHHHHTTTHHHHHHHHHTSCTTSEEEEEES
T ss_pred             cccEEEEeChHHHhcCCcHHHHHHHHHhCCCCCeEEEEEe
Confidence            4679999999987532 23455566666665665555553

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.26  E-value=0.039  Score=58.79  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=21.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+.|+||+|+||||+++.+.+.+.
T Consensus       446 ~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          446 TVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             EEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             EEEEEecCCCcHHHHHHHhccccc
Confidence            489999999999999999988753

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.26  E-value=0.024  Score=50.42  Aligned_cols=23  Identities=22%  Similarity=0.247  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.||+|+||||+++.+...+.
T Consensus        95 igI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           95 IGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            69999999999999999988874

>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=95.25  E-value=0.055  Score=42.49  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++.++...-
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            7999999999999999998654

>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=95.24  E-value=0.013  Score=51.72  Aligned_cols=22  Identities=32%  Similarity=0.679  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+|||+++..+++.+
T Consensus        13 i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           13 IFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECCCccCHHHHHHHHHHhC
Confidence            6899999999999999999986

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=95.24  E-value=0.043  Score=49.94  Aligned_cols=40  Identities=23%  Similarity=0.380  Sum_probs=26.2

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      ...++|+||+|.+... ....+..++...+....+++.|..
T Consensus       162 ~~~~vIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT  202 (394)
T 1fuu_A          162 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSAT  202 (394)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEECSS
T ss_pred             hCcEEEEEChHHhhCCCcHHHHHHHHHhCCCCceEEEEEEe
Confidence            4679999999987432 234455556655666767766643

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.22  E-value=0.01  Score=49.27  Aligned_cols=22  Identities=36%  Similarity=0.480  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.||+|+||||+++.++..+
T Consensus         9 i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            9 IGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999986

>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=95.22  E-value=0.01  Score=50.91  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|++|+||||+++.|++.+.
T Consensus        25 I~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           25 IGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            79999999999999999999863

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.22  E-value=0.01  Score=49.77  Aligned_cols=23  Identities=30%  Similarity=0.619  Sum_probs=21.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.++..+
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            38999999999999999999875

>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=95.22  E-value=0.018  Score=48.12  Aligned_cols=28  Identities=29%  Similarity=0.408  Sum_probs=24.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~  104 (364)
                      ++|.|++|+||||+++.+++.+...+..
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~~~~~~   36 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLRERGIE   36 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTCC
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCC
Confidence            6999999999999999999999765543

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.21  E-value=0.11  Score=41.28  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        13 i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           13 VMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHhCC
Confidence            8999999999999999998754

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.21  E-value=0.01  Score=49.15  Aligned_cols=20  Identities=30%  Similarity=0.311  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +.|.|++|+||||+++.++.
T Consensus         5 i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            5 VGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEECSTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999999987

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.21  E-value=0.023  Score=55.38  Aligned_cols=42  Identities=19%  Similarity=0.355  Sum_probs=31.0

Q ss_pred             ceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||.- .+.......+.+.+.+...+..+|++++..+
T Consensus       509 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~  551 (598)
T 3qf4_B          509 NPKILILDEATSNVDTKTEKSIQAAMWKLMEGKTSIIIAHRLN  551 (598)
T ss_dssp             CCSEEEECCCCTTCCHHHHHHHHHHHHHHHTTSEEEEESCCTT
T ss_pred             CCCEEEEECCccCCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            57899999964 4556677777777777655666788887665

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=95.21  E-value=0.012  Score=55.45  Aligned_cols=38  Identities=21%  Similarity=0.293  Sum_probs=27.7

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.....+..++..   ..+++.||+|+|||..+..++..+
T Consensus        95 ~~~Q~~ai~~i~~~---~~~ll~~~TGsGKT~~~l~~i~~~  132 (472)
T 2fwr_A           95 RDYQEKALERWLVD---KRGCIVLPTGSGKTHVAMAAINEL  132 (472)
T ss_dssp             CHHHHHHHHHHTTT---TEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhc---CCEEEEeCCCCCHHHHHHHHHHHc
Confidence            44555555555544   349999999999999988877765

>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=95.21  E-value=0.012  Score=48.59  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.|++|+||||+++.++..+
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            47899999999999999999987

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.21  E-value=0.01  Score=49.36  Aligned_cols=42  Identities=33%  Similarity=0.529  Sum_probs=29.0

Q ss_pred             ccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHH
Q 017884           46 KYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        46 ~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      ..+|+++.+    ..+++.    +..|  ..+.|.||.|+||||+++.++..
T Consensus         4 ~i~pk~~g~----~~~l~~----i~~G--e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A            4 VIRPKTLGQ----KHYVDA----IDTN--TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CCCCCSHHH----HHHHHH----HHHC--SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccccCCHhH----HHHHHh----ccCC--CEEEEECCCCCCHHHHHHHHhcC
Confidence            356777643    223333    3444  34789999999999999999876

>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=95.20  E-value=0.014  Score=47.90  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|+|++|+||||+++.+++.+
T Consensus        15 IgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            6899999999999999999986

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=95.19  E-value=0.083  Score=42.61  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|++|+|||+++..+...-
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            38999999999999999998653

>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=95.18  E-value=0.017  Score=54.79  Aligned_cols=42  Identities=7%  Similarity=0.098  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHh--cCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           59 RDIVDTIDRLTS--ENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        59 ~~~~~~l~~~~~--~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +++.+.+++...  ......++|.|.+|+||||+++++++.+..
T Consensus       378 peV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          378 PEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             HHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             hhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            566666666552  222234899999999999999999999964

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=95.17  E-value=0.066  Score=43.86  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        32 i~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           32 LVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhhC
Confidence            899999999999999999764

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.17  E-value=0.013  Score=49.64  Aligned_cols=24  Identities=38%  Similarity=0.607  Sum_probs=22.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      ++|.|++|+||||+++.+++.+..
T Consensus        29 i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           29 ITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhc
Confidence            799999999999999999999854

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.17  E-value=0.012  Score=46.54  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.||.|+||||+++.++..+
T Consensus        36 v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           36 VYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7999999999999999999987

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=95.13  E-value=0.011  Score=48.95  Aligned_cols=23  Identities=22%  Similarity=0.582  Sum_probs=21.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.++..+
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            37899999999999999999886

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=95.12  E-value=0.14  Score=43.21  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++|.|++|+|||+++..+...
T Consensus        31 ~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           31 RIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4899999999999999999864

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=95.12  E-value=0.064  Score=52.33  Aligned_cols=106  Identities=15%  Similarity=0.133  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccc-c-C
Q 017884           60 DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-F-G  137 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-~-~  137 (364)
                      +..+.+...+... ....+|+|+.|.|||+++..++..+..     . +.+.++.......+.+..........+. + .
T Consensus       179 dQ~~al~~~~~~~-~~~~vlta~RGRGKSa~lG~~~a~~~~-----~-~~vtAP~~~a~~~l~~~~~~~i~~~~Pd~~~~  251 (671)
T 2zpa_A          179 EQQQLLKQLMTMP-PGVAAVTAARGRGKSALAGQLISRIAG-----R-AIVTAPAKASTDVLAQFAGEKFRFIAPDALLA  251 (671)
T ss_dssp             HHHHHHHHHTTCC-SEEEEEEECTTSSHHHHHHHHHHHSSS-----C-EEEECSSCCSCHHHHHHHGGGCCBCCHHHHHH
T ss_pred             HHHHHHHHHHHhh-hCeEEEecCCCCCHHHHHHHHHHHHHh-----C-cEEECCCHHHHHHHHHHhhCCeEEeCchhhhh
Confidence            4444454444432 234799999999999999999998742     1 2556666555555444322211110000 0 1


Q ss_pred             CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ......++||||+-.++......|+.      ...+++++|
T Consensus       252 ~~~~~dlliVDEAAaIp~pll~~ll~------~~~~v~~~t  286 (671)
T 2zpa_A          252 SDEQADWLVVDEAAAIPAPLLHQLVS------RFPRTLLTT  286 (671)
T ss_dssp             SCCCCSEEEEETGGGSCHHHHHHHHT------TSSEEEEEE
T ss_pred             CcccCCEEEEEchhcCCHHHHHHHHh------hCCeEEEEe
Confidence            11136799999999998766555543      234566665

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.11  E-value=0.19  Score=39.38  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=19.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++..+...
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            3799999999999999999864

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=95.10  E-value=0.053  Score=45.98  Aligned_cols=39  Identities=18%  Similarity=0.328  Sum_probs=25.0

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..+++|+||+|.+... ....+..++...+.+..+++.|.
T Consensus       176 ~~~~lViDEah~l~~~~~~~~~~~i~~~~~~~~q~~~~SA  215 (242)
T 3fe2_A          176 RTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSA  215 (242)
T ss_dssp             TCCEEEETTHHHHHHTTCHHHHHHHHTTSCSSCEEEEEES
T ss_pred             cccEEEEeCHHHHhhhCcHHHHHHHHHhCCccceEEEEEe
Confidence            4679999999987643 23445555555555666666553

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.10  E-value=0.01  Score=53.04  Aligned_cols=23  Identities=35%  Similarity=0.587  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+|||+++..|++.+
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHC
Confidence            47999999999999999999987

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=95.10  E-value=0.39  Score=41.36  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=19.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++..+...
T Consensus        41 ~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           41 TILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999999864

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.09  E-value=0.12  Score=47.94  Aligned_cols=35  Identities=20%  Similarity=0.389  Sum_probs=26.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC-CCCCcEEEEe
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELN  111 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~  111 (364)
                      +++.|++|+||||++..++..+... +....++..+
T Consensus       103 I~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D  138 (433)
T 2xxa_A          103 VLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSAD  138 (433)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecC
Confidence            6888999999999999999988655 5444444333

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=95.09  E-value=0.027  Score=45.24  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         8 i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            8 CVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7999999999999999998653

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.08  E-value=0.023  Score=47.39  Aligned_cols=27  Identities=26%  Similarity=0.325  Sum_probs=24.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      +.|.|++|+||||.++.+++.+...+.
T Consensus         6 i~~eG~~gsGKsT~~~~l~~~l~~~~~   32 (213)
T 4tmk_A            6 IVIEGLEGAGKTTARNVVVETLEQLGI   32 (213)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            799999999999999999999865554

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=95.08  E-value=0.023  Score=45.81  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||++++.+...-
T Consensus        10 i~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A           10 IVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7999999999999999998753

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.08  E-value=0.22  Score=43.73  Aligned_cols=27  Identities=33%  Similarity=0.402  Sum_probs=22.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      +.+.|++|+||||++..++..+...+.
T Consensus       101 i~i~G~~G~GKTT~~~~la~~~~~~g~  127 (297)
T 1j8m_F          101 IMLVGVQGTGKTTTAGKLAYFYKKKGF  127 (297)
T ss_dssp             EEEECSSCSSTTHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            688899999999999999988754443

>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=95.07  E-value=0.046  Score=43.60  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=20.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|++|+|||+++..+...-
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            38999999999999999998753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.07  E-value=0.013  Score=50.39  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=21.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.+++.+
T Consensus        29 ~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           29 VITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            47999999999999999999886

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.07  E-value=0.057  Score=42.38  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=18.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~   96 (364)
                      .+++.|++|+|||++++.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            379999999999999998853

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.06  E-value=0.024  Score=60.34  Aligned_cols=60  Identities=18%  Similarity=0.319  Sum_probs=39.3

Q ss_pred             ceEEEEEeCCCCC-CHHHHHHHHHHHHHhccCccEEEEeeccccCch----hhhccceEEEecCC
Q 017884          141 SVKLVLLDEADAM-TKDAQFALRRVIEKYTKNTRFALICNQVNKIIP----ALQSRCTRFRFAPL  200 (364)
Q Consensus       141 ~~~viiiDe~~~l-~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~----~l~sr~~~i~~~~~  200 (364)
                      +++|+++||+-.- ..+....+.+.+++...++.+|++++..+-+..    -+.+.++++++..+
T Consensus      1235 ~~~ILiLDEaTSaLD~~tE~~Iq~~l~~~~~~~TvI~IAHRLsTi~~aD~I~Vld~G~IvE~Gth 1299 (1321)
T 4f4c_A         1235 NPKILLLDEATSALDTESEKVVQEALDRAREGRTCIVIAHRLNTVMNADCIAVVSNGTIIEKGTH 1299 (1321)
T ss_dssp             CCSEEEEESCCCSTTSHHHHHHHHHHTTTSSSSEEEEECSSSSTTTTCSEEEEESSSSEEEEECH
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHcCCCEEEEeccCHHHHHhCCEEEEEECCEEEEECCH
Confidence            5789999998544 455666777888877677778888876553322    12234566766554

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=95.06  E-value=0.061  Score=43.98  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        11 i~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A           11 ILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEECSTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999987653

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=95.04  E-value=0.12  Score=41.75  Aligned_cols=21  Identities=29%  Similarity=0.600  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        24 i~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           24 YIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            899999999999999999865

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=95.04  E-value=0.16  Score=40.89  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        24 i~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           24 LAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCcHHHHHHHHHhCC
Confidence            8999999999999999998753

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.03  E-value=0.011  Score=47.64  Aligned_cols=39  Identities=21%  Similarity=0.216  Sum_probs=27.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      +.+.|.|++|+||||+++.++..+...+...-.+.+++.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~g~~~G~I~~dg~   41 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAH   41 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHTTCCEEEEEC---
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhcCCceEEEEEcCc
Confidence            347899999999999999999998644333344454443

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=95.01  E-value=0.15  Score=42.06  Aligned_cols=24  Identities=21%  Similarity=0.232  Sum_probs=21.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..+++.|++|+|||+++..+...-
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            448999999999999999998754

>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=94.99  E-value=0.036  Score=48.94  Aligned_cols=25  Identities=36%  Similarity=0.509  Sum_probs=22.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      +.|.||+|+||||+++.++..+...
T Consensus       105 i~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          105 VLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhc
Confidence            7899999999999999999988644

>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=94.99  E-value=0.013  Score=48.25  Aligned_cols=21  Identities=19%  Similarity=0.281  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.|.|++|+||||+++.+++.
T Consensus        11 I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A           11 IGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEEEECTTSCHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHC
Confidence            799999999999999999985

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.96  E-value=0.014  Score=52.32  Aligned_cols=23  Identities=35%  Similarity=0.676  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+|||+++..+++.+
T Consensus         9 lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             eEEEECCCcCcHHHHHHHHHHHc
Confidence            37999999999999999999997

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.96  E-value=0.015  Score=55.35  Aligned_cols=54  Identities=15%  Similarity=0.212  Sum_probs=37.6

Q ss_pred             hhccCCC--CCcchhc----cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           44 VEKYRPQ--SLADVAA----HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        44 ~~~~~p~--~~~~~vg----~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++++++.  ++.+++.    ...++..+...+..+.  .++|.||+|+||||++++++..+.
T Consensus       226 IR~~~~~~~~~~~l~~~G~~~~~~l~~l~~~v~~g~--~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          226 IRKFTIEPLTPIDLIEKGTVPSGVLAYLWLAIEHKF--SAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             EEECCCCCCCHHHHHHTTSSCHHHHHHHHHHHHTTC--CEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             EEecCCCCCChhhHHhcCCCCHHHHHHHHHHHhCCC--EEEEECCCCCCHHHHHHHHHhhCC
Confidence            4444433  3455542    3556666766676663  499999999999999999988763

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=94.95  E-value=0.057  Score=52.37  Aligned_cols=43  Identities=21%  Similarity=0.434  Sum_probs=31.3

Q ss_pred             ceEEEEEeCCC-CCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEAD-AMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~~-~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +++++++||.- .+.......+.+.+.+...+..+|++++..+.
T Consensus       498 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~~  541 (582)
T 3b60_A          498 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLST  541 (582)
T ss_dssp             CCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGGG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHhCCCEEEEEeccHHH
Confidence            57799999974 45566777788888776555667788876553

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=94.95  E-value=0.065  Score=43.74  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=19.9

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++..+...
T Consensus        30 ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           30 KIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4899999999999999999764

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=94.92  E-value=0.11  Score=41.24  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        17 i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           17 LVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999999864

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=94.91  E-value=0.15  Score=40.73  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+....
T Consensus        21 i~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           21 LVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999998653

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=94.91  E-value=0.035  Score=46.16  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        30 i~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           30 LVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998753

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.88  E-value=0.16  Score=41.05  Aligned_cols=22  Identities=27%  Similarity=0.659  Sum_probs=20.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++.++...
T Consensus        10 ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            3899999999999999999874

>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=94.88  E-value=0.081  Score=52.73  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=18.3

Q ss_pred             CcEEEeCCCCccHHHHH-HHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTI-LAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la-~~l~~~l   98 (364)
                      .++++.||+|+|||..+ ..+.+.+
T Consensus        40 ~~~lv~apTGsGKT~~~~l~il~~~   64 (720)
T 2zj8_A           40 KNALISIPTASGKTLIAEIAMVHRI   64 (720)
T ss_dssp             CEEEEECCGGGCHHHHHHHHHHHHH
T ss_pred             CcEEEEcCCccHHHHHHHHHHHHHH
Confidence            56999999999999987 3444333

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.85  E-value=0.058  Score=51.68  Aligned_cols=42  Identities=10%  Similarity=0.252  Sum_probs=32.3

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||- ..|....+..+.+++.+......+|+++....
T Consensus       156 ~p~illlDEPts~LD~~~~~~l~~~l~~l~~g~tii~vsHdl~  198 (538)
T 3ozx_A          156 EADVYIFDQPSSYLDVRERMNMAKAIRELLKNKYVIVVDHDLI  198 (538)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHCTTSEEEEECSCHH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHhCCCEEEEEEeChH
Confidence            5789999995 56677788888999888765566777776543

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.83  E-value=0.22  Score=38.70  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
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            7899999999999999998754

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=94.83  E-value=0.029  Score=46.33  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        31 i~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           31 IVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.83  E-value=0.062  Score=43.61  Aligned_cols=21  Identities=29%  Similarity=0.518  Sum_probs=18.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        29 i~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           29 VIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHCC-
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999998754

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=94.82  E-value=0.029  Score=45.63  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        26 i~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           26 IVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998764

>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=94.81  E-value=0.063  Score=47.94  Aligned_cols=27  Identities=33%  Similarity=0.517  Sum_probs=23.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      +.|.||+|+||||+++.++..+...+.
T Consensus       132 i~lvG~nGaGKTTll~~Lag~l~~~~g  158 (328)
T 3e70_C          132 IMFVGFNGSGKTTTIAKLANWLKNHGF  158 (328)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            799999999999999999998754433

>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=94.80  E-value=0.012  Score=48.80  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.|++|+||||+++.++..+
T Consensus        24 i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           24 IGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             EEEEESTTSSHHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            6899999999999999998864

>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=94.79  E-value=0.15  Score=50.52  Aligned_cols=39  Identities=15%  Similarity=0.179  Sum_probs=26.1

Q ss_pred             ceEEEEEeCCCCCC----HHHHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMT----KDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~----~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ..++|||||+|.+.    ....+.++..+.....+.++|+.|.
T Consensus       138 ~~~~vIiDE~H~l~~~~r~~~~~~ll~~l~~~~~~~~ii~lSA  180 (702)
T 2p6r_A          138 AVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSA  180 (702)
T ss_dssp             GCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEEC
T ss_pred             hcCEEEEeeeeecCCCCcccHHHHHHHHHHhcCcCceEEEECC
Confidence            46799999999974    3345555555555555677776663

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.79  E-value=0.012  Score=48.27  Aligned_cols=22  Identities=32%  Similarity=0.584  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+|||+++..+++..
T Consensus        37 ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           37 VLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999999874

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=94.78  E-value=0.16  Score=40.88  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        25 i~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           25 LTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998653

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=94.75  E-value=0.086  Score=42.70  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        26 i~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           26 VCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998653

>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A

Probab=94.75  E-value=0.12  Score=48.90  Aligned_cols=120  Identities=16%  Similarity=0.173  Sum_probs=65.4

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccc-c
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFS-F  136 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-~  136 (364)
                      |.+.+..+......+  .+.++.-+.|+|||..+-.++..+...+....++-+....  -...+.+.+..+....... +
T Consensus        42 Q~~~v~~l~~~~~~~--~~~ilad~~GlGKT~~ai~~i~~~~~~~~~~~~LIv~P~~--l~~qw~~e~~~~~~~~~v~~~  117 (500)
T 1z63_A           42 QIKGFSWMRFMNKLG--FGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLS--VLKNWEEELSKFAPHLRFAVF  117 (500)
T ss_dssp             HHHHHHHHHHHHHTT--CCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECST--THHHHHHHHHHHCTTSCEEEC
T ss_pred             HHHHHHHHHHHhhCC--CCEEEEeCCCCcHHHHHHHHHHHHHhcCCCCCEEEEccHH--HHHHHHHHHHHHCCCceEEEE
Confidence            344444443333433  3588999999999999888877765433333444444422  3455666565553211110 0


Q ss_pred             -CC--------------------------ccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          137 -GV--------------------------KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       137 -~~--------------------------~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                       +.                          .....+||+||+|.+.... ....+.+...+...++.+++++..
T Consensus       118 ~g~~~~~~~~~~~ivi~t~~~l~~~~~l~~~~~~~vIvDEaH~~kn~~-~~~~~~l~~l~~~~~l~LTaTP~~  189 (500)
T 1z63_A          118 HEDRSKIKLEDYDIILTTYAVLLRDTRLKEVEWKYIVIDEAQNIKNPQ-TKIFKAVKELKSKYRIALTGTPIE  189 (500)
T ss_dssp             SSSTTSCCGGGSSEEEEEHHHHTTCHHHHTCCEEEEEEETGGGGSCTT-SHHHHHHHTSCEEEEEEECSSCST
T ss_pred             ecCchhccccCCcEEEeeHHHHhccchhcCCCcCEEEEeCccccCCHh-HHHHHHHHhhccCcEEEEecCCCC
Confidence             00                          0135799999999995332 123344444444455666655443

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=94.73  E-value=0.051  Score=45.06  Aligned_cols=21  Identities=38%  Similarity=0.586  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        37 i~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           37 VVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEECcCCCCHHHHHHHHHcC
Confidence            899999999999999999754

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=94.72  E-value=0.059  Score=44.12  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|++|+|||+++..+...-
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A           10 KVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            38999999999999999998754

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.72  E-value=0.032  Score=45.37  Aligned_cols=23  Identities=22%  Similarity=0.365  Sum_probs=20.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++.|++|+|||+++..+...-
T Consensus        20 ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           20 KCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            38999999999999999998764

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=94.70  E-value=0.17  Score=44.67  Aligned_cols=38  Identities=21%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             ceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ...+||+||+|.+.... ...+..++...+....+++.|
T Consensus       129 ~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~S  167 (337)
T 2z0m_A          129 SFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFS  167 (337)
T ss_dssp             GCSEEEEESHHHHHHTTCHHHHHHHHHHCTTCSEEEEEE
T ss_pred             hCcEEEEEChHHhhccccHHHHHHHHhhCCcccEEEEEe
Confidence            46799999999885432 334455555555555555544

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=94.70  E-value=0.034  Score=54.40  Aligned_cols=40  Identities=33%  Similarity=0.478  Sum_probs=29.3

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .+.....+...+.   .+..++.||||||||+++..+...+..
T Consensus       182 n~~Q~~av~~~l~---~~~~li~GppGTGKT~~~~~~i~~l~~  221 (624)
T 2gk6_A          182 NHSQVYAVKTVLQ---RPLSLIQGPPGTGKTVTSATIVYHLAR  221 (624)
T ss_dssp             CHHHHHHHHHHHT---CSEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhc---CCCeEEECCCCCCHHHHHHHHHHHHHH
Confidence            4555556665553   245799999999999998888877653

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.69  E-value=0.028  Score=49.57  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|+||+|+||||+++.++..+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhhc
Confidence            37999999999999999999987

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.67  E-value=0.019  Score=48.00  Aligned_cols=20  Identities=35%  Similarity=0.448  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +.|.|++|+||||+++.++.
T Consensus         7 I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            7 VALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            79999999999999999987

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=94.62  E-value=0.18  Score=41.30  Aligned_cols=22  Identities=18%  Similarity=0.404  Sum_probs=19.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+.|.|++|+||||+++.++..
T Consensus        28 ~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           28 EVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEECTTSSHHHHHTTTCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999988654

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=94.61  E-value=0.14  Score=53.41  Aligned_cols=38  Identities=18%  Similarity=0.327  Sum_probs=25.6

Q ss_pred             ceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ...+|||||+|.+.... ...+..++...+.+..+|+.|
T Consensus       290 ~l~lVVIDEaH~l~d~~rg~~~e~ii~~l~~~~qvl~lS  328 (1108)
T 3l9o_A          290 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLS  328 (1108)
T ss_dssp             HEEEEEEETGGGTTSHHHHHHHHHHHHHSCTTSEEEEEE
T ss_pred             cCCEEEEhhhhhccccchHHHHHHHHHhcCCCceEEEEc
Confidence            47899999999997543 333444555556667666665

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.58  E-value=0.022  Score=48.66  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.||.|+||||+++.++..+
T Consensus        28 igI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           28 IGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999876

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.57  E-value=0.044  Score=48.55  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.||+|+||||+++.++..+.
T Consensus        83 igI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           83 ISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            79999999999999999999874

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.56  E-value=0.011  Score=50.21  Aligned_cols=21  Identities=43%  Similarity=0.512  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|+|+||+|||+++..++..
T Consensus        33 ~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           33 VLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            799999999999999887654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.56  E-value=0.012  Score=49.72  Aligned_cols=22  Identities=32%  Similarity=0.526  Sum_probs=14.4

Q ss_pred             EEEeCCCCccHHHHHHHHH-HHH
Q 017884           77 LLLYGPPGTGKTSTILAVA-RKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~-~~l   98 (364)
                      +.|.||+|+||||+++.++ ..+
T Consensus        30 i~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           30 LVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEECSCC----CHHHHHHC---
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            7999999999999999999 764

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=94.48  E-value=0.21  Score=40.75  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++..+...
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           27 KFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHC-
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            3899999999999999999754

>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=94.47  E-value=0.024  Score=50.38  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +.|.||+|+||||+++.++..+..
T Consensus        93 vgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           93 IGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEECCCCchHHHHHHHHHhhccc
Confidence            689999999999999999998753

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.45  E-value=0.036  Score=53.25  Aligned_cols=44  Identities=16%  Similarity=0.186  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHh--cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           59 RDIVDTIDRLTS--ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        59 ~~~~~~l~~~~~--~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      +++...++....  ......++|.|++|+||||+++.+++.+...+
T Consensus       355 ~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~~G  400 (546)
T 2gks_A          355 PEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQARG  400 (546)
T ss_dssp             HHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhhcC
Confidence            456666666652  22222379999999999999999999875444

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=94.43  E-value=0.044  Score=45.66  Aligned_cols=21  Identities=38%  Similarity=0.471  Sum_probs=18.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        18 i~v~G~~~~GKSsli~~~~~~   38 (221)
T 3gj0_A           18 LVLVGDGGTGKTTFVKRHLTG   38 (221)
T ss_dssp             EEEEECTTSSHHHHHTTBHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            899999999999999995443

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=94.42  E-value=0.41  Score=39.34  Aligned_cols=21  Identities=33%  Similarity=0.532  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|++|+|||+++..+...
T Consensus        28 i~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           28 LLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            899999999999999998754

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.40  E-value=0.025  Score=51.31  Aligned_cols=35  Identities=20%  Similarity=0.354  Sum_probs=27.2

Q ss_pred             HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           63 DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        63 ~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ..+.-.+..+  ..++|.||+|+||||++++++..+.
T Consensus       166 ~~l~~~i~~G--~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          166 SFLRRAVQLE--RVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             HHHHHHHHTT--CCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             HHHHHHHhcC--CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4444455555  3589999999999999999998763

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=94.37  E-value=0.053  Score=44.39  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=4.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++..+...
T Consensus        22 ~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           22 KVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEC-----------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999998765

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.31  E-value=0.023  Score=49.50  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|+||+|+|||+++..++..+.
T Consensus        33 ~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           33 GALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHh
Confidence            79999999999999999998664

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.30  E-value=0.43  Score=44.05  Aligned_cols=28  Identities=32%  Similarity=0.383  Sum_probs=23.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~  104 (364)
                      +.+.|++|+||||++..++..+...+..
T Consensus       101 i~i~G~~GsGKTT~~~~LA~~l~~~g~~  128 (425)
T 2ffh_A          101 WFLVGLQGSGKTTTAAKLALYYKGKGRR  128 (425)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCe
Confidence            6888999999999999999998655443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.22  E-value=0.065  Score=48.35  Aligned_cols=27  Identities=33%  Similarity=0.464  Sum_probs=22.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      +.+.|.|+||+||||+..++...+...
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~~~~~  101 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKMLTER  101 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhhhc
Confidence            347999999999999999999876433

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.20  E-value=0.01  Score=52.15  Aligned_cols=23  Identities=13%  Similarity=0.304  Sum_probs=18.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|++|+||||+++.++..+.
T Consensus         8 IgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            8 ISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             EEEESCC---CCTHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            79999999999999999999764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.19  E-value=0.037  Score=46.85  Aligned_cols=23  Identities=22%  Similarity=0.566  Sum_probs=21.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.|++|+||||+++.++..+
T Consensus        18 ~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           18 QIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            37999999999999999999987

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.17  E-value=0.036  Score=45.59  Aligned_cols=28  Identities=25%  Similarity=0.322  Sum_probs=23.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~  104 (364)
                      +.|.|+.|+||||.++.+++.+...+..
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~   30 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKK   30 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCc
Confidence            4788999999999999999998765543

>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=94.17  E-value=0.028  Score=51.22  Aligned_cols=24  Identities=33%  Similarity=0.642  Sum_probs=21.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .++|.||+|+||||+++.++..+.
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcC
Confidence            379999999999999999999874

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=94.15  E-value=0.07  Score=43.65  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        28 i~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           28 LVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            8999999999999999998753

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.15  E-value=0.033  Score=53.50  Aligned_cols=42  Identities=24%  Similarity=0.385  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHh--cCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           59 RDIVDTIDRLTS--ENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        59 ~~~~~~l~~~~~--~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +.+...++....  ......+.|.|++|+||||+++.++..+..
T Consensus       352 peV~~vLR~~~~~~~~~G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          352 PEVLAELHRQTPPRERQGFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             HHHHHHHHHHSCCGGGSCEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             cchhhhhhhhcccccccceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            345555554431  112233799999999999999999999853

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.13  E-value=0.023  Score=47.94  Aligned_cols=25  Identities=24%  Similarity=0.352  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++|.|++|+||||+++.+++.+...
T Consensus        28 I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           28 ITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             EEEECCC---CHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhh
Confidence            7999999999999999999998543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=94.13  E-value=0.041  Score=45.41  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus        12 i~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A           12 CVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998653

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.12  E-value=0.1  Score=42.89  Aligned_cols=22  Identities=27%  Similarity=0.588  Sum_probs=19.9

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||+++..+...
T Consensus        22 ~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           22 KILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999999864

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.11  E-value=0.03  Score=46.66  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=21.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.|++|+|||++++.+++.+
T Consensus         5 ~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            5 NIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            37999999999999999999986

>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=94.09  E-value=0.027  Score=51.49  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+|||+++..+++.+
T Consensus         5 i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            5 IVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHH
T ss_pred             EEEECcchhhHHHHHHHHHHHC
Confidence            6899999999999999999997

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.08  E-value=0.14  Score=49.75  Aligned_cols=42  Identities=7%  Similarity=0.199  Sum_probs=30.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+++.+... ...+|++++...
T Consensus       239 ~p~llllDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHdl~  282 (608)
T 3j16_B          239 EADVYMFDEPSSYLDVKQRLNAAQIIRSLLAPTKYVICVEHDLS  282 (608)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHGGGTTTCEEEEECSCHH
T ss_pred             CCCEEEEECcccCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            5789999995 55667778888888887654 344677775543

>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=94.07  E-value=0.032  Score=45.01  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+|+||.|+|||+++.++.-.+.
T Consensus        29 ~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           29 TAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            69999999999999999998874

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.07  E-value=0.056  Score=43.29  Aligned_cols=21  Identities=38%  Similarity=0.681  Sum_probs=8.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus        11 i~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C           11 LLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998755

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=94.06  E-value=0.027  Score=49.44  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|.||+|+|||+++..++..+.
T Consensus        38 ~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           38 IMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999998875

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=94.00  E-value=0.024  Score=48.12  Aligned_cols=42  Identities=12%  Similarity=0.295  Sum_probs=30.1

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+++.+...  ...+|++|+...
T Consensus       163 ~p~llllDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHd~~  207 (235)
T 3tif_A          163 NPPIILADQPTWALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDIN  207 (235)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCHH
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEcCCHH
Confidence            5779999995 45567777888888877642  456777877654

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=93.99  E-value=0.058  Score=54.27  Aligned_cols=40  Identities=33%  Similarity=0.500  Sum_probs=29.2

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .+.....+...+..   +..++.||||||||+++..++..+..
T Consensus       358 n~~Q~~Av~~~l~~---~~~lI~GppGTGKT~ti~~~i~~l~~  397 (800)
T 2wjy_A          358 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLAR  397 (800)
T ss_dssp             CHHHHHHHHHHHTS---SEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHhccC---CeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            34555556555532   45799999999999998888877654

>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=93.96  E-value=0.056  Score=49.60  Aligned_cols=38  Identities=16%  Similarity=0.244  Sum_probs=28.7

Q ss_pred             CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           73 RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        73 ~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      ..+|+++.|++|+|||++++.++..+...+.  .++-++.
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~~~~~~--~~~~~D~   71 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLREYMQGS--RVIIIDP   71 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHHTTTC--CEEEEES
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHHHHCCC--EEEEEeC
Confidence            3468999999999999999999988765443  3344444

>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=93.96  E-value=0.37  Score=49.20  Aligned_cols=20  Identities=25%  Similarity=0.360  Sum_probs=18.2

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      ++|.||.|+||||+++.++-
T Consensus       665 ~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          665 HIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            79999999999999999843

>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=93.95  E-value=0.026  Score=49.31  Aligned_cols=20  Identities=35%  Similarity=0.441  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +.|.|++|+||||+++.++.
T Consensus        78 I~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           78 LGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            79999999999999999994

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.94  E-value=0.031  Score=47.60  Aligned_cols=42  Identities=17%  Similarity=0.229  Sum_probs=29.9

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|....+..+.+++.+...  ...+|++|+...
T Consensus       144 ~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~~g~tvi~vtHd~~  188 (240)
T 2onk_A          144 QPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDLI  188 (240)
T ss_dssp             CCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCHH
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            6789999995 55667778888888877632  455777776543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=93.91  E-value=0.034  Score=45.53  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.|++|+|||++++.+....
T Consensus         8 v~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            8 VVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7999999999999999998764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.90  E-value=0.031  Score=44.62  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=20.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++|.|++|+|||+++..+.+.
T Consensus        18 gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           18 GVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            3899999999999999999885

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.88  E-value=0.037  Score=48.88  Aligned_cols=24  Identities=29%  Similarity=0.553  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +.|.||.|+||||+++.++..+..
T Consensus       103 i~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A          103 IMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            689999999999999999998753

>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=93.87  E-value=0.039  Score=53.26  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ++|.|++|+||||+++.+++.+.
T Consensus       399 I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          399 IFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEeecCCCCCHHHHHHHHHHHhc
Confidence            79999999999999999999985

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.85  E-value=0.04  Score=46.37  Aligned_cols=23  Identities=35%  Similarity=0.593  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +-|.|+||+||||.++.+++.+.
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eeeECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999999873

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.85  E-value=0.029  Score=47.65  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|++|+||||+++.+++.+.
T Consensus         5 i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            5 LSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcC
Confidence            79999999999999999999973

>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=93.84  E-value=0.058  Score=48.99  Aligned_cols=42  Identities=19%  Similarity=0.252  Sum_probs=29.9

Q ss_pred             HHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           68 LTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        68 ~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      .+.-++...+.|.||+|+|||++++.+++.+...+....++.
T Consensus       168 ~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~  209 (422)
T 3ice_A          168 ASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMV  209 (422)
T ss_dssp             HSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEE
T ss_pred             eeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEE
Confidence            333444455899999999999999999998754444444443

>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=93.79  E-value=0.032  Score=45.39  Aligned_cols=23  Identities=26%  Similarity=0.570  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|++|+|||++++.++....
T Consensus        32 v~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           32 VVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSCC
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            79999999999999999988653

>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=93.74  E-value=0.033  Score=53.16  Aligned_cols=24  Identities=29%  Similarity=0.384  Sum_probs=21.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +++.|.||+||||+++.+++.+..
T Consensus        38 IvlvGlpGSGKSTia~~La~~L~~   61 (520)
T 2axn_A           38 IVMVGLPARGKTYISKKLTRYLNW   61 (520)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            799999999999999999998743

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.74  E-value=0.026  Score=47.54  Aligned_cols=41  Identities=12%  Similarity=0.206  Sum_probs=27.2

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeecc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~  181 (364)
                      +++++++||. ..|.......+.+++.+... ...+|++|+..
T Consensus       158 ~p~lllLDEPt~~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~  200 (224)
T 2pcj_A          158 EPILLFADEPTGNLDSANTKRVMDIFLKINEGGTSIVMVTHER  200 (224)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEcCCH
Confidence            5778999985 44566777777777776532 44566666554

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.73  E-value=0.038  Score=46.18  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=22.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .++|.|++|+||||.++.+++.+..
T Consensus         7 ~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            7 LILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3799999999999999999999843

>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=93.68  E-value=0.03  Score=47.60  Aligned_cols=43  Identities=14%  Similarity=0.182  Sum_probs=29.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHH---HhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIE---KYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le---~~~~~~~~Il~~~~~~~  183 (364)
                      +++++++||. ..|.......+.+.+.   .......+|++|.....
T Consensus       145 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~~~tviivtH~~~~  191 (237)
T 2cbz_A          145 NADIYLFDDPLSAVDAHVGKHIFENVIGPKGMLKNKTRILVTHSMSY  191 (237)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHTTSTTSTTTTSEEEEECSCSTT
T ss_pred             CCCEEEEeCcccccCHHHHHHHHHHHHHHHhhcCCCEEEEEecChHH
Confidence            5789999996 4556677788888873   33334567777766543

>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=93.66  E-value=0.031  Score=46.64  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||.|+||||+++.++..+
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999998765

>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=93.66  E-value=0.29  Score=48.84  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||.|+||||+.+.++...
T Consensus       578 i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          578 LVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCChHHHHHHHHhhh
Confidence            37999999999999999998754

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=93.60  E-value=0.83  Score=40.12  Aligned_cols=21  Identities=38%  Similarity=0.556  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++...+...
T Consensus         6 I~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            6 LLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEECCTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999997654

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=93.59  E-value=0.17  Score=49.87  Aligned_cols=41  Identities=20%  Similarity=0.297  Sum_probs=29.1

Q ss_pred             eEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          142 VKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       142 ~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      ++++++||. ..|.......+.+++.+... ...+|+++....
T Consensus       565 p~llllDEPt~~LD~~~~~~i~~~l~~l~~~g~tvi~vtHd~~  607 (670)
T 3ux8_A          565 RTLYILDEPTTGLHVDDIARLLDVLHRLVDNGDTVLVIEHNLD  607 (670)
T ss_dssp             CEEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECCCHH
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            479999995 45667777778887776543 455777876654

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=93.59  E-value=0.15  Score=52.56  Aligned_cols=38  Identities=21%  Similarity=0.407  Sum_probs=23.9

Q ss_pred             ceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ...+|||||+|.+.... ...+..++...+.++.+|+.|
T Consensus       147 ~l~lvViDEaH~l~d~~~g~~~e~ii~~l~~~v~iIlLS  185 (997)
T 4a4z_A          147 DVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLS  185 (997)
T ss_dssp             GEEEEEECCTTCCCTTCTTCCHHHHHHHSCTTCEEEEEE
T ss_pred             CCCEEEEECcccccccchHHHHHHHHHhcccCCCEEEEc
Confidence            57899999999986431 122334444455566666655

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=93.57  E-value=0.087  Score=56.00  Aligned_cols=42  Identities=19%  Similarity=0.413  Sum_probs=29.3

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||.-. +.......+.+.+.....+..+|++++..+
T Consensus       544 ~p~iliLDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~  586 (1284)
T 3g5u_A          544 NPKILLLDEATSALDTESEAVVQAALDKAREGRTTIVIAHRLS  586 (1284)
T ss_dssp             CCSEEEEESTTCSSCHHHHHHHHHHHHHHHTTSEEEEECSCHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            578999999744 455566667777776655666778886544

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=93.56  E-value=0.07  Score=53.73  Aligned_cols=38  Identities=32%  Similarity=0.537  Sum_probs=26.7

Q ss_pred             cHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           58 HRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        58 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.....+...+.   .+.+++.||||||||+++..+...+
T Consensus       362 n~~Q~~Av~~~l~---~~~~lI~GppGTGKT~~i~~~i~~l  399 (802)
T 2xzl_A          362 NSSQSNAVSHVLQ---RPLSLIQGPPGTGKTVTSATIVYHL  399 (802)
T ss_dssp             CHHHHHHHHHHTT---CSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc---CCCEEEECCCCCCHHHHHHHHHHHH
Confidence            3455555555543   2457999999999999887776554

>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=93.53  E-value=0.037  Score=44.69  Aligned_cols=21  Identities=24%  Similarity=0.360  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++++|++|+|||++|..++..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            589999999999999999865

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.53  E-value=0.034  Score=44.83  Aligned_cols=20  Identities=30%  Similarity=0.662  Sum_probs=18.7

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +++.|++|+|||++++.++.
T Consensus         5 v~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            5 LMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEESCTTSSHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            79999999999999999976

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.47  E-value=0.042  Score=47.69  Aligned_cols=23  Identities=17%  Similarity=0.439  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.||+|+||||+++.++....
T Consensus         5 v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            5 IMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            68999999999999999998763

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.47  E-value=0.043  Score=43.35  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.+.|++|+|||++++++...
T Consensus         6 v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            6 IALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999999763

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.45  E-value=0.034  Score=47.97  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||.|+||||+++.++..+
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999998765

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.44  E-value=0.058  Score=42.89  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=20.4

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      ..+++.|++|+|||+++..+...
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45899999999999999999764

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A

Probab=93.43  E-value=0.28  Score=47.80  Aligned_cols=38  Identities=13%  Similarity=0.132  Sum_probs=22.8

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhc-cCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYT-KNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~-~~~~~Il~~  178 (364)
                      ..++|||||+|.+.......+..+++..+ .+..+|+.|
T Consensus       277 ~~~~iViDEah~~~~~~~~~~~~i~~~l~~~~~q~il~S  315 (618)
T 2whx_A          277 NYNLIVMDEAHFTDPCSVAARGYISTRVEMGEAAAIFMT  315 (618)
T ss_dssp             CCSEEEEESTTCCSHHHHHHHHHHHHHHHHTSCEEEEEC
T ss_pred             CCeEEEEECCCCCCccHHHHHHHHHHHhcccCccEEEEE
Confidence            46799999999996543333333333322 455666555

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=93.43  E-value=0.22  Score=46.73  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=17.8

Q ss_pred             CcEEEeCCCCccHHHH-HHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTST-ILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~l-a~~l~~~l   98 (364)
                      .++++.||+|+|||.. +..+...+
T Consensus        22 ~~vlv~a~TGsGKT~~~~l~il~~~   46 (459)
T 2z83_A           22 QMTVLDLHPGSGKTRKILPQIIKDA   46 (459)
T ss_dssp             CEEEECCCTTSCTTTTHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHH
Confidence            4589999999999986 44444443

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=93.43  E-value=0.21  Score=54.56  Aligned_cols=30  Identities=17%  Similarity=0.313  Sum_probs=21.5

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHH
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVA   95 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~   95 (364)
                      .+...+..+  .++++.+|+|+|||.++....
T Consensus       934 ~~~~l~~~~--~nvlv~APTGSGKTliaelai  963 (1724)
T 4f92_B          934 VFNTVYNSD--DNVFVGAPTGSGKTICAEFAI  963 (1724)
T ss_dssp             HHHHHHSCC--SCEEEECCTTSCCHHHHHHHH
T ss_pred             HHHHHhcCC--CcEEEEeCCCCCchHHHHHHH
Confidence            344444444  469999999999999886543

>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=93.36  E-value=0.076  Score=45.46  Aligned_cols=35  Identities=26%  Similarity=0.442  Sum_probs=28.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      +++.|.+|+||||++..++..+. .+....++..+.
T Consensus        17 ~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D~   51 (262)
T 1yrb_A           17 VVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDT   51 (262)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCS
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCCC
Confidence            69999999999999999999987 665555555443

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=93.35  E-value=0.22  Score=46.82  Aligned_cols=21  Identities=19%  Similarity=0.457  Sum_probs=18.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.|.|+||+|||+++.++...
T Consensus       236 V~ivG~~nvGKSSLln~L~~~  256 (476)
T 3gee_A          236 TVIAGKPNAGKSTLLNTLLGQ  256 (476)
T ss_dssp             EEEECCTTSSHHHHHHHCC--
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998765

>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=93.34  E-value=0.047  Score=43.25  Aligned_cols=22  Identities=45%  Similarity=0.638  Sum_probs=19.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+++.|++|+|||++++++...
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            3899999999999999998754

>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=93.34  E-value=0.044  Score=46.95  Aligned_cols=42  Identities=19%  Similarity=0.182  Sum_probs=30.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+++.+... ...+|++|+...
T Consensus       161 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHd~~  204 (250)
T 2d2e_A          161 EPTYAVLDETDSGLDIDALKVVARGVNAMRGPNFGALVITHYQR  204 (250)
T ss_dssp             CCSEEEEECGGGTTCHHHHHHHHHHHHHHCSTTCEEEEECSSSG
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhcCCEEEEEecCHH
Confidence            5779999995 45667778888888887743 445777776544

>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=93.31  E-value=0.038  Score=47.14  Aligned_cols=23  Identities=26%  Similarity=0.470  Sum_probs=20.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||.|+||||+++.++..+
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37999999999999999998765

>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=93.31  E-value=0.038  Score=49.93  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=20.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.++..+
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            37899999999999999999865

>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=93.30  E-value=0.76  Score=46.79  Aligned_cols=21  Identities=38%  Similarity=0.477  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.||.|+||||+.+.++..
T Consensus       676 ~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          676 MIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             EEEESCCCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCchHHHHHHHHHH
Confidence            799999999999999988743

>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=93.30  E-value=0.045  Score=47.37  Aligned_cols=42  Identities=17%  Similarity=0.288  Sum_probs=30.8

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+++.+... ...+|++|....
T Consensus       182 ~p~lLlLDEPts~LD~~~~~~l~~~l~~l~~~g~tviivtHd~~  225 (267)
T 2zu0_C          182 EPELCILDESDSGLDIDALKVVADGVNSLRDGKRSFIIVTHYQR  225 (267)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHTTCCSSCEEEEECSSGG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeeCHH
Confidence            5779999995 45667788889999887643 455777776544

>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=93.27  E-value=0.038  Score=47.58  Aligned_cols=43  Identities=12%  Similarity=0.268  Sum_probs=31.3

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeecccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~~  183 (364)
                      +++++++||. ..|.......+.+++.+... ...+|++++....
T Consensus       171 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tvi~vtHd~~~  215 (257)
T 1g6h_A          171 NPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDI  215 (257)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCST
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEEecCHHH
Confidence            6789999995 55667788888888877643 4557777766543

>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=93.26  E-value=0.028  Score=50.79  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=20.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.++...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            37999999999999999998654

>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=93.26  E-value=0.038  Score=47.24  Aligned_cols=42  Identities=21%  Similarity=0.439  Sum_probs=30.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+++.+......+|+++....
T Consensus       163 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~g~tviivtH~~~  205 (247)
T 2ff7_A          163 NPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLS  205 (247)
T ss_dssp             CCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGG
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHcCCCEEEEEeCCHH
Confidence            5789999996 45566777888888877654556777776654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.25  E-value=0.053  Score=49.00  Aligned_cols=24  Identities=29%  Similarity=0.553  Sum_probs=21.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +.|.||.|+||||+++.++..+..
T Consensus       160 i~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          160 IMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCChHHHHHHHHHhhccc
Confidence            699999999999999999998753

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=93.25  E-value=0.046  Score=49.66  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.||+|+||||+++.++..+.
T Consensus       173 ~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          173 VAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             EEEECCTTSHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            79999999999999999999863

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=93.24  E-value=0.13  Score=45.35  Aligned_cols=22  Identities=18%  Similarity=0.381  Sum_probs=19.8

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+.+.|.||+||||++.++...
T Consensus         9 ~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            9 FVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3799999999999999999865

>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=93.23  E-value=0.039  Score=46.96  Aligned_cols=41  Identities=22%  Similarity=0.259  Sum_probs=29.1

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhc-cCccEEEEeecc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT-KNTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~-~~~~~Il~~~~~  181 (364)
                      +++++++||. ..|.......+.+++.+.. ....+|++|+..
T Consensus       157 ~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~g~tvi~vtHd~  199 (240)
T 1ji0_A          157 RPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNA  199 (240)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCH
T ss_pred             CCCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEecCH
Confidence            6789999995 4566777788888877654 345577777654

>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=93.20  E-value=0.062  Score=41.96  Aligned_cols=24  Identities=38%  Similarity=0.510  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .+|+||.|+|||+++.++.-.+..
T Consensus        26 ~~I~G~NGsGKStil~Ai~~~l~g   49 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAILVGLYW   49 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcC
Confidence            599999999999999999887754

>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=93.20  E-value=0.041  Score=46.47  Aligned_cols=42  Identities=17%  Similarity=0.190  Sum_probs=27.9

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHH-HHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRV-IEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~-le~~~~~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+. +........+|++++...
T Consensus       148 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~tvi~vtH~~~  191 (229)
T 2pze_A          148 DADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKME  191 (229)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHCCCCCTTTSEEEEECCCHH
T ss_pred             CCCEEEEECcccCCCHHHHHHHHHHHHHHhhCCCEEEEEcCChH
Confidence            5789999995 45566777777775 344333455777776543

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=93.20  E-value=0.31  Score=45.52  Aligned_cols=20  Identities=25%  Similarity=0.433  Sum_probs=15.2

Q ss_pred             cEEEeCCCCccHHHH-HHHHH
Q 017884           76 HLLLYGPPGTGKTST-ILAVA   95 (364)
Q Consensus        76 ~lll~G~~G~GKt~l-a~~l~   95 (364)
                      .+++.||+|+|||.. +-.+.
T Consensus        21 ~~lv~a~TGsGKT~~~~~~~l   41 (451)
T 2jlq_A           21 LTIMDLHPGAGKTKRILPSIV   41 (451)
T ss_dssp             EEEECCCTTSSCCTTHHHHHH
T ss_pred             eEEEECCCCCCHhhHHHHHHH
Confidence            469999999999983 44443

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.18  E-value=0.061  Score=44.53  Aligned_cols=23  Identities=39%  Similarity=0.650  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.|+.|+||||.++.+++.+.
T Consensus         5 I~~EG~dGsGKsTq~~~L~~~L~   27 (205)
T 4hlc_A            5 ITFEGPEGSGKTTVINEVYHRLV   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHH
Confidence            68899999999999999999984

>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=93.17  E-value=0.041  Score=47.54  Aligned_cols=41  Identities=15%  Similarity=0.331  Sum_probs=27.5

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeecc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~  181 (364)
                      +++++++||. ..|....+..+.+++.+... ...+|++|...
T Consensus       177 ~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~g~tvi~vtHd~  219 (263)
T 2olj_A          177 EPKIMLFDEPTSALDPEMVGEVLSVMKQLANEGMTMVVVTHEM  219 (263)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCEEEEECSCH
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEcCCH
Confidence            5779999985 45566777777777776533 34566666543

>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=93.17  E-value=0.056  Score=42.56  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         9 i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            9 VVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998653

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.17  E-value=0.061  Score=47.86  Aligned_cols=26  Identities=31%  Similarity=0.439  Sum_probs=22.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      +.+.|++|+||||++..++..+...+
T Consensus       108 I~ivG~~G~GKTT~~~~LA~~l~~~g  133 (320)
T 1zu4_A          108 FMLVGVNGTGKTTSLAKMANYYAELG  133 (320)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            68999999999999999999876443

>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=93.14  E-value=0.058  Score=50.75  Aligned_cols=24  Identities=42%  Similarity=0.600  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +.|.|++|+||||+++.|+..+..
T Consensus       296 I~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          296 ILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCcccHHHHHHHHHHHhhh
Confidence            699999999999999999988753

>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=93.12  E-value=0.042  Score=47.57  Aligned_cols=42  Identities=19%  Similarity=0.286  Sum_probs=29.6

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|....+..+.+++.+...  ...+|++|....
T Consensus       165 ~p~lLllDEPts~LD~~~~~~i~~~l~~l~~~~~~tvi~vtHdl~  209 (266)
T 4g1u_C          165 TPRWLFLDEPTSALDLYHQQHTLRLLRQLTRQEPLAVCCVLHDLN  209 (266)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHHHHSSEEEEEECSCHH
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHHHcCCCEEEEEEcCHH
Confidence            6889999995 45667778888888877643  345777776543

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.10  E-value=0.048  Score=49.20  Aligned_cols=42  Identities=14%  Similarity=0.296  Sum_probs=29.9

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||- ..|.......++..+.+...  ...+|++|....
T Consensus       163 ~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  207 (355)
T 1z47_A          163 RPQVLLFDEPFAAIDTQIRRELRTFVRQVHDEMGVTSVFVTHDQE  207 (355)
T ss_dssp             CCSEEEEESTTCCSSHHHHHHHHHHHHHHHHHHTCEEEEECSCHH
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEECCCHH
Confidence            6889999995 56667777777777776532  456777876543

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.07  E-value=0.088  Score=42.37  Aligned_cols=24  Identities=17%  Similarity=0.331  Sum_probs=20.5

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      ...+++.|++|+|||+++..+...
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            344899999999999999999853

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=93.07  E-value=0.019  Score=49.58  Aligned_cols=23  Identities=13%  Similarity=0.216  Sum_probs=21.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.|++|+||||+++.+++.+
T Consensus        26 ~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           26 KISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            37999999999999999999886

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=93.06  E-value=0.4  Score=46.01  Aligned_cols=38  Identities=24%  Similarity=0.347  Sum_probs=23.7

Q ss_pred             ceEEEEEeCCCCCC----HHHHHHHHHHHHHhcc----CccEEEEe
Q 017884          141 SVKLVLLDEADAMT----KDAQFALRRVIEKYTK----NTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~----~~~~~~L~~~le~~~~----~~~~Il~~  178 (364)
                      ..++|||||+|.+.    ......+...+.....    .+.+++.|
T Consensus       226 ~~~~lViDEah~l~~~~f~~~~~~i~~~l~~~~~~~~~~~~~l~~S  271 (563)
T 3i5x_A          226 FVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFS  271 (563)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHHHHHHHCSSCTTCCEEEEEE
T ss_pred             cceEEEEeCHHHHhccchHHHHHHHHHhhhhccccCccCceEEEEE
Confidence            36799999999885    3445555555554332    44555555

>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=93.05  E-value=0.044  Score=47.14  Aligned_cols=42  Identities=12%  Similarity=0.268  Sum_probs=29.6

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+++.+... ...+|++|....
T Consensus       164 ~p~lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tiiivtHd~~  207 (256)
T 1vpl_A          164 NPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNML  207 (256)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHH
T ss_pred             CCCEEEEeCCccccCHHHHHHHHHHHHHHHhCCCEEEEEcCCHH
Confidence            6789999995 45667778888888877642 455677776543

>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=93.04  E-value=0.044  Score=46.91  Aligned_cols=39  Identities=23%  Similarity=0.446  Sum_probs=26.8

Q ss_pred             EEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          144 LVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       144 viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      ++++||. ..|....+..+.+++.+... ...+|++++...
T Consensus       154 lllLDEPts~LD~~~~~~l~~~l~~l~~~g~tviivtHd~~  194 (249)
T 2qi9_C          154 LLLLDEPMNSLDVAQQSALDKILSALSQQGLAIVMSSHDLN  194 (249)
T ss_dssp             EEEESSTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCHH
T ss_pred             EEEEECCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            9999995 45667778888888877642 445667775543

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=93.02  E-value=0.13  Score=54.61  Aligned_cols=43  Identities=16%  Similarity=0.390  Sum_probs=32.1

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +++++++||.-. +.......+.+.+++......+|++++..+.
T Consensus      1189 ~p~iLiLDEpTs~lD~~~~~~i~~~l~~~~~~~tvi~isH~l~~ 1232 (1284)
T 3g5u_A         1189 QPHILLLDEATSALDTESEKVVQEALDKAREGRTCIVIAHRLST 1232 (1284)
T ss_dssp             CCSSEEEESCSSSCCHHHHHHHHHHHHHHSSSSCEEEECSCTTG
T ss_pred             CCCEEEEeCCcccCCHHHHHHHHHHHHHhCCCCEEEEEecCHHH
Confidence            578999999754 4566677788888776666678888876654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.02  E-value=0.051  Score=49.19  Aligned_cols=42  Identities=14%  Similarity=0.279  Sum_probs=30.0

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||- ..|.......++..+.+...  ...+|++|+...
T Consensus       151 ~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~~  195 (362)
T 2it1_A          151 EPEVLLLDEPLSNLDALLRLEVRAELKRLQKELGITTVYVTHDQA  195 (362)
T ss_dssp             CCSEEEEESGGGGSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence            6789999994 55667777777777776532  456778886544

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.02  E-value=0.043  Score=47.30  Aligned_cols=43  Identities=21%  Similarity=0.533  Sum_probs=31.7

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +++++++||. ..|.......+.+++.+......+|++++....
T Consensus       173 ~p~lllLDEPts~LD~~~~~~i~~~l~~l~~~~tviivtH~~~~  216 (260)
T 2ghi_A          173 DPKIVIFDEATSSLDSKTEYLFQKAVEDLRKNRTLIIIAHRLST  216 (260)
T ss_dssp             CCSEEEEECCCCTTCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHH
Confidence            5779999995 455677788888888877555567777776543

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.02  E-value=0.075  Score=47.69  Aligned_cols=25  Identities=36%  Similarity=0.510  Sum_probs=22.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      .+.|.|++|+||||+++.++..+..
T Consensus        57 ~v~i~G~~GaGKSTLl~~l~g~~~~   81 (337)
T 2qm8_A           57 RVGITGVPGVGKSTTIDALGSLLTA   81 (337)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhhh
Confidence            3799999999999999999987643

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.01  E-value=0.043  Score=47.62  Aligned_cols=42  Identities=24%  Similarity=0.432  Sum_probs=31.0

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||. ..|.......+.+++.+...  ...+|++|....
T Consensus       174 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~g~tviivtHd~~  218 (271)
T 2ixe_A          174 KPRLLILDNATSALDAGNQLRVQRLLYESPEWASRTVLLITQQLS  218 (271)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHCTTTTTSEEEEECSCHH
T ss_pred             CCCEEEEECCccCCCHHHHHHHHHHHHHHHhhcCCEEEEEeCCHH
Confidence            6789999995 45567788888998887643  455777776544

>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=93.01  E-value=0.058  Score=52.39  Aligned_cols=24  Identities=33%  Similarity=0.464  Sum_probs=22.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      ++|.|.+|+||||+++.+++.+..
T Consensus        55 IvLtGlsGSGKSTlAr~La~~L~~   78 (630)
T 1x6v_B           55 VWLTGLSGAGKTTVSMALEEYLVC   78 (630)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHh
Confidence            799999999999999999999843

---

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	364
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	3e-55
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	2e-48
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	1e-47
d1sxjc2	227	c.37.1.20 (C:12-238) Replication factor C3 {Baker'	4e-44
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	4e-43
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	7e-32
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	9e-32
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	2e-30
d1sxjc1	95	a.80.1.1 (C:239-333) Replication factor C3 {Baker'	3e-25
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	2e-22
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	7e-22
d1iqpa1	95	a.80.1.1 (A:233-327) Replication factor C {Archaeo	2e-20
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	4e-18
d1sxjb1	92	a.80.1.1 (B:231-322) Replication factor C4 {Baker'	3e-15
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	9e-15
d1sxjd1	91	a.80.1.1 (D:263-353) Replication factor C2 {Baker'	9e-13
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	6e-10
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	3e-09
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	7e-05
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	3e-04
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	0.002
d1vmaa2	213	c.37.1.10 (A:82-294) GTPase domain of the signal r	0.003
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	0.004

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 231

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]

 Score =  178 bits (453), Expect = 3e-55
 Identities = 105/221 (47%), Positives = 150/221 (67%), Gaps = 3/221 (1%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRPQ L D+     IV  +        +PHLL  GPPG GKT+  LA+AR+L+G 
Sbjct: 13  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 72

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            + +  LELNASD+RGI+V+R+++++FA T+       AS K++ LDEADA+T+DAQ AL
Sbjct: 73  NWRHNFLELNASDERGINVIREKVKEFARTKPIG---GASFKIIFLDEADALTQDAQQAL 129

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E ++ N RF L CN  +KII  +QSRC  FRF PL    + +RL+++ E EGL++T
Sbjct: 130 RRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT 189

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCT 262
           E GL A++ +  GDMR+A+NILQ+     ++IT+E V++  
Sbjct: 190 EEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVA 230

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 224

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]

 Score =  160 bits (406), Expect = 2e-48
 Identities = 98/223 (43%), Positives = 142/223 (63%), Gaps = 2/223 (0%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRPQ L+D+  +++ +D + ++  +  +PH+++ G PG GKT+++  +A +L G 
Sbjct: 4   PWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR 63

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            Y + +LELNASDDRGIDVVR QI+ FA  +      K   K+V+LDEAD+MT  AQ AL
Sbjct: 64  SYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGK--HKIVILDEADSMTAGAQQAL 121

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RR +E Y+ +TRFA  CNQ NKII  LQS+C   R++ L    V +RL  +I+ E +  T
Sbjct: 122 RRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYT 181

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGN 264
             GL A++    GDMR+A+N LQST      +  + V+    +
Sbjct: 182 NDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDS 224

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 239

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]

 Score =  159 bits (404), Expect = 1e-47
 Identities = 52/240 (21%), Positives = 99/240 (41%), Gaps = 26/240 (10%)

Query: 45  EKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY 103
            K+RPQ+ ADV     ++  +    S  R+ H  L  G  G GKTS    +A+ L     
Sbjct: 4   RKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETG 63

Query: 104 -------------------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL 144
                                 ++E++A+    ++  R  + +     +         K+
Sbjct: 64  ITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARG-----RFKV 118

Query: 145 VLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVH 204
            L+DE   +++ +  AL + +E+  ++ +F L      K+   + SRC +F    L+   
Sbjct: 119 YLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQ 178

Query: 205 VTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNIL-QSTHMASQQITEEAVYLCTG 263
           +  +L+H++  E +      L  L R   G +R AL++  Q+      Q++ +AV    G
Sbjct: 179 IRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG 238

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 227

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]

 Score =  150 bits (378), Expect = 4e-44
 Identities = 120/227 (52%), Positives = 158/227 (69%), Gaps = 8/227 (3%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V    +++ T+ +   E +LPHLL YGPPGTGKTSTI+A+AR++YG 
Sbjct: 3   PWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK 62

Query: 102 QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFAL 161
            Y NM+LELNASDDRGIDVVR QI+DFAST+          KL++LDEADAMT  AQ AL
Sbjct: 63  NYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSK---GFKLIILDEADAMTNAAQNAL 119

Query: 162 RRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT 221
           RRVIE+YTKNTRF ++ N  +K+ PAL S+CTRFRF PL    +  R+ +V+  E L ++
Sbjct: 120 RRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLS 179

Query: 222 EGGLAALVRLCNGDMRKALNILQSTHMASQ-----QITEEAVYLCTG 263
                AL+ L NGDMR+ LN+LQS           +I+++ +Y C G
Sbjct: 180 PNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG 226

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

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]

 Score =  147 bits (372), Expect = 4e-43
 Identities = 99/236 (41%), Positives = 141/236 (59%), Gaps = 14/236 (5%)

Query: 42  PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA 101
           PWVEKYRP++L +V A    V  + +      LPH+L YGPPGTGKTSTILA+ ++LYG 
Sbjct: 1   PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 60

Query: 102 -QYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV-------KLVLLDEADAM 153
               + ILELNASD+RGI +VR+++++FA                    K+++LDEAD+M
Sbjct: 61  DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 120

Query: 154 TKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVI 213
           T DAQ ALRR +E Y+  TRF LICN V +II  L S+C++FRF  L+  +  +RL+ + 
Sbjct: 121 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 180

Query: 214 EAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQ------QITEEAVYLCTG 263
           E E +   +G L  ++ +  GD+R+ + +LQS    +Q       IT   V    G
Sbjct: 181 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAG 236

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

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]

 Score =  118 bits (296), Expect = 7e-32
 Identities = 44/256 (17%), Positives = 91/256 (35%), Gaps = 34/256 (13%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDR-----------------LTSENRLPHLLLYGPPGT 85
           W  KY P +L  V  ++  V  +                             +LYGPPG 
Sbjct: 4   WTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGI 63

Query: 86  GKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQS---------FSF 136
           GKT+    VA++L             ASD R   ++   +++     S          + 
Sbjct: 64  GKTTAAHLVAQELGYDILEQN-----ASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQ 118

Query: 137 GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIP--ALQSRCTR 194
            +     ++++DE D M+   +  + ++ +   K +   ++      +         C  
Sbjct: 119 NLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLD 178

Query: 195 FRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQIT 254
            +F   +   +  RL  +   E   +    +  L++   GD+R+ +N+L +    ++ I 
Sbjct: 179 IQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKTIN 238

Query: 255 EEAVYLCTGNPLPKDI 270
            E +   +     K+I
Sbjct: 239 HENINEISKA-WEKNI 253

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

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]

 Score =  118 bits (295), Expect = 9e-32
 Identities = 64/249 (25%), Positives = 122/249 (48%), Gaps = 34/249 (13%)

Query: 43  WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYG- 100
           WV+KYRP+SL  ++ + ++ + +  L+ + R    LLLYGP GTGK +  +A+   ++G 
Sbjct: 1   WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGP 60

Query: 101 --------------------------AQYHNMILELNASDDRGIDVVRQQIQDFASTQSF 134
                                     + YH  I   +  ++  I +     +     Q  
Sbjct: 61  GVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD 120

Query: 135 SF----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQS 190
                 G+    K V+++EA+++TKDAQ ALRR +EKY+KN R  ++C+ ++ II  ++S
Sbjct: 121 FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKS 180

Query: 191 RCTRFRFAPLEPVHVTERLKHVIEAEGLDV-TEGGLAALVRLCNGDMRKALNILQSTHMA 249
           +C   R        ++  L  V+  E + + T+  L  + +  NG++R +L +L+S  + 
Sbjct: 181 QCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMAL- 239

Query: 250 SQQITEEAV 258
           + ++  ++ 
Sbjct: 240 NNELALKSS 248

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

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]

 Score =  112 bits (282), Expect = 2e-30
 Identities = 31/195 (15%), Positives = 77/195 (39%), Gaps = 15/195 (7%)

Query: 60  DIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-HNMILELNA-SDDRG 117
           D ++T+ R+  ++    +L+ G   +      L +   +       + +LE++   ++ G
Sbjct: 1   DQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIG 60

Query: 118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI 177
           ID +R  I+DF +          + K V++ + + MT+ A  A  + +E+  +     L 
Sbjct: 61  IDDIRT-IKDFLNYSPEL----YTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLN 115

Query: 178 CNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHV-------IEAEGLDVTEGGLAALVR 230
             + + ++P ++SR  R      +      + K         +                 
Sbjct: 116 TRRWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYKLGAE 175

Query: 231 LCNGDMRKALNILQS 245
             +G + ++L +L++
Sbjct: 176 KLSG-LMESLKVLET 189

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 95

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 96.0 bits (239), Expect = 3e-25
 Identities = 25/93 (26%), Positives = 53/93 (56%), Gaps = 1/93 (1%)

Query: 265 PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSD-VRVR 323
           P P D++ +   +L + +  +   +++++  KGLAL+D++  +   +   ++ ++  RV 
Sbjct: 1   PRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVH 60

Query: 324 LMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR 356
           L+  LADIEY +S G ND++Q  ++I     + 
Sbjct: 61  LLTKLADIEYSISKGGNDQIQGSAVIGAIKASF 93

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

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]

 Score = 92.3 bits (228), Expect = 2e-22
 Identities = 42/235 (17%), Positives = 77/235 (32%), Gaps = 39/235 (16%)

Query: 48  RPQSLADVAAHRDIVDTIDRL-----TSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ 102
           RP++L +      +   +          +  L HLLL+GPPG GKT+    +        
Sbjct: 4   RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVI-------- 55

Query: 103 YHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALR 162
            H + + L  +    I+         A++            ++ +DE   +++ A+  L 
Sbjct: 56  AHELGVNLRVTSGPAIEKPGDLAAILANSLE-------EGDILFIDEIHRLSRQAEEHLY 108

Query: 163 RVIEKY----------------TKNTRFALICNQVN---KIIPALQSRCTRFRFAPLEPV 203
             +E +                 +  RF LI           P L             P 
Sbjct: 109 PAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPE 168

Query: 204 HVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAV 258
            + + +       G+ +TE     + R   G MR A  + +     +Q   EE +
Sbjct: 169 ELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVI 223

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

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]

 Score = 90.2 bits (222), Expect = 7e-22
 Identities = 40/205 (19%), Positives = 72/205 (35%), Gaps = 23/205 (11%)

Query: 58  HRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD-- 114
            R   + +       R  H LL+   PG G  + I A++R L   Q        +     
Sbjct: 7   LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQ 66

Query: 115 ---------------DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQF 159
                          ++G + +        + +          K+V + +A  +T  A  
Sbjct: 67  LMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAAN 126

Query: 160 ALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLD 219
           AL + +E+    T F L   +  +++  L+SRC     AP    +    L        + 
Sbjct: 127 ALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLS-----REVT 181

Query: 220 VTEGGLAALVRLCNGDMRKALNILQ 244
           +++  L A +RL  G    AL + Q
Sbjct: 182 MSQDALLAALRLSAGSPGAALALFQ 206

>d1iqpa1 a.80.1.1 (A:233-327) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 95

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 82.9 bits (205), Expect = 2e-20
 Identities = 21/91 (23%), Positives = 51/91 (56%)

Query: 267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMN 326
           P+DI ++    L  +F  + +++ E+ +++GL+  D++ ++   VF + +    +V L +
Sbjct: 4   PEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLAD 63

Query: 327 DLADIEYRLSFGCNDKLQLGSIISTFTQARS 357
            + +  +RL  G N+ +QL ++++ FT    
Sbjct: 64  KIGEYNFRLVEGANEIIQLEALLAQFTLIGK 94

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

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]

 Score = 80.4 bits (197), Expect = 4e-18
 Identities = 31/224 (13%), Positives = 70/224 (31%), Gaps = 12/224 (5%)

Query: 45  EKYRPQSLADVAAHRDIVDTIDRL-----TSENRLPHLLLYGPPGTGKTSTILAVARKLY 99
           +  RP+SL +     ++   +             L H+LL GPPG GKT+    +A +L 
Sbjct: 1   QFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ 60

Query: 100 GAQYH-NMILELNASDDRGIDVVRQQIQDFASTQSFSF---GVKASVKLVLLDEADAMTK 155
              +  +  + +   D   I    ++       +         +     +   + D M  
Sbjct: 61  TNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIG 120

Query: 156 DAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTR-FRFAPLEPVHVTERLKHVIE 214
               A  + I    +         +   +   L+SR              + E +K    
Sbjct: 121 KGPSA--KSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAAS 178

Query: 215 AEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAV 258
              +++ +     + +   G  R A+ + +        +  + +
Sbjct: 179 LMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRI 222

>d1sxjb1 a.80.1.1 (B:231-322) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 92

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 68.3 bits (167), Expect = 3e-15
 Identities = 19/94 (20%), Positives = 42/94 (44%), Gaps = 4/94 (4%)

Query: 265 PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSD-VRVR 323
           P P  ++++   LL  +  DS + +     +KG + +DIV         +    + VR+ 
Sbjct: 1   PHPLIVKKM---LLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLE 57

Query: 324 LMNDLADIEYRLSFGCNDKLQLGSIISTFTQARS 357
           ++ ++     R+  G    LQL S+++   +  +
Sbjct: 58  MIKEIGLTHMRILEGVGTYLQLASMLAKIHKLNN 91

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

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]

 Score = 72.4 bits (177), Expect = 9e-15
 Identities = 23/194 (11%), Positives = 54/194 (27%), Gaps = 19/194 (9%)

Query: 75  PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQD----FAS 130
            + L  GP  +GKT+   A+     G       L +N   DR    +   I      F  
Sbjct: 155 RYWLFKGPIDSGKTTLAAALLELCGGK-----ALNVNLPLDRLNFELGVAIDQFLVVFED 209

Query: 131 TQSFSFGVKASVKLVLLDEADAMTKD------AQFALRRVIEKYTKNTRFALICNQV-NK 183
            +      +       ++  D +              + + ++        +  N+    
Sbjct: 210 VKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVP 269

Query: 184 IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVR-LCNGDMRKALNI 242
                +              H  ER + ++E   +      L  L+      +  +++  
Sbjct: 270 KTLQARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQSGIALLLMLIWYRPVAEFAQSIQS 329

Query: 243 LQSTHMASQQITEE 256
                   +++ +E
Sbjct: 330 RIV--EWKERLDKE 341

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 91

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 61.3 bits (149), Expect = 9e-13
 Identities = 16/91 (17%), Positives = 44/91 (48%), Gaps = 3/91 (3%)

Query: 266 LPKD-IEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVT-MFVFKIKMPSDVRVR 323
           +P D + +I   + +  F +  K ++   M+ G +   +V ++   ++      ++ + +
Sbjct: 1   VPHDILIEIVEKVKSGDFDEIKKYVNTF-MKSGWSAASVVNQLHEYYITNDNFDTNFKNQ 59

Query: 324 LMNDLADIEYRLSFGCNDKLQLGSIISTFTQ 354
           +   L   + RL+ G N+ +QL +++   +Q
Sbjct: 60  ISWLLFTTDSRLNNGTNEHIQLLNLLVKISQ 90

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

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]

 Score = 57.1 bits (136), Expect = 6e-10
 Identities = 39/265 (14%), Positives = 73/265 (27%), Gaps = 52/265 (19%)

Query: 41  SPWVEKYRPQSLADVAAHRD-----IVDTIDRLT--SENRLPHLLLYGPPGTGKTSTILA 93
           S +   Y P+ L     HR+     +   +        +  P   L G PGTGKT T+  
Sbjct: 7   SVFSPSYVPKRLP----HREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRK 62

Query: 94  VARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVL------- 146
           +            +            ++ +  +            +     +L       
Sbjct: 63  LWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRER 122

Query: 147 -------LDEADAMTKDAQFALRRVIEKYTKNTRFALICNQV-------NKIIPALQSRC 192
                  LD+A  +  D      R+ ++  K   F +    V       N + P+ +   
Sbjct: 123 DLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIM 182

Query: 193 TRFRFAPLEPVHVTERLKHVI--------------EAEGLDVTEGGLAALVRLCNGDMRK 238
                    P    +    ++              +   +     G    +    GD R 
Sbjct: 183 -GKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARL 241

Query: 239 ALNILQSTHMA-----SQQITEEAV 258
           A++IL  +  A      + I  E V
Sbjct: 242 AIDILYRSAYAAQQNGRKHIAPEDV 266

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

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]

 Score = 55.1 bits (131), Expect = 3e-09
 Identities = 29/270 (10%), Positives = 63/270 (23%), Gaps = 56/270 (20%)

Query: 45  EKYRPQSLAD-VAAHRDIVDTIDRLTSENRLP-----HLLLYGPPGTGKTSTILAVARKL 98
           E Y P  L         +                        G  G GKT+      +++
Sbjct: 11  ENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV 70

Query: 99  YGAQY---------HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASV------- 142
             A           +               +VRQ         + +  +  ++       
Sbjct: 71  SEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVE 130

Query: 143 ---------KLVLLDEADAMTKDAQFALRRVIEKYTKN------------TRFALICNQV 181
                    +   +  +  +  +  + L RV E+                +    +    
Sbjct: 131 NHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMR 190

Query: 182 NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLD--VTEGGLAALVRLC------N 233
            KI         +      +   +   L+   E    D       L  +  +       +
Sbjct: 191 EKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGD 250

Query: 234 GDMRKALNILQSTHM-----ASQQITEEAV 258
           G  R+A+  L+             ++E+ V
Sbjct: 251 GSARRAIVALKMACEMAEAMGRDSLSEDLV 280

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

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]

 Score = 41.9 bits (97), Expect = 7e-05
 Identities = 30/280 (10%), Positives = 76/280 (27%), Gaps = 24/280 (8%)

Query: 51  SLADVAAHRDIVDTIDRLTSENRLPH----LLLYGPPGTGKTSTILAVARKLYGAQYHNM 106
           +  D      + D ++ L    +        LL G PG+GKTS   A+  +  G      
Sbjct: 5   NFTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQG-----N 59

Query: 107 ILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD----AQFALR 162
           ++ ++    +       ++               S ++     +    +      +   R
Sbjct: 60  VIVIDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGR 119

Query: 163 RVIEKYTKNTRFALICNQVNKIIPALQSR----CTRFRFAPLEPVHVTERLKHVIEAEGL 218
                    T       +    + A+        T  R+  +               +  
Sbjct: 120 TTDVPIQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYA--DDPMTARATPKQAH 177

Query: 219 DVTEGGL-AALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTGNPLPKDIEQISYWL 277
           D+    L   L  L    +   + +     +      E    +     L K++ +    +
Sbjct: 178 DIVVKNLPTNLETLHKTGLFSDIRLYNREGVKLYSSLETPS-ISPKETLEKELNR---KV 233

Query: 278 LNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMP 317
             +    + +RI +  +          + +   +  ++ P
Sbjct: 234 SGKEIQPTLERIEQKMVLNKHQETPEFKAIQQKLESLQPP 273

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

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]

 Score = 39.8 bits (92), Expect = 3e-04
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 1/101 (0%)

Query: 77  LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF 136
           +L+ GP G GKT     +A+            +       G + V   I+D   +   + 
Sbjct: 52  ILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE-VDSIIRDLTDSAGGAI 110

Query: 137 GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALI 177
                  +V +DE D + K  +++   V  +  +     L+
Sbjct: 111 DAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLV 151

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 247

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]

 Score = 36.8 bits (85), Expect = 0.002
 Identities = 24/122 (19%), Positives = 48/122 (39%), Gaps = 20/122 (16%)

Query: 56  AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-----------QYH 104
              ++I++ I +++       +L+ G  G GK      VAR ++                
Sbjct: 7   PKMKEILEKIKKISCAEC--PVLITGESGVGKE----VVARLIHKLSDRSKEPFVALNVA 60

Query: 105 NMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRV 164
           ++  ++  ++  G +   +     A +    F   A    + LDE   ++ +AQ  L RV
Sbjct: 61  SIPRDIFEAELFGYE---KGAFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRV 117

Query: 165 IE 166
           IE
Sbjct: 118 IE 119

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]} Length = 213

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]

 Score = 36.3 bits (83), Expect = 0.003
 Identities = 17/114 (14%), Positives = 39/114 (34%), Gaps = 4/114 (3%)

Query: 77  LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF 136
           +++ G  GTGKT++   +A+         ++   +      I+ ++   +   +T     
Sbjct: 14  IMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHS 73

Query: 137 GVKASVKLVLLDEADAMTKDAQFAL----RRVIEKYTKNTRFALICNQVNKIIP 186
                  +     A A+ ++    +     R+  K         +   V K IP
Sbjct: 74  EGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIP 127

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]} Length = 189

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]

 Score = 35.8 bits (81), Expect = 0.004
 Identities = 11/23 (47%), Positives = 14/23 (60%)

Query: 76 HLLLYGPPGTGKTSTILAVARKL 98
          H+ L GPPG GKT+ I   +  L
Sbjct: 3  HVFLTGPPGVGKTTLIHKASEVL 25

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	364
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	100.0
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	100.0
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	100.0
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	100.0
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	100.0
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.98
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.97
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.96
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.96
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.95
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.89
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.84
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.83
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.8
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.77
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.75
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.73
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.67
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.67
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.59
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.58
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.57
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.5
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.49
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.49
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.48
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.44
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.43
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.17
d1iqpa1	95	Replication factor C {Archaeon Pyrococcus furiosus	99.17
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.08
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.07
d1sxjc1	95	Replication factor C3 {Baker's yeast (Saccharomyce	99.07
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.93
d1sxjd1	91	Replication factor C2 {Baker's yeast (Saccharomyce	98.87
d1sxjb1	92	Replication factor C4 {Baker's yeast (Saccharomyce	98.82
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.77
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.37
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.33
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.17
d1jr3d1	127	delta subunit {Escherichia coli [TaxId: 562]}	98.17
d1jqlb_	140	delta subunit of DNA polymerase III, N-domain {Esc	98.16
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.09
d1sxje1	99	Replication factor C5 {Baker's yeast (Saccharomyce	98.09
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.88
d1jr3a1	126	gamma subunit {Escherichia coli [TaxId: 562]}	97.87
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.87
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.78
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.73
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.66
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.66
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.64
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.58
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.57
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.55
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.55
d1okkd2	207	GTPase domain of the signal recognition particle r	97.51
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.51
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.5
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.5
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.47
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.47
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.44
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.43
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.38
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.38
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.37
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.35
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.34
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.21
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.21
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.2
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	97.17
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.16
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.13
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.1
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.07
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.07
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.07
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	97.04
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.01
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.99
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.97
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.95
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.95
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.94
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.94
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.94
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.92
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.88
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.87
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.87
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.85
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.82
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.8
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.8
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.77
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.76
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.75
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.75
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.74
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.73
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.7
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.67
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.65
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	96.65
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	96.64
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.64
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.63
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.6
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.6
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.58
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	96.56
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.55
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.55
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	96.49
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.48
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	96.44
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	96.42
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.42
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.41
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.39
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.39
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.37
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.36
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.34
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.32
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.31
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.3
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.29
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.29
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.29
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.28
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	96.28
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.27
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.26
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	96.23
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.21
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.2
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.19
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	96.17
d1nrjb_	209	Signal recognition particle receptor beta-subunit	96.1
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.07
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.07
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.05
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.03
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.02
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.02
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.98
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.94
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.9
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.88
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.85
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.83
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.83
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.82
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.82
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.81
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.81
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.8
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.77
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.76
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.73
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.72
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.72
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.7
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.67
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.66
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.62
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.56
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.55
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.54
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.48
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.45
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.44
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.4
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.38
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.38
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.3
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.27
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.25
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.24
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.2
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	95.15
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.91
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.89
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.89
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.81
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.8
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.73
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.73
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	94.72
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.67
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	94.66
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.66
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.6
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	94.57
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.57
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.54
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.39
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.37
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.08
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.97
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	93.97
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.93
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.89
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.77
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.68
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.63
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	93.6
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.6
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.52
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.51
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.5
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.46
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.43
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.4
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.35
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.33
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	93.32
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	93.28
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.25
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.15
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.07
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.01
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	92.86
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.84
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.81
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.81
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.44
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.37
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.35
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	92.27
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.23
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	92.1
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	92.09
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.02
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.87
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	91.85
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	91.73
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	91.7
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.66
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	91.6
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.53
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.49
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.44
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	91.43
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.08
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.99
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	90.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.95
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.68
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	90.61
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.61
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	90.6
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	90.56
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	90.34
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	90.23
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	89.76
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.43
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.37
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.26
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	89.18
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	89.12
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	88.94
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	88.94
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	88.89
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	88.26
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	88.02
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	87.91
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	87.9
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	87.82
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	87.7
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	87.63
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	87.2
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	87.19
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	86.48
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	86.48
d3ctda1	163	Uncharacterized protein YrvN {Prochlorococcus mari	86.46
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	86.09
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	85.59
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	85.25
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	85.16
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	85.1
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	84.95
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.72
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	84.36
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	83.73
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	83.59
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	83.35
d2zfia1	349	Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090	83.07
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	82.83
d3bgea1	184	Uncharacterized protein NTHI1458 {Haemophilus infl	82.46
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	81.82
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.62
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	81.32
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	80.06

>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=100.00  E-value=2e-40  Score=284.70  Aligned_cols=222  Identities=44%  Similarity=0.733  Sum_probs=204.1

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  119 (364)
                      +.||++||||++|+|++||+++++.|+.++.++..||++|+||||+|||++|+.+++++.+......+.++++++..+..
T Consensus         2 ~~pw~eKyrP~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~   81 (224)
T d1sxjb2           2 QLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGID   81 (224)
T ss_dssp             CCCHHHHTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHH
T ss_pred             CCchHhHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCce
Confidence            57999999999999999999999999999999999999999999999999999999999887777789999999988888


Q ss_pred             HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecC
Q 017884          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (364)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~  199 (364)
                      .+...+..+.........  ...+++++||+|.+....++.|+..+++++.++.++++++...++.++++|||..++|++
T Consensus        82 ~i~~~~~~~~~~~~~~~~--~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~  159 (224)
T d1sxjb2          82 VVRNQIKHFAQKKLHLPP--GKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSK  159 (224)
T ss_dssp             HHHTHHHHHHHBCCCCCT--TCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             ehhhHHHHHHHhhccCCC--cceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcc
Confidence            888877777665443222  257899999999999999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhcC
Q 017884          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCTG  263 (364)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~~  263 (364)
                      |+.+++..++..+++++++.+++++++.++..++||+|.|++.||.+....+.|+.+.|.+++.
T Consensus       160 ~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd~R~ai~~Lq~~~~~~~~i~~~~i~~~~d  223 (224)
T d1sxjb2         160 LSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVD  223 (224)
T ss_dssp             CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSBCHHHHHHHHT
T ss_pred             cchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCcCHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999999887778999888877653

>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=100.00  E-value=4e-39  Score=277.20  Aligned_cols=220  Identities=55%  Similarity=0.948  Sum_probs=198.8

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      .||++||||++|+|++|++++++.|+.++..+..||++||||||+|||++++++++++.+......+.+.+.++..+.+.
T Consensus         2 ~pw~ekyrP~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~   81 (227)
T d1sxjc2           2 LPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDV   81 (227)
T ss_dssp             CCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHH
T ss_pred             CchhhhhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeee
Confidence            69999999999999999999999999999999999999999999999999999999998877777788899888878777


Q ss_pred             HHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCC
Q 017884          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPL  200 (364)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~  200 (364)
                      .............. ...  +.++++|||++.+....++.|++++++++.++.++++++...++.+++++||..+.|+++
T Consensus        82 ~~~~~~~~~~~~~~-~~~--~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~  158 (227)
T d1sxjc2          82 VRNQIKDFASTRQI-FSK--GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPL  158 (227)
T ss_dssp             HHTHHHHHHHBCCS-SSC--SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             eecchhhccccccc-cCC--CeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccc
Confidence            66666655544433 222  578999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----ccCchHHHHHhcC
Q 017884          201 EPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (364)
Q Consensus       201 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (364)
                      +.+++.+++.+++.++++.+++++++.|++.++||+|.|++.||.+....     ..||.++|.++++
T Consensus       159 ~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~Gd~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~g  226 (227)
T d1sxjc2         159 PQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG  226 (227)
T ss_dssp             CHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTT
T ss_pred             cccccccccccccccccccCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999876543     4789999988876

>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=100.00  E-value=3.7e-38  Score=271.86  Aligned_cols=220  Identities=48%  Similarity=0.864  Sum_probs=197.2

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChH
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGID  119 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~  119 (364)
                      +.||++||+|++|+|++|++++++.|..+++.+..||++|+||||+|||++|+++++++.+......+++++++...+..
T Consensus        11 ~~~w~~ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~   90 (231)
T d1iqpa2          11 EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGIN   90 (231)
T ss_dssp             TSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHH
T ss_pred             hchHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchh
Confidence            48899999999999999999999999999999999999999999999999999999999887777888999988765555


Q ss_pred             HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecC
Q 017884          120 VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAP  199 (364)
Q Consensus       120 ~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~  199 (364)
                      .++............ ..  ..+.++++||++.+....++.|+.+++.+..++.+|++++...++.+++++||..+.|.+
T Consensus        91 ~~~~~~~~~~~~~~~-~~--~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~  167 (231)
T d1iqpa2          91 VIREKVKEFARTKPI-GG--ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRP  167 (231)
T ss_dssp             TTHHHHHHHHHSCCG-GG--CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCC
T ss_pred             HHHHHHHHHHhhhhc-cC--CCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccc
Confidence            555555554433322 12  257899999999999999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCchHHHHHhc
Q 017884          200 LEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQITEEAVYLCT  262 (364)
Q Consensus       200 ~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~i~~~~v~~~~  262 (364)
                      ++..++..++...+.++++.+++++++.|++.++||+|.+++.|+.+......+|.++|..+.
T Consensus       168 ~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~gdiR~ai~~Lq~~~~~~~~it~e~v~~v~  230 (231)
T d1iqpa2         168 LRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVA  230 (231)
T ss_dssp             CCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSEECHHHHHHHT
T ss_pred             cchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCcCHHHHHhhh
Confidence            999999999999999999999999999999999999999999999988777889998887653

>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=100.00  E-value=4.8e-37  Score=265.78  Aligned_cols=216  Identities=24%  Similarity=0.406  Sum_probs=191.1

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCC------------------
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQY------------------  103 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~------------------  103 (364)
                      +.+||||++|++++||+++++.|..++.+++.|| +|||||||+|||++|+.+++.+.+...                  
T Consensus         2 ~~~KyrP~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~   81 (239)
T d1njfa_           2 LARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQG   81 (239)
T ss_dssp             HHHHTCCSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHT
T ss_pred             chhhhCCCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcC
Confidence            6799999999999999999999999999999998 899999999999999999999876531                  


Q ss_pred             -CCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          104 -HNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       104 -~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                       ...+++++.....+.+.+++.+..+.. .+.    .++++++||||+|.|+...++.|+++||+++.++.||++|++.+
T Consensus        82 ~~~~~~~~~~~~~~~i~~ir~~~~~~~~-~~~----~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~  156 (239)
T d1njfa_          82 RFVDLIEIDAASRTKVEDTRDLLDNVQY-APA----RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  156 (239)
T ss_dssp             CCTTEEEEETTCSSSHHHHHHHHHSCCC-SCS----SSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             CCCeEEEecchhcCCHHHHHHHHHHHHh-ccc----cCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcc
Confidence             235788888877788888775554432 221    22578999999999999999999999999999999999999999


Q ss_pred             cCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH-hcccCchHHHHHh
Q 017884          183 KIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHM-ASQQITEEAVYLC  261 (364)
Q Consensus       183 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~-~~~~i~~~~v~~~  261 (364)
                      ++.++++|||..+.|++++.+++..++..++..++..+++++++.|+..++||+|.|++.++.+.. ..+.|+.++|.++
T Consensus       157 ~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~Gd~R~ain~l~~~~~~~~~~I~~~~v~~~  236 (239)
T d1njfa_         157 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAM  236 (239)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTTCHHHHHHHHHHHHHHTTTSBCHHHHHHH
T ss_pred             ccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCCcCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999986544 3468999999887


Q ss_pred             cC
Q 017884          262 TG  263 (364)
Q Consensus       262 ~~  263 (364)
                      ++
T Consensus       237 lg  238 (239)
T d1njfa_         237 LG  238 (239)
T ss_dssp             HT
T ss_pred             hC
Confidence            75

>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=100.00  E-value=1.1e-35  Score=257.10  Aligned_cols=222  Identities=44%  Similarity=0.776  Sum_probs=190.0

Q ss_pred             ChhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-CCCcEEEEeCCCCCChHH
Q 017884           42 PWVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-YHNMILELNASDDRGIDV  120 (364)
Q Consensus        42 ~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~  120 (364)
                      ||++||||++|++++||+++++.|+.++..+..||++|+||||+|||++++++++++.+.. ......+.+.....+...
T Consensus         1 ~w~~ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~   80 (237)
T d1sxjd2           1 PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISI   80 (237)
T ss_dssp             CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHH
T ss_pred             CcchhhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchH
Confidence            8999999999999999999999999999999999999999999999999999999975432 245567777777777666


Q ss_pred             HHHHHHHHHhcCcccc-------CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccce
Q 017884          121 VRQQIQDFASTQSFSF-------GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCT  193 (364)
Q Consensus       121 ~~~~i~~~~~~~~~~~-------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~  193 (364)
                      ....+..+........       .....+++++|||++.+....++.+...++.++.++.+|++++...++.+++++||.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          81 VREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             HTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhh
Confidence            6555555433222100       011247799999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc------ccCchHHHHHhcC
Q 017884          194 RFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS------QQITEEAVYLCTG  263 (364)
Q Consensus       194 ~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~------~~i~~~~v~~~~~  263 (364)
                      .+.|.+++.+++..+|..++.++++.+++++++.|++.++||+|.+++.||.++...      ..||.++|+++++
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s~gd~R~ai~~L~~~~~~~~~~~~~~~It~~~i~e~~g  236 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAG  236 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHHT
T ss_pred             hhccccccccccchhhhhhhhhhcCcCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhcCCCCccCHHHHHHhhC
Confidence            999999999999999999999999999999999999999999999999998765432      3688888888765

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.98  E-value=1.1e-31  Score=234.10  Aligned_cols=207  Identities=33%  Similarity=0.629  Sum_probs=163.1

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCC----------------
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHN----------------  105 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~----------------  105 (364)
                      |++||||++|++++|+++++..|+.++..+. .|+++||||||+|||++|+++++.+.+.....                
T Consensus         1 W~eky~P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~   80 (252)
T d1sxje2           1 WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKL   80 (252)
T ss_dssp             CTTTTCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC----------------
T ss_pred             CCcccCCCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchh
Confidence            9999999999999999999999999997664 55699999999999999999999986543211                


Q ss_pred             --------cEEEEeCCCC--CChHHHHHHHHHHHhcCcccc-----CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhcc
Q 017884          106 --------MILELNASDD--RGIDVVRQQIQDFASTQSFSF-----GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTK  170 (364)
Q Consensus       106 --------~~~~~~~~~~--~~~~~~~~~i~~~~~~~~~~~-----~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~  170 (364)
                              ..........  .........+..........+     ......++++|||+|.++...++.|++.+++++.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~  160 (252)
T d1sxje2          81 ELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSK  160 (252)
T ss_dssp             --CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             hhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccc
Confidence                    1111111111  111222333333222211100     1112467999999999999999999999999999


Q ss_pred             CccEEEEeeccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 017884          171 NTRFALICNQVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVT-EGGLAALVRLCNGDMRKALNILQSTHMA  249 (364)
Q Consensus       171 ~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~~~~l~~~~~g~~r~a~~~l~~~~~~  249 (364)
                      +++||++|+..+++.+++++||..++|++|+.+++.+++..++.++++.++ +++++.|+..++||+|.+++.||.++..
T Consensus       161 ~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R~ai~~Lq~~~~~  240 (252)
T d1sxje2         161 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMALN  240 (252)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHHHHT
T ss_pred             cccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999999999998775 7788999999999999999999987764

>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=99.97  E-value=8.2e-31  Score=228.59  Aligned_cols=216  Identities=23%  Similarity=0.401  Sum_probs=171.3

Q ss_pred             CChhhccCCCCCcchhccHHHHHHHHHHHhc-----------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           41 SPWVEKYRPQSLADVAAHRDIVDTIDRLTSE-----------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~-----------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .+|++||+|.+|++++|+++.++.|..++..                 +..++++||||||+|||++|+++++++     
T Consensus         2 ~lW~eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----   76 (253)
T d1sxja2           2 KLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----   76 (253)
T ss_dssp             CCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----
T ss_pred             CccccCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----
Confidence            5899999999999999999999999998853                 334569999999999999999999997     


Q ss_pred             CCcEEEEeCCCCCChHHHHHHHHHHHhcCccc---------cCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-ccCcc
Q 017884          104 HNMILELNASDDRGIDVVRQQIQDFASTQSFS---------FGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-TKNTR  173 (364)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~---------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-~~~~~  173 (364)
                      ...+..++.+.......+...+..+.......         ........++++||++.+....+..+..+++.. .....
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~  156 (253)
T d1sxja2          77 GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTP  156 (253)
T ss_dssp             TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSC
T ss_pred             HhhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccccc
Confidence            45677888877666666555444433322110         111225779999999999877776666666643 23345


Q ss_pred             EEEEee-ccccCchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccc
Q 017884          174 FALICN-QVNKIIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMASQQ  252 (364)
Q Consensus       174 ~Il~~~-~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~~~  252 (364)
                      ++++++ ......+++++||..++|++|+.+++..++..++.++++.+++++++.|+..++||+|.+++.|+.+....+.
T Consensus       157 ii~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~~l~~i~~~s~GDiR~ai~~L~~~~~~~~~  236 (253)
T d1sxja2         157 LILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKT  236 (253)
T ss_dssp             EEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHHTHHHHHSSC
T ss_pred             cccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCC
Confidence            666654 3445677899999999999999999999999999999999999999999999999999999999988877777


Q ss_pred             CchHHHHHh
Q 017884          253 ITEEAVYLC  261 (364)
Q Consensus       253 i~~~~v~~~  261 (364)
                      ++.+.+.++
T Consensus       237 i~~~~~~~~  245 (253)
T d1sxja2         237 INHENINEI  245 (253)
T ss_dssp             CCTTHHHHH
T ss_pred             CCHHHHHHH
Confidence            887776544

>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=99.96  E-value=1.4e-27  Score=205.95  Aligned_cols=200  Identities=17%  Similarity=0.247  Sum_probs=164.9

Q ss_pred             ccCCCCCcchhccHHHHHHHHHHHh-----cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH
Q 017884           46 KYRPQSLADVAAHRDIVDTIDRLTS-----ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV  120 (364)
Q Consensus        46 ~~~p~~~~~~vg~~~~~~~l~~~~~-----~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~  120 (364)
                      -.||++|++++||+++++.|..++.     +...||+|||||||+|||++|+++++++     ...+..+++........
T Consensus         2 ~~RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~-----~~~~~~~~~~~~~~~~~   76 (238)
T d1in4a2           2 FLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-----QTNIHVTSGPVLVKQGD   76 (238)
T ss_dssp             TTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH-----TCCEEEEETTTCCSHHH
T ss_pred             CCCCCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc-----CCCcccccCcccccHHH
Confidence            3699999999999999999998875     3356789999999999999999999998     45567788877666555


Q ss_pred             HHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh------------------ccCccEEEEeeccc
Q 017884          121 VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------------------TKNTRFALICNQVN  182 (364)
Q Consensus       121 ~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~------------------~~~~~~Il~~~~~~  182 (364)
                      +...+...        .   .+.++++||++.+.+..++.++..++..                  ...+.+|++|+...
T Consensus        77 ~~~~~~~~--------~---~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~  145 (238)
T d1in4a2          77 MAAILTSL--------E---RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSG  145 (238)
T ss_dssp             HHHHHHHC--------C---TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGG
T ss_pred             HHHHHHhh--------c---cCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCc
Confidence            44433221        1   3679999999999999999988888753                  24667888899999


Q ss_pred             cCchhhhccc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-----cccCchH
Q 017884          183 KIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMA-----SQQITEE  256 (364)
Q Consensus       183 ~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~-----~~~i~~~  256 (364)
                      ...+++++|| ..+.|++++..++..++..++..++..+++++++.+++.++||+|.+++.++.+...     .+.||.+
T Consensus       146 ~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~gd~R~ai~~l~~~~~~~~~~~~~~it~~  225 (238)
T d1in4a2         146 LLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTD  225 (238)
T ss_dssp             GSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHH
T ss_pred             cccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCccCHH
Confidence            9999999998 567999999999999999999999999999999999999999999999999865432     2467776


Q ss_pred             HHHHh
Q 017884          257 AVYLC  261 (364)
Q Consensus       257 ~v~~~  261 (364)
                      .+.++
T Consensus       226 ~~~~a  230 (238)
T d1in4a2         226 IVLKT  230 (238)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66554

>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=99.96  E-value=4.2e-28  Score=204.00  Aligned_cols=179  Identities=25%  Similarity=0.344  Sum_probs=150.2

Q ss_pred             hccHHHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCC-------------------CCCcEEEEeCCC-
Q 017884           56 AAHRDIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQ-------------------YHNMILELNASD-  114 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~~~~-  114 (364)
                      .+++.+.+.|...+..++.|| ++|+||+|+|||++|+.+++.+.|..                   ....+..+.... 
T Consensus         5 Pw~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~   84 (207)
T d1a5ta2           5 PWLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG   84 (207)
T ss_dssp             GGGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT
T ss_pred             cccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhc
Confidence            356688999999999999999 89999999999999999999997653                   233455554332 


Q ss_pred             --CCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccc
Q 017884          115 --DRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (364)
Q Consensus       115 --~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~  192 (364)
                        ....+.+++.+..+. ..+    ..++.+|+||||+|.|+.+++++|+++||+|+.++.||++|+.++++.++|+|||
T Consensus        85 ~~~i~~~~ir~l~~~~~-~~~----~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc  159 (207)
T d1a5ta2          85 KNTLGVDAVREVTEKLN-EHA----RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRC  159 (207)
T ss_dssp             CSSBCHHHHHHHHHHTT-SCC----TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             ccccccchhhHHhhhhh-hcc----ccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhccee
Confidence              235667776655433 222    1225899999999999999999999999999999999999999999999999999


Q ss_pred             eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 017884          193 TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQ  244 (364)
Q Consensus       193 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~  244 (364)
                      +.+.|++++.+++..++..     ...+++++++.+++.++|++|.|++.||
T Consensus       160 ~~i~~~~~~~~~~~~~L~~-----~~~~~~~~~~~i~~~s~Gs~r~al~~le  206 (207)
T d1a5ta2         160 RLHYLAPPPEQYAVTWLSR-----EVTMSQDALLAALRLSAGSPGAALALFQ  206 (207)
T ss_dssp             EEEECCCCCHHHHHHHHHH-----HCCCCHHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             EEEecCCCCHHHHHHHHHH-----cCCCCHHHHHHHHHHcCCCHHHHHHHhC
Confidence            9999999999999999864     5578999999999999999999999765

>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=99.95  E-value=1.9e-26  Score=198.97  Aligned_cols=201  Identities=18%  Similarity=0.247  Sum_probs=160.2

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhc-----CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHH
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSE-----NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVV  121 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~-----~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  121 (364)
                      .||++|+|++||+++++.|+.++..     ...+|+|||||||+|||++|+++++++     ...+..++++........
T Consensus         3 ~RP~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~-----~~~~~~~~~~~~~~~~~~   77 (239)
T d1ixsb2           3 LRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL-----GVNLRVTSGPAIEKPGDL   77 (239)
T ss_dssp             CCCCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH-----TCCEEEEETTTCCSHHHH
T ss_pred             cCCCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh-----CCCeEeccCCccccchhh
Confidence            4899999999999999999988763     346789999999999999999999998     455667777765554443


Q ss_pred             HHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh------------------ccCccEEEEeecccc
Q 017884          122 RQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY------------------TKNTRFALICNQVNK  183 (364)
Q Consensus       122 ~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~------------------~~~~~~Il~~~~~~~  183 (364)
                      ...+...       +.   .+.++++||+|.+.+..++.++..++..                  .+...+|++++....
T Consensus        78 ~~~~~~~-------~~---~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  147 (239)
T d1ixsb2          78 AAILANS-------LE---EGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGL  147 (239)
T ss_dssp             HHHHHTT-------CC---TTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSS
T ss_pred             HHHHHhh-------cc---CCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCccc
Confidence            3332221       12   3569999999999999999999999863                  223456666766654


Q ss_pred             -CchhhhccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----ccCchHH
Q 017884          184 -IIPALQSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTHMAS-----QQITEEA  257 (364)
Q Consensus       184 -l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~~~~-----~~i~~~~  257 (364)
                       ..+.++++|..+.|.+++.+++..++...+..+++.++++.+..++..++||+|.+++.++.+..++     ..||.+.
T Consensus       148 ~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~gd~R~a~~~l~~~~~~a~~~~~~~It~~~  227 (239)
T d1ixsb2         148 ITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRER  227 (239)
T ss_dssp             CSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTSSHHHHHHHHHHHHHHHTTSCCSCBCHHH
T ss_pred             ccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCcCHHH
Confidence             4456667789999999999999999999999999999999999999999999999999998775432     3577776


Q ss_pred             HHHhc
Q 017884          258 VYLCT  262 (364)
Q Consensus       258 v~~~~  262 (364)
                      +.+++
T Consensus       228 ~~~~l  232 (239)
T d1ixsb2         228 ALEAL  232 (239)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65543

>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=99.89  E-value=9.8e-23  Score=169.07  Aligned_cols=136  Identities=18%  Similarity=0.242  Sum_probs=114.7

Q ss_pred             HHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC-CCCCcEEEEeCCC-CCChHHHHHHHHHHHhcCccccCC
Q 017884           61 IVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA-QYHNMILELNASD-DRGIDVVRQQIQDFASTQSFSFGV  138 (364)
Q Consensus        61 ~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~~~~~~  138 (364)
                      .++.++++++++..++++|+||+|+|||++|..+++.+... ..+.+++++.+.. ..+++.+++.+. ++...+. .+ 
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~-~~~~~~~-~~-   78 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKD-FLNYSPE-LY-   78 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHH-HHTSCCS-SS-
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHH-HHhhCcc-cC-
Confidence            46778899999988889999999999999999999987543 2346788887643 357899998554 4444443 22 


Q ss_pred             ccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccceEEEecCCC
Q 017884          139 KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRCTRFRFAPLE  201 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~~~  201 (364)
                        +++|++|||+|.|+..++++|+++||+||.++.||++|+++.++.++++|||+.+.|++|.
T Consensus        79 --~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~  139 (198)
T d2gnoa2          79 --TRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPK  139 (198)
T ss_dssp             --SSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCH
T ss_pred             --CCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCch
Confidence              5899999999999999999999999999999999999999999999999999999998664

>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=99.84  E-value=1.5e-20  Score=161.20  Aligned_cols=202  Identities=22%  Similarity=0.280  Sum_probs=134.6

Q ss_pred             CCCcchhccHHHHHHHHHHHh-----------cCCCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC-
Q 017884           50 QSLADVAAHRDIVDTIDRLTS-----------ENRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-  116 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~-----------~~~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-  116 (364)
                      .+|++++|.+++++.|.+.+.           +...| ++||+||||||||++|+++++++     ...++.++++... 
T Consensus         6 ~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~-----~~~~~~i~~~~l~~   80 (247)
T d1ixza_           6 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDFVE   80 (247)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHHH
T ss_pred             CcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc-----CCCEEEEEhHHhhh
Confidence            489999999999988876552           11223 39999999999999999999997     4566777654321 


Q ss_pred             -ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhcc--CccEEEEee
Q 017884          117 -GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYTK--NTRFALICN  179 (364)
Q Consensus       117 -~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~~--~~~~Il~~~  179 (364)
                       ........+.......     ....+.||+|||+|.+..              ...+.|+..|+....  .+.+|.+||
T Consensus        81 ~~~g~~~~~l~~~f~~a-----~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn  155 (247)
T d1ixza_          81 MFVGVGAARVRDLFETA-----KRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATN  155 (247)
T ss_dssp             SCTTHHHHHHHHHHHHH-----TTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEES
T ss_pred             ccccHHHHHHHHHHHHH-----HHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCC
Confidence             0111122222221110     111467999999987731              124567777775543  345566789


Q ss_pred             ccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHHHHHH--Hhc
Q 017884          180 QVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG----DMRKALNILQSTH--MAS  250 (364)
Q Consensus       180 ~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g----~~r~a~~~l~~~~--~~~  250 (364)
                      .++.+++++++  |+ ..++|++|+.++..++++..+...+.. .+..++.|++.+.|    |++.+++.....+  ...
T Consensus       156 ~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~-~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~~~~~  234 (247)
T d1ixza_         156 RPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLA-EDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR  234 (247)
T ss_dssp             CGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCc-cccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence            99999999984  77 689999999999999999888765543 33347888888866    4444444322222  123


Q ss_pred             ccCchHHHHHhc
Q 017884          251 QQITEEAVYLCT  262 (364)
Q Consensus       251 ~~i~~~~v~~~~  262 (364)
                      ..|+.+++.+++
T Consensus       235 ~~i~~~d~~~A~  246 (247)
T d1ixza_         235 RKITMKDLEEAA  246 (247)
T ss_dssp             SSBCHHHHHHHT
T ss_pred             CCcCHHHHHHhh
Confidence            578888877654

>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=99.83  E-value=1.1e-19  Score=156.38  Aligned_cols=198  Identities=19%  Similarity=0.232  Sum_probs=135.5

Q ss_pred             CCCCcchhccHHHHHHHHHHHh-----------cCC-CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC
Q 017884           49 PQSLADVAAHRDIVDTIDRLTS-----------ENR-LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR  116 (364)
Q Consensus        49 p~~~~~~vg~~~~~~~l~~~~~-----------~~~-~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~  116 (364)
                      +.+|+|++|.+++++.|.+.+.           +.. ..++|||||||||||++|+++++++     ...++.++++...
T Consensus         8 ~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~-----~~~~~~i~~~~l~   82 (256)
T d1lv7a_           8 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTISGSDFV   82 (256)
T ss_dssp             CCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEEECSCSST
T ss_pred             CCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc-----CCCEEEEEhHHhh
Confidence            4689999999999998876653           122 2349999999999999999999998     4567777765532


Q ss_pred             ------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------------HHHHHHHHHHHHhcc--CccE
Q 017884          117 ------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------------DAQFALRRVIEKYTK--NTRF  174 (364)
Q Consensus       117 ------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~~--~~~~  174 (364)
                            ....++..+..+...         .+.||+|||+|.+..              ...+.|+..++....  .+.+
T Consensus        83 ~~~~g~~~~~l~~~f~~A~~~---------~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~v  153 (256)
T d1lv7a_          83 EMFVGVGASRVRDMFEQAKKA---------APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIV  153 (256)
T ss_dssp             TSCCCCCHHHHHHHHHHHHTT---------CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEE
T ss_pred             hcchhHHHHHHHHHHHHHHHc---------CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEE
Confidence                  223344433332211         467999999987631              134567777775433  3456


Q ss_pred             EEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHH--
Q 017884          175 ALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG-DMRKALNILQSTHM--  248 (364)
Q Consensus       175 Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~a~~~l~~~~~--  248 (364)
                      |.+||.++.+++++++  |+ ..+.|++|+.++..++++.+..+.++. .+..+..+++.+.| +.+.+.++++.+..  
T Consensus       154 IatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adi~~l~~~A~~~a  232 (256)
T d1lv7a_         154 IAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVNEAALFA  232 (256)
T ss_dssp             EEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence            7788999999999986  77 789999999999999999888766544 34456788888765 34444444433221  


Q ss_pred             ---hcccCchHHHHHh
Q 017884          249 ---ASQQITEEAVYLC  261 (364)
Q Consensus       249 ---~~~~i~~~~v~~~  261 (364)
                         ....|+.+++..+
T Consensus       233 ~~~~~~~i~~~d~~~A  248 (256)
T d1lv7a_         233 ARGNKRVVSMVEFEKA  248 (256)
T ss_dssp             HHTTCSSBCHHHHHHH
T ss_pred             HHcCCCccCHHHHHHH
Confidence               1235666666544

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.80  E-value=7.4e-18  Score=147.03  Aligned_cols=213  Identities=19%  Similarity=0.272  Sum_probs=149.6

Q ss_pred             CCCChhhccCCCCCcchhccHHHHHHHHHHHhc------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           39 KASPWVEKYRPQSLADVAAHRDIVDTIDRLTSE------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        39 ~~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~~~------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      +..++...|+|..   ++|++..++.+..++..      ...++++|+||||+|||++++.+++.+.+.. ...++.+++
T Consensus         5 ~~~~l~~~y~p~~---l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~-~~~~~~~~~   80 (276)
T d1fnna2           5 DDSVFSPSYVPKR---LPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYING   80 (276)
T ss_dssp             CGGGGSTTCCCSC---CTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEET
T ss_pred             CcccCCCCCCCCC---CCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhccc-CCcEEEecc
Confidence            4567888999965   68999988888877753      2345699999999999999999999986433 345566665


Q ss_pred             CCCCChHHHHH----------------------HHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh--
Q 017884          113 SDDRGIDVVRQ----------------------QIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY--  168 (364)
Q Consensus       113 ~~~~~~~~~~~----------------------~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~--  168 (364)
                      ...........                      .+......       .....++++|+++.+.......+...+...  
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~  153 (276)
T d1fnna2          81 FIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRE-------RDLYMFLVLDDAFNLAPDILSTFIRLGQEADK  153 (276)
T ss_dssp             TTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHH-------TTCCEEEEEETGGGSCHHHHHHHHHHTTCHHH
T ss_pred             hhhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhh-------cccccccchhHHHHhhhhhhhhHHHHHhcccc
Confidence            44332222211                      11111111       113668889999999877666665554422  


Q ss_pred             --ccCccEEEEeec---cccCchhhhccc--eEEEecCCChHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHc-------
Q 017884          169 --TKNTRFALICNQ---VNKIIPALQSRC--TRFRFAPLEPVHVTERLKHVIEA--EGLDVTEGGLAALVRLC-------  232 (364)
Q Consensus       169 --~~~~~~Il~~~~---~~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~-------  232 (364)
                        .....+|++++.   ...+.+.+.+|+  ..+.|++++.+++.+++..+++.  ....+++++++.+++.+       
T Consensus       154 ~~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~  233 (276)
T d1fnna2         154 LGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLD  233 (276)
T ss_dssp             HSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTC
T ss_pred             ccccceEEeecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhh
Confidence              233456666654   346777888886  56999999999999999998876  34458999999998864       


Q ss_pred             --CCCHHHHHHHHHHHHHhc-----ccCchHHHHHhc
Q 017884          233 --NGDMRKALNILQSTHMAS-----QQITEEAVYLCT  262 (364)
Q Consensus       233 --~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~  262 (364)
                        +||+|.++++++.+...+     ..|+.++|+++.
T Consensus       234 ~~~G~~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A~  270 (276)
T d1fnna2         234 TNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSS  270 (276)
T ss_dssp             TTSCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHH
T ss_pred             hcCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Confidence              699999999998765432     478888887654

>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=99.77  E-value=6.2e-18  Score=146.20  Aligned_cols=169  Identities=23%  Similarity=0.333  Sum_probs=119.0

Q ss_pred             CCcchhccHHHHHHHHHHHhc-----------C-CCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC--
Q 017884           51 SLADVAAHRDIVDTIDRLTSE-----------N-RLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD--  115 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~-----------~-~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--  115 (364)
                      +|++++|.+++++.|++.+..           | ..| .+|||||||||||++++++++++     ...++.++++..  
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~-----~~~~~~i~~~~l~~   76 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPEIMS   76 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT-----TCEEEEECHHHHTT
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh-----CCeEEEEEchhhcc
Confidence            699999999999999887531           2 223 39999999999999999999996     456666665321  


Q ss_pred             --CC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH-----------HHHHHHHHHHHh--ccCccEEEEe
Q 017884          116 --RG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD-----------AQFALRRVIEKY--TKNTRFALIC  178 (364)
Q Consensus       116 --~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~-----------~~~~L~~~le~~--~~~~~~Il~~  178 (364)
                        .+  ...++..+......         .+.||+|||+|.+...           ....++..+...  ..++.+|.+|
T Consensus        77 ~~~g~~~~~l~~~f~~A~~~---------~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tT  147 (258)
T d1e32a2          77 KLAGESESNLRKAFEEAEKN---------APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAAT  147 (258)
T ss_dssp             SCTTHHHHHHHHHHHHHHHT---------CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEE
T ss_pred             cccccHHHHHHHHHHHHHhc---------CCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeC
Confidence              11  12222222222111         4689999999999632           233444444432  2345567788


Q ss_pred             eccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          179 NQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       179 ~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      |.++.+++++++  |+ ..++|++|+.++...+++..+++.... ++..++.|++.+.|
T Consensus       148 n~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G  205 (258)
T d1e32a2         148 NRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHG  205 (258)
T ss_dssp             SCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBC-TTCCHHHHHHHCTT
T ss_pred             CCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccc-cccchhhhhhcccC
Confidence            999999999988  77 789999999999999999887654433 22247889999866

>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=99.75  E-value=7e-17  Score=141.52  Aligned_cols=214  Identities=18%  Similarity=0.227  Sum_probs=142.6

Q ss_pred             CCChhhccCCCCCcchhccHHHHHHHHHHH----hcCCCC-----cEEEeCCCCccHHHHHHHHHHHHcCC----CCCCc
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIVDTIDRLT----SENRLP-----HLLLYGPPGTGKTSTILAVARKLYGA----QYHNM  106 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~~~l~~~~----~~~~~~-----~lll~G~~G~GKt~la~~l~~~l~~~----~~~~~  106 (364)
                      ..+|..+|+|..   ++|++..++.|..++    ..+..+     +++|+||||+|||++++++++.+...    .....
T Consensus         6 ~~~l~~~~~P~~---~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~   82 (287)
T d1w5sa2           6 RRVFDENYIPPE---LRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVK   82 (287)
T ss_dssp             GGGGSTTCCCSS---CSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEE
T ss_pred             hhhcCCccCCCC---CCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCce
Confidence            457889999964   678777777666554    333322     25789999999999999999987432    22344


Q ss_pred             EEEEeCCCCCChHHH----------------------HHHHHHHHhcCccccCCccceEEEEEeCCCCCC------HHHH
Q 017884          107 ILELNASDDRGIDVV----------------------RQQIQDFASTQSFSFGVKASVKLVLLDEADAMT------KDAQ  158 (364)
Q Consensus       107 ~~~~~~~~~~~~~~~----------------------~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~------~~~~  158 (364)
                      +.++++.........                      ...+......       .....++++|+++.+.      .+..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~~iide~d~l~~~~~~~~~~~  155 (287)
T d1w5sa2          83 QAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYV-------ENHYLLVILDEFQSMLSSPRIAAEDL  155 (287)
T ss_dssp             EEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHH-------HTCEEEEEEESTHHHHSCTTSCHHHH
T ss_pred             eeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHh-------ccCccccceeEEEEeccccccchhHH
Confidence            555554433222211                      1111111111       1146788999988773      3455


Q ss_pred             HHHHHHHHHhc-----cCccEEEEeeccc------cCchhhhcc-ceEEEecCCChHHHHHHHHHHHHHc--CCCCCHHH
Q 017884          159 FALRRVIEKYT-----KNTRFALICNQVN------KIIPALQSR-CTRFRFAPLEPVHVTERLKHVIEAE--GLDVTEGG  224 (364)
Q Consensus       159 ~~L~~~le~~~-----~~~~~Il~~~~~~------~l~~~l~sr-~~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~~  224 (364)
                      ..+..+++...     ....+|++++...      ...+.+.+| +..+.|++++.+++.+++..+++..  ...+++++
T Consensus       156 ~~l~~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~a  235 (287)
T d1w5sa2         156 YTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRH  235 (287)
T ss_dssp             HHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHH
T ss_pred             HHHHHHHHhcchhhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHH
Confidence            56666666543     2445666665443      234566666 5889999999999999999998763  44689999


Q ss_pred             HHHHHHHc------CCCHHHHHHHHHHHHHhc-----ccCchHHHHHhcC
Q 017884          225 LAALVRLC------NGDMRKALNILQSTHMAS-----QQITEEAVYLCTG  263 (364)
Q Consensus       225 ~~~l~~~~------~g~~r~a~~~l~~~~~~~-----~~i~~~~v~~~~~  263 (364)
                      ++.+++.+      .||+|.+++.|+.+...+     ..||.++|.+++.
T Consensus       236 l~~ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~~  285 (287)
T d1w5sa2         236 LELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVS  285 (287)
T ss_dssp             HHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence            99999876      699999999997665332     5899999887653

>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=99.73  E-value=3.1e-17  Score=137.31  Aligned_cols=184  Identities=16%  Similarity=0.259  Sum_probs=129.9

Q ss_pred             CCcchh-c--cHHHHHHHHHHHhcCCC--CcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHH
Q 017884           51 SLADVA-A--HRDIVDTIDRLTSENRL--PHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQI  125 (364)
Q Consensus        51 ~~~~~v-g--~~~~~~~l~~~~~~~~~--~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i  125 (364)
                      +|++++ |  +..+...++++++....  +.++||||+|+|||++++++++++...+.  .++.++....  .......+
T Consensus         8 tFdnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~--~~~~~~~~~~--~~~~~~~~   83 (213)
T d1l8qa2           8 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGY--RVIYSSADDF--AQAMVEHL   83 (213)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTC--CEEEEEHHHH--HHHHHHHH
T ss_pred             ChhhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCcc--ceEEechHHH--HHHHHHHH
Confidence            688865 4  55566677787765433  33999999999999999999999865544  3444433221  01111111


Q ss_pred             -----HHHHhcCccccCCccceEEEEEeCCCCCC--HHHHHHHHHHHHHhc-cCccEEEEeeccc----cCchhhhccc-
Q 017884          126 -----QDFASTQSFSFGVKASVKLVLLDEADAMT--KDAQFALRRVIEKYT-KNTRFALICNQVN----KIIPALQSRC-  192 (364)
Q Consensus       126 -----~~~~~~~~~~~~~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~-~~~~~Il~~~~~~----~l~~~l~sr~-  192 (364)
                           ..+...    +.   ...+++|||+|.+.  +..+..|+.+++... ....+|++++.+.    ...+.|+||+ 
T Consensus        84 ~~~~~~~~~~~----~~---~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~  156 (213)
T d1l8qa2          84 KKGTINEFRNM----YK---SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFE  156 (213)
T ss_dssp             HHTCHHHHHHH----HH---TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHH
T ss_pred             HccchhhHHHH----Hh---hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhh
Confidence                 111111    11   36799999999995  566788899888754 4556777775433    3567888984 


Q ss_pred             --eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 017884          193 --TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNGDMRKALNILQSTH  247 (364)
Q Consensus       193 --~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~a~~~l~~~~  247 (364)
                        .++.++ |+.++..+++++++...|+.++++++++|++++ .|+|.+...+..+.
T Consensus       157 ~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~-~~~R~L~~~l~~l~  211 (213)
T d1l8qa2         157 GGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIK  211 (213)
T ss_dssp             TSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHH
T ss_pred             CceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc-CcHHHHHHHHHHhh
Confidence              678885 577889999999999999999999999999998 58998888877664

>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=99.67  E-value=7.1e-17  Score=139.85  Aligned_cols=171  Identities=21%  Similarity=0.289  Sum_probs=112.5

Q ss_pred             CC-CCcchhccHHHHHHHHHHHh-----------cCC--CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           49 PQ-SLADVAAHRDIVDTIDRLTS-----------ENR--LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        49 p~-~~~~~vg~~~~~~~l~~~~~-----------~~~--~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      |. +|++++|.+++++.|.+.+.           .|.  ..++|||||||||||+++++++.++     +..++.++++.
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~-----~~~~~~~~~~~   76 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKGPE   76 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT-----TCEEEEECHHH
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh-----CCcEEEEEHHH
Confidence            44 89999998888887776653           122  2249999999999999999999997     45666666432


Q ss_pred             ----CCC--hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------------HHHHHHHHHHHhc--cCc
Q 017884          115 ----DRG--IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------------AQFALRRVIEKYT--KNT  172 (364)
Q Consensus       115 ----~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------------~~~~L~~~le~~~--~~~  172 (364)
                          ..+  ...++..+..+...         .+.+|+|||+|.+...              ..+.|+..|+...  ...
T Consensus        77 l~~~~~~~~~~~l~~~f~~A~~~---------~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  147 (265)
T d1r7ra3          77 LLTMWFGESEANVREIFDKARQA---------APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV  147 (265)
T ss_dssp             HHTSCTTTHHHHHHHHHHHHHHT---------CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CC
T ss_pred             hhhccccchHHHHHHHHHHHHhc---------CCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCE
Confidence                111  12222322222211         3689999999988532              1244555554332  245


Q ss_pred             cEEEEeeccccCchhhhc--cc-eEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Q 017884          173 RFALICNQVNKIIPALQS--RC-TRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLCNG  234 (364)
Q Consensus       173 ~~Il~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  234 (364)
                      .+|.+||.++.+++++++  |+ ..++|++|+.++..++++..+++.... .+..++.|+..+.|
T Consensus       148 ~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~g  211 (265)
T d1r7ra3         148 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNG  211 (265)
T ss_dssp             EEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCCHHHHHHHCS
T ss_pred             EEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCch-hhhhHHHHHhcCCC
Confidence            677788999999999986  66 689999999999999998776542221 12235667776643

>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=99.67  E-value=1.3e-15  Score=130.43  Aligned_cols=199  Identities=13%  Similarity=0.138  Sum_probs=142.5

Q ss_pred             hhhccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCCC--
Q 017884           43 WVEKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASDD--  115 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~--  115 (364)
                      |.++-+-..++.++|+++.+.++...+.....++++|.||||+|||++++.+++.+....     ....++.++....  
T Consensus         8 lt~~a~~~~ld~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~lia   87 (268)
T d1r6bx2           8 LNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA   87 (268)
T ss_dssp             HHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C
T ss_pred             HHHHHHcCCCCcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhc
Confidence            344445566788999999999999999888888899999999999999999999875432     2234566554331  


Q ss_pred             --CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH---------HHHHHHHHHHHHhccCccEEEEeecc---
Q 017884          116 --RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK---------DAQFALRRVIEKYTKNTRFALICNQV---  181 (364)
Q Consensus       116 --~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~---------~~~~~L~~~le~~~~~~~~Il~~~~~---  181 (364)
                        .....+.+.+.........     .+..|++|||+|.+..         +..+.|..++.  .....+|.+|+..   
T Consensus        88 g~~~~g~~e~r~~~i~~~~~~-----~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~  160 (268)
T d1r6bx2          88 GTKYRGDFEKRFKALLKQLEQ-----DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFS  160 (268)
T ss_dssp             CCCCSSCHHHHHHHHHHHHSS-----SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHH
T ss_pred             cCccchhHHHHHHHHHHHhhc-----cCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHH
Confidence              1223444444433322111     1467999999999942         23444444554  3456777777432   


Q ss_pred             --ccCchhhhccceEEEecCCChHHHHHHHHHHHH----HcCCCCCHHHHHHHHHHcC------CCHHHHHHHHHHHHH
Q 017884          182 --NKIIPALQSRCTRFRFAPLEPVHVTERLKHVIE----AEGLDVTEGGLAALVRLCN------GDMRKALNILQSTHM  248 (364)
Q Consensus       182 --~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~i~~~~~~~l~~~~~------g~~r~a~~~l~~~~~  248 (364)
                        ..-++++.+||+.+.+.+|+.++...+|.....    ..++.++++++..++.+++      .-|.+|+++++.++.
T Consensus       161 ~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdllDea~a  239 (268)
T d1r6bx2         161 NIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGA  239 (268)
T ss_dssp             CCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHHHH
T ss_pred             HHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHH
Confidence              245778999999999999999999999887554    4589999999999988763      569999999987764

>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=99.59  E-value=9.4e-15  Score=132.05  Aligned_cols=197  Identities=15%  Similarity=0.203  Sum_probs=134.2

Q ss_pred             cCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC-----CCcEEEEeCCCCCC----
Q 017884           47 YRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY-----HNMILELNASDDRG----  117 (364)
Q Consensus        47 ~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~~~~----  117 (364)
                      -+-..++.++|++..+..+...+......+.+|.||||+|||++++.+++.+.....     +..++.++......    
T Consensus        16 a~~g~ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~   95 (387)
T d1qvra2          16 AAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY   95 (387)
T ss_dssp             HHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             HHcCCCCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCc
Confidence            344567889999999999999998877778899999999999999999998754321     24566666543211    


Q ss_pred             hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH--------HHHHHHHHHHHHhccCccEEEEeeccc----cCc
Q 017884          118 IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK--------DAQFALRRVIEKYTKNTRFALICNQVN----KII  185 (364)
Q Consensus       118 ~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------~~~~~L~~~le~~~~~~~~Il~~~~~~----~l~  185 (364)
                      ...+.+.+........    ...+.-|++|||+|.+..        +..+.|..+|..  ...++|.+|+...    .-+
T Consensus        96 ~g~~e~r~~~i~~~~~----~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r--g~~~~I~~tT~~ey~~~e~d  169 (387)
T d1qvra2          96 RGEFEERLKAVIQEVV----QSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYREIEKD  169 (387)
T ss_dssp             --CHHHHHHHHHHHHH----TTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHHHTTC
T ss_pred             chhHHHHHHHHHHHhc----cCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC--CCcceeeecCHHHHHHhccc
Confidence            1233333333322110    001356899999999942        335677777775  4677888874221    346


Q ss_pred             hhhhccceEEEecCCChHHHHHHHHHHHHH----cCCCCCHHHHHHHHHHc------CCCHHHHHHHHHHHHHh
Q 017884          186 PALQSRCTRFRFAPLEPVHVTERLKHVIEA----EGLDVTEGGLAALVRLC------NGDMRKALNILQSTHMA  249 (364)
Q Consensus       186 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~------~g~~r~a~~~l~~~~~~  249 (364)
                      ++|.+||+.+.+.+|+.++...+|+.....    .++.++++++...+..+      ..-|.+|+++|+.++..
T Consensus       170 ~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a~  243 (387)
T d1qvra2         170 PALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAAR  243 (387)
T ss_dssp             TTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHHHH
Confidence            789999999999999999999998877654    48999999999998876      36799999999877653

>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=99.58  E-value=1.3e-14  Score=123.89  Aligned_cols=155  Identities=15%  Similarity=0.225  Sum_probs=95.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC---ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l  153 (364)
                      +|||||||||||++|+++|+++     ...++.+++++..   ........+........     ...+.||+|||+|.+
T Consensus        43 vLL~GppGtGKT~la~alA~~~-----~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~-----~~~p~il~iDEid~l  112 (246)
T d1d2na_          43 VLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSETAKCQAMKKIFDDAY-----KSQLSCVVVDDIERL  112 (246)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHH-----TSSEEEEEECCHHHH
T ss_pred             EEEECcCCCCHHHHHHHHhhcc-----cccccccccccccccccccchhhhhhhhhhhhh-----hcccceeehhhhhhH
Confidence            8999999999999999999997     4566777764321   11111122222211100     114789999999876


Q ss_pred             C----------HHHHHHHHHHHHHhccC---ccEEEEeeccccCchh-hhccc-eEEEecCCCh-HHHHHHHHHHHHHcC
Q 017884          154 T----------KDAQFALRRVIEKYTKN---TRFALICNQVNKIIPA-LQSRC-TRFRFAPLEP-VHVTERLKHVIEAEG  217 (364)
Q Consensus       154 ~----------~~~~~~L~~~le~~~~~---~~~Il~~~~~~~l~~~-l~sr~-~~i~~~~~~~-~~~~~~l~~~~~~~~  217 (364)
                      .          ....+.|+..++.....   +.+|.+||.++.+++. +.+|+ ..+.++.++. +++.+++...     
T Consensus       113 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~~-----  187 (246)
T d1d2na_         113 LDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELL-----  187 (246)
T ss_dssp             TTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH-----
T ss_pred             hhhcccccchhHHHHHHHHHHhcCCCccccceeeeeccCChhhccchhhcCccceEEecCCchhHHHHHHHHHhc-----
Confidence            3          33456677777655432   4466677887777654 66777 5677755543 3444444332     


Q ss_pred             CCCCHHHHHHHHHHcCC-----CHHHHHHHHHHH
Q 017884          218 LDVTEGGLAALVRLCNG-----DMRKALNILQST  246 (364)
Q Consensus       218 ~~i~~~~~~~l~~~~~g-----~~r~a~~~l~~~  246 (364)
                      ..+++.....+++.+.|     .++.++..++..
T Consensus       188 ~~~~~~~~~~i~~~~~g~~~~~~ik~ll~~ie~a  221 (246)
T d1d2na_         188 GNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMS  221 (246)
T ss_dssp             TCSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHH
T ss_pred             cCCChHHHHHHHHHcCCCccchhHHHHHHHHHHH
Confidence            24677777888887765     366666665543

>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=99.57  E-value=9.4e-14  Score=118.44  Aligned_cols=204  Identities=18%  Similarity=0.190  Sum_probs=136.2

Q ss_pred             chhccHHHHHHHHHHHhcC--CCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhc
Q 017884           54 DVAAHRDIVDTIDRLTSEN--RLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFAST  131 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~~~--~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  131 (364)
                      |+||+...++.+.+.+...  ...+++|+||+||||+++|++++..-  ......++.+++..... ......+......
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s--~~~~~~~~~~~~~~~~~-~~~~~~lfg~~~~   77 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS--DRSKEPFVALNVASIPR-DIFEAELFGYEKG   77 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS--TTTTSCEEEEETTTSCH-HHHHHHHHCBCTT
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc--CCcccccccchhhhhhh-cccHHHhcCcccC
Confidence            5788888888877777653  22349999999999999999998753  33445566677665422 2222222211100


Q ss_pred             CccccC--------CccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-----------cCccEEEEeeccc-------cCc
Q 017884          132 QSFSFG--------VKASVKLVLLDEADAMTKDAQFALRRVIEKYT-----------KNTRFALICNQVN-------KII  185 (364)
Q Consensus       132 ~~~~~~--------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~Il~~~~~~-------~l~  185 (364)
                       .+...        ....++.++|||+|.|+...|..|++++++..           .++++|++++..-       .+.
T Consensus        78 -~~~~~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~~~~f~  156 (247)
T d1ny5a2          78 -AFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFR  156 (247)
T ss_dssp             -SSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSC
T ss_pred             -CcCCcccccCCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHHcCCCc
Confidence             00000        01135699999999999999999999998632           2467888875421       355


Q ss_pred             hhhhccc--eEEEecCCCh--HHHHHHHHH----HHHHcCC---CCCHHHHHHHHHHc-CCCHHHHHHHHHHHHHhc--c
Q 017884          186 PALQSRC--TRFRFAPLEP--VHVTERLKH----VIEAEGL---DVTEGGLAALVRLC-NGDMRKALNILQSTHMAS--Q  251 (364)
Q Consensus       186 ~~l~sr~--~~i~~~~~~~--~~~~~~l~~----~~~~~~~---~i~~~~~~~l~~~~-~g~~r~a~~~l~~~~~~~--~  251 (364)
                      +.+..|+  ..+.+||+.+  +++..++..    .+.+.+.   .+++++++.|..+. .||++.+.+.++.+...+  .
T Consensus       157 ~~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPGNl~EL~~~l~~a~~~~~~~  236 (247)
T d1ny5a2         157 EDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEGK  236 (247)
T ss_dssp             HHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCSS
T ss_pred             HHHHhhcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCC
Confidence            5666664  5678888864  456544444    4444443   47899999999886 899999999998877654  4


Q ss_pred             cCchHHHHHh
Q 017884          252 QITEEAVYLC  261 (364)
Q Consensus       252 ~i~~~~v~~~  261 (364)
                      .|+.+++-.+
T Consensus       237 ~I~~~dl~~l  246 (247)
T d1ny5a2         237 FIDRGELSCL  246 (247)
T ss_dssp             EECHHHHHHH
T ss_pred             eECHHHcccc
Confidence            6888887553

>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=99.50  E-value=3.3e-14  Score=125.66  Aligned_cols=151  Identities=21%  Similarity=0.275  Sum_probs=95.5

Q ss_pred             hhccHHHHHHHHHHHhc--------------CCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC---C
Q 017884           55 VAAHRDIVDTIDRLTSE--------------NRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---G  117 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~--------------~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---~  117 (364)
                      ++||+++++.+...+.+              ....++||+||||||||.+|+++|+.+     ...++.++.+...   .
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~-----~~~~~~i~~s~~~~~~~   90 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA-----NAPFIKVEATKFTEVGY   90 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGGGSSCCS
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc-----ccchhccccccccccee
Confidence            68999999988766621              133459999999999999999999997     3445666654321   1


Q ss_pred             -hHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH------------HHHHHHHHHHHhc----------cCccE
Q 017884          118 -IDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD------------AQFALRRVIEKYT----------KNTRF  174 (364)
Q Consensus       118 -~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~------------~~~~L~~~le~~~----------~~~~~  174 (364)
                       .......+................+.||+|||+|.+.+.            .++.|+..++...          .+..+
T Consensus        91 ~~~~~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilf  170 (309)
T d1ofha_          91 VGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILF  170 (309)
T ss_dssp             GGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEE
T ss_pred             EeeeccccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeE
Confidence             111111122211111000000013679999999998632            4566888887421          12223


Q ss_pred             EEEe----eccccCchhhhccc-eEEEecCCChHHHHHHHH
Q 017884          175 ALIC----NQVNKIIPALQSRC-TRFRFAPLEPVHVTERLK  210 (364)
Q Consensus       175 Il~~----~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~  210 (364)
                      |.+.    +.+..+.+.++.|+ .++.|.+|+..++.+++.
T Consensus       171 i~~ga~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~  211 (309)
T d1ofha_         171 IASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILT  211 (309)
T ss_dssp             EEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHH
T ss_pred             EeccchhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHH
Confidence            3332    45667889999998 679999999999888864

>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=99.49  E-value=7.8e-14  Score=112.79  Aligned_cols=159  Identities=14%  Similarity=0.179  Sum_probs=113.8

Q ss_pred             hccCCCCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCC-----CCCcEEEEeCCC----C
Q 017884           45 EKYRPQSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQ-----YHNMILELNASD----D  115 (364)
Q Consensus        45 ~~~~p~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~----~  115 (364)
                      ++-+...++.++|+++.+..+...+......+++|.||||+|||++++.+++.+....     ....++.++...    .
T Consensus        14 ~~a~~g~ld~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~   93 (195)
T d1jbka_          14 ERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGA   93 (195)
T ss_dssp             HHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTT
T ss_pred             HHHHcCCCCCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccC
Confidence            3445566788999999999999999988888899999999999999999999875432     234566666422    2


Q ss_pred             CChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH--------HHHHHHHHHHHhccCccEEEEeecc-----c
Q 017884          116 RGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD--------AQFALRRVIEKYTKNTRFALICNQV-----N  182 (364)
Q Consensus       116 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~--------~~~~L~~~le~~~~~~~~Il~~~~~-----~  182 (364)
                      .....+.+.+........    ...+.-|++|||+|.+...        ..+.|..+|..  ....+|.+|+..     .
T Consensus        94 ~~rG~~E~rl~~il~e~~----~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~eey~~~~  167 (195)
T d1jbka_          94 KYRGEFEERLKGVLNDLA----KQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQYI  167 (195)
T ss_dssp             CSHHHHHHHHHHHHHHHH----HSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHHT
T ss_pred             CccHHHHHHHHHHHHHHh----cCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHHHHHHHH
Confidence            233455555544332211    0013569999999999532        24778888874  467788877532     2


Q ss_pred             cCchhhhccceEEEecCCChHHHHHHH
Q 017884          183 KIIPALQSRCTRFRFAPLEPVHVTERL  209 (364)
Q Consensus       183 ~l~~~l~sr~~~i~~~~~~~~~~~~~l  209 (364)
                      .-++++.+||+.+.+.+|+.++...+|
T Consensus       168 e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         168 EKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            457899999999999999998876654

>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=99.49  E-value=3.2e-13  Score=119.36  Aligned_cols=167  Identities=17%  Similarity=0.243  Sum_probs=116.6

Q ss_pred             cchhccHHHHHHHHHHHh-------c-CCCC-cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCC------
Q 017884           53 ADVAAHRDIVDTIDRLTS-------E-NRLP-HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRG------  117 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~-------~-~~~~-~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------  117 (364)
                      ..++||+++++.+...+.       . .++. .++|+||+|+|||.+|+.+++.+.     ..++.++++....      
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~-----~~~i~~d~s~~~~~~~~~~   96 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHTVSR   96 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSCCSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc-----CCeeEeccccccchhhhhh
Confidence            457999999998877663       1 1222 389999999999999999999983     3455555433210      


Q ss_pred             --------hH-HHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEE
Q 017884          118 --------ID-VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALI  177 (364)
Q Consensus       118 --------~~-~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~  177 (364)
                              .. .....+.......        .+.++++||+|...++.++.|++++++.           ..++.+|++
T Consensus        97 l~g~~~gy~g~~~~~~l~~~~~~~--------~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~T  168 (315)
T d1r6bx3          97 LIGAPPGYVGFDQGGLLTDAVIKH--------PHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMT  168 (315)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHHHC--------SSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEE
T ss_pred             hcccCCCccccccCChhhHHHHhC--------ccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEec
Confidence                    00 1111122222221        3679999999999999999999999973           245667777


Q ss_pred             eecc-------------------------ccCchhhhccc-eEEEecCCChHHHHHHHHHHHHH-------c--CCCCCH
Q 017884          178 CNQV-------------------------NKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------E--GLDVTE  222 (364)
Q Consensus       178 ~~~~-------------------------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~--~~~i~~  222 (364)
                      +|-.                         ..+.|.+.+|+ .++.|.|++.+++.+++...+..       .  .+.+++
T Consensus       169 snig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~~~~  248 (315)
T d1r6bx3         169 TNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQ  248 (315)
T ss_dssp             ECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECH
T ss_pred             cchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchhhHH
Confidence            7521                         13567888898 68999999999988886655432       2  345789


Q ss_pred             HHHHHHHHHc
Q 017884          223 GGLAALVRLC  232 (364)
Q Consensus       223 ~~~~~l~~~~  232 (364)
                      +++++|++..
T Consensus       249 ~a~~~l~~~~  258 (315)
T d1r6bx3         249 EARNWLAEKG  258 (315)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            9999999864

>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=99.48  E-value=1.7e-13  Score=120.91  Aligned_cols=170  Identities=18%  Similarity=0.298  Sum_probs=118.9

Q ss_pred             cchhccHHHHHHHHHHHhc-------CCCC--cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHH---
Q 017884           53 ADVAAHRDIVDTIDRLTSE-------NRLP--HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDV---  120 (364)
Q Consensus        53 ~~~vg~~~~~~~l~~~~~~-------~~~~--~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~---  120 (364)
                      ..++||+++++.+...+..       ...|  .++|+||+|+|||.+|+.+++.+.+.  ...++.++.+.......   
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~--~~~~~~~~~~~~~~~~~~~~  100 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVSR  100 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGGGG
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC--CcceEEEeccccccchhhhh
Confidence            3478999999987666541       1222  37999999999999999999998643  34556666544322111   


Q ss_pred             ------------HHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHHHHHHHHHHHHHh-----------ccCccEEEE
Q 017884          121 ------------VRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKDAQFALRRVIEKY-----------TKNTRFALI  177 (364)
Q Consensus       121 ------------~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~Il~  177 (364)
                                  ....+.+.....        .+.||++||+|.+.++.++.|+.++++.           ..++.+|++
T Consensus       101 L~g~~~gyvG~~~~~~l~~~~~~~--------p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~t  172 (315)
T d1qvra3         101 LIGAPPGYVGYEEGGQLTEAVRRR--------PYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILT  172 (315)
T ss_dssp             C--------------CHHHHHHHC--------SSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEE
T ss_pred             hcCCCCCCcCcccCChHHHHHHhC--------CCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEe
Confidence                        011222222221        3679999999999999999999999874           135667777


Q ss_pred             eec--------------------------cccCchhhhccc-eEEEecCCChHHHHHHHHHHHHH-------c--CCCCC
Q 017884          178 CNQ--------------------------VNKIIPALQSRC-TRFRFAPLEPVHVTERLKHVIEA-------E--GLDVT  221 (364)
Q Consensus       178 ~~~--------------------------~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~--~~~i~  221 (364)
                      ||-                          ...+.|.+.+|+ .++.|.|++.+++.+++...+.+       .  .+.++
T Consensus       173 snlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~i~l~i~  252 (315)
T d1qvra3         173 SNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELT  252 (315)
T ss_dssp             CCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEEC
T ss_pred             cccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhcccccccc
Confidence            752                          134778888998 57789999999998887654432       2  34678


Q ss_pred             HHHHHHHHHHc
Q 017884          222 EGGLAALVRLC  232 (364)
Q Consensus       222 ~~~~~~l~~~~  232 (364)
                      ++++++|++.+
T Consensus       253 ~~~~~~L~~~~  263 (315)
T d1qvra3         253 EAAKDFLAERG  263 (315)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999999874

>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=99.44  E-value=2.1e-12  Score=115.37  Aligned_cols=151  Identities=18%  Similarity=0.216  Sum_probs=91.7

Q ss_pred             CCC-CCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc-------CCCC----------------
Q 017884           48 RPQ-SLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY-------GAQY----------------  103 (364)
Q Consensus        48 ~p~-~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~-------~~~~----------------  103 (364)
                      ||. .|.+++||+.++..|.-.+-.....|+||+||||+|||++|+.++.-|.       +...                
T Consensus         1 ~~~~~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (333)
T d1g8pa_           1 RPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLST   80 (333)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCC
T ss_pred             CCCCChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhcccc
Confidence            344 6999999999988766544432235799999999999999999998651       0000                


Q ss_pred             -----CCcEEEEeCCCCCChHHH------HHHHHHHHhcCccccCC--ccceEEEEEeCCCCCCHHHHHHHHHHHHHhc-
Q 017884          104 -----HNMILELNASDDRGIDVV------RQQIQDFASTQSFSFGV--KASVKLVLLDEADAMTKDAQFALRRVIEKYT-  169 (364)
Q Consensus       104 -----~~~~~~~~~~~~~~~~~~------~~~i~~~~~~~~~~~~~--~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-  169 (364)
                           ...+.....  ....+.+      ......-...  +..+.  ..+++|+++||++.+.+..++.|+..|++.. 
T Consensus        81 ~~~~~~~~~~~~~~--~~~~~~l~G~~d~~~~~~~g~~~--~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v  156 (333)
T d1g8pa_          81 NVIRKPTPVVDLPL--GVSEDRVVGALDIERAISKGEKA--FEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGEN  156 (333)
T ss_dssp             CEEEECCCEEEECT--TCCHHHHHCEECHHHHHHHCGGG--EECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEE
T ss_pred             CcccccCceeeccC--CCCcccccCcchhhhccccCcce--eeccccccccccEeecccHHHHHHHHHHHHhhhhcCCeE
Confidence                 000111111  1111111      1111111000  00010  1246899999999999999999999999742 


Q ss_pred             ------------cCccEEEEeecc-ccCchhhhccc-eEEEecCCCh
Q 017884          170 ------------KNTRFALICNQV-NKIIPALQSRC-TRFRFAPLEP  202 (364)
Q Consensus       170 ------------~~~~~Il~~~~~-~~l~~~l~sr~-~~i~~~~~~~  202 (364)
                                  ..+.++.++|.. .++.+++.+|+ ..+.+..+..
T Consensus       157 ~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~  203 (333)
T d1g8pa_         157 VVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRD  203 (333)
T ss_dssp             EECCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCS
T ss_pred             EecccCceecCCCCEEEEEecCccccccccchhhhhcceeeccCcch
Confidence                        334444455543 47889999998 4566666543

>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=99.43  E-value=1.1e-12  Score=117.85  Aligned_cols=187  Identities=19%  Similarity=0.214  Sum_probs=115.4

Q ss_pred             chhccHHHHHHHHHHHh------------------------------cCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           54 DVAAHRDIVDTIDRLTS------------------------------ENRLPHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        54 ~~vg~~~~~~~l~~~~~------------------------------~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .++||+++++.+..++.                              .....++||.||+|+|||.+|+++|+.+     
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~-----   92 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL-----   92 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT-----
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc-----
Confidence            48999999887765542                              1234459999999999999999999986     


Q ss_pred             CCcEEEEeCCCCCChH----HHHHHHHHHHhcCccccCCccceEEEEEeCCCCC--------------CHHHHHHHHHHH
Q 017884          104 HNMILELNASDDRGID----VVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM--------------TKDAQFALRRVI  165 (364)
Q Consensus       104 ~~~~~~~~~~~~~~~~----~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l--------------~~~~~~~L~~~l  165 (364)
                      ...++.++++......    .+...+.......+. ......++++++||++..              .+..++.|++.+
T Consensus        93 ~~~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~-~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqil  171 (364)
T d1um8a_          93 DIPIAISDATSLTEAGYVGEDVENILTRLLQASDW-NVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIV  171 (364)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHTTT-CHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHH
T ss_pred             ccceeehhhhhcccchhhHhhhccchhhhhhhchh-HHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhh
Confidence            3445566654432211    112223332222221 111124779999999994              345799999999


Q ss_pred             HHhc-------------cCccEEEEeec-------------------------------------------------ccc
Q 017884          166 EKYT-------------KNTRFALICNQ-------------------------------------------------VNK  183 (364)
Q Consensus       166 e~~~-------------~~~~~Il~~~~-------------------------------------------------~~~  183 (364)
                      +...             .++.++.+++-                                                 ...
T Consensus       172 d~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (364)
T d1um8a_         172 EGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYG  251 (364)
T ss_dssp             HCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTT
T ss_pred             cCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhh
Confidence            9311             11112222110                                                 012


Q ss_pred             Cchhhhccc-eEEEecCCChHHHHHHHHH-----------HHHHcCC--CCCHHHHHHHHHHc---CCCHHHHHHHHHHH
Q 017884          184 IIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEGL--DVTEGGLAALVRLC---NGDMRKALNILQST  246 (364)
Q Consensus       184 l~~~l~sr~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~~--~i~~~~~~~l~~~~---~g~~r~a~~~l~~~  246 (364)
                      +.|.+..|. .++.|.+++.+++.+++..           .+..+|+  .++++++++|++.+   .--.|.+...++..
T Consensus       252 f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~riie~~  331 (364)
T d1um8a_         252 LIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDF  331 (364)
T ss_dssp             CCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHH
T ss_pred             hHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHHHHHH
Confidence            566788887 6799999999999998852           2333455  46899999999865   22355555555544

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.17  E-value=1e-10  Score=101.05  Aligned_cols=183  Identities=16%  Similarity=0.149  Sum_probs=107.5

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC---CCCChHHHHHHHH
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS---DDRGIDVVRQQIQ  126 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~---~~~~~~~~~~~i~  126 (364)
                      .+-++++|+++.++.|.+.    ..++++|+||+|+|||++++.+++.+...   ..++.+...   .......+...+.
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~~---~~~i~~~~~~~~~~~~~~~~~~~~~   81 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNLP---YIYLDLRKFEERNYISYKDFLLELQ   81 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTCC---EEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCCC---eEEEEeccccccccccHHHHHHHHH
Confidence            3568999999999988653    33568999999999999999999987322   112221111   1111111111111


Q ss_pred             HHHh----cC-------cc-----------c------------------cCCccceEEEEEeCCCCCCHHH----HHHHH
Q 017884          127 DFAS----TQ-------SF-----------S------------------FGVKASVKLVLLDEADAMTKDA----QFALR  162 (364)
Q Consensus       127 ~~~~----~~-------~~-----------~------------------~~~~~~~~viiiDe~~~l~~~~----~~~L~  162 (364)
                      ....    ..       ..           .                  ......+.++++||++.+....    ...+.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~  161 (283)
T d2fnaa2          82 KEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALA  161 (283)
T ss_dssp             HHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHH
T ss_pred             HHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHH
Confidence            1000    00       00           0                  0001246789999998875433    23333


Q ss_pred             HHHHHhccCccEEEEeecccc---------Cchhh-hccceEEEecCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Q 017884          163 RVIEKYTKNTRFALICNQVNK---------IIPAL-QSRCTRFRFAPLEPVHVTERLKHVIEAEGLDVTEGGLAALVRLC  232 (364)
Q Consensus       163 ~~le~~~~~~~~Il~~~~~~~---------l~~~l-~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~  232 (364)
                      ..... ......++++.....         ....+ ..+...+.+.+++.++..+++.+.+...++..  +.++.+.+.+
T Consensus       162 ~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~--~~~~~i~~~~  238 (283)
T d2fnaa2         162 YAYDN-LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF--KDYEVVYEKI  238 (283)
T ss_dssp             HHHHH-CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC--CCHHHHHHHH
T ss_pred             HHHHh-hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCH--HHHHHHHHHh
Confidence            33333 334555665532211         11112 22357789999999999999999888777654  4478999999


Q ss_pred             CCCHHHHHHH
Q 017884          233 NGDMRKALNI  242 (364)
Q Consensus       233 ~g~~r~a~~~  242 (364)
                      +|.|..+...
T Consensus       239 ~G~P~~L~~~  248 (283)
T d2fnaa2         239 GGIPGWLTYF  248 (283)
T ss_dssp             CSCHHHHHHH
T ss_pred             CCCHHHHHHH
Confidence            9999754433

>d1iqpa1 a.80.1.1 (A:233-327) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.17  E-value=3.5e-10  Score=80.81  Aligned_cols=91  Identities=23%  Similarity=0.463  Sum_probs=85.8

Q ss_pred             ChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHhcCCChHHHH
Q 017884          266 LPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQL  345 (364)
Q Consensus       266 ~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l  345 (364)
                      .+.++..+++.+.++++.++...++++....|+++.+++..+++.+.+..+++....++++.++++|+++..|.++.+||
T Consensus         3 ~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~v~~~~~~~~~k~~ll~~la~~d~rL~~G~~e~iQL   82 (95)
T d1iqpa1           3 RPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEIIQL   82 (95)
T ss_dssp             CHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             CcHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHcCCChHHHH
Confidence            46788999999999999999999999976889999999999999999889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 017884          346 GSIISTFTQAR  356 (364)
Q Consensus       346 ~~l~~~l~~~~  356 (364)
                      ++|+++|+.+-
T Consensus        83 ~alla~~~~i~   93 (95)
T d1iqpa1          83 EALLAQFTLIG   93 (95)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999864

>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=99.08  E-value=1.4e-10  Score=101.10  Aligned_cols=119  Identities=13%  Similarity=0.107  Sum_probs=74.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC------ChHHHHHHHHHHHhcCccccCCccceEEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR------GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEA  150 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~  150 (364)
                      +|+|||||||||.+|+++|.++..   ...++.+++++..      +...+++.+....           .+.||+|||+
T Consensus       126 ~l~~G~pG~GKT~la~ala~~~~~---~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~-----------~~~ilf~DEi  191 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEALGG---KDKYATVRFGEPLSGYNTDFNVFVDDIARAML-----------QHRVIVIDSL  191 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHHHHT---TSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHH-----------HCSEEEEECC
T ss_pred             EEEECCCCccHHHHHHHHHHHhcC---CCCeEEEEhhHhhhcccchHHHHHHHHHHHHh-----------hccEEEeehh
Confidence            677999999999999999999842   2344566665532      1223334333321           2459999999


Q ss_pred             CCCCHH------------HHHHHHHHHHHhc--cCccEEEEeeccccCchhhh------ccc-eEEEecCCChHHHHHHH
Q 017884          151 DAMTKD------------AQFALRRVIEKYT--KNTRFALICNQVNKIIPALQ------SRC-TRFRFAPLEPVHVTERL  209 (364)
Q Consensus       151 ~~l~~~------------~~~~L~~~le~~~--~~~~~Il~~~~~~~l~~~l~------sr~-~~i~~~~~~~~~~~~~l  209 (364)
                      |.+...            ..+.|+.-|+...  .++.+|.+|| +..+++++.      .|+ ..+.+.+|+.+...+++
T Consensus       192 d~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN-~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il  270 (321)
T d1w44a_         192 KNVIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVL  270 (321)
T ss_dssp             TTTC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEE
T ss_pred             hhhccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCC-CcccccchhhhhhccCcccceeecCCCChHHHHHHH
Confidence            999532            2456666676433  3455666666 554544443      244 66777788777665555


Q ss_pred             H
Q 017884          210 K  210 (364)
Q Consensus       210 ~  210 (364)
                      .
T Consensus       271 ~  271 (321)
T d1w44a_         271 T  271 (321)
T ss_dssp             E
T ss_pred             H
Confidence            4

>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=99.07  E-value=1.1e-10  Score=104.22  Aligned_cols=150  Identities=15%  Similarity=0.014  Sum_probs=88.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTK  155 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~  155 (364)
                      .++||||||+|||++++++++.+     ...++.+|+++..+...+..    ..           +..+.++|+++....
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~~-----~~~~i~in~s~~rs~~~l~~----~~-----------~~~~~l~d~~~~~~~  215 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLELC-----GGKALNVNLPLDRLNFELGV----AI-----------DQFLVVFEDVKGTGG  215 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----CCEEECCSSCTTTHHHHHGG----GT-----------TCSCEEETTCCCSTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEECcchhhHHHHHh----HH-----------HHHHHHHHHHHHhhh
Confidence            38999999999999999999998     45678888876533221111    11           233445565543321


Q ss_pred             -----------HHHHHHHHHHHHhc--------------cCccEEEEeeccc-cCchhhhccceEEEecCCChHHHHHHH
Q 017884          156 -----------DAQFALRRVIEKYT--------------KNTRFALICNQVN-KIIPALQSRCTRFRFAPLEPVHVTERL  209 (364)
Q Consensus       156 -----------~~~~~L~~~le~~~--------------~~~~~Il~~~~~~-~l~~~l~sr~~~i~~~~~~~~~~~~~l  209 (364)
                                 +..+.|...++...              ....+|++||... .+..+++.++.+..+.|+.......++
T Consensus       216 ~~~~~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~~~~~~r~~Rf~~~i~~~~~~~~~~~~~~l  295 (362)
T d1svma_         216 ESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVPKTLQARFVKQIDFRPKDYLKHCLERS  295 (362)
T ss_dssp             TTTTCCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECSCCCCHHHHTTEEEEEECCCCHHHHHHHHTC
T ss_pred             hccCCCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeecccccccccccccCceEEeecCCCcHHHHHHHH
Confidence                       11223334443211              1124777887543 222222333344444444455666777


Q ss_pred             HHHHHHcCCCCCHHHHHHHH-HHcCCCHHHHHHHHHH
Q 017884          210 KHVIEAEGLDVTEGGLAALV-RLCNGDMRKALNILQS  245 (364)
Q Consensus       210 ~~~~~~~~~~i~~~~~~~l~-~~~~g~~r~a~~~l~~  245 (364)
                      ..+++++...++.+.+..+. ..+++|++.+++.+..
T Consensus       296 ~~i~~~~~l~~~~~~L~~li~~~s~~D~~~~i~~~~~  332 (362)
T d1svma_         296 EFLLEKRIIQSGIALLLMLIWYRPVAEFAQSIQSRIV  332 (362)
T ss_dssp             THHHHTTCTTCHHHHHHHHHHHSCGGGSCGGGHHHHH
T ss_pred             HHHhcccCCCCCHHHHHHHccCCCHHHHHHHHHHHHH
Confidence            88888888888777765544 5567788888776643

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.07  E-value=1.7e-09  Score=77.18  Aligned_cols=92  Identities=27%  Similarity=0.534  Sum_probs=83.4

Q ss_pred             CChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHHHHHhcCCChHH
Q 017884          265 PLPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKIKMP-SDVRVRLMNDLADIEYRLSFGCNDKL  343 (364)
Q Consensus       265 ~~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~~~~-~~~~~~i~~~l~~~~~~l~~~~~~~~  343 (364)
                      +.+..+.++++++.++++.+++..+.++...+|+++.+|+..+++.+....+. +.....+++.++++++++..|.++.+
T Consensus         1 P~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~i~~~~~~~~~~k~~ll~~la~~e~rL~~G~~e~l   80 (95)
T d1sxjc1           1 PRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQI   80 (95)
T ss_dssp             CCHHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             CCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHcCCCcHH
Confidence            35678899999999999999999999988688999999999999999887765 44568999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 017884          344 QLGSIISTFTQAR  356 (364)
Q Consensus       344 ~l~~l~~~l~~~~  356 (364)
                      ||.++++.+++++
T Consensus        81 QL~~lla~~~~~~   93 (95)
T d1sxjc1          81 QGSAVIGAIKASF   93 (95)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998764

>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=98.93  E-value=2.4e-08  Score=86.02  Aligned_cols=178  Identities=17%  Similarity=0.115  Sum_probs=104.8

Q ss_pred             hhccHHHHHHHHHHHhcC-CC-C-cEEEeCCCCccHHHHHHHHHHHHcCC--CCCCcEEEEeCCCCCChHHHHHHHHHHH
Q 017884           55 VAAHRDIVDTIDRLTSEN-RL-P-HLLLYGPPGTGKTSTILAVARKLYGA--QYHNMILELNASDDRGIDVVRQQIQDFA  129 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~-~~-~-~lll~G~~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~i~~~~  129 (364)
                      +.|++..++.+...+... .. . .+.|+|+.|+|||++|+.+.+.....  .....++.++.+.......+...+....
T Consensus        22 ~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~  101 (277)
T d2a5yb3          22 CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILL  101 (277)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             eeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHHH
Confidence            668999999998887542 22 2 26899999999999999998874211  1112233344333333333333333222


Q ss_pred             hcCcc--------ccCC--------------ccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchh
Q 017884          130 STQSF--------SFGV--------------KASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPA  187 (364)
Q Consensus       130 ~~~~~--------~~~~--------------~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~  187 (364)
                      .....        ....              ...+.++|+|++...  ...    +.+.  ...+++|++|... .+...
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~----~~~~--~~~srilvTTR~~-~v~~~  172 (277)
T d2a5yb3         102 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETI----RWAQ--ELRLRCLVTTRDV-EISNA  172 (277)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHH----HHHH--HTTCEEEEEESBG-GGGGG
T ss_pred             HHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhh----hhhc--ccCceEEEEeehH-HHHHh
Confidence            11100        0000              114679999998743  222    2222  2356777777544 44445


Q ss_pred             hhccceEEEecCCChHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHH
Q 017884          188 LQSRCTRFRFAPLEPVHVTERLKHVIEAEGL-DVTEGGLAALVRLCNGDMRKALN  241 (364)
Q Consensus       188 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~i~~~~~~~l~~~~~g~~r~a~~  241 (364)
                      +..++..+++.+++.++..+.+...+..... .-.++....+++.++|.|-.+.-
T Consensus       173 ~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~  227 (277)
T d2a5yb3         173 ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMM  227 (277)
T ss_dssp             CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHH
Confidence            5566788999999999999988765322111 11245568899999998855443

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.87  E-value=1.3e-08  Score=71.86  Aligned_cols=86  Identities=15%  Similarity=0.248  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-hcCCChHHHHHHHHHHHHHHHHHhcCCChHHHHH
Q 017884          268 KDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVF-KIKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLG  346 (364)
Q Consensus       268 ~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~-~~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~  346 (364)
                      +.+.++++++.++++.++...+.++. ..|++..+++..+++.+. ...+++....+++..++++++++..|+++.+||.
T Consensus         4 ~~i~~il~~~~~~~f~~a~~~i~~l~-~~Gys~~dIl~~l~~~vv~~~~i~~~~k~~i~~~la~~d~rL~~G~~e~lQL~   82 (91)
T d1sxjd1           4 DILIEIVEKVKSGDFDEIKKYVNTFM-KSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLNNGTNEHIQLL   82 (91)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHH-HTSCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTTCCCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHcCCChHHHHH
Confidence            45789999999999999999999998 779999999999998864 4568999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 017884          347 SIISTFTQ  354 (364)
Q Consensus       347 ~l~~~l~~  354 (364)
                      +++++++.
T Consensus        83 ~lla~i~~   90 (91)
T d1sxjd1          83 NLLVKISQ   90 (91)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHc
Confidence            99999985

>d1sxjb1 a.80.1.1 (B:231-322) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.82  E-value=2.4e-08  Score=70.38  Aligned_cols=87  Identities=21%  Similarity=0.365  Sum_probs=75.5

Q ss_pred             hHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc-CCChHHHHHHHHHHHHHHHHHhcCCChHHHH
Q 017884          267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI-KMPSDVRVRLMNDLADIEYRLSFGCNDKLQL  345 (364)
Q Consensus       267 ~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l  345 (364)
                      +..+.++   +...++.+++..+.+++...|++..+++..+++.+... .+++....++++.++++++++..|.++.+||
T Consensus         3 P~~I~~i---l~~~~f~~a~~~l~~~l~~~Gys~~DIi~~l~~~i~~~~~~~e~~k~~il~~la~~~~rl~~G~~e~lQL   79 (92)
T d1sxjb1           3 PLIVKKM---LLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQL   79 (92)
T ss_dssp             HHHHHHH---HSCSSHHHHHHHHHHTTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHTTCCCHHHH
T ss_pred             HHHHHHH---HHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcCCCcHHHH
Confidence            3444444   46778999999998866588999999999999999875 6788888999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 017884          346 GSIISTFTQAR  356 (364)
Q Consensus       346 ~~l~~~l~~~~  356 (364)
                      .+++++++.+.
T Consensus        80 ~~lla~i~~i~   90 (92)
T d1sxjb1          80 ASMLAKIHKLN   90 (92)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999999864

>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=98.77  E-value=8.1e-08  Score=87.69  Aligned_cols=83  Identities=18%  Similarity=0.276  Sum_probs=57.1

Q ss_pred             cccCchhhhccc-eEEEecCCChHHHHHHHHH-----------HHHHcCCCC--CHHHHHHHHHHcC--------CCHHH
Q 017884          181 VNKIIPALQSRC-TRFRFAPLEPVHVTERLKH-----------VIEAEGLDV--TEGGLAALVRLCN--------GDMRK  238 (364)
Q Consensus       181 ~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~-----------~~~~~~~~i--~~~~~~~l~~~~~--------g~~r~  238 (364)
                      ++.+.|.+..|+ .++.+.+++.+++.++|..           .+..+|+.+  +++++..+|+.+-        -..|.
T Consensus       315 ~~gliPEliGRlPi~v~L~~L~~~dL~rILtEPknsLikQy~~lf~~~gv~L~ft~~al~~iA~~A~~~n~~~~~~GAR~  394 (443)
T d1g41a_         315 PSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARR  394 (443)
T ss_dssp             GGGSCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGH
T ss_pred             cccchhhhccceEEEEEccCccHHHHHHHHHhhhhhHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhhhhcccCCchH
Confidence            446889999997 7799999999999998753           233356654  8999999987762        23677


Q ss_pred             HHHHHHHHHHhc-----------ccCchHHHHHhcC
Q 017884          239 ALNILQSTHMAS-----------QQITEEAVYLCTG  263 (364)
Q Consensus       239 a~~~l~~~~~~~-----------~~i~~~~v~~~~~  263 (364)
                      +...++.+....           -.||.+.|.+.+.
T Consensus       395 Lr~i~E~~l~~~~f~~p~~~~~~v~Id~~~v~~~l~  430 (443)
T d1g41a_         395 LHTVMERLMDKISFSASDMNGQTVNIDAAYVADALG  430 (443)
T ss_dssp             HHHHHHHHHHHHHHHGGGCTTCEEEECHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhccCCCCCCCEEEECHHHHHhhhh
Confidence            767776664321           1466666655443

>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=98.37  E-value=5.7e-07  Score=71.70  Aligned_cols=117  Identities=21%  Similarity=0.291  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHhcCCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC
Q 017884           60 DIVDTIDRLTSENRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (364)
Q Consensus        60 ~~~~~l~~~~~~~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  138 (364)
                      ..+..|+.++++....+ ++|+|||++|||.++.++++.+.+     .++.++.+...                 |.+.+
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G-----~vis~~N~~s~-----------------F~Lq~   95 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQG-----AVISFVNSTSH-----------------FWLEP   95 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTC-----EECCCCCSSSC-----------------GGGGG
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhCC-----EEEeccCCCCC-----------------ccccc
Confidence            45567777776553334 899999999999999999999842     12122111100                 11222


Q ss_pred             ccceEEEEEeCCCCCCHHHHHH-HHHHHHHhc-------------cCccEEEEeeccc---cCchhhhccceEEEec
Q 017884          139 KASVKLVLLDEADAMTKDAQFA-LRRVIEKYT-------------KNTRFALICNQVN---KIIPALQSRCTRFRFA  198 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~~~~~~~-L~~~le~~~-------------~~~~~Il~~~~~~---~l~~~l~sr~~~i~~~  198 (364)
                      ..+.+++++||+........+. +..+++..+             ..+.+|+++|..-   .-.+.|.+|..++.|+
T Consensus        96 l~~~kv~l~dD~t~~~~~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~~~~d~~~~L~sRi~~f~F~  172 (205)
T d1tuea_          96 LTDTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEFP  172 (205)
T ss_dssp             GTTCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEECC
T ss_pred             ccCCeEEEEeccccchHHHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCCCccccchhhhheEEEEECC
Confidence            2257899999986665444444 455666421             1245677776432   3446789999999997

>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=98.33  E-value=5.4e-07  Score=71.64  Aligned_cols=25  Identities=28%  Similarity=0.610  Sum_probs=22.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +++|.||+|+||||+++.++..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            3799999999999999999998743

>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=98.17  E-value=9.6e-07  Score=75.17  Aligned_cols=57  Identities=25%  Similarity=0.415  Sum_probs=39.9

Q ss_pred             CCcchhccHHHHHHHHHHHhcC---CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           51 SLADVAAHRDIVDTIDRLTSEN---RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        51 ~~~~~vg~~~~~~~l~~~~~~~---~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      +|.+.-+++.+...+.......   ..|. ++|+||||||||++|++++.++.     ..++.+++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~-----~~~~~i~~   65 (273)
T d1gvnb_           5 NFTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQ-----GNVIVIDN   65 (273)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTT-----TCCEEECT
T ss_pred             ccChHHHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHhh-----cceEEEec
Confidence            4555555666666665554432   3344 89999999999999999999973     44556665

>d1jr3d1 a.80.1.1 (D:212-338) delta subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: delta subunit
species: Escherichia coli [TaxId: 562]

Probab=98.17  E-value=2.3e-06  Score=63.92  Aligned_cols=85  Identities=11%  Similarity=0.063  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc----------------------------------
Q 017884          269 DIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI----------------------------------  314 (364)
Q Consensus       269 ~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~----------------------------------  314 (364)
                      ++|++++++..+|...++..++++. ..|.+|..++..+.++++.+                                  
T Consensus         2 ~~F~L~dai~~gd~~~a~~il~~l~-~~g~~~~~il~~l~~~~~~l~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   80 (127)
T d1jr3d1           2 TPFHWVDALLMGKSKRALHILQQLR-LEGSEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRGMMGEALN   80 (127)
T ss_dssp             CHHHHHHHHTTSCHHHHHHHHTSST-TTTCCHHHHHHHHHHHHHHHHHHHTCSSSSCHHHHHHHHTCCSSHHHHHHHHHH
T ss_pred             CHHHHHHHHHcCCHHHHHHHHHHHH-HcCCchHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHcCCCHHHHHHHHHHHH
Confidence            5799999999999999999999988 88999999999999988876                                  


Q ss_pred             CCChHHHHHHHHHHHHHHHHHhcCC--ChHHHHHHHHHHHHH
Q 017884          315 KMPSDVRVRLMNDLADIEYRLSFGC--NDKLQLGSIISTFTQ  354 (364)
Q Consensus       315 ~~~~~~~~~i~~~l~~~~~~l~~~~--~~~~~l~~l~~~l~~  354 (364)
                      .++...+..++..+.++|..+|.+.  ++...|+.++.++|.
T Consensus        81 ~~s~~~l~~~l~~l~~~D~~~K~~~~~~~~~~le~l~l~lc~  122 (127)
T d1jr3d1          81 RLSQTQLRQAVQLLTRTELTLKQDYGQSVWAELEGLSLLLCH  122 (127)
T ss_dssp             HSCHHHHHHHHHHHHHHHHHHHHSSCSCHHHHHHHHHHHTTS
T ss_pred             hCCHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC
Confidence            5677788999999999999999764  667899999999883

>d1jqlb_ c.37.1.20 (B:) delta 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 subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.16  E-value=5.3e-06  Score=63.11  Aligned_cols=125  Identities=13%  Similarity=0.082  Sum_probs=86.5

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceE
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVK  143 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  143 (364)
                      +|...++++-.|.++|||+...-+......+.+.+...+...... ........   + +.+...+.+.|+ |+.   ++
T Consensus         8 ~L~~~l~k~l~~vyll~G~E~~L~~~~~~~i~~~~~~~~~~~~~~-~~~~~~~~---~-~~l~~~~~t~sl-F~~---kr   78 (140)
T d1jqlb_           8 QLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHT-FSIDPNTD---W-NAIFSLCQAMSL-FAS---RQ   78 (140)
T ss_dssp             GHHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEC-CCCSTTCC---H-HHHHHHHHCCCT-TCC---CE
T ss_pred             HHHHHHhcCCCcEEEEEcChHHHHHHHHHHHHHHHHhCCcceeee-ecccccCC---H-HHHHHHHcCCCc-ccC---cE
Confidence            455667766445589999999999999999988876554432211 11111112   2 234445677777 775   89


Q ss_pred             EEEEeCCCCCC-HHHHHHHHHHHHHhccCccEEEEeeccc------cCchhhhccceEEEe
Q 017884          144 LVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICNQVN------KIIPALQSRCTRFRF  197 (364)
Q Consensus       144 viiiDe~~~l~-~~~~~~L~~~le~~~~~~~~Il~~~~~~------~l~~~l~sr~~~i~~  197 (364)
                      +|+|++.+... +...+.|.++++.+++++.+|++++..+      ++.+.+.+++.++.+
T Consensus        79 li~i~~~~~~~~k~~~~~L~~~~~~~~~~~~lii~~~~~~k~~~~~k~~K~l~k~g~vI~C  139 (140)
T d1jqlb_          79 TLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             EEEEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHhCCCCCEEEEEEcCCCCchhhhhHHHHHHHhCCeEEeC
Confidence            99999887654 5667889999999999999999886433      455677777777765

>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=98.09  E-value=4.8e-06  Score=66.05  Aligned_cols=27  Identities=41%  Similarity=0.703  Sum_probs=24.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .|++|+||||+|||++++.++..+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            479999999999999999999998544

>d1sxje1 a.80.1.1 (E:256-354) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.09  E-value=3.1e-05  Score=53.80  Aligned_cols=71  Identities=13%  Similarity=0.177  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHh-cCCChHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHH
Q 017884          285 SFKRISEMKMRKGLALVDIVREVTMFVFK-IKMPSDVRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQAR  356 (364)
Q Consensus       285 ~~~~l~~l~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~~~  356 (364)
                      .+..+++++ ..+++|..|+..|...+.. .+.+.....+++++.+.+|++++.|..+-+|||+|+++++.+.
T Consensus        27 iR~~lYeLL-~~cIpp~~Ilk~L~~~Ll~~~~~d~~lk~eii~~aa~yE~Rl~~GsK~IfHLEaFvAkfM~~l   98 (99)
T d1sxje1          27 CRAVLYDLL-AHCIPANIILKELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL   98 (99)
T ss_dssp             HHHHHHHHH-TTTCCHHHHHHHHHHTTTTCTTSCHHHHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HhcCCHHHHHHHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhhc
Confidence            556788888 9999999999999888853 3556677889999999999999999999999999999998654

>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=97.88  E-value=4e-05  Score=58.62  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|+|+||+||||+|+.+++..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6899999999999999987764

>d1jr3a1 a.80.1.1 (A:243-368) gamma subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: gamma subunit
species: Escherichia coli [TaxId: 562]

Probab=97.87  E-value=0.00012  Score=54.10  Aligned_cols=88  Identities=9%  Similarity=0.083  Sum_probs=79.5

Q ss_pred             ChHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhc--------------------------CCChH
Q 017884          266 LPKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFKI--------------------------KMPSD  319 (364)
Q Consensus       266 ~~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~~--------------------------~~~~~  319 (364)
                      ....++++++++..+|...++..++++. +.|.++..++..+..++|++                          .++.+
T Consensus         3 D~~~~~~L~~~I~~~d~~~~L~~l~~i~-~~G~d~~~~l~~L~~~~r~l~~~k~~~~~~~~~~~~~~~~~~~~a~~~~~~   81 (126)
T d1jr3a1           3 DDDQALSLVEAMVEANGERVMALINEAA-ARGIEWEALLVEMLGLLHRIAMVQLSPAALGNDMAAIELRMRELARTIPPT   81 (126)
T ss_dssp             CHHHHHHHHHHHHHTCHHHHHHHHHHHH-HTTCCHHHHHHHHHHHHHHHHHHTTCTTCCCSGGGGTHHHHHHHHHHSCHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHHHHHHHhcccccccchHHHHHHHHHHHHcCCHH
Confidence            3567899999999999999999999998 99999999999999999875                          35667


Q ss_pred             HHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 017884          320 VRVRLMNDLADIEYRLSFGCNDKLQLGSIISTFTQ  354 (364)
Q Consensus       320 ~~~~i~~~l~~~~~~l~~~~~~~~~l~~l~~~l~~  354 (364)
                      .+..+++.+.+....++...++++.+|-.+.++..
T Consensus        82 ~L~~~~~il~~~~~~ik~s~~~r~~~Em~llrll~  116 (126)
T d1jr3a1          82 DIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALA  116 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            78999999999999999999999999999999654

>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=97.87  E-value=2.7e-05  Score=68.72  Aligned_cols=115  Identities=16%  Similarity=0.201  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC--CCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcc--
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA--QYHNMILELNASDDRGIDVVRQQIQDFASTQSF--  134 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~--  134 (364)
                      +.....+...+.+   +..+|+||||||||+++..+...+...  .....+ -+.+.+......+.+.+.........  
T Consensus       151 ~~Q~~A~~~al~~---~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I-~l~ApTgkAA~~L~e~~~~~~~~~~~~~  226 (359)
T d1w36d1         151 NWQKVAAAVALTR---RISVISGGPGTGKTTTVAKLLAALIQMADGERCRI-RLAAPTGKAAARLTESLGKALRQLPLTD  226 (359)
T ss_dssp             CHHHHHHHHHHTB---SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCE-EEEBSSHHHHHHHHHHHTHHHHHSSCCS
T ss_pred             cHHHHHHHHHHcC---CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeE-EEecCcHHHHHHHHHHHHHHHhhcCchh
Confidence            3444455555532   347999999999999987766555321  122222 23333322222333322221111110  


Q ss_pred             --------------------------cc--CCccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeec
Q 017884          135 --------------------------SF--GVKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       135 --------------------------~~--~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                                                ..  .......++||||+..+.......   ++...+.++++|++++.
T Consensus       227 ~~~~~~~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l~~~---ll~~~~~~~~lILvGD~  297 (359)
T d1w36d1         227 EQKKRIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSR---LIDALPDHARVIFLGDR  297 (359)
T ss_dssp             CCCCSCSCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGCBHHHHHH---HHHTCCTTCEEEEEECT
T ss_pred             hhhhhhhhhhhHHHHHHhhhhcchHHHHhhhcccccceeeehhhhccCHHHHHH---HHHHhcCCCEEEEECCh
Confidence                                      00  000135699999999988655444   44455678899999964

>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=97.78  E-value=1.8e-05  Score=62.32  Aligned_cols=75  Identities=15%  Similarity=0.113  Sum_probs=44.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCCCHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAMTKD  156 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~  156 (364)
                      ++++|+||+||||+++.++...     +.  ..++.........+...+.....          .+..+|+|... ....
T Consensus        17 iil~G~pGsGKST~a~~l~~~~-----~~--~~i~~D~~~~~~~~~~~~~~~l~----------~g~~vIiD~t~-~~~~   78 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFIQEHLVSA-----GY--VHVNRDTLGSWQRCVSSCQAALR----------QGKRVVIDNTN-PDVP   78 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHTGGG-----TC--EEEEHHHHCSHHHHHHHHHHHHH----------TTCCEEEESCC-CSHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CC--EEEchHHHHHHHHHHHHHHHHHH----------CCCCceeeCcC-CCHH
Confidence            7999999999999999887653     22  33443322223333333333332          24567787654 4556


Q ss_pred             HHHHHHHHHHHhc
Q 017884          157 AQFALRRVIEKYT  169 (364)
Q Consensus       157 ~~~~L~~~le~~~  169 (364)
                      ....+..+.++..
T Consensus        79 ~R~~~~~~a~~~~   91 (172)
T d1yj5a2          79 SRARYIQCAKDAG   91 (172)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcC
Confidence            6666766666543

>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=97.73  E-value=7.4e-05  Score=62.89  Aligned_cols=116  Identities=15%  Similarity=0.177  Sum_probs=70.4

Q ss_pred             HHHHHHHHHhcC-CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC
Q 017884           61 IVDTIDRLTSEN-RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV  138 (364)
Q Consensus        61 ~~~~l~~~~~~~-~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  138 (364)
                      ....|..++... ...+ ++|+||+++|||+++..+.+.+..      +..++.+..                 .+.+..
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~------~~~~~~~~~-----------------~f~l~~  145 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPF------YGCVNWTNE-----------------NFPFND  145 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSSC------EEECCTTCS-----------------SCTTGG
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhcc------hhhccccCC-----------------Cccccc
Confidence            344566666544 2233 799999999999999999998721      112222211                 111233


Q ss_pred             ccceEEEEEeCCCCCCHHHHHHHHHHHHHh--------------ccCccEEEEeecccc----------CchhhhccceE
Q 017884          139 KASVKLVLLDEADAMTKDAQFALRRVIEKY--------------TKNTRFALICNQVNK----------IIPALQSRCTR  194 (364)
Q Consensus       139 ~~~~~viiiDe~~~l~~~~~~~L~~~le~~--------------~~~~~~Il~~~~~~~----------l~~~l~sr~~~  194 (364)
                      ..+.+++++||+..-. ...+.+..++..-              ...+.+|+++|....          -...+++|...
T Consensus       146 l~~k~~~~~~e~~~~~-~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~i~~~~~~~~~~~~~~~~l~~R~~~  224 (267)
T d1u0ja_         146 CVDKMVIWWEEGKMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMFK  224 (267)
T ss_dssp             GSSCSEEEECSCCEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTTEEE
T ss_pred             cCCCEEEEEeCCCccc-cHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCCcccccCCCccccccchHhhhhEEE
Confidence            3368899999986543 3345566655431              234556666665433          24579999988


Q ss_pred             EEecCC
Q 017884          195 FRFAPL  200 (364)
Q Consensus       195 i~~~~~  200 (364)
                      +.|...
T Consensus       225 ~~F~~~  230 (267)
T d1u0ja_         225 FELTRR  230 (267)
T ss_dssp             EECCSC
T ss_pred             EECCCc
Confidence            888554

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.66  E-value=8.6e-05  Score=59.88  Aligned_cols=91  Identities=18%  Similarity=0.298  Sum_probs=50.8

Q ss_pred             CCCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCC------------
Q 017884           72 NRLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGV------------  138 (364)
Q Consensus        72 ~~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~------------  138 (364)
                      +..|+ ++|.||+|+||||++-.+|..+...+.  .+.-+++... .... .+.++.++......+..            
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~--kV~lit~Dt~-R~gA-~eQL~~~a~~l~v~~~~~~~~~d~~~~l~   81 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGK--SVMLAAGDTF-RAAA-VEQLQVWGQRNNIPVIAQHTGADSASVIF   81 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTTC--CEEEECCCTT-CHHH-HHHHHHHHHHTTCCEECCSTTCCHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC--cEEEEecccc-cccc-hhhhhhhhhhcCCcccccccCCCHHHHHH
Confidence            34466 689999999999999999988765544  3333443332 2222 22233333322211100            


Q ss_pred             -------ccceEEEEEeCCCCCCHH--HHHHHHHHHH
Q 017884          139 -------KASVKLVLLDEADAMTKD--AQFALRRVIE  166 (364)
Q Consensus       139 -------~~~~~viiiDe~~~l~~~--~~~~L~~~le  166 (364)
                             ..+..+|+||=+.+...+  ..+.|.++.+
T Consensus        82 ~~~~~a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~  118 (211)
T d2qy9a2          82 DAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVR  118 (211)
T ss_dssp             HHHHHHHHTTCSEEEECCCCCGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCEEEeccCCCccccHHHHHHHHHHHH
Confidence                   013568999988877543  2344444443

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.66  E-value=0.00012  Score=59.18  Aligned_cols=39  Identities=21%  Similarity=0.339  Sum_probs=28.8

Q ss_pred             CCCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           73 RLPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        73 ~~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      ..|+ ++|.||+|+||||.+-.+|..+...+....++..+
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~D   48 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAAD   48 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeec
Confidence            3456 69999999999999999988876555544444443

>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=97.64  E-value=2.1e-05  Score=61.50  Aligned_cols=25  Identities=48%  Similarity=0.715  Sum_probs=23.2

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .|.++|.||||+||||+++.|++.+
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4668999999999999999999997

>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=97.58  E-value=0.00011  Score=59.36  Aligned_cols=141  Identities=12%  Similarity=0.150  Sum_probs=68.8

Q ss_pred             CCc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccC---------------
Q 017884           74 LPH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG---------------  137 (364)
Q Consensus        74 ~~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~---------------  137 (364)
                      .|+ ++|.||+|+||||++-.+|..+...+....++..+...   .... +.++.++......+.               
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R---~ga~-eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a   86 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYR---PAAL-EQLQQLGQQIGVPVYGEPGEKDVVGIAKRG   86 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSS---HHHH-HHHHHHHHHHTCCEECCTTCCCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccc---cchh-HHHHHhccccCcceeecccchhhhHHHHHH
Confidence            466 68899999999999999988876555444343333222   2221 223333322211110               


Q ss_pred             ----CccceEEEEEeCCCCCCHH----HHHHHHHHHHHhcc-CccEEEEeeccccCchhhhcc-----ceEEEecCCChH
Q 017884          138 ----VKASVKLVLLDEADAMTKD----AQFALRRVIEKYTK-NTRFALICNQVNKIIPALQSR-----CTRFRFAPLEPV  203 (364)
Q Consensus       138 ----~~~~~~viiiDe~~~l~~~----~~~~L~~~le~~~~-~~~~Il~~~~~~~l~~~l~sr-----~~~i~~~~~~~~  203 (364)
                          ...+..+|+||=+.+...+    ....+.++.+...+ .+.+|+.++........+..+     ..-+-|..+++.
T Consensus        87 ~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDet  166 (211)
T d1j8yf2          87 VEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGT  166 (211)
T ss_dssp             HHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHCTTEEEEEECTTSC
T ss_pred             HHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcccCcceEEEecccCC
Confidence                0124679999988765322    23455555555443 334444443332222222222     133567788776


Q ss_pred             HHHHHHHHHHHHcCC
Q 017884          204 HVTERLKHVIEAEGL  218 (364)
Q Consensus       204 ~~~~~l~~~~~~~~~  218 (364)
                      ...--+-..+...++
T Consensus       167 ~~~G~~l~~~~~~~l  181 (211)
T d1j8yf2         167 AKGGGALSAVAATGA  181 (211)
T ss_dssp             SCHHHHHHHHHTTTC
T ss_pred             CcccHHHHHHHHHCc
Confidence            544444444444333

>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=97.57  E-value=0.00012  Score=54.83  Aligned_cols=38  Identities=11%  Similarity=0.243  Sum_probs=25.4

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhc--cCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYT--KNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~--~~~~~Il~~  178 (364)
                      +..+||+||+|.+.......+..+++...  ....+++.|
T Consensus        94 ~~~~vIiDE~H~~~~~~~~~~~~~l~~~~~~~~~~~l~~T  133 (136)
T d1a1va1          94 AYDIIICDECHSTDATSILGIGTVLDQAETAGARLVVLAT  133 (136)
T ss_dssp             CCSEEEEETTTCCSHHHHHHHHHHHHHTTTTTCSEEEEEE
T ss_pred             cCCEEEEecccccCHHHHHHHHHHHHHHHHCCCCcEEEEe
Confidence            46799999999998776666666666432  334445444

>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=97.55  E-value=5.3e-05  Score=59.30  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=22.0

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++|.|+||+||||+++.+++.+
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            347889999999999999999998

>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=97.55  E-value=3e-05  Score=59.95  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=22.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+++|.||+|+||||+++.+++.+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999999997

>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=97.51  E-value=0.00023  Score=57.20  Aligned_cols=28  Identities=32%  Similarity=0.425  Sum_probs=23.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~  104 (364)
                      ++|.||+|+||||++-.+|..+...+..
T Consensus         9 i~lvGptGvGKTTTiaKLA~~~~~~g~k   36 (207)
T d1okkd2           9 VLVVGVNGVGKTTTIAKLGRYYQNLGKK   36 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCc
Confidence            6899999999999999999887655543

>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=97.51  E-value=3.4e-05  Score=61.58  Aligned_cols=28  Identities=29%  Similarity=0.355  Sum_probs=23.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYH  104 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~  104 (364)
                      ++|+|+||+||||+|+.|++.+......
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~~~~   49 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCHGIP   49 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCC
Confidence            5799999999999999999998655443

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.50  E-value=0.00016  Score=53.93  Aligned_cols=37  Identities=11%  Similarity=0.163  Sum_probs=23.2

Q ss_pred             ceEEEEEeCCCCCCHHHHH--HHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDAQF--ALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~--~L~~~le~~~~~~~~Il~~  178 (364)
                      +.++||+||+|.+.+....  .+...+... .++.+|+.|
T Consensus        98 ~~~lvIiDEaH~~~~~~~~~~~~~~~~~~~-~~~~~l~lT  136 (140)
T d1yksa1          98 NWEVIIMDEAHFLDPASIAARGWAAHRARA-NESATILMT  136 (140)
T ss_dssp             CCSEEEETTTTCCSHHHHHHHHHHHHHHHT-TSCEEEEEC
T ss_pred             ceeEEEEccccccChhhHHHHHHHHHHhhC-CCCCEEEEE
Confidence            5789999999999765432  233333333 356666655

>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=97.50  E-value=3.4e-05  Score=60.20  Aligned_cols=25  Identities=36%  Similarity=0.550  Sum_probs=22.6

Q ss_pred             CCc-EEEeCCCCccHHHHHHHHHHHH
Q 017884           74 LPH-LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        74 ~~~-lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++ ++|.||||+||||+++.+++.+
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            355 6899999999999999999998

>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=97.47  E-value=4.8e-05  Score=59.19  Aligned_cols=39  Identities=21%  Similarity=0.267  Sum_probs=31.0

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      .|.+.|+|++|+||||+++.+++.+...+....++..+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d~   40 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTH   40 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEecccc
Confidence            467899999999999999999999876666555554443

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=0.00011  Score=60.66  Aligned_cols=43  Identities=19%  Similarity=0.416  Sum_probs=32.7

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      +++++++||.-. |.......+.+.+.+...+..+|++|+....
T Consensus       157 ~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~~  200 (241)
T d2pmka1         157 NPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLST  200 (241)
T ss_dssp             CCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGGG
T ss_pred             ccchhhhhCCccccCHHHHHHHHHHHHHHhCCCEEEEEECCHHH
Confidence            678999999754 5667777788888877666678888876653

>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=97.44  E-value=4.3e-05  Score=59.54  Aligned_cols=24  Identities=38%  Similarity=0.654  Sum_probs=22.5

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      |.++|.|+||+||||+++.+++.+
T Consensus         2 p~IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHh
Confidence            668888999999999999999998

>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=97.43  E-value=0.00029  Score=56.63  Aligned_cols=91  Identities=21%  Similarity=0.199  Sum_probs=51.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccC-------------------
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFG-------------------  137 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~-------------------  137 (364)
                      ++|.||+|+||||++-.+|..+...+..  +.-+++... ....+ +.+..++......+.                   
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~k--V~lit~Dt~-R~gA~-eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~   88 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRR--PLLVAADTQ-RPAAR-EQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA   88 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCC--EEEEECCSS-CHHHH-HHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCc--EEEEecccc-cchHH-HHHHHHHHhcCCccccccccchhhHHHHHHHHHH
Confidence            6889999999999999999887655544  333333332 22222 223333322111000                   


Q ss_pred             CccceEEEEEeCCCCCC--HHHHHHHHHHHHHhccC
Q 017884          138 VKASVKLVLLDEADAMT--KDAQFALRRVIEKYTKN  171 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~--~~~~~~L~~~le~~~~~  171 (364)
                      ......+|+||=+.+..  ......|.++.+...+.
T Consensus        89 ~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~  124 (207)
T d1ls1a2          89 RLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPD  124 (207)
T ss_dssp             HHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCS
T ss_pred             hhccCcceeecccccchhhhhhHHHHHHHHhhcCCc
Confidence            01145789999887664  34556666666654433

>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=97.38  E-value=3.9e-05  Score=60.64  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=21.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||||+||||++++|++.+
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999997

>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=97.38  E-value=4.4e-05  Score=59.69  Aligned_cols=24  Identities=46%  Similarity=0.686  Sum_probs=22.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      -+++|.||||+||||+++.|++.+
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999986

>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=97.37  E-value=4.1e-05  Score=59.73  Aligned_cols=22  Identities=36%  Similarity=0.688  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||+|+.|++.+
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999986

>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=97.35  E-value=4.5e-05  Score=59.92  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=22.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQ  102 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~  102 (364)
                      ++|+|+||+||||++++|++.|...+
T Consensus         9 I~l~G~~GsGKTTia~~La~~L~~~~   34 (183)
T d1m8pa3           9 IFLTGYMNSGKDAIARALQVTLNQQG   34 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            68999999999999999999985443

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.34  E-value=9.4e-05  Score=59.76  Aligned_cols=29  Identities=28%  Similarity=0.355  Sum_probs=24.1

Q ss_pred             Cc-EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           75 PH-LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        75 ~~-lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      |. ++++|.||+||||+|++|++.+...+.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~~   31 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIGV   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            44 699999999999999999998854443

>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=97.21  E-value=0.00011  Score=56.90  Aligned_cols=23  Identities=30%  Similarity=0.550  Sum_probs=21.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++|.|+||+||||+++.+++.+
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            47888999999999999999998

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.21  E-value=0.00037  Score=57.95  Aligned_cols=42  Identities=19%  Similarity=0.434  Sum_probs=31.4

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ++.++++||.-. |.......+.+.+.+...+..+|++|+...
T Consensus       170 ~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  212 (253)
T d3b60a1         170 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS  212 (253)
T ss_dssp             CCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGG
T ss_pred             CCCEEEeccccccCCHHHHHHHHHHHHHhccCCEEEEEECCHH
Confidence            578999999744 456677778888887666667788887654

>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=97.20  E-value=9.1e-05  Score=57.85  Aligned_cols=22  Identities=23%  Similarity=0.468  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|+|+||+||||+|++|++.+
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999997

>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=97.17  E-value=0.0034  Score=51.06  Aligned_cols=50  Identities=14%  Similarity=0.126  Sum_probs=39.4

Q ss_pred             CcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      |..-..|..+...+...+..+...+.||+|.+|+|||.++-..+......
T Consensus        54 ~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~  103 (233)
T d2eyqa3          54 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDN  103 (233)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTT
T ss_pred             cccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHc
Confidence            44455677888888888888877778999999999999987777665443

>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=97.16  E-value=8.9e-05  Score=57.92  Aligned_cols=22  Identities=45%  Similarity=0.643  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||+++.+++.+
T Consensus         7 I~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998875

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=97.13  E-value=0.00031  Score=58.44  Aligned_cols=43  Identities=12%  Similarity=0.373  Sum_probs=32.4

Q ss_pred             ceEEEEEeCCCC-CCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          141 SVKLVLLDEADA-MTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       141 ~~~viiiDe~~~-l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                      ++.++++||.-. |.......+.+.+.....+..+|++|+....
T Consensus       172 ~p~ililDEpts~LD~~t~~~i~~~l~~l~~~~TvI~itH~~~~  215 (255)
T d2hyda1         172 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLST  215 (255)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            578999999744 4567778888888877666667888876653

>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=97.10  E-value=9.8e-05  Score=59.01  Aligned_cols=23  Identities=26%  Similarity=0.613  Sum_probs=21.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||||+||||+++.|++.+
T Consensus         8 iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           8 VVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37999999999999999999987

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.07  E-value=0.00025  Score=55.79  Aligned_cols=31  Identities=19%  Similarity=0.323  Sum_probs=26.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcE
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMI  107 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~  107 (364)
                      ++|.|+||+||||+++.+++.+...+....+
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~   34 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLRKEGVNYKM   34 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCeEE
Confidence            7999999999999999999998766554433

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=97.07  E-value=0.00082  Score=59.94  Aligned_cols=92  Identities=18%  Similarity=0.266  Sum_probs=60.6

Q ss_pred             CCCcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC-------------
Q 017884           50 QSLADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-------------  116 (364)
Q Consensus        50 ~~~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-------------  116 (364)
                      .+++++-..+.....++.++.... .-++|.||+|+||||+...+.+.+.....  +++.+..+.+.             
T Consensus       135 ~~l~~LG~~~~~~~~l~~l~~~~~-GliLvtGpTGSGKSTTl~~~l~~~~~~~~--~i~tiEdPiE~~~~~~~q~~v~~~  211 (401)
T d1p9ra_         135 LDLHSLGMTAHNHDNFRRLIKRPH-GIILVTGPTGSGKSTTLYAGLQELNSSER--NILTVEDPIEFDIDGIGQTQVNPR  211 (401)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHTSSS-EEEEEECSTTSCHHHHHHHHHHHHCCTTS--CEEEEESSCCSCCSSSEEEECBGG
T ss_pred             hhhhhhcccHHHHHHHHHHHhhhh-ceEEEEcCCCCCccHHHHHHhhhhcCCCc--eEEEeccCcccccCCCCeeeecCC
Confidence            467788778888888888876542 23799999999999999999999865432  33333221110             


Q ss_pred             ChHHHHHHHHHHHhcCccccCCccceEEEEEeCCCCC
Q 017884          117 GIDVVRQQIQDFASTQSFSFGVKASVKLVLLDEADAM  153 (364)
Q Consensus       117 ~~~~~~~~i~~~~~~~~~~~~~~~~~~viiiDe~~~l  153 (364)
                      ....+...+..+...         ++.+|+|.|+-..
T Consensus       212 ~~~~~~~~l~~~lR~---------dPDvi~igEiRd~  239 (401)
T d1p9ra_         212 VDMTFARGLRAILRQ---------DPDVVMVGEIRDL  239 (401)
T ss_dssp             GTBCHHHHHHHHGGG---------CCSEEEESCCCSH
T ss_pred             cCCCHHHHHHHHHhh---------cCCEEEecCcCCh
Confidence            011234444444433         5789999998554

>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=97.07  E-value=0.00015  Score=57.64  Aligned_cols=24  Identities=21%  Similarity=0.433  Sum_probs=22.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..++|.||||+||||+++.|++.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            358999999999999999999997

>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=97.04  E-value=0.001  Score=52.92  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=17.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.++++|+|+|||.++..++..
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~~   46 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAEY   46 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHHH
Confidence            4889999999999876666543

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.01  E-value=0.0005  Score=56.09  Aligned_cols=42  Identities=12%  Similarity=0.337  Sum_probs=31.5

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||. -.|.+.....+++++.+...  ++.+|++|+...
T Consensus       163 ~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~  207 (230)
T d1l2ta_         163 NPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDIN  207 (230)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHH
T ss_pred             CCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHH
Confidence            6889999996 45567778888888887642  566888887653

>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=96.99  E-value=0.0014  Score=56.53  Aligned_cols=39  Identities=18%  Similarity=0.313  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           59 RDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        59 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.....|..++..+  .+++++|++|+||||++++++..+.
T Consensus       153 ~~~~~~l~~~v~~~--~nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         153 EQAISAIKDGIAIG--KNVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             HHHHHHHHHHHHHT--CCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHHHHhC--CCEEEEeeccccchHHHHHHhhhcc
Confidence            45666777778777  4599999999999999999998774

>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=96.97  E-value=0.00045  Score=55.66  Aligned_cols=40  Identities=20%  Similarity=0.277  Sum_probs=29.3

Q ss_pred             hccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           56 AAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        56 vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      --++...+.+..++.+   .+.++.+|+|+|||.++-.++..+
T Consensus        70 ~Lr~yQ~eav~~~~~~---~~~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          70 SLRDYQEKALERWLVD---KRGCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             CCCHHHHHHHHHHTTT---SEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CcCHHHHHHHHHHHhC---CCcEEEeCCCCCceehHHhHHHHh
Confidence            3455566666666544   346788999999999988888776

>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=96.95  E-value=0.00056  Score=54.18  Aligned_cols=29  Identities=21%  Similarity=0.173  Sum_probs=23.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      +-|.||+|+||||+|+.|+..+...+...
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~~~~~~   53 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLREQGISV   53 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhccccccc
Confidence            46999999999999999999876554433

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.95  E-value=0.00062  Score=56.46  Aligned_cols=42  Identities=17%  Similarity=0.370  Sum_probs=29.9

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++|+++||. ..|.......+.+.+.+...  +..+|++|+...
T Consensus       169 ~p~ililDEpTs~LD~~~~~~i~~~l~~l~~~~~~Tvi~itH~l~  213 (251)
T d1jj7a_         169 KPCVLILDDATSALDANSQLQVEQLLYESPERYSRSVLLITQHLS  213 (251)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHTCGGGGGCEEEEECSCHH
T ss_pred             CCcEEEecCcCcccChhhHHHHHHHHHHHhhhcCCEEEEEeCCHH
Confidence            6789999996 44556677788888876543  455777886653

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.94  E-value=0.00019  Score=57.29  Aligned_cols=24  Identities=21%  Similarity=0.498  Sum_probs=21.8

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|.||||+||||+|+.|++.+
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            347999999999999999999986

>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=96.94  E-value=0.00033  Score=54.98  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||+++.|++.+
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            7899999999999999999997

>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=96.94  E-value=0.00026  Score=58.49  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|.||+|+||||+++.++..+.
T Consensus        31 vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          31 IAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHHHhhC
Confidence            79999999999999999987653

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.92  E-value=0.0022  Score=53.43  Aligned_cols=34  Identities=26%  Similarity=0.355  Sum_probs=25.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      ..|+||||+|||+++..++.....++.  .+++++.
T Consensus        57 tei~G~~gsGKTtl~l~~~~~~q~~g~--~~vyidt   90 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIAAAQREGK--TCAFIDA   90 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTC--CEEEEES
T ss_pred             EEEecCCCcHHHHHHHHHHHHHHcCCC--EEEEEcc
Confidence            699999999999999999888765543  3344443

>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=96.88  E-value=0.00036  Score=55.04  Aligned_cols=29  Identities=28%  Similarity=0.421  Sum_probs=24.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      ++|.|++|+||||+++.+++.+...+...
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~~~~~~   32 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDNQGINN   32 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHTTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCE
Confidence            58899999999999999999997655443

>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=96.87  E-value=0.00033  Score=55.12  Aligned_cols=22  Identities=50%  Similarity=0.930  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||+++.|++.+
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6889999999999999999997

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=0.00027  Score=56.31  Aligned_cols=23  Identities=26%  Similarity=0.544  Sum_probs=21.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||||+||||.|+.+++.+
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            37999999999999999999987

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.85  E-value=0.00043  Score=54.89  Aligned_cols=22  Identities=36%  Similarity=0.757  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||.++.|++.+
T Consensus         6 iil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7889999999999999999987

>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=96.82  E-value=0.0025  Score=48.90  Aligned_cols=21  Identities=24%  Similarity=0.407  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988864

>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=96.80  E-value=0.00034  Score=55.07  Aligned_cols=22  Identities=32%  Similarity=0.593  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||+++.|++.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999998

>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=96.80  E-value=0.0014  Score=53.62  Aligned_cols=42  Identities=17%  Similarity=0.269  Sum_probs=30.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhc--cCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~--~~~~~Il~~~~~~  182 (364)
                      +++++++||. -.+.+.....+++++.+..  .+..+|++|+...
T Consensus       154 ~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~~  198 (239)
T d1v43a3         154 EPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQV  198 (239)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             CCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHH
Confidence            6889999995 5566777777777777653  2566888886554

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00057  Score=55.43  Aligned_cols=24  Identities=38%  Similarity=0.625  Sum_probs=22.0

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      |-+.+.||||+||+|.++.|++.+
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            447888999999999999999997

>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=96.76  E-value=0.0004  Score=54.62  Aligned_cols=22  Identities=32%  Similarity=0.764  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||+++.|+..+
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7888999999999999999997

>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=96.75  E-value=0.00043  Score=54.94  Aligned_cols=25  Identities=24%  Similarity=0.531  Sum_probs=22.1

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .-.++|.||||+||||+++.|++.+
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3458889999999999999999986

>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=96.75  E-value=0.003  Score=50.33  Aligned_cols=39  Identities=15%  Similarity=0.215  Sum_probs=27.6

Q ss_pred             ceEEEEEeCCCCCCHH----HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD----AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~----~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      ...+|++||+|.+...    ..+.++..+...+.++++|+.|.
T Consensus       138 ~~~~ii~DE~h~~~~~~r~~~~~~~l~~i~~~~~~~~~l~lSA  180 (202)
T d2p6ra3         138 AVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSA  180 (202)
T ss_dssp             GCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEEC
T ss_pred             hhhhccccHHHHhcccccchHHHHHHHHHHhcCCCCcEEEEcC
Confidence            4679999999988532    34556666777777777777653

>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=96.74  E-value=0.0018  Score=52.68  Aligned_cols=42  Identities=14%  Similarity=0.232  Sum_probs=28.7

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhc--cCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~--~~~~~Il~~~~~~  182 (364)
                      +++++++||. -.|.+.....++..+.+..  ....+|++|+...
T Consensus       148 ~P~illlDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~  192 (232)
T d2awna2         148 EPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQV  192 (232)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            6789999995 4555666777777766542  3556788886554

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.73  E-value=0.00056  Score=54.43  Aligned_cols=24  Identities=25%  Similarity=0.517  Sum_probs=21.7

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.++|.||||+||||.++.|++.+
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            347999999999999999999985

>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=96.70  E-value=0.00085  Score=54.57  Aligned_cols=42  Identities=21%  Similarity=0.284  Sum_probs=30.4

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhc--cCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~--~~~~~Il~~~~~~  182 (364)
                      +++++++||. -.|.+.....+.+++.+..  ....+|++|+...
T Consensus       145 ~P~iLllDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vtHd~~  189 (229)
T d3d31a2         145 NPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQT  189 (229)
T ss_dssp             CCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCHH
T ss_pred             cCCceeecCCCcCCCHHHHHHHHHHHHHHHhcCCcEEEEEcCCHH
Confidence            6889999995 5566777777888777653  2456788886554

>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=96.67  E-value=0.00043  Score=54.30  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||||+||||.++.|++.+
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6889999999999999999997

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.65  E-value=0.00069  Score=52.29  Aligned_cols=36  Identities=11%  Similarity=0.063  Sum_probs=29.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      +.+.|++|+||||++..+++.+...+....++..+.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~d~   39 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHG   39 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEecc
Confidence            569999999999999999999977766655555443

>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=96.65  E-value=0.0026  Score=51.26  Aligned_cols=40  Identities=23%  Similarity=0.380  Sum_probs=29.7

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      .-+.+++||+|.+... ..+.+.++++..+.++.+++.|..
T Consensus       151 ~l~~lVlDEad~lld~~f~~~v~~I~~~~~~~~Q~vl~SAT  191 (212)
T d1qdea_         151 KIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSAT  191 (212)
T ss_dssp             TCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESS
T ss_pred             cceEEeehhhhhhcccchHHHHHHHHHhCCCCCeEEEEEee
Confidence            4779999999988653 356677777777777777777643

>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=96.64  E-value=0.0029  Score=50.63  Aligned_cols=39  Identities=18%  Similarity=0.290  Sum_probs=28.6

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      .-+.+++||+|.|... -...+..+++..+..+.+++++.
T Consensus       143 ~l~~lV~DEaD~l~~~~f~~~v~~I~~~l~~~~Q~il~SA  182 (206)
T d1s2ma1         143 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSA  182 (206)
T ss_dssp             TCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEES
T ss_pred             cceEEEeechhhhhhhhhHHHHHHHHHhCCCCCEEEEEEE
Confidence            3668999999999754 45667777777777777777664

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.64  E-value=0.0062  Score=50.66  Aligned_cols=35  Identities=29%  Similarity=0.385  Sum_probs=26.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNAS  113 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~  113 (364)
                      ..|+||+|+|||+++..++......+  ..+++++..
T Consensus        60 tei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE   94 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAE   94 (268)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESS
T ss_pred             EEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECC
Confidence            69999999999999999988875443  334555543

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.63  E-value=0.00078  Score=55.40  Aligned_cols=39  Identities=21%  Similarity=0.314  Sum_probs=29.0

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      |.+.+.+|-.+.  ++|+||||+|||+++..++......+.
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~   55 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKE   55 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTC
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcc
Confidence            444555553333  699999999999999999998765443

>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=96.60  E-value=0.0017  Score=53.46  Aligned_cols=50  Identities=16%  Similarity=0.248  Sum_probs=32.5

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCC----CCCCcEEEEeCCC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASD  114 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~  114 (364)
                      |..++.+|-++.  ++|+||||+|||+++..++......    +....++.+....
T Consensus        25 LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~   80 (254)
T d1pzna2          25 LDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   80 (254)
T ss_dssp             HHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             HHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccc
Confidence            444455554333  6999999999999999998876432    2233445554443

>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=96.60  E-value=0.0014  Score=53.65  Aligned_cols=42  Identities=12%  Similarity=0.226  Sum_probs=30.3

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhc--cCccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYT--KNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~--~~~~~Il~~~~~~  182 (364)
                      +++++++||. -.+.+.....+++.+.+..  ....+|++|+...
T Consensus       157 ~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~  201 (240)
T d1g2912         157 KPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQV  201 (240)
T ss_dssp             CCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHH
T ss_pred             CCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHH
Confidence            6889999996 4556677777777777653  2566888887654

>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=96.58  E-value=0.001  Score=53.60  Aligned_cols=34  Identities=18%  Similarity=0.244  Sum_probs=25.9

Q ss_pred             HHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           66 DRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        66 ~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +....+.+...++|+|.||+||||+++.|++.+.
T Consensus        16 r~~~~~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          16 RTELRNQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             HHHHHTSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4444444433379999999999999999998763

>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=96.56  E-value=0.0059  Score=46.33  Aligned_cols=42  Identities=12%  Similarity=0.180  Sum_probs=28.7

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccc
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  182 (364)
                      ...++++|.-+.........+...+........+|++.|..+
T Consensus        82 d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~D  123 (161)
T d2gj8a1          82 DRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKAD  123 (161)
T ss_dssp             SEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHH
T ss_pred             cccceeeccccccchhhhhhhhhhhhhcccccceeeccchhh
Confidence            356777777666655555556667777666777888888655

>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=96.55  E-value=0.0086  Score=45.94  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||++++.+...-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6899999999999999998653

>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=96.55  E-value=0.0013  Score=53.86  Aligned_cols=42  Identities=17%  Similarity=0.229  Sum_probs=30.1

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc--CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK--NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~--~~~~Il~~~~~~  182 (364)
                      +++++++||. -.+.+.....+++.+.+...  ...+|++|++..
T Consensus       144 ~P~illlDEPts~LD~~~~~~i~~~i~~l~~~~g~tvi~vtHd~~  188 (240)
T d2onka1         144 QPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDLI  188 (240)
T ss_dssp             CCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCHH
T ss_pred             cCCceEecCccccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHH
Confidence            6889999995 55667777778777766532  556778886544

>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=96.49  E-value=0.0032  Score=50.93  Aligned_cols=41  Identities=27%  Similarity=0.426  Sum_probs=30.6

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEeecc
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      .-+.+|+||+|.+... -.+.+..+++..+.+..+++++...
T Consensus       155 ~l~~lVlDEaD~ll~~~f~~~~~~Il~~~~~~~Q~il~SAT~  196 (218)
T d2g9na1         155 YIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATM  196 (218)
T ss_dssp             TCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESCC
T ss_pred             cceEEEeeecchhhcCchHHHHHHHHHhCCCCCeEEEEEecC
Confidence            4779999999998654 3566777777777778888877543

>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=96.48  E-value=0.001  Score=53.85  Aligned_cols=22  Identities=23%  Similarity=0.573  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.+.||||+||||.|+.|++.+
T Consensus         6 IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4577999999999999999998

>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=96.44  E-value=0.011  Score=47.16  Aligned_cols=39  Identities=28%  Similarity=0.427  Sum_probs=28.2

Q ss_pred             ceEEEEEeCCCCCC-HHHHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMT-KDAQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~-~~~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      .-+.++|||+|.+. ......+.++++..+.++.+++.+.
T Consensus       145 ~l~~lViDEad~l~~~~~~~~i~~I~~~~~~~~Q~i~~SA  184 (208)
T d1hv8a1         145 NVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSA  184 (208)
T ss_dssp             SCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECS
T ss_pred             cCcEEEEEChHHhhcCCChHHHHHHHHhCCCCCeEEEEEc
Confidence            36799999999764 3344567777777777777777764

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.42  E-value=0.0045  Score=49.48  Aligned_cols=39  Identities=15%  Similarity=0.324  Sum_probs=28.7

Q ss_pred             ceEEEEEeCCCCCCHHH-HHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKDA-QFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      +-+.++|||+|.+.... .+.+..++...+.+..+++.|.
T Consensus       147 ~l~~lViDEad~ll~~~f~~~v~~I~~~~~~~~Q~il~SA  186 (209)
T d1q0ua_         147 TAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSA  186 (209)
T ss_dssp             GCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEES
T ss_pred             cceEEEEeecccccccccHHHHHHHHHHCCCCCEEEEEEc
Confidence            47799999999997542 4556666777677777777764

>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=96.42  E-value=0.013  Score=44.59  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++++...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999999865

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.41  E-value=0.0023  Score=53.84  Aligned_cols=24  Identities=33%  Similarity=0.537  Sum_probs=21.1

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+.|.||+|+||||+++.++..+.
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCChHHHHHHHHhCCCc
Confidence            378999999999999999988653

>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=96.39  E-value=0.0076  Score=46.33  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|++|+|||++++.+...
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999999874

>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=96.39  E-value=0.011  Score=44.95  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|.+|+|||++++.+...
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            688999999999999998864

>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=96.37  E-value=0.016  Score=44.19  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988753

>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=96.36  E-value=0.0082  Score=46.27  Aligned_cols=21  Identities=29%  Similarity=0.600  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998764

>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=96.34  E-value=0.0025  Score=54.85  Aligned_cols=40  Identities=23%  Similarity=0.356  Sum_probs=33.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCC
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDD  115 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~  115 (364)
                      .+-|+||||+||||++.++++.+...+....++.++.+..
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~   95 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSP   95 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCcee
Confidence            3799999999999999999999887777777888876654

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.32  E-value=0.0011  Score=52.40  Aligned_cols=23  Identities=26%  Similarity=0.580  Sum_probs=21.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|+||+|+|||++++.+++..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            38999999999999999999985

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.31  E-value=0.02  Score=47.42  Aligned_cols=68  Identities=18%  Similarity=0.300  Sum_probs=42.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC---------------------ChHHHHHHHHHHHhcCccc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR---------------------GIDVVRQQIQDFASTQSFS  135 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~i~~~~~~~~~~  135 (364)
                      ..|+||+|+|||+++..++......+  ..+++++.....                     ..+.+.+.++.....    
T Consensus        63 ~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~~----  136 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRS----  136 (269)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHT----
T ss_pred             EEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHhc----
Confidence            69999999999999988877654433  234555543321                     123333333332221    


Q ss_pred             cCCccceEEEEEeCCCCCC
Q 017884          136 FGVKASVKLVLLDEADAMT  154 (364)
Q Consensus       136 ~~~~~~~~viiiDe~~~l~  154 (364)
                          ...++||||-+..+.
T Consensus       137 ----~~~~liIiDSi~al~  151 (269)
T d1mo6a1         137 ----GALDIVVIDSVAALV  151 (269)
T ss_dssp             ----TCEEEEEEECSTTCC
T ss_pred             ----CCCCEEEEecccccc
Confidence                247899999998886

>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=96.30  E-value=0.03  Score=42.68  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999998764

>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=96.29  E-value=0.0013  Score=52.84  Aligned_cols=37  Identities=22%  Similarity=0.167  Sum_probs=27.1

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      |...+.+|-.+.  ++|+||||+|||+++..++......
T Consensus        12 LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          12 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             HHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            344455553333  6999999999999999998876543

>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=96.29  E-value=0.05  Score=41.17  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++.++...-
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999998753

>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=96.29  E-value=0.0026  Score=54.68  Aligned_cols=38  Identities=32%  Similarity=0.427  Sum_probs=32.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASD  114 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~  114 (364)
                      +-|.||||+||||++.++.+.+...+....++.++.+.
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            79999999999999999999887777777777777654

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.28  E-value=0.0012  Score=52.30  Aligned_cols=22  Identities=27%  Similarity=0.600  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+|||++++.+++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8899999999999999999986

>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=96.28  E-value=0.0095  Score=47.52  Aligned_cols=41  Identities=17%  Similarity=0.353  Sum_probs=29.7

Q ss_pred             ceEEEEEeCCCCCCH--HHHHHHHHHHHHhccCccEEEEeecc
Q 017884          141 SVKLVLLDEADAMTK--DAQFALRRVIEKYTKNTRFALICNQV  181 (364)
Q Consensus       141 ~~~viiiDe~~~l~~--~~~~~L~~~le~~~~~~~~Il~~~~~  181 (364)
                      .-+.+++||+|.|..  ...+.+..+++..+....+++.+...
T Consensus       145 ~l~~lVlDEaD~ll~~~~~~~~i~~I~~~~~~~~Q~il~SAT~  187 (207)
T d1t6na_         145 HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL  187 (207)
T ss_dssp             TCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESCC
T ss_pred             ccceeehhhhhhhhhcCCcHHHHHHHHHhCCCCCEEEEEeeeC
Confidence            467999999998753  45566777777777777777766433

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.27  E-value=0.0041  Score=50.86  Aligned_cols=42  Identities=12%  Similarity=0.272  Sum_probs=30.0

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhccC-ccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTKN-TRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~~-~~~Il~~~~~~  182 (364)
                      .++++++||. ..|.+.....+.+++.+.... ..+|++|+..+
T Consensus       151 ~p~illLDEPt~gLD~~~~~~i~~~i~~~~~~g~tii~~tH~l~  194 (238)
T d1vpla_         151 NPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNML  194 (238)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHH
T ss_pred             CCCEEEecCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            6889999995 556677777788888775433 45677776544

>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=96.26  E-value=0.0068  Score=49.68  Aligned_cols=36  Identities=19%  Similarity=0.093  Sum_probs=26.9

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      |..++.+|-++.  ++|+||||+|||+++..++.....
T Consensus        26 LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~   63 (258)
T d1v5wa_          26 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQL   63 (258)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTS
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            444455554444  699999999999999999987543

>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=96.23  E-value=0.012  Score=46.83  Aligned_cols=39  Identities=26%  Similarity=0.388  Sum_probs=28.1

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      .-+.+|+||+|.|... ....+..+++..+.+..+++.|.
T Consensus       146 ~l~~lVlDEaD~ll~~~f~~~i~~I~~~~~~~~Q~~l~SA  185 (206)
T d1veca_         146 HVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSA  185 (206)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEES
T ss_pred             ccceEEEeccccccccchHHHHHHHHHhCCCCCEEEEEEe
Confidence            4679999999988643 35566677777777777777663

>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=96.21  E-value=0.021  Score=47.44  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|+||+|||+++..++..+
T Consensus        38 ~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHhh
Confidence            6999999999999999998764

>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=96.20  E-value=0.025  Score=42.32  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+|||++++.+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998763

>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=96.19  E-value=0.1  Score=39.55  Aligned_cols=21  Identities=29%  Similarity=0.605  Sum_probs=18.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.+.|++|+|||++++++...
T Consensus         3 V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999999743

>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=96.17  E-value=0.0054  Score=49.63  Aligned_cols=39  Identities=28%  Similarity=0.390  Sum_probs=29.0

Q ss_pred             ceEEEEEeCCCCCCHH-HHHHHHHHHHHhccCccEEEEee
Q 017884          141 SVKLVLLDEADAMTKD-AQFALRRVIEKYTKNTRFALICN  179 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~Il~~~  179 (364)
                      .-+.+|+||+|.|... ....+..+++..+....+++.+.
T Consensus       159 ~l~~lVlDEaD~ll~~~f~~~i~~I~~~l~~~~Q~ilfSA  198 (222)
T d2j0sa1         159 AIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISA  198 (222)
T ss_dssp             TCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEES
T ss_pred             cceeeeecchhHhhhcCcHHHHHHHHHhCCCCCEEEEEEE
Confidence            4679999999988643 45667777777777777777764

>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=96.10  E-value=0.036  Score=43.60  Aligned_cols=23  Identities=30%  Similarity=0.663  Sum_probs=21.1

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      |.++|.|+||+|||+++.++...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999999875

>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=96.07  E-value=0.013  Score=46.43  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=20.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++|.|++|+|||++..++...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999875

>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=96.07  E-value=0.0017  Score=50.95  Aligned_cols=22  Identities=23%  Similarity=0.638  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+||||+++.+.+..
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7999999999999999998885

>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=96.05  E-value=0.011  Score=45.46  Aligned_cols=21  Identities=29%  Similarity=0.588  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++.+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=96.03  E-value=0.03  Score=42.82  Aligned_cols=33  Identities=21%  Similarity=0.345  Sum_probs=23.8

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHH
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+..++.+.. -.++|.|.+|+|||+++.++...
T Consensus         6 ~~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           6 RIWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            3444444332 24899999999999999988653

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.02  E-value=0.0014  Score=53.70  Aligned_cols=51  Identities=18%  Similarity=0.106  Sum_probs=31.7

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHcCC----CCCCcEEEEeCCCC
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLYGA----QYHNMILELNASDD  115 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~~  115 (364)
                      |...+.+|-++.  ++|+||||+|||+++..++......    .....++.++....
T Consensus        23 LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~   79 (251)
T d1szpa2          23 LDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGT   79 (251)
T ss_dssp             HHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSC
T ss_pred             HHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecch
Confidence            444455543333  7999999999999999887653221    12334555555443

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.02  E-value=0.0025  Score=52.25  Aligned_cols=42  Identities=21%  Similarity=0.231  Sum_probs=31.5

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      +++++++||. ..+.+.....+++++.+... ...+|++++...
T Consensus       157 ~P~lLllDEPt~gLD~~~~~~i~~~i~~l~~~g~til~~tH~l~  200 (240)
T d1ji0a_         157 RPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNAL  200 (240)
T ss_dssp             CCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCHH
T ss_pred             CCCEeeecCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            6889999995 56677888888888887644 355777776554

>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=95.98  E-value=0.0071  Score=46.52  Aligned_cols=21  Identities=38%  Similarity=0.471  Sum_probs=17.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++.++...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999888664

>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=95.94  E-value=0.0051  Score=50.06  Aligned_cols=42  Identities=21%  Similarity=0.393  Sum_probs=28.8

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      .++++++||. ..|....+..+.+++.+... ...+|++++...
T Consensus       150 ~p~llllDEPt~gLD~~~~~~i~~~i~~l~~~g~tii~vtHdl~  193 (231)
T d1l7vc_         150 AGQLLLLDEPMNSLDVAQQSALDKILSALCQQGLAIVMSSHDLN  193 (231)
T ss_dssp             TCCEEEESSCSTTCCHHHHHHHHHHHHHHHHTTCEEEECCCCHH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            3589999995 55566777778888877543 444667776544

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.90  E-value=0.033  Score=42.43  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            799999999999999998865

>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=95.88  E-value=0.049  Score=41.24  Aligned_cols=22  Identities=23%  Similarity=0.533  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|.+|+|||++++.+...-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7999999999999999998754

>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=95.85  E-value=0.013  Score=45.11  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|.+|+|||++++.+...-
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999987643

>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=95.83  E-value=0.014  Score=48.15  Aligned_cols=44  Identities=11%  Similarity=0.286  Sum_probs=31.1

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccccC
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVNKI  184 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~~l  184 (364)
                      +++++++||. ..+.......+++.+.+... .+.+|++++..+.+
T Consensus       168 ~P~llilDEPt~gLD~~~~~~i~~~i~~l~~~g~til~vsHdl~~~  213 (254)
T d1g6ha_         168 NPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIV  213 (254)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCSTT
T ss_pred             CcCchhhcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCcHHHH
Confidence            6889999995 45667777777777776543 45677787666543

>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=95.83  E-value=0.025  Score=43.18  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++.+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998764

>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=95.82  E-value=0.03  Score=42.58  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|.+|+|||++++.+...-
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999998653

>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=95.82  E-value=0.0042  Score=48.21  Aligned_cols=23  Identities=22%  Similarity=0.496  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +++.|++|+|||+++..+...-.
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~f   27 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQF   27 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCC
Confidence            78899999999999999887643

>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=95.81  E-value=0.019  Score=43.53  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+|||+++..+...-
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            7889999999999999997653

>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=95.81  E-value=0.0095  Score=49.56  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+|+|++|+|||+++..++..+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            69999999999999999988764

>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=95.80  E-value=0.026  Score=42.92  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|.+|+|||+++..+...-
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6899999999999999988643

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.77  E-value=0.034  Score=42.76  Aligned_cols=101  Identities=11%  Similarity=0.188  Sum_probs=52.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc---CCCC--------------CCcEEEEeCCCCC-ChHHHHHHHHHH-HhcCccccC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY---GAQY--------------HNMILELNASDDR-GIDVVRQQIQDF-ASTQSFSFG  137 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~---~~~~--------------~~~~~~~~~~~~~-~~~~~~~~i~~~-~~~~~~~~~  137 (364)
                      +.|.|.+|+|||++++++...-.   ....              ...+..++..... ........+... ...    +.
T Consensus         8 I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~----~~   83 (178)
T d1wf3a1           8 VAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEA----LA   83 (178)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHH----TS
T ss_pred             EEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeecccccccccccccchhcccccccc----cc
Confidence            79999999999999999975411   0000              0112222322211 111111212111 111    11


Q ss_pred             CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeecccc
Q 017884          138 VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNK  183 (364)
Q Consensus       138 ~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  183 (364)
                       ..+.-++++|--+..... ...+.+.+.....+..+|++.|..+.
T Consensus        84 -~ad~il~v~D~~~~~~~~-~~~i~~~l~~~~~~~piilv~NK~Dl  127 (178)
T d1wf3a1          84 -DVNAVVWVVDLRHPPTPE-DELVARALKPLVGKVPILLVGNKLDA  127 (178)
T ss_dssp             -SCSEEEEEEETTSCCCHH-HHHHHHHHGGGTTTSCEEEEEECGGG
T ss_pred             -cccceeeeechhhhhccc-ccchhhheeccccchhhhhhhccccc
Confidence             113556777765555433 35566677666566778888886654

>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=95.76  E-value=0.0046  Score=49.45  Aligned_cols=30  Identities=27%  Similarity=0.371  Sum_probs=25.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNM  106 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~  106 (364)
                      +.|.|++|+||||+++.+++.+...+....
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L~~~g~~~~   34 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETLEQLGIRDM   34 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCCeE
Confidence            688999999999999999999876655433

>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=95.73  E-value=0.04  Score=41.88  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            689999999999999988653

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.72  E-value=0.0034  Score=50.37  Aligned_cols=29  Identities=21%  Similarity=0.271  Sum_probs=24.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHN  105 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~  105 (364)
                      +.|.|+.|+||||.++.+++.+.+.+...
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L~~~g~~v   34 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEALCAAGHRA   34 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcE
Confidence            67889999999999999999987665544

>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=95.72  E-value=0.026  Score=43.27  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|.+|+|||+++..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=95.70  E-value=0.0031  Score=49.26  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|.||+|+||+++++.+.+..
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999998874

>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=95.67  E-value=0.006  Score=50.47  Aligned_cols=42  Identities=12%  Similarity=0.344  Sum_probs=28.7

Q ss_pred             ceEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-CccEEEEeeccc
Q 017884          141 SVKLVLLDEA-DAMTKDAQFALRRVIEKYTK-NTRFALICNQVN  182 (364)
Q Consensus       141 ~~~viiiDe~-~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~~  182 (364)
                      .++++++||. -.+....+..+++++.+... ...+|++|....
T Consensus       167 ~P~llilDEPT~gLD~~~~~~i~~ll~~l~~~g~til~vtHdl~  210 (258)
T d1b0ua_         167 EPDVLLFDEPTSALDPELVGEVLRIMQQLAEEGKTMVVVTHEMG  210 (258)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEECSCHH
T ss_pred             CCCEEEeccccccCCHHHHHHHHHhhhhhcccCCceEEEeCCHH
Confidence            6889999996 44556677777777766543 345777876554

>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=95.66  E-value=0.019  Score=44.56  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|.+|+|||++++.+...-
T Consensus         8 ivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999988753

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.62  E-value=0.0033  Score=50.25  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.||+|+|||++.+.+....
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7999999999999999999885

>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=95.56  E-value=0.0034  Score=50.39  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +-|.|++|+||||+++.++..+..
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhch
Confidence            469999999999999999998743

>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=95.55  E-value=0.018  Score=44.09  Aligned_cols=21  Identities=24%  Similarity=0.485  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|.+|+|||++++.+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            799999999999999998764

>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=95.54  E-value=0.0075  Score=45.65  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=22.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      ++|.|+=|+|||++++.+++.+..
T Consensus        36 i~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          36 VYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEecCCCccHHHHHHHHHhhccc
Confidence            789999999999999999999854

>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=95.48  E-value=0.01  Score=48.24  Aligned_cols=35  Identities=20%  Similarity=0.212  Sum_probs=26.2

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHHHc
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      |...+.+|-.+.  ++|+|+||+|||+++..++..+.
T Consensus        23 LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          23 LDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             HHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            444455543333  69999999999999999998764

>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=95.45  E-value=0.024  Score=44.43  Aligned_cols=21  Identities=38%  Similarity=0.662  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999998864

>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=95.44  E-value=0.058  Score=40.92  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||++++.+...-
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999998753

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.40  E-value=0.018  Score=48.71  Aligned_cols=25  Identities=20%  Similarity=0.212  Sum_probs=22.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      +.|.|++|+||||+++.+...+...
T Consensus        83 IGIaG~sgSGKSTla~~L~~lL~~~  107 (308)
T d1sq5a_          83 ISIAGSVAVGKSTTARVLQALLSRW  107 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTTS
T ss_pred             EEEeCCCCCCCcHHHHHHHHHHhhh
Confidence            5899999999999999999988643

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.38  E-value=0.0052  Score=48.89  Aligned_cols=30  Identities=17%  Similarity=0.239  Sum_probs=24.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNM  106 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~  106 (364)
                      +.|.|+.|+||||+++.|++.+...+....
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~   32 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVA   32 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEE
Confidence            578999999999999999999866555433

>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=95.38  E-value=0.061  Score=41.01  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            799999999999999988764

>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=95.30  E-value=0.0089  Score=46.00  Aligned_cols=21  Identities=24%  Similarity=0.472  Sum_probs=18.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~   96 (364)
                      .+++.|++|+|||++++++..
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            389999999999999998754

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.27  E-value=0.0044  Score=50.25  Aligned_cols=33  Identities=24%  Similarity=0.265  Sum_probs=23.1

Q ss_pred             HHHHHhcCCCCc--EEEeCCCCccHHHHHHHHHHH
Q 017884           65 IDRLTSENRLPH--LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        65 l~~~~~~~~~~~--lll~G~~G~GKt~la~~l~~~   97 (364)
                      |...+.+|-.+.  ++|+|+||+|||+++..++..
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            334455453333  799999999999999776543

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=95.25  E-value=0.058  Score=42.01  Aligned_cols=24  Identities=33%  Similarity=0.495  Sum_probs=21.0

Q ss_pred             CCCcEEEeCCCCccHHHHHHHHHH
Q 017884           73 RLPHLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        73 ~~~~lll~G~~G~GKt~la~~l~~   96 (364)
                      ..|.+.|.|+||+||||++.++..
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            446699999999999999999974

>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=95.24  E-value=0.0099  Score=46.38  Aligned_cols=22  Identities=23%  Similarity=0.372  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|.+|+|||++++.+...-
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7999999999999999987653

>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=95.20  E-value=0.0091  Score=46.35  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ++|.|++|+|||++++.+...-
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999998754

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=95.15  E-value=0.013  Score=49.80  Aligned_cols=53  Identities=21%  Similarity=0.332  Sum_probs=29.3

Q ss_pred             CcEEEeCCCCccHHHHH-HHHHHHHcCCCC-CCcEEEEeCCCCCChHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTI-LAVARKLYGAQY-HNMILELNASDDRGIDVVRQQIQDF  128 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la-~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~  128 (364)
                      .++++.|+||||||+++ ..++..+..... +..++.+..+. ...+.+...+...
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~-~aa~~~~~~~~~~   79 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTN-KAAREMRERVQSL   79 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSH-HHHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccH-HHHHHHHHHHHhh
Confidence            45899999999999755 445555543322 23444444433 2233444444443

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.91  E-value=0.11  Score=39.29  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999987653

>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=94.89  E-value=0.019  Score=48.02  Aligned_cols=23  Identities=30%  Similarity=0.644  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +-|.|++|+||||++..+...+.
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L~   52 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHLM   52 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999887764

>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=94.89  E-value=0.0076  Score=49.05  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +++.|++|+||||++.++.+.+.
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Confidence            58999999999999999998764

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.81  E-value=0.032  Score=42.53  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6899999999999999988743

>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=94.80  E-value=0.27  Score=39.99  Aligned_cols=21  Identities=33%  Similarity=0.621  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|.+|+|||+++..+...
T Consensus        35 I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          35 ILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            899999999999999999754

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.73  E-value=0.054  Score=43.79  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++|+||..+|||++++.++-.+
T Consensus        43 ~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          43 MLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEeccCchhhHHHHHHHHHHH
Confidence            37999999999999999998654

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.73  E-value=0.015  Score=45.49  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++.++...-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988654

>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=94.72  E-value=0.016  Score=47.88  Aligned_cols=48  Identities=21%  Similarity=0.180  Sum_probs=37.4

Q ss_pred             CcchhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           52 LADVAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        52 ~~~~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      |+---.|..++..+...+..+..-+-||+|..|+|||.++-..+....
T Consensus        82 FeLT~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~  129 (264)
T d1gm5a3          82 FKLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNY  129 (264)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHH
T ss_pred             ccCCchHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHH
Confidence            443445788888888888888766689999999999999877776543

>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=94.67  E-value=0.01  Score=45.74  Aligned_cols=21  Identities=24%  Similarity=0.425  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|++|+|||++..++...
T Consensus        16 I~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998653

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=94.66  E-value=0.1  Score=41.81  Aligned_cols=98  Identities=20%  Similarity=0.166  Sum_probs=50.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc--CCC----------CCCc--EEEEeCCCC--CChHHHHHHHHHHHhcCccccCCcc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY--GAQ----------YHNM--ILELNASDD--RGIDVVRQQIQDFASTQSFSFGVKA  140 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~--~~~----------~~~~--~~~~~~~~~--~~~~~~~~~i~~~~~~~~~~~~~~~  140 (364)
                      ++|+||...|||++.+.++-...  ..+          ...+  +..+...+.  .+...+...+.+....... ..   
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~-~~---  113 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKE-AT---  113 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHH-CC---
T ss_pred             EEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhcc-CC---
Confidence            79999999999999998876531  111          1111  122222221  1222333333332222111 11   


Q ss_pred             ceEEEEEeCCCCCCHHH-----HHHHHHHHHHhccCccEEEEeec
Q 017884          141 SVKLVLLDEADAMTKDA-----QFALRRVIEKYTKNTRFALICNQ  180 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~-----~~~L~~~le~~~~~~~~Il~~~~  180 (364)
                      .+.+|+|||+-+=+...     ..++++.+.+.  .+.++++|+.
T Consensus       114 ~~sLvliDE~~~gT~~~eg~ala~aile~L~~~--~~~~i~tTH~  156 (224)
T d1ewqa2         114 ENSLVLLDEVGRGTSSLDGVAIATAVAEALHER--RAYTLFATHY  156 (224)
T ss_dssp             TTEEEEEESTTTTSCHHHHHHHHHHHHHHHHHH--TCEEEEECCC
T ss_pred             CCcEEeecccccCcchhhhcchHHHHHHHHhhc--CcceEEeeec
Confidence            46799999998876432     33445555443  4556667653

>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=94.66  E-value=0.035  Score=42.42  Aligned_cols=21  Identities=38%  Similarity=0.681  Sum_probs=8.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|.+|+|||++++++...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999988764

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.60  E-value=0.0044  Score=51.98  Aligned_cols=38  Identities=13%  Similarity=0.226  Sum_probs=25.5

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      .|-+-+.|++|+||||+++++.+.+...+....+++.+
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~D   41 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGD   41 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGG
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCC
Confidence            34479999999999999999998875544444455544

>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=94.57  E-value=0.11  Score=43.19  Aligned_cols=17  Identities=24%  Similarity=0.427  Sum_probs=14.0

Q ss_pred             ceEEEEEeCCCCCCHHH
Q 017884          141 SVKLVLLDEADAMTKDA  157 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~  157 (364)
                      +.+++|+||+|.+....
T Consensus       100 ~~~~vViDE~H~~~~~~  116 (305)
T d2bmfa2         100 NYNLIIMDEAHFTDPAS  116 (305)
T ss_dssp             CCSEEEEESTTCCSHHH
T ss_pred             ceeEEEeeeeeecchhh
Confidence            46799999999997654

>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=94.57  E-value=0.0053  Score=48.39  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|.|+.|+||||+++.|++.+
T Consensus        12 I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1          12 VLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             EEEECSTTSCHHHHHHTTGGGT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6999999999999999999886

>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=94.54  E-value=0.01  Score=45.03  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|.+|+|||++++++...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999998765

>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=94.39  E-value=0.011  Score=44.39  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|++|+|||+++..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998875

>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=94.37  E-value=0.016  Score=48.73  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=17.1

Q ss_pred             CcEEEeCCCCccHHHHH-HHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTI-LAVARK   97 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la-~~l~~~   97 (364)
                      .+++|.|+||||||+++ ..++..
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~l   38 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHL   38 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHH
Confidence            45899999999999764 444443

>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=94.08  E-value=0.013  Score=44.60  Aligned_cols=99  Identities=18%  Similarity=0.210  Sum_probs=50.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCC---CCCcEEEEeCC-------CCCChHHHHHHHHHHHhcCccccCCccceEEE
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQ---YHNMILELNAS-------DDRGIDVVRQQIQDFASTQSFSFGVKASVKLV  145 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~~-------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~vi  145 (364)
                      .++|.|++|+|||++++.+...-....   .......++..       +..+.+..+.....        +......-++
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~--------~~~~~~~~i~   75 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRN--------YFESTDGLIW   75 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCCCSSCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGG--------GCTTCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCcccceEeeeeeeccccccceeeeecCcchhhhhHHHh--------hhhhhhccee
Confidence            379999999999999999865422111   11111122111       11233322221111        1111246688


Q ss_pred             EEeCCCCCCH-HHHHHHHHHHHHh-ccCccEEEEeeccc
Q 017884          146 LLDEADAMTK-DAQFALRRVIEKY-TKNTRFALICNQVN  182 (364)
Q Consensus       146 iiDe~~~l~~-~~~~~L~~~le~~-~~~~~~Il~~~~~~  182 (364)
                      ++|-.+.-.- .....+...+... ..+..++++.|..+
T Consensus        76 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  114 (165)
T d1ksha_          76 VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQD  114 (165)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTT
T ss_pred             eeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccc
Confidence            8887765543 3344444444332 34566777777554

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.97  E-value=0.017  Score=46.24  Aligned_cols=24  Identities=33%  Similarity=0.373  Sum_probs=22.0

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      -+.|.|+.|+||||+++.+++.+.
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH
Confidence            379999999999999999999984

>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=93.97  E-value=0.17  Score=36.65  Aligned_cols=95  Identities=14%  Similarity=0.174  Sum_probs=43.6

Q ss_pred             EEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCC-ChHHHHHHHHHHHhcCccc-----cCCccceEEEEEeCCC
Q 017884           78 LLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDR-GIDVVRQQIQDFASTQSFS-----FGVKASVKLVLLDEAD  151 (364)
Q Consensus        78 ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~i~~~~~~~~~~-----~~~~~~~~viiiDe~~  151 (364)
                      +++||-.+|||+-.-..++.....+.  .++-+++.... ........-..........     ........+|+|||++
T Consensus         6 li~GpMfsGKTt~Li~~~~~~~~~g~--~v~~ikp~~D~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~I~IDEaQ   83 (133)
T d1xbta1           6 VILGPMFSGKSTELMRRVRRFQIAQY--KCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDEGQ   83 (133)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHTTTC--CEEEEEETTCCC--------------CEEESSGGGGHHHHHTCSEEEESSGG
T ss_pred             EEEecccCHHHHHHHHHHHHHHHcCC--cEEEEecccccCCcceeeecCCCcceeeeeechhhhhhhhcccceEEeehhH
Confidence            88999999999866665555433332  33444432211 1111100000000000000     0001146799999999


Q ss_pred             CCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          152 AMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       152 ~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      .+.+  ...+...+.+.  +..+++.+
T Consensus        84 Ff~d--l~~~~~~~~~~--~~~Viv~G  106 (133)
T d1xbta1          84 FFPD--IVEFCEAMANA--GKTVIVAA  106 (133)
T ss_dssp             GCTT--HHHHHHHHHHT--TCEEEEEC
T ss_pred             HHHH--HHHHHHHHHhc--CCcEEEEE
Confidence            9963  33444555442  34444444

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=93.93  E-value=0.017  Score=44.50  Aligned_cols=22  Identities=32%  Similarity=0.629  Sum_probs=19.5

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++|.|++|+|||+++..+.+.
T Consensus        16 gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            3899999999999999888765

>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=93.89  E-value=0.013  Score=46.47  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.7

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||.|+||||+.+.++..+
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            37899999999999999998765

>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=93.77  E-value=0.016  Score=45.37  Aligned_cols=20  Identities=20%  Similarity=0.353  Sum_probs=17.4

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +-|+|++|+||||+|+.+..
T Consensus         6 IgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            46899999999999998843

>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=93.68  E-value=0.018  Score=44.74  Aligned_cols=21  Identities=33%  Similarity=0.532  Sum_probs=18.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++.+...
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999988753

>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=93.63  E-value=0.013  Score=47.74  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=20.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+.|.||+|+||||+++.++..+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            37999999999999999998754

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.60  E-value=0.18  Score=41.82  Aligned_cols=42  Identities=17%  Similarity=0.152  Sum_probs=31.3

Q ss_pred             hhccHHHHHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           55 VAAHRDIVDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        55 ~vg~~~~~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.-++.....+..+++.+   ..++.-|+|+|||.++-.+++.+.
T Consensus       112 ~~~rdyQ~~av~~~l~~~---~~il~~pTGsGKT~i~~~i~~~~~  153 (282)
T d1rifa_         112 IEPHWYQKDAVFEGLVNR---RRILNLPTSAGRSLIQALLARYYL  153 (282)
T ss_dssp             CCCCHHHHHHHHHHHHHS---EEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHhcC---CceeEEEcccCccHHHHHHHHHhh
Confidence            334666777777777764   367888999999998888876553

>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=93.60  E-value=0.018  Score=46.77  Aligned_cols=24  Identities=17%  Similarity=0.242  Sum_probs=22.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +.|.|+.|+||||+++.+++.+..
T Consensus         5 IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           5 LSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhh
Confidence            699999999999999999999753

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.52  E-value=0.021  Score=43.74  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999998764

>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=93.51  E-value=0.022  Score=43.22  Aligned_cols=21  Identities=19%  Similarity=0.354  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999999865

>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=93.50  E-value=0.034  Score=44.52  Aligned_cols=33  Identities=18%  Similarity=0.287  Sum_probs=24.9

Q ss_pred             HHHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHH
Q 017884           62 VDTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        62 ~~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      +..|+.++.+   ...+|.|++|+||||++.++...
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcch
Confidence            5566666642   23699999999999999988644

>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=93.46  E-value=0.021  Score=43.65  Aligned_cols=21  Identities=29%  Similarity=0.634  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||+++..+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>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=93.43  E-value=0.014  Score=47.52  Aligned_cols=24  Identities=29%  Similarity=0.443  Sum_probs=21.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..+.|.||+|+||||+++.++...
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            348999999999999999998864

>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=93.40  E-value=0.02  Score=43.58  Aligned_cols=21  Identities=29%  Similarity=0.607  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++.+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.35  E-value=0.017  Score=44.54  Aligned_cols=22  Identities=36%  Similarity=0.561  Sum_probs=19.3

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++|.|++|+|||+++..+...
T Consensus        17 gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHc
Confidence            3899999999999999888764

>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=93.33  E-value=0.023  Score=43.97  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|.+|+|||+++..+...
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=93.32  E-value=0.048  Score=51.49  Aligned_cols=60  Identities=15%  Similarity=0.238  Sum_probs=42.5

Q ss_pred             CCChhhccCCCCCcchhccHHHH--HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           40 ASPWVEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        40 ~~~~~~~~~p~~~~~~vg~~~~~--~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.-+.++|+.....++.-|--.+  .....+...++...+++.|++|+|||..++.+.+.+.
T Consensus        50 ~~~~~~~y~~~~~~~~~PHif~iA~~Ay~~l~~~~~~QsIiisGeSGsGKTe~~k~il~yL~  111 (684)
T d1lkxa_          50 KESDIKAYNGRYKYEMPPHMYALANDAYRSMRQSQENQCVIISGESGAGKTEASKKIMQFLT  111 (684)
T ss_dssp             SHHHHHHHSSCCGGGSCCCHHHHHHHHHHHHHHHCCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CHHHHHHHcCCCCCCCCChHHHHHHHHHHHHHHcCCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            33467777766555554333333  2556667777666699999999999999999999873

>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=93.28  E-value=0.1  Score=38.37  Aligned_cols=24  Identities=8%  Similarity=0.292  Sum_probs=18.0

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHH
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRV  164 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~  164 (364)
                      ...+|+|||++.+++.....+..+
T Consensus        80 ~~dvI~IDE~QFf~d~~~~~~~~l  103 (141)
T d1xx6a1          80 DTEVIAIDEVQFFDDEIVEIVNKI  103 (141)
T ss_dssp             TCSEEEECSGGGSCTHHHHHHHHH
T ss_pred             cccEEEEeehhhccccHHHHHHhh
Confidence            467999999999987655555443

>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=93.25  E-value=0.021  Score=43.41  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++.+...
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=93.15  E-value=0.023  Score=43.43  Aligned_cols=22  Identities=32%  Similarity=0.625  Sum_probs=19.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .++|.|++|+|||+++-.+.+.
T Consensus        17 gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          17 GVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHc
Confidence            3899999999999999888776

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.07  E-value=0.027  Score=43.33  Aligned_cols=21  Identities=33%  Similarity=0.656  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|++|+|||++++++...
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998764

>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=93.01  E-value=0.0092  Score=48.50  Aligned_cols=24  Identities=13%  Similarity=0.170  Sum_probs=21.6

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHc
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      -+.|.|+.|+||||+++.|++.+.
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            378999999999999999999873

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {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: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=92.86  E-value=0.061  Score=50.90  Aligned_cols=57  Identities=23%  Similarity=0.318  Sum_probs=40.2

Q ss_pred             hhhccCCCCCcchhccHHHH--HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           43 WVEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~--~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.+.|+.....++.-|--.+  ...+.++..++...+++.|++|+|||..++.+.+.+.
T Consensus        92 ~~~~y~~~~~~~~~PHifaiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL~  150 (712)
T d1d0xa2          92 MVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYLA  150 (712)
T ss_dssp             HHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence            56667766555554332222  2456667777666699999999999999999988763

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=92.84  E-value=0.023  Score=43.53  Aligned_cols=20  Identities=35%  Similarity=0.541  Sum_probs=18.2

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +++.|++|+|||++++++..
T Consensus        19 I~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            89999999999999988854

>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=92.81  E-value=0.12  Score=42.78  Aligned_cols=36  Identities=25%  Similarity=0.363  Sum_probs=27.0

Q ss_pred             HHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           64 TIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        64 ~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+..++--++....+|.|++|+|||+++..+++...
T Consensus        33 ~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          33 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             HHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             eeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHh
Confidence            344444444445699999999999999999998764

>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=92.81  E-value=0.03  Score=42.89  Aligned_cols=20  Identities=30%  Similarity=0.464  Sum_probs=18.3

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      ++|.|++|+|||++++.+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            79999999999999998864

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.44  E-value=0.027  Score=43.36  Aligned_cols=21  Identities=24%  Similarity=0.499  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++|.|+||+|||+++.++..+
T Consensus         3 I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999753

>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=92.37  E-value=0.038  Score=43.82  Aligned_cols=20  Identities=35%  Similarity=0.448  Sum_probs=17.5

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +.|+|++|+||||+++.+..
T Consensus         6 IgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHHH
Confidence            46899999999999998853

>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=92.35  E-value=0.034  Score=49.37  Aligned_cols=29  Identities=31%  Similarity=0.329  Sum_probs=23.5

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCCCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGAQY  103 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~~~  103 (364)
                      .|+++.|++|+|||+++..+...+...+.
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~g~   79 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLRGD   79 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTC
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhCCC
Confidence            47999999999999999887776654443

>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=92.27  E-value=0.21  Score=36.48  Aligned_cols=35  Identities=9%  Similarity=0.137  Sum_probs=22.3

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEe
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALIC  178 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~  178 (364)
                      ...+|+|||++.+++ ....+...+.+.  +..+++++
T Consensus        79 ~~dvI~IDE~QFf~d-~i~~~~~~~~~~--g~~Viv~G  113 (139)
T d2b8ta1          79 ETKVIGIDEVQFFDD-RICEVANILAEN--GFVVIISG  113 (139)
T ss_dssp             TCCEEEECSGGGSCT-HHHHHHHHHHHT--TCEEEEEC
T ss_pred             CcCEEEechhhhcch-hHHHHHHHHHhc--CceEEEEE
Confidence            477999999999974 444555555543  23344444

>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=92.10  E-value=0.089  Score=43.44  Aligned_cols=47  Identities=21%  Similarity=0.280  Sum_probs=32.2

Q ss_pred             HHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        65 l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      +..-+..+...-++++|.-|+||||++-.++..+...+...-++..+
T Consensus        11 ~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          11 LVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             HHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            34444444333379999999999999999998887666544444443

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=92.09  E-value=0.086  Score=50.12  Aligned_cols=58  Identities=21%  Similarity=0.379  Sum_probs=40.2

Q ss_pred             CChhhccCCCCCcchhccHHHH--HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           41 SPWVEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        41 ~~~~~~~~p~~~~~~vg~~~~~--~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .-+..+|+-....++.-|--.+  .....+...++...+++.|++|+|||..++.+.+.+
T Consensus        59 ~~~~~~y~~~~~~~~~PHif~vA~~Ay~~l~~~~~~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          59 EDIINAYSGQNMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             HHHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3356667665555543332222  255666777766669999999999999999998876

>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=92.02  E-value=0.023  Score=43.88  Aligned_cols=20  Identities=30%  Similarity=0.584  Sum_probs=18.0

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +++.|++|+|||++++.+..
T Consensus        20 I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          20 ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEETTSSHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            89999999999999988743

>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=91.87  E-value=0.039  Score=42.42  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=19.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~   96 (364)
                      +.+.|.|.||+|||+++.++..
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4588999999999999999864

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=91.85  E-value=0.1  Score=49.38  Aligned_cols=57  Identities=18%  Similarity=0.288  Sum_probs=38.8

Q ss_pred             hhhccCCCCCcchhccHHHH--HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           43 WVEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~--~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +...|+-....++.-|--.+  ...+.+...++...+++.|++|+|||+.++.+.+.+.
T Consensus        58 ~~~~y~~~~~~~~~PHif~vA~~Ay~~m~~~~~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          58 IIDMYKGKKRHEMPPHIYAIADTAYRSMLQDREDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             HHHHTTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCCChHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            45566655444443332222  2456666677666699999999999999999988873

>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=91.73  E-value=0.04  Score=43.52  Aligned_cols=20  Identities=30%  Similarity=0.311  Sum_probs=17.2

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +-|+|+.|+||||+++.+..
T Consensus         5 IgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45899999999999998853

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=91.70  E-value=0.1  Score=50.04  Aligned_cols=56  Identities=20%  Similarity=0.291  Sum_probs=38.3

Q ss_pred             hhccCCCCCcchhccHHHH--HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           44 VEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        44 ~~~~~p~~~~~~vg~~~~~--~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      .+.|+-....++.-|--.+  .....+...++...+++.|++|+|||..++.+.+.+.
T Consensus        91 ~~~y~~~~~~~~pPHifaiA~~Ay~~m~~~~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2          91 VLAYRGKKRQEAPPHIFSISDNAYQFMLTDRENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             HHHTTTCCTTSSCSCHHHHHHHHHHHHHHHTCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCCCcHHHHHHHHHHHHHHcCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3455544444443332222  2566667777666699999999999999999988773

>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=91.66  E-value=0.11  Score=41.39  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      +++.|++|+|||++++.+...-..+
T Consensus         9 illlG~~~vGKTsll~~~~~~~~~p   33 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILHVVL   33 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCcCC
Confidence            8999999999999999986554333

>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=91.60  E-value=1.8  Score=35.15  Aligned_cols=86  Identities=13%  Similarity=0.130  Sum_probs=45.1

Q ss_pred             HHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCccccCCccceEE
Q 017884           65 IDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSFGVKASVKL  144 (364)
Q Consensus        65 l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~v  144 (364)
                      +.-++--++...+.+.|++|+|||+++..+++.....+... .+..-..  .....+.+.+.++.+...+.......+.+
T Consensus        59 ID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v-~V~~~iG--er~~ev~~~~~~~~~~~~~~~~~~~~~tv  135 (276)
T d2jdid3          59 VDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGY-SVFAGVG--ERTREGNDLYHEMIESGVINLKDATSKVA  135 (276)
T ss_dssp             HHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSE-EEEEEES--CCHHHHHHHHHHHHHHTSSCSSSSCCCEE
T ss_pred             eeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCe-EEEEEec--cChHHHHHHHHHHHhcCccccccccceEE
Confidence            33334344445599999999999999999988753322222 2222211  23344555555554432211111113566


Q ss_pred             EEEeCCCCC
Q 017884          145 VLLDEADAM  153 (364)
Q Consensus       145 iiiDe~~~l  153 (364)
                      ++.--.+.-
T Consensus       136 vv~~~s~~~  144 (276)
T d2jdid3         136 LVYGQMNEP  144 (276)
T ss_dssp             EEEECTTSC
T ss_pred             EEEECCCCC
Confidence            666544443

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.53  E-value=0.046  Score=42.59  Aligned_cols=18  Identities=28%  Similarity=0.547  Sum_probs=17.3

Q ss_pred             EEEeCCCCccHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAV   94 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l   94 (364)
                      +++.|.+|+|||+++..+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            789999999999999999

>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=91.49  E-value=0.03  Score=45.01  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.2

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      .|-++|+|.-|+||||+++.+.+.
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhc
Confidence            455799999999999999999885

>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=91.44  E-value=0.029  Score=43.78  Aligned_cols=25  Identities=32%  Similarity=0.412  Sum_probs=22.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .+|+||.|+|||+++.++.-.+.+.
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~g~   51 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALIPD   51 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCC
Confidence            4889999999999999999888544

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=91.43  E-value=0.093  Score=50.28  Aligned_cols=57  Identities=23%  Similarity=0.334  Sum_probs=39.1

Q ss_pred             hhhccCCCCCcchhccHHHH--HHHHHHHhcCCCCcEEEeCCCCccHHHHHHHHHHHHc
Q 017884           43 WVEKYRPQSLADVAAHRDIV--DTIDRLTSENRLPHLLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        43 ~~~~~~p~~~~~~vg~~~~~--~~l~~~~~~~~~~~lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      ..++|+.....++.-|--.+  .....+...+....+++.|++|+|||..++.+.+.+.
T Consensus        88 ~~~~y~~~~~~~~~PHiyavA~~Ay~~m~~~~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2          88 VIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             HHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCCCcHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            34566655544443332222  2566667777666699999999999999999988764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.08  E-value=0.052  Score=41.45  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.|.|.+|+|||+++.++.+.
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999753

>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=90.99  E-value=0.051  Score=41.92  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=18.9

Q ss_pred             CcEEEeCCCCccHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~   96 (364)
                      +.+-|.|+||+|||+++.++..
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEE
T ss_pred             CeEEEECCCCCCHHHHHHHHhC
Confidence            4578999999999999998854

>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=90.96  E-value=0.11  Score=43.02  Aligned_cols=37  Identities=30%  Similarity=0.397  Sum_probs=28.8

Q ss_pred             Cc-EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           75 PH-LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        75 ~~-lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      |. ++++|.-|+||||++-.+|..+...+...-++..+
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            44 68999999999999999999987666554444444

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.95  E-value=0.069  Score=40.94  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|++|+|||+++..+...-
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999887753

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.68  E-value=0.062  Score=41.68  Aligned_cols=22  Identities=32%  Similarity=0.375  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +++.|.+|+|||++++.+...-
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7999999999999999997664

>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=90.61  E-value=0.077  Score=42.81  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.|+|+.|+||||+|+.++...
T Consensus         4 IgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6799999999999999998874

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=90.61  E-value=0.033  Score=42.81  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=19.7

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~   96 (364)
                      .+.+.|.|.|++|||++.+++..
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35599999999999999988844

>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=90.60  E-value=0.18  Score=37.64  Aligned_cols=49  Identities=10%  Similarity=0.088  Sum_probs=33.5

Q ss_pred             ceEEEEEeCCCCCCHH---HHHHHHHHHHHhccCccEEEEeeccccCchhhhccc
Q 017884          141 SVKLVLLDEADAMTKD---AQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~---~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~  192 (364)
                      .+.+||+||+-....-   ..+.+..+++..|..+-+|++.+..+   +.|..++
T Consensus        94 ~~dllILDEi~~Ai~~gli~~~~v~~ll~~rp~~~evVlTGr~~p---~~L~e~A  145 (157)
T d1g5ta_          94 LLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH---RDILDLA  145 (157)
T ss_dssp             TCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC---HHHHHHC
T ss_pred             ccCEEeHHHHHHHHHcCCCCHHHHHHHHHhCCCCCEEEEECCCCC---HHHHHhc
Confidence            5889999996322110   13567788888888999999986543   4555555

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=90.56  E-value=0.82  Score=36.13  Aligned_cols=114  Identities=18%  Similarity=0.199  Sum_probs=57.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeCCCCCChHHHHHHHHHHHhcCcccc-C-----------------
Q 017884           76 HLLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNASDDRGIDVVRQQIQDFASTQSFSF-G-----------------  137 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-~-----------------  137 (364)
                      ..+|.=+.|.|||..+-+++..+...+....++-+....  -.....+.+..+........ .                 
T Consensus        33 g~iLaDe~GlGKT~~~i~~~~~~~~~~~~~~~LIv~p~~--l~~~W~~e~~~~~~~~~~~~~~~~~~~~~~~~~~vvi~~  110 (230)
T d1z63a1          33 GICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLS--VLKNWEEELSKFAPHLRFAVFHEDRSKIKLEDYDIILTT  110 (230)
T ss_dssp             CEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECST--THHHHHHHHHHHCTTSCEEECSSSTTSCCGGGSSEEEEE
T ss_pred             CEEEEeCCCCChHHHHHHhhhhhhhcccccccceecchh--hhhHHHHHHHhhcccccceeeccccchhhccCcCEEEee
Confidence            367777899999999888877765433322333333222  22333333333322111000 0                 


Q ss_pred             ----------CccceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccCchhhhccc
Q 017884          138 ----------VKASVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKIIPALQSRC  192 (364)
Q Consensus       138 ----------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l~~~l~sr~  192 (364)
                                ...+..+||+||+|.+...... ..+.+.......++++++++...-...+.+.+
T Consensus       111 ~~~~~~~~~l~~~~~~~vI~DEah~~k~~~s~-~~~~~~~l~a~~r~~LTgTPi~n~~~dl~~ll  174 (230)
T d1z63a1         111 YAVLLRDTRLKEVEWKYIVIDEAQNIKNPQTK-IFKAVKELKSKYRIALTGTPIENKVDDLWSIM  174 (230)
T ss_dssp             HHHHTTCHHHHTCCEEEEEEETGGGGSCTTSH-HHHHHHTSCEEEEEEECSSCSTTCHHHHHHHH
T ss_pred             HHHHHhHHHHhcccceEEEEEhhhcccccchh-hhhhhhhhccceEEEEecchHHhHHHHHHHHH
Confidence                      0114668999999999532211 11222333344556676665544444444443

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.34  E-value=0.076  Score=40.83  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.|.|.+|+|||+++.++...
T Consensus        11 V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            789999999999999998753

>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=90.23  E-value=0.029  Score=42.09  Aligned_cols=21  Identities=19%  Similarity=0.526  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.|.|.||+|||+++.++...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999999876

>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=89.76  E-value=0.095  Score=40.35  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +++.|..|+|||++++.+...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            799999999999999998665

>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=89.43  E-value=0.042  Score=44.15  Aligned_cols=21  Identities=29%  Similarity=0.518  Sum_probs=18.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      .+|.|++|+||||++.++...
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEECCCCccHHHHHHhhccH
Confidence            688999999999999988654

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=89.26  E-value=0.076  Score=45.28  Aligned_cols=24  Identities=33%  Similarity=0.380  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYG  100 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~  100 (364)
                      +.|-|+-|+||||+++.+++.+..
T Consensus         9 I~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           9 IYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEECCccCCHHHHHHHHHHHhcc
Confidence            689999999999999999998743

>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=89.18  E-value=1.7  Score=32.58  Aligned_cols=20  Identities=25%  Similarity=0.363  Sum_probs=18.3

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~   96 (364)
                      +-+.|.|++||||+..++.+
T Consensus         8 IaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            78999999999999999974

>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=89.12  E-value=0.8  Score=36.20  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=21.2

Q ss_pred             CCcEEEeCCCCccHHHHHHHHHHHH
Q 017884           74 LPHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        74 ~~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .|-+-+.|.+++|||||+.++...-
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhhc
Confidence            3458889999999999999997763

>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=88.94  E-value=0.12  Score=40.72  Aligned_cols=34  Identities=21%  Similarity=0.244  Sum_probs=27.5

Q ss_pred             cEEEeCC-CCccHHHHHHHHHHHHcCCCCCCcEEE
Q 017884           76 HLLLYGP-PGTGKTSTILAVARKLYGAQYHNMILE  109 (364)
Q Consensus        76 ~lll~G~-~G~GKt~la~~l~~~l~~~~~~~~~~~  109 (364)
                      .++++|- +|+|||+++-.++..+...+...-++.
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            4789999 599999999999999987776544443

>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=88.89  E-value=0.065  Score=45.68  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      +.|-|+-|+||||+++.+++.+...
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~~   32 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAIT   32 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhc
Confidence            6899999999999999999987543

>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=88.26  E-value=0.36  Score=34.05  Aligned_cols=25  Identities=8%  Similarity=0.089  Sum_probs=22.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      ++|.|-+|+||+++|+++...++..
T Consensus         9 i~~tg~~~~gk~~ia~al~~~l~q~   33 (122)
T d1g8fa3           9 IVLGNSLTVSREQLSIALLSTFLQF   33 (122)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTTS
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            7999999999999999999998763

>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=88.02  E-value=2  Score=35.20  Aligned_cols=29  Identities=28%  Similarity=0.252  Sum_probs=21.7

Q ss_pred             HhcCCCCcEEEeCCCCccHHHHHHHHHHH
Q 017884           69 TSENRLPHLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        69 ~~~~~~~~lll~G~~G~GKt~la~~l~~~   97 (364)
                      +--++...+.+.|++|+|||+++..++..
T Consensus        63 ~pig~GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          63 VPIGRGQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             SCCBTTCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             cCccCCCEEEeecCCCCChHHHHHHHHHh
Confidence            33334345889999999999998877755

>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=87.91  E-value=0.24  Score=40.48  Aligned_cols=36  Identities=22%  Similarity=0.374  Sum_probs=29.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      +.|+|.=|+||||++-.++..+...+...-++.++.
T Consensus         4 Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~   39 (269)
T d1cp2a_           4 VAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECT
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            557899999999999999999988777666666654

>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=87.90  E-value=0.14  Score=43.62  Aligned_cols=35  Identities=26%  Similarity=0.380  Sum_probs=23.8

Q ss_pred             ccHHHHHH-----HHHHHhcCCCCcEEEeCCCCccHHHHH
Q 017884           57 AHRDIVDT-----IDRLTSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        57 g~~~~~~~-----l~~~~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      .|+++.+.     +...+.+|....++-||.+|+|||++.
T Consensus        63 ~q~~vy~~~~~plv~~~~~~G~n~~i~aYGqTGSGKTyTm  102 (330)
T d1ry6a_          63 DNFTVYENTIKPLIIDLYENGCVCSCFAYGQTGSGKTYTM  102 (330)
T ss_dssp             CHHHHHHHHTHHHHHHHHHHCCEEEEEEECCTTSSHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhcCCCeEEEeeeccccccceee
Confidence            35555543     334454565445899999999999986

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.70  E-value=3.4  Score=34.68  Aligned_cols=41  Identities=17%  Similarity=0.360  Sum_probs=29.0

Q ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHHhccCccEEEEeeccccC
Q 017884          141 SVKLVLLDEADAMTKDAQFALRRVIEKYTKNTRFALICNQVNKI  184 (364)
Q Consensus       141 ~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~l  184 (364)
                      +..++++|=.+-+.......+....++   ....|++-|..++.
T Consensus       121 D~allVVda~eGv~~qT~~~~~~a~~~---~~p~i~viNKiDr~  161 (341)
T d1n0ua2         121 DGALVVVDTIEGVCVQTETVLRQALGE---RIKPVVVINKVDRA  161 (341)
T ss_dssp             SEEEEEEETTTBSCHHHHHHHHHHHHT---TCEEEEEEECHHHH
T ss_pred             CceEEEEecccCcchhHHHHHHHHHHc---CCCeEEEEECcccc
Confidence            478999999998887777777666654   45566666766543

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.63  E-value=0.14  Score=44.69  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      -+|+||.|+|||++..++.=.+
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~l   49 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVL   49 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4999999999999999997544

>d1bg2a_ c.37.1.9 (A:) Kinesin {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: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.20  E-value=0.21  Score=42.25  Aligned_cols=34  Identities=24%  Similarity=0.380  Sum_probs=23.0

Q ss_pred             cHHHHHH----HHHHHhcCCCCcEEEeCCCCccHHHHH
Q 017884           58 HRDIVDT----IDRLTSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        58 ~~~~~~~----l~~~~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      |+++.+.    +.+.+-.|....++-||++|+|||+++
T Consensus        56 q~~vf~~~~~~lv~~~l~G~n~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          56 QEQVYNDCAKKIVKDVLEGYNGTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             HHHHHHHHTHHHHHHHHTTCCEEEEEECSTTSSHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcceeeecccCCCCceec
Confidence            4555443    333334565555899999999999986

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=87.19  E-value=4  Score=31.28  Aligned_cols=21  Identities=24%  Similarity=0.175  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~   97 (364)
                      +.+.|-++.|||||+.+|...
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHH
Confidence            688999999999999999654

>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=86.48  E-value=3.1  Score=33.59  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=19.4

Q ss_pred             cEEEeCCCCccHHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVARK   97 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~~   97 (364)
                      ++.+.|..|+||||++.++...
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            5788999999999999999654

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=86.48  E-value=0.12  Score=43.91  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHc
Q 017884           77 LLLYGPPGTGKTSTILAVARKLY   99 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~   99 (364)
                      +.|-|+-|+||||+++.+++.+.
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC---
T ss_pred             EEEECCcCCCHHHHHHHHHHHhC
Confidence            68899999999999999988763

>d3ctda1 a.80.1.2 (A:258-420) Uncharacterized protein YrvN {Prochlorococcus marinus [TaxId: 1219]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: MgsA/YrvN C-terminal domain-like
domain: Uncharacterized protein YrvN
species: Prochlorococcus marinus [TaxId: 1219]

Probab=86.46  E-value=4  Score=30.04  Aligned_cols=84  Identities=12%  Similarity=0.068  Sum_probs=55.2

Q ss_pred             hHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHh-cCCChHHHHHHHHHHHHHHHHHhcCC-ChHHH
Q 017884          267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFK-IKMPSDVRVRLMNDLADIEYRLSFGC-NDKLQ  344 (364)
Q Consensus       267 ~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~i~~~l~~~~~~l~~~~-~~~~~  344 (364)
                      .+.+..+.+++.+.|...++.|+..++ ..|++|.-|.+.|...-.+ .++-+.....+.....+.-.++  |. .-++.
T Consensus         3 Yd~iSA~~KSiRgSD~dAAly~larml-~~Gedp~~i~RRli~~AsEDIGlAdp~Al~~a~aa~~a~~~i--G~PE~~i~   79 (163)
T d3ctda1           3 FDVISAFIKSIRGSDPDATLYWLANMV-EAGEDPNFIFRRLLISACEDIGLADPNAIVVVQSCCDAFDRV--GFPEGLFF   79 (163)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTCCHHHHHHHHHHHHHHTTGGGSTTHHHHHHHHHHHHHHH--CTTTTHHH
T ss_pred             hHHHHHHHHHHhcCCccHHHHHHHHHH-HcCCchHHHHHHHHHHHHHhhcccChhHHHHHHHHHHHHHHh--CCchhHHH
Confidence            356778999999999999999999999 9999999998888776653 3332333333333333333333  32 33555


Q ss_pred             HHHHHHHHH
Q 017884          345 LGSIISTFT  353 (364)
Q Consensus       345 l~~l~~~l~  353 (364)
                      |...+..||
T Consensus        80 LAqaviyLA   88 (163)
T d3ctda1          80 LSQASLYLA   88 (163)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666655555

>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=86.09  E-value=0.12  Score=43.23  Aligned_cols=22  Identities=32%  Similarity=0.546  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .+|+||.|+|||++..++.-.+
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            4999999999999999996543

>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=85.59  E-value=0.46  Score=37.89  Aligned_cols=27  Identities=33%  Similarity=0.251  Sum_probs=20.2

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHHcCC
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKLYGA  101 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l~~~  101 (364)
                      .++++.+|+|+|||.++...+..+...
T Consensus        59 ~~~~i~apTGsGKT~~~~~~~~~~~~~   85 (237)
T d1gkub1          59 ESFAATAPTGVGKTSFGLAMSLFLALK   85 (237)
T ss_dssp             CCEECCCCBTSCSHHHHHHHHHHHHTT
T ss_pred             CCEEEEecCCChHHHHHHHHHHHHHHh
Confidence            359999999999998776665554433

>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=85.25  E-value=0.21  Score=43.63  Aligned_cols=21  Identities=29%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             cEEEeCCCCccHHHHHHHHHH
Q 017884           76 HLLLYGPPGTGKTSTILAVAR   96 (364)
Q Consensus        76 ~lll~G~~G~GKt~la~~l~~   96 (364)
                      ++.+.|.||+|||+++.++..
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            489999999999999999974

>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=85.16  E-value=0.32  Score=40.21  Aligned_cols=36  Identities=25%  Similarity=0.352  Sum_probs=28.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEeC
Q 017884           77 LLLYGPPGTGKTSTILAVARKLYGAQYHNMILELNA  112 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~  112 (364)
                      +.++|.=|+||||++-.++..+...+...-++.++.
T Consensus         5 IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~Dp   40 (289)
T d2afhe1           5 CAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDP   40 (289)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCC
Confidence            567999999999999999998877666655566554

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=85.10  E-value=5.6  Score=30.21  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        77 lll~G~~G~GKt~la~~l~~~l   98 (364)
                      +.+.|-.+.||||++.++...+
T Consensus         6 i~iiGHvd~GKSTL~~~l~~~~   27 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAITKIL   27 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHHH
Confidence            7899999999999999997643

>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=84.95  E-value=2.1  Score=34.81  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=20.8

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      .++-+.|..|+|||+++.++....
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhc
Confidence            458899999999999999997653

>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=84.72  E-value=2.6  Score=34.23  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=19.3

Q ss_pred             CcEEEeCCCCccHHHHHHHHHHHH
Q 017884           75 PHLLLYGPPGTGKTSTILAVARKL   98 (364)
Q Consensus        75 ~~lll~G~~G~GKt~la~~l~~~l   98 (364)
                      ..+.|.|++|+|||+++..+....
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC
T ss_pred             ceEeeccCCCCChHHHHHHHHhhh
Confidence            348889999999999998765543

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=84.36  E-value=0.33  Score=41.57  Aligned_cols=34  Identities=26%  Similarity=0.386  Sum_probs=22.3

Q ss_pred             cHHHHHHH-HHH---HhcCCCCcEEEeCCCCccHHHHH
Q 017884           58 HRDIVDTI-DRL---TSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        58 ~~~~~~~l-~~~---~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      |+++.+.+ ...   +-.|....++-||++|+|||+++
T Consensus        60 q~~vy~~~~~plv~~~l~G~n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          60 QSDIFDFSIKPTVDDILNGYNGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             HHHHHHHHTHHHHHHHTTTCCEEEEEECSTTSSHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccCceeEEecccCCCCcceee
Confidence            55555432 333   33554445899999999999875

>d1x88a1 c.37.1.9 (A:18-362) Kinesin {Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]

Probab=83.73  E-value=0.35  Score=41.26  Aligned_cols=34  Identities=29%  Similarity=0.330  Sum_probs=22.6

Q ss_pred             cHHHHHH----HHHHHhcCCCCcEEEeCCCCccHHHHH
Q 017884           58 HRDIVDT----IDRLTSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        58 ~~~~~~~----l~~~~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      |+++...    +...+-.|....++-||.+|+|||++.
T Consensus        61 q~~vy~~~~~~lv~~~l~G~n~~i~aYGqtgSGKTyTm   98 (345)
T d1x88a1          61 QIDVYRSVVCPILDEVIMGYNCTIFAYGQTGTGKTFTM   98 (345)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEEECTTSSHHHHH
T ss_pred             HHHHHHHHHHHhHHHHhccCCceEEeeeeccccceEEe
Confidence            5555543    333334555445899999999999875

>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]

Probab=83.59  E-value=0.45  Score=40.46  Aligned_cols=34  Identities=26%  Similarity=0.512  Sum_probs=23.6

Q ss_pred             cHHHHHHHHHHHh---cCCCCcEEEeCCCCccHHHHH
Q 017884           58 HRDIVDTIDRLTS---ENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        58 ~~~~~~~l~~~~~---~~~~~~lll~G~~G~GKt~la   91 (364)
                      |+++.+.+...+.   .|....++-||.+|+|||+.+
T Consensus        64 q~~vy~~v~~~v~~~l~G~n~~i~aYGqtgSGKT~T~  100 (342)
T d1f9va_          64 NVDVFKEVGQLVQSSLDGYNVCIFAYGQTGSGKTFTM  100 (342)
T ss_dssp             HHHHHHHHHHHHGGGGGTCCEEEEEECCTTSSHHHHH
T ss_pred             HHHHHHHhhhhhcchhcccccceeeeeccCCcccccc
Confidence            5666665554443   444334899999999999876

>d1sdma_ c.37.1.9 (A:) Kinesin heavy chain-like protein {Potato (Solanum tuberosum) [TaxId: 4113]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin heavy chain-like protein
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=83.35  E-value=0.22  Score=42.90  Aligned_cols=34  Identities=26%  Similarity=0.434  Sum_probs=22.3

Q ss_pred             cHHHHHHH---HHHHhcCCCCcEEEeCCCCccHHHHH
Q 017884           58 HRDIVDTI---DRLTSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        58 ~~~~~~~l---~~~~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      |+++.+.+   ...+-.|....++-||++|+|||++.
T Consensus        56 q~~vy~~v~~lv~~~l~G~n~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          56 QDDVFEDTKYLVQSAVDGYNVCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             HHHHHHTTTHHHHHHHTTCEEEEEEECSTTSSHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCceeeeccccCCCCccccc
Confidence            44554433   33333554444899999999999985

>d2zfia1 c.37.1.9 (A:4-352) Kinesin {Mouse (Mus musculus), kif1a [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Mouse (Mus musculus), kif1a [TaxId: 10090]

Probab=83.07  E-value=0.43  Score=40.74  Aligned_cols=34  Identities=21%  Similarity=0.374  Sum_probs=23.1

Q ss_pred             cHHHHHH----HHHHHhcCCCCcEEEeCCCCccHHHHH
Q 017884           58 HRDIVDT----IDRLTSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        58 ~~~~~~~----l~~~~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      |+++.+.    +...+-.|....++-||.+|+|||+++
T Consensus        67 Q~~vy~~~~~plv~~~l~G~n~ti~aYGqTgSGKT~Tm  104 (349)
T d2zfia1          67 QKQVYRDIGEEMLQHAFEGYNVCIFAYGQTGAGKSYTM  104 (349)
T ss_dssp             HHHHHHHTHHHHHHHHHTTCCEEEEEECSTTSSHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHhccCceeeeeccCCCCCceee
Confidence            4455443    333344565555899999999999986

>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=82.83  E-value=0.5  Score=37.23  Aligned_cols=34  Identities=24%  Similarity=0.263  Sum_probs=25.7

Q ss_pred             EEeCCCCccHHHHHHHHHHHHcCCCCCCcEEEEe
Q 017884           78 LLYGPPGTGKTSTILAVARKLYGAQYHNMILELN  111 (364)
Q Consensus        78 ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~  111 (364)
                      +..|..|+||||++..+|..+...+...-++..+
T Consensus         6 v~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D   39 (232)
T d1hyqa_           6 VASGKGGTGKTTITANLGVALAQLGHDVTIVDAD   39 (232)
T ss_dssp             EEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            5568899999999999999987655544444443

>d3bgea1 a.80.1.2 (A:251-434) Uncharacterized protein NTHI1458 {Haemophilus influenzae [TaxId: 727]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: MgsA/YrvN C-terminal domain-like
domain: Uncharacterized protein NTHI1458
species: Haemophilus influenzae [TaxId: 727]

Probab=82.46  E-value=2.6  Score=31.86  Aligned_cols=46  Identities=7%  Similarity=-0.014  Sum_probs=39.9

Q ss_pred             hHHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHh
Q 017884          267 PKDIEQISYWLLNESFADSFKRISEMKMRKGLALVDIVREVTMFVFK  313 (364)
Q Consensus       267 ~~~~~~l~~~l~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~~~  313 (364)
                      .+.+..+.+++.+.|..+++.|+..++ ..|++|..|.+.|.....+
T Consensus         5 Yd~iSA~~KSiRgSD~dAaly~larml-~~GeDp~~i~RRl~~~AsE   50 (184)
T d3bgea1           5 YDLISALHKSVRGSAPDAALYWYARIL-TAGGDPLYVARRLLAIASE   50 (184)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHH-HcCCChHHHHHHHHHHHHh
Confidence            456788999999999999999999999 9999999998887666643

>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {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: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=81.82  E-value=0.28  Score=42.35  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=17.6

Q ss_pred             HhcCCCCcEEEeCCCCccHHHHH
Q 017884           69 TSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        69 ~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      +-.|....++-||++|+|||++.
T Consensus       120 vl~G~n~ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_         120 ALDGYNICIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             HHTTCEEEEEEECSTTSSHHHHH
T ss_pred             HhcccceeEEeeccCCCccceEe
Confidence            33555445899999999999874

>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=81.62  E-value=0.24  Score=41.41  Aligned_cols=17  Identities=35%  Similarity=0.601  Sum_probs=14.9

Q ss_pred             EEEeCCCCccHHHHHHH
Q 017884           77 LLLYGPPGTGKTSTILA   93 (364)
Q Consensus        77 lll~G~~G~GKt~la~~   93 (364)
                      .+|+|.+|+||||+...
T Consensus        17 alffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             EEEEECTTSCHHHHTCB
T ss_pred             EEEEccCCCCccccccC
Confidence            69999999999997754

>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Mouse (Mus musculus), kif2c [TaxId: 10090]

Probab=81.32  E-value=0.33  Score=41.70  Aligned_cols=34  Identities=24%  Similarity=0.341  Sum_probs=22.7

Q ss_pred             cHHHHHH----HHHHHhcCCCCcEEEeCCCCccHHHHH
Q 017884           58 HRDIVDT----IDRLTSENRLPHLLLYGPPGTGKTSTI   91 (364)
Q Consensus        58 ~~~~~~~----l~~~~~~~~~~~lll~G~~G~GKt~la   91 (364)
                      |+++.+.    +...+-.|....++-||.+|+|||++.
T Consensus        94 Q~~Vy~~~~~plv~~~l~G~n~tifaYGqTGSGKTyTm  131 (362)
T d1v8ka_          94 NEVVYRFTARPLVQTIFEGGKATCFAYGQTGSGKTHTM  131 (362)
T ss_dssp             HHHHHHHTTHHHHHHHHTTCEEEEEEEESTTSSHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccCceEEeeccCCCCCceee
Confidence            5555543    333333554445899999999999886

>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=80.06  E-value=0.35  Score=40.22  Aligned_cols=27  Identities=30%  Similarity=0.480  Sum_probs=19.3

Q ss_pred             ceEEEecCCChHHHHHHHHHHHHHcCC
Q 017884          192 CTRFRFAPLEPVHVTERLKHVIEAEGL  218 (364)
Q Consensus       192 ~~~i~~~~~~~~~~~~~l~~~~~~~~~  218 (364)
                      |.--.|-++.+..-.++|..+.++.+.
T Consensus       181 cfg~PFl~~~p~~ya~lL~~ki~~~~~  207 (313)
T d2olra1         181 CFGAAFLSLHPTQYAEVLVKRMQAAGA  207 (313)
T ss_dssp             GGCGGGCSSCHHHHHHHHHHHHHHHTC
T ss_pred             ccccccccccHHHHHHHHHHHHHhcCC
Confidence            333457778888888888888877543